Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 38
Found at i:6567783 original size:23 final size:22
Alignment explanation
Indices: 6567726--6567783 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6567716 GACAAAGCTC
* *
6567726 TCATTTTTTAAAAGAGAATCTA
1 TCATTCTTTAAAAGAAAATCTA
6567748 TCA-TCTTTGAAAAGAAAATCTA
1 TCATTCTTT-AAAAGAAAATCTA
6567770 TCATTCTTGTAAAA
1 TCATTCTT-TAAAA
6567784 TGTAGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 8 0.26
24 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (22 bp):
TCATTCTTTAAAAGAAAATCTA
Found at i:6572990 original size:45 final size:47
Alignment explanation
Indices: 6572926--6573013 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 47
6572916 CAAATCATAT
* * * *
6572926 CCTAACCTCATGCTTTCTAGTTC-CATGC-TTTGTTTGGAAAAATAA
1 CCTAACCACATGATTTCTAGTTCGCATGCATTTATTTAGAAAAATAA
6572971 CCTAACCACATGATTTCTAGTTCGCATGCATTTATTTAGAAAA
1 CCTAACCACATGATTTCTAGTTCGCATGCATTTATTTAGAAAA
6573014 TAAAATAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 21 0.57
46 5 0.14
47 11 0.30
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (47 bp):
CCTAACCACATGATTTCTAGTTCGCATGCATTTATTTAGAAAAATAA
Found at i:6574022 original size:30 final size:30
Alignment explanation
Indices: 6573951--6574024 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
6573941 TTAATTTTCA
* * *
6573951 AATAATAATATAAATAATTACTAAATATTT
1 AATATTAATATTATTAATTACTAAATATTT
* *
6573981 AACATAAATATTATTAA-TACTATAATATTT
1 AATATTAATATTATTAATTACTA-AATATTT
6574011 AATATTAATATTAT
1 AATATTAATATTAT
6574025 ATTATAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
AATATTAATATTATTAATTACTAAATATTT
Found at i:6578224 original size:19 final size:21
Alignment explanation
Indices: 6578185--6578230 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
6578175 CTGTTTGACT
6578185 TGATTT-C-GTATGATTTATC
1 TGATTTACAGTATGATTTATC
6578204 TGATTTACAGTATGA-TT-TC
1 TGATTTACAGTATGATTTATC
6578223 TGATTTAC
1 TGATTTAC
6578231 TAAAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.64
20 3 0.12
21 6 0.24
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (21 bp):
TGATTTACAGTATGATTTATC
Found at i:6587311 original size:28 final size:28
Alignment explanation
Indices: 6587271--6587327 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6587261 ACAGAACACA
6587271 TGATATTTTTTATTTTTCAATGATGACT
1 TGATATTTTTTATTTTTCAATGATGACT
6587299 TGATATTTTTTATTTTTCAATGATGACT
1 TGATATTTTTTATTTTTCAATGATGACT
6587327 T
1 T
6587328 TACATTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.58
Consensus pattern (28 bp):
TGATATTTTTTATTTTTCAATGATGACT
Found at i:6589986 original size:23 final size:23
Alignment explanation
Indices: 6589920--6589980 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
6589910 ACATATTAGT
6589920 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATGTAATAGG
6589943 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATGTAATAGG
6589966 TAGCGCTTATATAAT
1 TAGCGCTTATATAAT
6589981 AAAATAAGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (23 bp):
TAGCGCTTATATAATGTAATAGG
Found at i:6590085 original size:87 final size:87
Alignment explanation
Indices: 6589939--6590154 Score: 396
Period size: 87 Copynumber: 2.5 Consensus size: 87
6589929 TATAATGTAA
* *
6589939 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGCATTTAACCGGAAAT
1 TAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATATAATAAAACAAGCATTTAACCGGAAAT
6590004 ATTATCAAGTACAATAACATAT
66 ATTATCAAGTACAATAACATAT
*
6590026 TAGGTAGCTCTTAAATAATGTAATAGGTAGCGCTTATATAATAAAACAAGCATTTAACCGGAAAT
1 TAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATATAATAAAACAAGCATTTAACCGGAAAT
6590091 ATTATCAAGTACAATAACATAT
66 ATTATCAAGTACAATAACATAT
*
6590113 TAGATAGCTCTTATATAATGTAATAGGTAGCGCTTATATAAT
1 TAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATATAAT
6590155 GTAATAGGTA
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 124 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (87 bp):
TAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATATAATAAAACAAGCATTTAACCGGAAAT
ATTATCAAGTACAATAACATAT
Found at i:6590143 original size:23 final size:23
Alignment explanation
Indices: 6590117--6590174 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
6590107 ACATATTAGA
*
6590117 TAGCTCTTATATAATGTAATAGG
1 TAGCGCTTATATAATGTAATAGG
6590140 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATGTAATAGG
6590163 TAGCGCTTATAT
1 TAGCGCTTATAT
6590175 TGACCTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (23 bp):
TAGCGCTTATATAATGTAATAGG
Found at i:6590624 original size:199 final size:197
Alignment explanation
Indices: 6590192--6590756 Score: 704
Period size: 199 Copynumber: 2.8 Consensus size: 197
6590182 TTTTCGAAGT
* * *
6590192 AAACCGGTATATATATACCGGGTACATTGTAAATTTACCTATCACATTATAATTATTGGTTTCGT
1 AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTATAATT-TTCGTTTCGA
* * * * * *
6590257 TGTTTTTTGGATCAATACAATTT--TAAATGTATCAACACTTTATGCTTGCACCTCGTTGGGCAT
65 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCAT
* * *
6590320 TCATATTTCATTCTGGAAAAAAGTATCGACACAAAATAAAAAAGTATCGATACATTATTTAGACC
129 TC--A-TT-A---TGGACAAAAGTATCGACACAAATTAAAAAAGTATAGATACATTATTTA-ACC
*
6590385 TATTTTCTCATA
186 TATTTTATCATA
* *
6590397 AAACCTGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTGTAATTTTCGTTTCGAT
1 AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTATAATTTTCGTTTCGAT
* * * *
6590462 GCTTTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATCCGTGCACCCCGTTTGGCATTC
66 GTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
* * * *
6590527 ATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTAGATACTTTATGCTT-ACCTATTTTA
131 ATTATGGACAAAA-GTATCGACACAAATTAAAAAAGTATAGATACATTAT--TTAACCTATTTTA
6590591 TCATA
193 TCATA
* * * *
6590596 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
1 AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTATAATTTTCG-TTTCGA
*
6590661 TGTTTTTGGGATCGATACTTTTAATAATTGTATCGACACTTTATGCGTGCACCTCGTTTGGGCAT
65 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTT-GGCAT
*
6590726 TCATTCTGGACAATAAGTATCGACACAAATT
129 TCATTATGGACAA-AAGTATCGACACAAATT
6590757 CCGCAAGTGT
Statistics
Matches: 317, Mismatches: 35, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
198 8 0.03
199 96 0.30
200 60 0.19
201 35 0.11
202 4 0.01
203 4 0.01
204 23 0.07
205 87 0.27
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (197 bp):
AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTATAATTTTCGTTTCGAT
GTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
ATTATGGACAAAAGTATCGACACAAATTAAAAAAGTATAGATACATTATTTAACCTATTTTATCA
TA
Found at i:6593321 original size:17 final size:17
Alignment explanation
Indices: 6593296--6593329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6593286 TAACTTTTCT
* *
6593296 CATCTCATACATAATTA
1 CATCACATACAAAATTA
6593313 CATCACATACAAAATTA
1 CATCACATACAAAATTA
6593330 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:6595024 original size:198 final size:198
Alignment explanation
Indices: 6594496--6595454 Score: 1309
Period size: 198 Copynumber: 4.8 Consensus size: 198
6594486 CGCGTTATTT
* * * * * *
6594496 AAAAGTATCGACACAAAATAAAAAAATGTCGCTACATGTTGTAGACATATTCTCTCATAAAACCA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATT-TTTCAT-AAACCA
* ** * * * *
6594561 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTC
* * * *
6594626 TGGGATCGACACTTTTTGAAAATGTATCGGCACTTAT-T-CGTTCACCCTTTTTGGCATCCATTA
129 TGGGATCGACACTTTTTGAAAATATATCGACACTT-TGTGCGTTCACCATTTTTGGCATCCATTC
*
6594689 TGAACA
193 TGGACA
* * *
6594695 AAGAGTATCGACACAATATTAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACC-
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATT-TTTCAT-AAACCA
* *
6594759 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACACTATATTTATCGGTTTCGATGTTT
64 G-TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * *
6594824 CTAGGATCAACACTTTTTGAAAATATATCGACACTTTGTACGTTCACTATTTTTTGCATCCATTC
128 CTGGGATCGACACTTTTTGAAAATATATCGACACTTTGTGCGTTCACCATTTTTGGCATCCATTC
*
6594889 TAGACA
193 TGGACA
*
6594895 AAAAGTATCGACACAATATTAAAAAGCGTCGATACATGTTGTAGACCTATTTTTCATAAACCAGT
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTTCATAAACCAGT
*
6594960 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTA
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTG
* *
6595025 GGATCGACACTTTTTGAAAATATATCGACACTTTGTGCGTTCACTATTTTTTGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATATATCGACACTTTGTGCGTTCACCATTTTTGGCATCCATTCTGG
6595090 ACA
196 ACA
* *
6595093 AAAAGTATCGACAAAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTTCATAAA-CTGA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTTCATAAACCAG-
* * *
6595157 TATATTTATATCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCT
* * *
6595222 GGGATCGACACTTTTTGAAAATATATCGAAACTTTGTGCGTTCACCCTTTTTGGCATTCATTCTG
130 GGGATCGACACTTTTTGAAAATATATCGACACTTTGTGCGTTCACCATTTTTGGCATCCATTCTG
6595287 GACA
195 GACA
* * * * **
6595291 AAAAATATTGTCACAATATTAAAAAGTGTTGATACATGTTGTAGACCTATTTTTCATAAACTGGT
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTTCATAAACCAGT
* * *
6595356 ATATTTATACCAGTTACATTGTAAATTTACATATTACATTATAATTATCGATTTCGATGTTAT-T
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT-TCT
* * * *
6595420 GGGGTC-ATTACTTTTTAAAAATGTATCGACACTTT
130 GGGATCGA-CACTTTTTGAAAATATATCGACACTTT
6595455 ATGGGAAACT
Statistics
Matches: 690, Mismatches: 62, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
197 3 0.00
198 462 0.67
199 152 0.22
200 73 0.11
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (198 bp):
AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTTCATAAACCAGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTG
GGATCGACACTTTTTGAAAATATATCGACACTTTGTGCGTTCACCATTTTTGGCATCCATTCTGG
ACA
Found at i:6597601 original size:2 final size:2
Alignment explanation
Indices: 6597594--6597657 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
6597584 TAGTTTCCAG
6597594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6597636 AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
6597658 CCTTCCCCAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6598742 original size:201 final size:200
Alignment explanation
Indices: 6598309--6599076 Score: 992
Period size: 201 Copynumber: 3.8 Consensus size: 200
6598299 CGTGATATTT
* * *
6598309 AAAATAGTATCGACACAA-ATTTAAAAAGTGTTGATAC-T-TTATGATGACCTATTTTCTCATAA
1 AAAA-AGTATCGACACAATA-TTAAAAAGTGTCGATACATGTTGT-A-GACCTATTCTCTCATAA
* * * * *
6598371 AACCGGTATAGTTATACCGGTTATATT-ATAAAATTACCTATTACATTATAATTATGGATTTTGA
62 AACCGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATACTTATGGGTTTCGA
* * * * *
6598435 TGTTTTTTGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGAGATT
126 TGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGAGATT
6598500 TGATTCTGTTC
191 TGATTCTG-TC
* * * * * ** * *
6598511 CAAAAGGATCGACGCGATCTCCACAAGTGTCGATACATGTTGTAGACTTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
6598576 GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* **
6598641 CTGGGATCGATACCTTTTATAAATATATCGACACTTTATGGGTGCACCCTTTTT-AGGATTTGAT
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGA-GATTTGAT
*
6598705 TCTCGAC
195 TCT-GTC
* * * * *
6598712 AAAAAGTATCGACACAATATAAAAAAGTGTCTATACATATAGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
6598777 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* * * *
6598842 TTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGTGTGCACCCTTTTTGTGCA-TTCAT
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGAG-ATTTGAT
*
6598906 TATGGTC
195 TCT-GTC
* * * *
6598913 AAAATGTATCGACAC-ATAATTAAAAAGTGTCGATATATGTTGTAGACCTATTCTGTCATAAAAT
1 AAAAAGTATCGACACAAT-ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* *
6598977 CGGTATATTTATACCGGTTATATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
6599042 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
130 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
6599077 ATATGCTTAC
Statistics
Matches: 494, Mismatches: 63, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
200 3 0.01
201 480 0.97
202 8 0.02
203 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGAGATTTGATT
CTGTC
Found at i:6599448 original size:19 final size:19
Alignment explanation
Indices: 6599424--6599472 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
6599414 TTACATTCAC
6599424 ATACAAAATTATAAATC-GT
1 ATACAAAATTATAAA-CAGT
*
6599443 ATACAAAATTATAAACATT
1 ATACAAAATTATAAACAGT
6599462 ATACAAAATTA
1 ATACAAAATTA
6599473 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAACAGT
Found at i:6600926 original size:18 final size:18
Alignment explanation
Indices: 6600903--6600941 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
6600893 TCCTCCTCAT
6600903 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
6600921 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
6600939 TTC
1 TTC
6600942 ATATTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:6601264 original size:21 final size:21
Alignment explanation
Indices: 6601250--6601346 Score: 167
Period size: 21 Copynumber: 4.6 Consensus size: 21
6601240 CTCTTGAGTA
*
6601250 TCTCTTCGACTCTCTCAAGTT
1 TCTCTTCAACTCTCTCAAGTT
6601271 TCTCTTCAACTCTCTCAAGTT
1 TCTCTTCAACTCTCTCAAGTT
6601292 TCTCTTCAACTCTCTCAAGTT
1 TCTCTTCAACTCTCTCAAGTT
*
6601313 TCTCTTCAACTCTATCAAGTT
1 TCTCTTCAACTCTCTCAAGTT
*
6601334 TCTCTTCGACTCT
1 TCTCTTCAACTCT
6601347 TGATTGTCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.43
Consensus pattern (21 bp):
TCTCTTCAACTCTCTCAAGTT
Found at i:6603012 original size:181 final size:182
Alignment explanation
Indices: 6602694--6603086 Score: 680
Period size: 181 Copynumber: 2.2 Consensus size: 182
6602684 ATTTTGCTTG
6602694 TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTACTT
1 TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTACTT
6602759 CTCTTTTAAATTCACAAAGCATCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTA
66 CTCTTTTAAATTCACAAAGCATCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTA
* *
6602824 GCGCTTTATCGGTTTTGTCTTTTCGTGACCGGTTTTGTCATATTTTTACCTA
131 GCGCTTTACCGATTTTGTCTTTTCGTGACCGGTTTTGTCATATTTTTACCTA
6602876 TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTACTT
1 TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTACTT
* ** *
6602941 -TTTTTTAAATTCACAAAGTGTCTATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTA
66 CTCTTTTAAATTCACAAAGCATCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTA
* *
6603005 GCGCTTTACCGATTTTGTCTTTTCGTGACTGGTTTTGTCATATTTTTACCTG
131 GCGCTTTACCGATTTTGTCTTTTCGTGACCGGTTTTGTCATATTTTTACCTA
* * *
6603057 TTATATTGATATGGATCGATACATTTTTAT
1 TTATATCGTTGTGGATCGATACATTTTTAT
6603087 TTGGATCGAC
Statistics
Matches: 200, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
181 135 0.68
182 65 0.32
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTACTT
CTCTTTTAAATTCACAAAGCATCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTA
GCGCTTTACCGATTTTGTCTTTTCGTGACCGGTTTTGTCATATTTTTACCTA
Found at i:6603496 original size:53 final size:53
Alignment explanation
Indices: 6603419--6603524 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
6603409 AAACTCTCTT
6603419 TTTCATTCCCTTAACCCTCGCACATATTAACCCAACACATATATAGTTAATCA
1 TTTCATTCCCTTAACCCTCGCACATATTAACCCAACACATATATAGTTAATCA
6603472 TTTCATTCCCTTAACCCTCGCACATATTAACCCAACACATATATAGTTAATCA
1 TTTCATTCCCTTAACCCTCGCACATATTAACCCAACACATATATAGTTAATCA
6603525 GCCCAATCTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (53 bp):
TTTCATTCCCTTAACCCTCGCACATATTAACCCAACACATATATAGTTAATCA
Found at i:6604124 original size:16 final size:16
Alignment explanation
Indices: 6604103--6604136 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6604093 TTTCATTCCC
6604103 TTAACCCTCAA-ACATA
1 TTAACCCT-AACACATA
6604119 TTAACCCTAACACATA
1 TTAACCCTAACACATA
6604135 TT
1 TT
6604137 TAGTTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAACCCTAACACATA
Found at i:6609010 original size:27 final size:23
Alignment explanation
Indices: 6608976--6609060 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
6608966 ATAATGGTTC
6608976 TGAATCATTCAGAATGTACTTTAATGT
1 TGAATCATTCAGAA-GT-CTTT--TGT
* *
6609003 TGAATCATTCAGCAGTGTTTTGT
1 TGAATCATTCAGAAGTCTTTTGT
* * *
6609026 TGAATCATTCAGCAGTGTTTTGC
1 TGAATCATTCAGAAGTCTTTTGT
*
6609049 TAAATCATTCAG
1 TGAATCATTCAG
6609061 CACAATCTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
23 36 0.67
25 3 0.06
26 2 0.04
27 13 0.24
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (23 bp):
TGAATCATTCAGAAGTCTTTTGT
Found at i:6609030 original size:23 final size:23
Alignment explanation
Indices: 6609000--6609062 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
6608990 TGTACTTTAA
6609000 TGTTGAATCATTCAGCAGTGTTT
1 TGTTGAATCATTCAGCAGTGTTT
6609023 TGTTGAATCATTCAGCAGTGTTT
1 TGTTGAATCATTCAGCAGTGTTT
* *
6609046 TGCTAAATCATTCAGCA
1 TGTTGAATCATTCAGCA
6609063 CAATCTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTTGAATCATTCAGCAGTGTTT
Found at i:6611979 original size:22 final size:22
Alignment explanation
Indices: 6611954--6611999 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6611944 TTTCTTCTCG
6611954 CCTCTTCCCCCTCCCCTTCCCA
1 CCTCTTCCCCCTCCCCTTCCCA
* *
6611976 CCTCTTCCCCCTGCCTTTCCCA
1 CCTCTTCCCCCTCCCCTTCCCA
6611998 CC
1 CC
6612000 GTCCTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.65, G:0.02, T:0.28
Consensus pattern (22 bp):
CCTCTTCCCCCTCCCCTTCCCA
Found at i:6612357 original size:14 final size:14
Alignment explanation
Indices: 6612338--6612379 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
6612328 ATTTAACTTG
6612338 TTAGAATTTATTTA
1 TTAGAATTTATTTA
6612352 TTAGAATTTATTTA
1 TTAGAATTTATTTA
6612366 TTAGAATTTATTTA
1 TTAGAATTTATTTA
6612380 AATAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGAATTTATTTA
Found at i:6613287 original size:3 final size:3
Alignment explanation
Indices: 6613279--6613316 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6613269 CCAGAAAACT
6613279 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6613317 TTTCAACCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6618377 original size:19 final size:19
Alignment explanation
Indices: 6618353--6618402 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6618343 AAAGCATTTT
6618353 TATGAACAGTACTATA-TGG
1 TATGAACAGTACTATACT-G
* *
6618372 TATGAATAGTACTATACTT
1 TATGAACAGTACTATACTG
6618391 TATGAACAGTAC
1 TATGAACAGTAC
6618403 CGTGAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
TATGAACAGTACTATACTG
Found at i:6620735 original size:3 final size:3
Alignment explanation
Indices: 6620727--6620764 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
6620717 TTCACGTTGG
*
6620727 AGA AGA AGA A-A AAA ATGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AG
6620765 TGGAGAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:6623150 original size:21 final size:19
Alignment explanation
Indices: 6623121--6623174 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 19
6623111 AGTTTTTATT
6623121 TATT-TATTTATGCTATAGTA
1 TATTATATTTATG-TATA-TA
6623141 TATTATATTTTATGTATATA
1 TATTATA-TTTATGTATATA
6623161 TATATATTATTTAT
1 TAT-TA-TATTTAT
6623175 ATTTCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 8 0.27
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (19 bp):
TATTATATTTATGTATATA
Found at i:6623170 original size:17 final size:16
Alignment explanation
Indices: 6623138--6623177 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6623128 TTATGCTATA
*
6623138 GTATATTATATTTTAT
1 GTATATTATATATTAT
6623154 GTATATATATATATTAT
1 GTATAT-TATATATTAT
*
6623171 TTATATT
1 GTATATT
6623178 TCTTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (16 bp):
GTATATTATATATTAT
Found at i:6623172 original size:22 final size:22
Alignment explanation
Indices: 6623127--6623168 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
6623117 TATTTATTTA
6623127 TTTATGCTATAGTATATTATAT
1 TTTATGCTATAGTATATTATAT
6623149 TTTATG-TATA-TATA-TATAT
1 TTTATGCTATAGTATATTATAT
6623168 T
1 T
6623169 ATTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 4 0.20
22 6 0.30
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTATGCTATAGTATATTATAT
Found at i:6623278 original size:2 final size:2
Alignment explanation
Indices: 6623271--6623320 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6623261 CTCCGTATTA
6623271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6623313 AT AT AT AT
1 AT AT AT AT
6623321 TTTCTTGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6623358 original size:12 final size:11
Alignment explanation
Indices: 6623339--6623368 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
6623329 ATTATTACCC
6623339 ATTATTTTATT
1 ATTATTTTATT
6623350 ATATATTTTATT
1 AT-TATTTTATT
6623362 ATTATTT
1 ATTATTT
6623369 ATTTATTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:6623363 original size:15 final size:14
Alignment explanation
Indices: 6623345--6623429 Score: 59
Period size: 14 Copynumber: 6.1 Consensus size: 14
6623335 ACCCATTATT
6623345 TTATTATATATTTTA
1 TTATTATATA-TTTA
*
6623360 TTATTATTTATTTA
1 TTATTATATATTTA
** * *
6623374 TTA-CGTATGTGTA
1 TTATTATATATTTA
*
6623387 -TATATATATATATA
1 TTAT-TATATATTTA
* *
6623401 TTATTCTATCTTTA
1 TTATTATATATTTA
6623415 TTATT-TATATTTA
1 TTATTATATATTTA
6623428 TT
1 TT
6623430 TGATTGTTTT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
12 2 0.04
13 14 0.26
14 25 0.47
15 12 0.23
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (14 bp):
TTATTATATATTTA
Found at i:6635498 original size:64 final size:64
Alignment explanation
Indices: 6635397--6635779 Score: 582
Period size: 64 Copynumber: 6.0 Consensus size: 64
6635387 ATTGGACTCA
* *
6635397 AGACAACTCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
6635461 AGACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
6635525 AGACAACACAAGTTCAACTTCACGACGAAGGGGTCGCTGGTTGTCAACAAAATTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
6635589 AGACAACACAAGTTCAACTTCACAACGAA-GGG--G-T--TTGTCGACAAAAATTTCCCAGTATC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTTCCCAGTTTC
* *
6635648 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCGGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
6635712 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACACTTT-CCAGTTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-A-TTTCCCAGTTT
6635776 C
64 C
6635777 AGA
1 AGA
6635780 GTCAATTTCA
Statistics
Matches: 295, Mismatches: 15, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
58 7 0.02
59 44 0.15
60 4 0.01
61 1 0.00
62 1 0.00
63 4 0.01
64 214 0.73
65 17 0.06
66 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (64 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
Found at i:6635699 original size:123 final size:124
Alignment explanation
Indices: 6635397--6635745 Score: 540
Period size: 123 Copynumber: 2.8 Consensus size: 124
6635387 ATTGGACTCA
* *
6635397 AGACAACTCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTCA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
* * *
6635462 GACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
66 GACAACACAAGTTCAACTTCACAACGAA-GGG--GCT-GTTGTCAACAAAATTTCCCAGTATC
* *
6635525 AGACAACACAAGTTCAACTTCACGACGAAGGGGTCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
*
6635590 GACAACACAAGTTCAACTTCACAACGAAGGGG-T-TTGTCGACAAAAATTTCCCAGTATC
66 GACAACACAAGTTCAACTTCACAACGAAGGGGCTGTTGTCAAC-AAAATTTCCCAGTATC
* *
6635648 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCGGTTTAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
*
6635713 GACAGCACAAGTTCAACTTCACAACGAAGGGGC
66 GACAACACAAGTTCAACTTCACAACGAAGGGGC
6635746 CGCTGGCTGT
Statistics
Matches: 206, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
122 7 0.03
123 106 0.51
124 1 0.00
125 1 0.00
127 3 0.01
128 88 0.43
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (124 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTCA
GACAACACAAGTTCAACTTCACAACGAAGGGGCTGTTGTCAACAAAATTTCCCAGTATC
Found at i:6635724 original size:187 final size:191
Alignment explanation
Indices: 6635397--6635779 Score: 580
Period size: 187 Copynumber: 2.0 Consensus size: 191
6635387 ATTGGACTCA
* * *
6635397 AGACAACTCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTCA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGG-CGCT-GTTGTCAACAAAATTTCCCAGTATCA
* * *
6635462 GACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTCAG
64 GACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAAG
* * *
6635527 ACAACACAAGTTCAACTTCACGACGAAGGGGTCGCTGGTTGTCAACAAA-A-TTTCCCAGTTTC
129 ACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACACTTT-CCAGTTTC
*
6635589 AGACAACACAAGTTCAACTTCACAACGAA-GGG-G-T-TTGTCGACAAAAATTTCCCAGTATCAG
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCGCTGTTGTCAAC-AAAATTTCCCAGTATCAG
*
6635650 ACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCGGTTTAAGA
65 ACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAAGA
*
6635715 CAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACACTTTCCAGTTTC
130 CAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACACTTTCCAGTTTC
6635777 AGA
1 AGA
6635780 GTCAATTTCA
Statistics
Matches: 176, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
186 7 0.04
187 121 0.69
188 13 0.07
189 4 0.02
191 3 0.02
192 28 0.16
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (191 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCGCTGTTGTCAACAAAATTTCCCAGTATCAGA
CAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAAGAC
AACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACACTTTCCAGTTTC
Found at i:6637479 original size:19 final size:20
Alignment explanation
Indices: 6637435--6637485 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
6637425 ATTTATTTAT
*
6637435 TTATGCTATAGTATATTATATT
1 TTATG-TATA-TATATTATATA
6637457 TTATGTATATATA-TATATA
1 TTATGTATATATATTATATA
*
6637476 TTATTTATAT
1 TTATGTATAT
6637486 TCCTTTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 14 0.52
20 4 0.15
21 4 0.15
22 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (20 bp):
TTATGTATATATATTATATA
Found at i:6637637 original size:12 final size:11
Alignment explanation
Indices: 6637618--6637653 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
6637608 ATTATTACAC
6637618 ATTATTTTATT
1 ATTATTTTATT
6637629 ATATATTTTATT
1 AT-TATTTTATT
6637641 ATTATTTT-TT
1 ATTATTTTATT
6637651 ATT
1 ATT
6637654 TATTACGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:6637698 original size:14 final size:13
Alignment explanation
Indices: 6637618--6637709 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 13
6637608 ATTATTACAC
6637618 ATTATTT-TA-TT
1 ATTATTTATATTT
6637629 ATATATTT-TA-TT
1 AT-TATTTATATTT
*
6637641 ATTATTTTTTATTT
1 ATTA-TTTATATTT
** * *
6637655 ATTACGTATGTGT
1 ATTATTTATATTT
* *
6637668 A-TATATATATAT
1 ATTATTTATATTT
*
6637680 ATTATTCTATCTTT
1 ATTATT-TATATTT
6637694 ATTATTTATATTT
1 ATTATTTATATTT
6637707 ATT
1 ATT
6637710 TGATTGTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.06
12 22 0.35
13 19 0.31
14 17 0.27
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (13 bp):
ATTATTTATATTT
Found at i:6639121 original size:7 final size:7
Alignment explanation
Indices: 6639072--6639165 Score: 75
Period size: 7 Copynumber: 13.7 Consensus size: 7
6639062 GTTAGATTAC
6639072 ACCCTAA
1 ACCCTAA
*
6639079 ACACTAA
1 ACCCTAA
6639086 A-CCTAA
1 ACCCTAA
**
6639092 ACTATAA
1 ACCCTAA
**
6639099 ACAATAA
1 ACCCTAA
*
6639106 ACCCAAA
1 ACCCTAA
*
6639113 ACCTTAA
1 ACCCTAA
*
6639120 ACCTTAA
1 ACCCTAA
*
6639127 A-TCTAA
1 ACCCTAA
6639133 ACCCTAA
1 ACCCTAA
*
6639140 GCCCTAA
1 ACCCTAA
6639147 ACCCTAA
1 ACCCTAA
*
6639154 GCCCTAA
1 ACCCTAA
6639161 ACCCT
1 ACCCT
6639166 TAATCCGATT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
6 9 0.13
7 59 0.87
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (7 bp):
ACCCTAA
Found at i:6639252 original size:7 final size:7
Alignment explanation
Indices: 6639240--6639277 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6639230 GATTACACCC
*
6639240 TAAACTA
1 TAAACCA
*
6639247 TAAACTA
1 TAAACCA
6639254 TAAACCA
1 TAAACCA
6639261 TAAACCA
1 TAAACCA
6639268 TAAACCA
1 TAAACCA
6639275 TAA
1 TAA
6639278 GTCCTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:6642946 original size:100 final size:100
Alignment explanation
Indices: 6642769--6642954 Score: 327
Period size: 100 Copynumber: 1.9 Consensus size: 100
6642759 TTCATATATT
*
6642769 AAAATACAAACAAACAATAGTTTATATATAAGAAAACCTAAGCTAGCTTAACTGCTTTAACAAAA
1 AAAATACAAACAAACAATAGTTTATATACAAGAAAACCTAAGCTAGCTTAACTGCTTTAACAAAA
* *
6642834 TAACTAATTTCCTAACAGAGAATAACTGTTTTAAC
66 TAACCAACTTCCTAACAGAGAATAACTGTTTTAAC
* *
6642869 AAAATACAAACAAACAATGGTTTATATACAGGAAAACCTAAGCTAGCTTAACTGCTTTAACAAAA
1 AAAATACAAACAAACAATAGTTTATATACAAGAAAACCTAAGCTAGCTTAACTGCTTTAACAAAA
6642934 TAACCAACTTCCTAACAGAGA
66 TAACCAACTTCCTAACAGAGA
6642955 CTAATTGCTC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (100 bp):
AAAATACAAACAAACAATAGTTTATATACAAGAAAACCTAAGCTAGCTTAACTGCTTTAACAAAA
TAACCAACTTCCTAACAGAGAATAACTGTTTTAAC
Found at i:6643199 original size:16 final size:16
Alignment explanation
Indices: 6643173--6643230 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
6643163 GTTTTAGTTG
6643173 TTTTCGGTTCGGGTTAA
1 TTTT-GGTTCGGGTTAA
* *
6643190 TTTTGGTTCGGGATAC
1 TTTTGGTTCGGGTTAA
6643206 TTTTGGTTCGGGTTAA
1 TTTTGGTTCGGGTTAA
*
6643222 TTTCGGTTC
1 TTTTGGTTC
6643231 AAGTTTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
16 32 0.89
17 4 0.11
ACGTcount: A:0.10, C:0.12, G:0.29, T:0.48
Consensus pattern (16 bp):
TTTTGGTTCGGGTTAA
Found at i:6643241 original size:32 final size:32
Alignment explanation
Indices: 6643146--6643293 Score: 118
Period size: 32 Copynumber: 4.6 Consensus size: 32
6643136 AGTTAATATC
* * ** *
6643146 GGTTCAGGTTAATTTCAGTTTTAGTTGT-TTTC
1 GGTTCGGGTTAATTTCGGTTCGAGTT-TCTTTT
* * * *
6643178 GGTTCGGGTTAATTTTGGTTCGGGATACTTTT
1 GGTTCGGGTTAATTTCGGTTCGAGTTTCTTTT
*
6643210 GGTTCGGGTTAATTTCGGTTCAAGTTTCTTTT
1 GGTTCGGGTTAATTTCGGTTCGAGTTTCTTTT
** ** *
6643242 GGTTCAAGTTAATTTCAATTCGAGTTGCTTTT
1 GGTTCGGGTTAATTTCGGTTCGAGTTTCTTTT
* **
6643274 GATTCGGGTTGCTTTCGGTT
1 GGTTCGGGTTAATTTCGGTT
6643294 TCGTTAAATT
Statistics
Matches: 88, Mismatches: 27, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.14, C:0.11, G:0.26, T:0.49
Consensus pattern (32 bp):
GGTTCGGGTTAATTTCGGTTCGAGTTTCTTTT
Found at i:6644021 original size:18 final size:19
Alignment explanation
Indices: 6643993--6644038 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6643983 ACCTTTAATC
*
6643993 TTTATATTTTTA-AGTATAT
1 TTTA-ATTTTTATACTATAT
*
6644012 TTTAATTTTTATACTTTAT
1 TTTAATTTTTATACTATAT
6644031 TTTAATTT
1 TTTAATTT
6644039 ATTGTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTAATTTTTATACTATAT
Found at i:6650690 original size:25 final size:24
Alignment explanation
Indices: 6650649--6650700 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
6650639 AAGAATTTAA
*
6650649 TTAAAAAAAATAGAATTGA-TTTT
1 TTAAAAAAAATAAAATTGACTTTT
*
6650672 TTAAAAAAAATCCAAAATTTACTTTT
1 TTAAAAAAAAT--AAAATTGACTTTT
6650698 TTA
1 TTA
6650701 TTACAGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAAAAAAATAAAATTGACTTTT
Found at i:6651104 original size:18 final size:18
Alignment explanation
Indices: 6651081--6651119 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6651071 AATTATTTTT
6651081 TTATTTTATATATTTTGA
1 TTATTTTATATATTTTGA
* *
6651099 TTATTTTGTATATTTTTA
1 TTATTTTATATATTTTGA
6651117 TTA
1 TTA
6651120 ATAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTATTTTATATATTTTGA
Found at i:6651625 original size:30 final size:29
Alignment explanation
Indices: 6651553--6651757 Score: 124
Period size: 30 Copynumber: 7.0 Consensus size: 29
6651543 AACTTAAGAG
*
6651553 AAAATAAAATATATTTTTTAAAGTTGAGTTCCATA
1 AAAATAAAA-ATA-TTTTTAAAGTTAAG----ATA
*
6651588 AAGATAAAAATATTTTTAAAAGTTAAGATA
1 AAAATAAAAATATTTTT-AAAGTTAAGATA
6651618 AAAATAAAATATATTGTTT-AAGTTAAGA-A
1 AAAATAAAA-ATATT-TTTAAAGTTAAGATA
* *
6651647 AACACTAAAATATATTTTTCAAGTTAA-AGTA
1 AA-AATAAAA-ATATTTTTAAAGTTAAGA-TA
* *
6651678 AGAATAATATATATTTTT-AAGTTAA-ATA
1 AAAATAA-AAATATTTTTAAAGTTAAGATA
* * * *
6651706 TAAA-AAAATTATTTTTAAA-TAAAAATA
1 AAAATAAAAATATTTTTAAAGTTAAGATA
*
6651733 AAAAT--AAATTTTTTTAAA-TTAAGAT
1 AAAATAAAAATATTTTTAAAGTTAAGAT
6651758 GTGAACTTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
26 27 0.19
27 10 0.07
28 4 0.03
29 15 0.11
30 51 0.36
31 8 0.06
32 3 0.02
33 5 0.04
34 11 0.08
35 8 0.06
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (29 bp):
AAAATAAAAATATTTTTAAAGTTAAGATA
Found at i:6651731 original size:27 final size:26
Alignment explanation
Indices: 6651701--6651751 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
6651691 TTTTTAAGTT
6651701 AAATATAAAA-AAATTATTTTTAAATAA
1 AAATA-AAAATAAATT-TTTTTAAATAA
6651728 AAATAAAAATAAATTTTTTTAAAT
1 AAATAAAAATAAATTTTTTTAAAT
6651752 TAAGATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATAAAAATAAATTTTTTTAAATAA
Found at i:6652220 original size:153 final size:153
Alignment explanation
Indices: 6651936--6652344 Score: 502
Period size: 155 Copynumber: 2.7 Consensus size: 153
6651926 ATGGTAGCAG
* * * * * * **
6651936 TAAAACATTAAATGTAAT-AATAAATAAATAAAATTAATCCTCCAATCG-GCTGATAATATGTG-
1 TAAACCATTAAATTTAATCAA-AAATAAATAAAATTAGTCCTTCAATCGAG-TGGTAACACATGC
* * * *
6651998 TAGTAATACTTGACATCAATGACACATGACACTATATGATTAATTTTCTTTTAAATAGAGGATGA
64 CA-TAACACTTGACA-CAATGACACATGACACTATATGACTAATTTTCTTTTAAACAGAGGATGA
* *
6652063 CA-TGTCATCCTCTGAATGGTAGAGAA
127 CAGTGTCATCCACTGAATGGTAGAAAA
*
6652089 TAAACCATTAAATTTAATCAAAAATAAATAAAATTAGTCCTTCAATCGAGTGGTAACGCATGCCA
1 TAAACCATTAAATTTAATCAAAAATAAATAAAATTAGTCCTTCAATCGAGTGGTAACACATGCCA
* *
6652154 TAACACTTGACACAAATTACACATGACACTATATGACTAATTTTCTTTTAAACAGAGGATGTCAT
66 TAACACTTGACAC-AATGACACATGACACTATATGACTAATTTTCTTTTAAACAGAGGATGACA-
6652219 GTGTCATCCACTGAATGGTAGAAAA
129 GTGTCATCCACTGAATGGTAGAAAA
* * * * * ***
6652244 TAAACCATTAAATTTAATCAAAAATAAATAAAGTTAGTCCTTTAATCGGGTGTTAACACGTGTTG
1 TAAACCATTAAATTTAATCAAAAATAAATAAAATTAGTCCTTCAATCGAGTGGTAACACATGCCA
6652309 TAACACTTGACACCAATGACACATGACACTATATGA
66 TAACACTTGACA-CAATGACACATGACACTATATGA
6652345 TTTGAAGATT
Statistics
Matches: 222, Mismatches: 27, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
152 1 0.00
153 105 0.47
154 4 0.02
155 111 0.50
156 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (153 bp):
TAAACCATTAAATTTAATCAAAAATAAATAAAATTAGTCCTTCAATCGAGTGGTAACACATGCCA
TAACACTTGACACAATGACACATGACACTATATGACTAATTTTCTTTTAAACAGAGGATGACAGT
GTCATCCACTGAATGGTAGAAAA
Found at i:6655180 original size:42 final size:43
Alignment explanation
Indices: 6655070--6655181 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
6655060 CTCGAAATCT
* * * * * **
6655070 GTGTTTGTTTTATGTAATTCATTTTTC-AGAAAATGTTTTTTC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGAGAAAAAGTTTTCCC
6655112 GTGTTTGTTTCACGTAATTCGTTTTCCGA-AAAAAGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGAGAAAAAGTTTTCCC
6655154 GTGTTTGTTTCACGTAATTCGTTTTCCG
1 GTGTTTGTTTCACGTAATTCGTTTTCCG
6655182 GAACGTAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (43 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGAGAAAAAGTTTTCCC
Found at i:6655374 original size:19 final size:20
Alignment explanation
Indices: 6655350--6655389 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6655340 AAATATTAAT
6655350 TATTTA-AATATTTAAAATA
1 TATTTATAATATTTAAAATA
*
6655369 TATTTATTAATATTTATAATA
1 TATTTA-TAATATTTAAAATA
6655390 ATATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTATAATATTTAAAATA
Found at i:6655403 original size:22 final size:21
Alignment explanation
Indices: 6655356--6655405 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6655346 TAATTATTTA
*
6655356 AATATTTAAAATATATTTATT
1 AATATTTAAAATATATATATT
*
6655377 AATATTTATAATAATATAATATT
1 AATATTTAAAAT-ATAT-ATATT
6655400 -ATATTT
1 AATATTT
6655406 TTAGTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTAAAATATATATATT
Found at i:6655415 original size:27 final size:29
Alignment explanation
Indices: 6655385--6655451 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
6655375 TTAATATTTA
6655385 TAATAATATA-ATATTATA-TTTTTAGTT
1 TAATAATATAGATATTATATTTTTTAGTT
*
6655412 TAATAATATAAGATATTATATTTTTTATTT
1 TAATAATAT-AGATATTATATTTTTTAGTT
6655442 TAATAATATA
1 TAATAATATA
6655452 TAATAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 9 0.25
28 1 0.03
29 9 0.25
30 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (29 bp):
TAATAATATAGATATTATATTTTTTAGTT
Found at i:6655474 original size:30 final size:30
Alignment explanation
Indices: 6655379--6655478 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
6655369 TATTTATTAA
*
6655379 TATTTATAATAATAT-A-ATATTATA-TTTT
1 TATTT-TAATAATATAAGATATAATATTTTT
* *
6655407 TAGTTTAATAATATAAGATATTATATTTTT
1 TATTTTAATAATATAAGATATAATATTTTT
6655437 TATTTTAATAATATATA-ATA-AAT-TTTTT
1 TATTTTAATAATATA-AGATATAATATTTTT
6655465 ATATATTTAATAAT
1 -TAT-TTTAATAAT
6655479 GAATATTAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
27 9 0.14
28 10 0.16
29 13 0.21
30 30 0.48
31 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TATTTTAATAATATAAGATATAATATTTTT
Found at i:6655483 original size:27 final size:25
Alignment explanation
Indices: 6655445--6655499 Score: 58
Period size: 25 Copynumber: 2.1 Consensus size: 25
6655435 TTTATTTTAA
**
6655445 TAATATATAATAAATTTTTTATATATT
1 TAATATATAAT--ATTAATTATATATT
6655472 TAATA-ATGAATATTAATTATATATT
1 TAATATAT-AATATTAATTATATATT
6655497 TAA
1 TAA
6655500 AACATATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 15 0.60
26 2 0.08
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TAATATATAATATTAATTATATATT
Found at i:6655674 original size:19 final size:20
Alignment explanation
Indices: 6655642--6655680 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6655632 TAATAAAATT
6655642 ATAAAAAAAATA-TTTAATA
1 ATAAAAAAAATATTTTAATA
* *
6655661 ATAAATAAATTATTTTAATA
1 ATAAAAAAAATATTTTAATA
6655681 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAAAAATATTTTAATA
Found at i:6655882 original size:14 final size:15
Alignment explanation
Indices: 6655861--6655918 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
6655851 TTCCAGAAAT
6655861 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
6655876 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
* *
6655890 GTAATTTATTTTTCA
1 GTAATTCATTTTCCA
*
6655905 GTAATTAATTTTCC
1 GTAATTCATTTTCC
6655919 GAAAAACCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:6655887 original size:20 final size:20
Alignment explanation
Indices: 6655829--6655878 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
6655819 TTTCCAGATG
6655829 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
6655849 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
6655869 TTTTCCAGAA
1 TTTTCCAGAA
6655879 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:6656607 original size:21 final size:21
Alignment explanation
Indices: 6656556--6656608 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6656546 ATTATGACTA
6656556 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
6656577 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
6656598 TCGCAATGCGA
1 TCGCAATGCGA
6656609 ATTTGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:6656643 original size:20 final size:20
Alignment explanation
Indices: 6656618--6656692 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
6656608 AATTTGGAAA
6656618 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
6656638 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
6656659 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
6656679 TTCGCAACGAGATA
1 ATCGCAACGCGATA
6656693 ATACATAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 27 0.59
21 15 0.33
22 2 0.04
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6656660 original size:41 final size:41
Alignment explanation
Indices: 6656615--6656712 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
6656605 GCGAATTTGG
*
6656615 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGAGATAATAC
*
6656656 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGAGATAATAC
* *
6656697 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
6656713 TTTCAAAGCG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGAGATAATAC
Found at i:6656664 original size:21 final size:21
Alignment explanation
Indices: 6656616--6656712 Score: 85
Period size: 20 Copynumber: 4.7 Consensus size: 21
6656606 CGAATTTGGA
*
6656616 AAATCGCAACGCGATACTGAC
1 AAATCGCAACGCGATAATGAC
*
6656637 -TATCGCAACGCGATAAT-AC
1 AAATCGCAACGCGATAATGAC
*
6656656 AAAATCGCAACGCGATACTGAC
1 -AAATCGCAACGCGATAATGAC
** *
6656678 -TTTCGCAACGAGATAAT-AC
1 AAATCGCAACGCGATAATGAC
*
6656697 ATAATCGCAATGCGAT
1 A-AATCGCAACGCGAT
6656713 TTTCAAAGCG
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.07
20 28 0.47
21 25 0.42
22 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (21 bp):
AAATCGCAACGCGATAATGAC
Found at i:6657224 original size:20 final size:20
Alignment explanation
Indices: 6657201--6657243 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6657191 GATAGTCAAA
*
6657201 TTCGCATTGCGGTTGTCATT
1 TTCGCATTGCGATTGTCATT
** *
6657221 TTCGTGTTGCGATTTTCATT
1 TTCGCATTGCGATTGTCATT
6657241 TTC
1 TTC
6657244 AGAAACTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCATTGCGATTGTCATT
Found at i:6657434 original size:25 final size:24
Alignment explanation
Indices: 6657380--6657434 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6657370 TGTTTATTAT
* *
6657380 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
6657404 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
6657430 TGTTT
1 TGTTT
6657435 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:6658584 original size:18 final size:18
Alignment explanation
Indices: 6658563--6658610 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
6658553 TCCACTTCGG
6658563 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
6658581 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
6658599 GAGCCATCACCT
1 GAGCCATCACCT
6658611 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6659161 original size:19 final size:19
Alignment explanation
Indices: 6659133--6659176 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6659123 CGCAACACGA
6659133 AAATGACTATCGCAATGCG
1 AAATGACTATCGCAATGCG
* *
6659152 AAATGGCTATTGCAATGCG
1 AAATGACTATCGCAATGCG
6659171 AAATGA
1 AAATGA
6659177 AAATTGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:6659182 original size:19 final size:19
Alignment explanation
Indices: 6659141--6659256 Score: 90
Period size: 19 Copynumber: 6.6 Consensus size: 19
6659131 GAAAATGACT
***
6659141 ATCGCAATGCGAAATGGCT
1 ATCGCAATGCGAAATGAAA
*
6659160 ATTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
6659179 ATTGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
6659193 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6659212 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
6659226 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6659245 ATCGCAATGCGA
1 ATCGCAATGCGA
6659257 TTTGTGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6659199 original size:14 final size:14
Alignment explanation
Indices: 6659176--6659234 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
6659166 ATGCGAAATG
*
6659176 AAAATTGCAACGAC
1 AAAATCGCAACGAC
*
6659190 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
6659209 AAAATCGCAACGAC
1 AAAATCGCAACGAC
6659223 AAAATCGCAACG
1 AAAATCGCAACG
6659235 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6659205 original size:33 final size:33
Alignment explanation
Indices: 6659163--6659251 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
6659153 AATGGCTATT
*
6659163 GCAATGCGAAATGAAAATTGCAACGACAAAATC
1 GCAATGCGAAATGAAAATCGCAACGACAAAATC
6659196 GCAATGCGAAATGAAAATCGCAACGACAAAATC
1 GCAATGCGAAATGAAAATCGCAACGACAAAATC
*
6659229 GCAACGCGAAATGAAAATCGCAA
1 GCAATGCGAAATGAAAATCGCAA
6659252 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.12
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGACAAAATC
Found at i:6659287 original size:14 final size:15
Alignment explanation
Indices: 6659268--6659327 Score: 77
Period size: 15 Copynumber: 3.8 Consensus size: 15
6659258 TTGTGTTTCG
6659268 CGTTGCGA-TTTTTT
1 CGTTGCGATTTTTTT
6659282 CGTTGCGATTTTCATTT
1 CGTTGCGATTTT--TTT
6659299 CGCATTGCGATTTTTTT
1 CG--TTGCGATTTTTTT
6659316 CGTTGCGATTTT
1 CGTTGCGATTTT
6659328 CATTTCGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.20
15 13 0.32
17 10 0.24
19 10 0.24
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.53
Consensus pattern (15 bp):
CGTTGCGATTTTTTT
Found at i:6659308 original size:19 final size:19
Alignment explanation
Indices: 6659284--6659343 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
6659274 GATTTTTTCG
6659284 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6659303 TTGCGATTTT--TTTCG--
1 TTGCGATTTTCATTTCGCA
6659318 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6659337 TTGCGAT
1 TTGCGAT
6659344 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.27
17 10 0.27
19 17 0.46
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6659319 original size:34 final size:34
Alignment explanation
Indices: 6659263--6659343 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
6659253 GCGATTTGTG
*
6659263 TTTCGCGTTGCGA-TTTTTTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTTTTCGTTGCGATTTTCA
6659296 TTTCGCATTGCGATTTTTTTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTTTTCGTTGCGATTTTCA
6659330 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
6659344 AGCCATTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 12 0.26
34 34 0.74
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.51
Consensus pattern (34 bp):
TTTCGCATTGCGATTTTTTTCGTTGCGATTTTCA
Found at i:6659327 original size:13 final size:14
Alignment explanation
Indices: 6659268--6659327 Score: 66
Period size: 14 Copynumber: 3.9 Consensus size: 14
6659258 TTGTGTTTCG
6659268 CGTTGCGATTTTTT
1 CGTTGCGATTTTTT
6659282 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TTT
6659299 CGCATTGCGATTTTTTT
1 CG--TTGCGA-TTTTTT
6659316 CGTTGCGATTTT
1 CGTTGCGATTTT
6659328 CATTTCGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 12 0.29
15 9 0.22
17 10 0.24
19 10 0.24
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.53
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:6659362 original size:20 final size:20
Alignment explanation
Indices: 6659328--6659402 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
6659318 TTGCGATTTT
*
6659328 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
6659347 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
6659367 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
*
6659387 CATTTTCGCGTTGCGA
1 CATTTCCGCGTTGCGA
6659403 AAGTAAGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 5 0.10
20 47 0.90
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:6659413 original size:20 final size:20
Alignment explanation
Indices: 6659373--6659428 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
6659363 TAGCCATTTC
* * *
6659373 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
6659393 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
6659413 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
6659429 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:6659420 original size:40 final size:40
Alignment explanation
Indices: 6659329--6659422 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
6659319 TGCGATTTTC
* * *
6659329 ATTT-CGCATTGCGATAGCCATTTCCGCGTTGCGATAGCC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
* * *
6659368 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
*
6659408 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
6659423 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
Found at i:6659804 original size:21 final size:20
Alignment explanation
Indices: 6659778--6659847 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
6659768 CTGTCATCCC
6659778 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
6659799 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
6659820 TCAAGAGTCCCCCCCCACCGT
1 TCAAGAGT-CCCCTCCATCGT
6659841 TCAAGAG
1 TCAAGAG
6659848 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 32 0.86
22 5 0.14
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:6659880 original size:42 final size:42
Alignment explanation
Indices: 6659771--6659859 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
6659761 GACTCACCTG
* * *
6659771 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* *
6659813 TCATCCCTCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
6659855 TCATC
1 TCATC
6659860 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:6661301 original size:14 final size:14
Alignment explanation
Indices: 6661267--6661305 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6661257 TTTATTGTTT
6661267 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
6661281 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
6661295 TGTTGATTTGT
1 AATTGATTTGT
6661306 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:6661471 original size:20 final size:20
Alignment explanation
Indices: 6661446--6661501 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
6661436 CAACGAGAGA
6661446 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
6661466 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* *
6661486 ATCGTAACGAGAAAAT
1 ATCGCAACGCGAAAAT
6661502 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:6661555 original size:20 final size:20
Alignment explanation
Indices: 6661530--6661583 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
6661520 TCGTATTGCG
*
6661530 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
6661550 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
6661570 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
6661584 TTTTCCCCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:6661815 original size:20 final size:20
Alignment explanation
Indices: 6661799--6661893 Score: 163
Period size: 20 Copynumber: 4.8 Consensus size: 20
6661789 ATTGCGATTT
*
6661799 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
6661819 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
6661839 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
6661859 TCAGTATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
6661879 TCAGTATCGCGTTGC
1 TCAGAATCGCGTTGC
6661894 AATTTTGTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:6661922 original size:41 final size:41
Alignment explanation
Indices: 6661863--6661940 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
6661853 CGAAAGTCAG
* *
6661863 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCAATTTTGTAT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTAT
* *
6661904 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT
6661941 CCAAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTAT
Found at i:6661951 original size:41 final size:41
Alignment explanation
Indices: 6661824--6661958 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
6661814 GAAAGTCAGA
* * * ** *
6661824 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAA-AGTC-AGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGC-AATTTTCAAAT
* * ** *
6661864 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCAATTTTGTATT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCAAAT
* *
6661905 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT-CAAAT
6661947 -TCGCATTGCGAA
1 ATCGCATTGCGAA
6661959 TTGGGAAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 45 0.57
42 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCAAAT
Found at i:6661971 original size:21 final size:20
Alignment explanation
Indices: 6661947--6661999 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
6661937 TTTTCCAAAT
6661947 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
** *
6661968 TCGCAACGCGAAATTGTAAAA
1 TCGCATTGCG-AATTGGAAAA
6661989 TCGCATTGCGA
1 TCGCATTGCGA
6662000 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:6662012 original size:20 final size:20
Alignment explanation
Indices: 6661810--6662019 Score: 72
Period size: 20 Copynumber: 10.3 Consensus size: 20
6661800 CAGAATCTCG
* * *
6661810 TTGCGAAAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCA
* * *
6661830 TTGCGAAAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCA
* *
6661850 TTGCGAAAGTCAGT-ATCGCG
1 TTGCGATAGTCA-TAATCGCA
* *
6661870 TTGCGAAAGTCAGT-ATCGCG
1 TTGCGATAGTCA-TAATCGCA
* * *
6661890 TTGCAATTTTGT-ATTATCGCA
1 TTGCGA--TAGTCATAATCGCA
6661911 TTGCGATAGTCAGT-ATCGCA
1 TTGCGATAGTCA-TAATCGCA
**
6661931 TTGCGATTTTCCA-AATTCGCA
1 TTGCGATAGT-CATAA-TCGCA
* ** *
6661952 TTGCGAATTGGGAAAATCGCA
1 TTGCG-ATAGTCATAATCGCA
** * *
6661973 ACGCGAAATTGT-AAAATCGCA
1 TTGCG--ATAGTCATAATCGCA
*
6661994 TTGCGATAGTCATAATCGCG
1 TTGCGATAGTCATAATCGCA
6662014 TTGCGA
1 TTGCGA
6662020 ATCTGGAAAC
Statistics
Matches: 157, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.04
20 93 0.59
21 45 0.29
22 12 0.08
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCATAATCGCA
Found at i:6662020 original size:41 final size:41
Alignment explanation
Indices: 6661789--6662020 Score: 109
Period size: 41 Copynumber: 5.7 Consensus size: 41
6661779 TTTGAAGATG
** * * *
6661789 ATTGCGATTTTCAGAATCTCGTTGCGAAA--GTCAGAATCGC
1 ATTGCGATAGTCATAATCGCGTTGCGAAATTGT-AAAATCGC
* * * **
6661829 GTTGCGAAAGTCAGAATCGCGTTGCGAAA--GTCAGTATCGC
1 ATTGCGATAGTCATAATCGCGTTGCGAAATTGT-AAAATCGC
* * * **
6661869 GTTGCGAAAGTCAGT-ATCGCGTTGC-AATTTTGTATTATCGC
1 ATTGCGATAGTCA-TAATCGCGTTGCGAA-ATTGTAAAATCGC
* ** ** *
6661910 ATTGCGATAGTCAGT-ATCGCATTGCGATTTTCCAAATTCGC
1 ATTGCGATAGTCA-TAATCGCGTTGCGAAATTGTAAAATCGC
* ** * ***
6661951 ATTGCGAATTGGGAAAATCGCAACGCGAAATTGTAAAATCGC
1 ATTGCG-ATAGTCATAATCGCGTTGCGAAATTGTAAAATCGC
6661993 ATTGCGATAGTCATAATCGCGTTGCGAA
1 ATTGCGATAGTCATAATCGCGTTGCGAA
6662021 TCTGGAAACT
Statistics
Matches: 149, Mismatches: 36, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.01
40 57 0.38
41 58 0.39
42 32 0.21
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (41 bp):
ATTGCGATAGTCATAATCGCGTTGCGAAATTGTAAAATCGC
Found at i:6666311 original size:25 final size:26
Alignment explanation
Indices: 6666283--6666333 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
6666273 TTCTTATTTT
6666283 TCATTTTTTGTT-AATCTAATCTAAA
1 TCATTTTTTGTTGAATCTAATCTAAA
*
6666308 TCATTTTTTGTTGAATTTAATCTAAA
1 TCATTTTTTGTTGAATCTAATCTAAA
6666334 GAACTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (26 bp):
TCATTTTTTGTTGAATCTAATCTAAA
Found at i:6666341 original size:26 final size:25
Alignment explanation
Indices: 6666287--6666341 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
6666277 TATTTTTCAT
** *
6666287 TTTTTGTTAATCTAATCTAAATCAT
1 TTTTTGTTAATCTAATCTAAAGAAC
*
6666312 TTTTTGTTGAATTTAATCTAAAGAAC
1 TTTTTGTT-AATCTAATCTAAAGAAC
6666338 TTTT
1 TTTT
6666342 ATTTTTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (25 bp):
TTTTTGTTAATCTAATCTAAAGAAC
Found at i:6668282 original size:3 final size:3
Alignment explanation
Indices: 6668274--6668339 Score: 71
Period size: 3 Copynumber: 21.3 Consensus size: 3
6668264 TTTTACTTAA
** *
6668274 ATT ATT ATT ATT AAA ATT ATT ATC ATT ATT ATT ATGT ATT A-T ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT AT-T
6668320 ATAT ATT ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT A
6668340 AAAAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.78
4 10 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:6669654 original size:17 final size:17
Alignment explanation
Indices: 6669634--6669667 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6669624 TATTATTTTG
6669634 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
6669651 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
6669668 GTCACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:6669680 original size:2 final size:2
Alignment explanation
Indices: 6669673--6669698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6669663 TATTAGTCAC
6669673 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6669699 TAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6669808 original size:22 final size:22
Alignment explanation
Indices: 6669782--6669827 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6669772 GTATTTTAAA
6669782 ATAATTAAATATTATAAAAATT
1 ATAATTAAATATTATAAAAATT
* * **
6669804 ATAATTTAATTTTATTTAAATT
1 ATAATTAAATATTATAAAAATT
6669826 AT
1 AT
6669828 TATATTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTAAATATTATAAAAATT
Found at i:6672014 original size:8 final size:7
Alignment explanation
Indices: 6671990--6672031 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
6671980 TTTTCATACA
6671990 TGCA-TT
1 TGCATTT
6671996 TGCATTT
1 TGCATTT
6672003 TGCATCTT
1 TGCAT-TT
6672011 TGCATTT
1 TGCATTT
* *
6672018 TTCATTG
1 TGCATTT
6672025 TGCATTT
1 TGCATTT
6672032 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:6672014 original size:15 final size:14
Alignment explanation
Indices: 6671990--6672031 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
6671980 TTTTCATACA
6671990 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
6672003 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
6672018 TTCATTGTGCATTT
1 TGCATTTTGCATTT
6672032 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:6672127 original size:27 final size:27
Alignment explanation
Indices: 6672091--6672150 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
6672081 CATTCACATA
6672091 TTTACATTTGCATTTACATTTTCATTT
1 TTTACATTTGCATTTACATTTTCATTT
* *
6672118 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTTCATTT
6672144 TTTACAT
1 TTTACAT
6672151 AATTACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTTCATTT
Found at i:6672149 original size:14 final size:14
Alignment explanation
Indices: 6672067--6672150 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
6672057 ATACAATTTG
* *
6672067 CATTTTTATTGTTA
1 CATTTTCATTTTTA
** *
6672081 CATTCACATATTTA
1 CATTTTCATTTTTA
*
6672095 CATTTGCA--TTTA
1 CATTTTCATTTTTA
6672107 CATTTTCATTTTTTA
1 CATTTTCA-TTTTTA
*
6672122 CGTTTGT-A--TTTA
1 CATTT-TCATTTTTA
6672134 CATTTTCATTTTTA
1 CATTTTCATTTTTA
6672148 CAT
1 CAT
6672151 AATTACATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
11 1 0.02
12 20 0.38
14 22 0.42
15 9 0.17
16 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (14 bp):
CATTTTCATTTTTA
Found at i:6673771 original size:2 final size:2
Alignment explanation
Indices: 6673764--6673794 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6673754 ATCCTTTTAA
6673764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6673795 ATTTGTTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6674103 original size:10 final size:10
Alignment explanation
Indices: 6674087--6674159 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
6674077 CTCATCCAGT
6674087 AAAGAAAGAA
1 AAAGAAAGAA
* *
6674097 TAAGAAAAAA
1 AAAGAAAGAA
6674107 AAAG-AAGAA
1 AAAGAAAGAA
*
6674116 AAAAAAAGAAGA
1 AAAGAAAG-A-A
* *
6674128 AAAAAAACAA
1 AAAGAAAGAA
6674138 AAAGGAAA-AA
1 AAA-GAAAGAA
*
6674148 AAAGAAGGAA
1 AAAGAAAGAA
6674158 AA
1 AA
6674160 TTGAATCAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 10 0.20
10 27 0.54
11 5 0.10
12 8 0.16
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:6674112 original size:16 final size:14
Alignment explanation
Indices: 6674091--6674150 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 14
6674081 TCCAGTAAAG
6674091 AAAGAATAAGAAAAAA
1 AAAGAA-AA-AAAAAA
6674107 AAAGAAGAAAAAAAA
1 AAAGAA-AAAAAAAA
6674122 AGAAGAAAAAAAACAA
1 A-AAGAAAAAAAA-AA
6674138 AAAGGAAAAAAAA
1 AAA-GAAAAAAAA
6674151 GAAGGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 15 0.38
16 25 0.62
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAAAAA
Found at i:6674119 original size:12 final size:13
Alignment explanation
Indices: 6674098--6674159 Score: 79
Period size: 13 Copynumber: 4.5 Consensus size: 13
6674088 AAGAAAGAAT
6674098 AAGAAAAAAAAAG
1 AAGAAAAAAAAAG
6674111 AAGAAAAAAAAAG
1 AAGAAAAAAAAAG
*
6674124 AAGAAAAAAAACAAA
1 AAG-AAAAAAA-AAG
*
6674139 AAGGAAAAAAAAG
1 AAGAAAAAAAAAG
6674152 AAGGAAAA
1 AA-GAAAA
6674160 TTGAATCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 20 0.48
14 17 0.40
15 5 0.12
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAG
Found at i:6676630 original size:114 final size:114
Alignment explanation
Indices: 6676430--6676649 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
6676420 CACGTTCTCT
*
6676430 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * *
6676495 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAAGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
* *
6676544 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* *
6676609 GGTAAGAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 GGTAAGAACCCCAAAACCAATCATTAGAATTAAAAGATGAA
6676650 CTGCATGATC
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTAAGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
Found at i:6677668 original size:36 final size:34
Alignment explanation
Indices: 6677603--6677670 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 34
6677593 TTCAACCAGA
*
6677603 AATAGAATATTGGTGCATTTTGAAGGCTCATAAC
1 AATAGAATATTGGTGCATTTTGAAAGCTCATAAC
6677637 AATATGAATATTTGG-GCATCTTTGAAAGCTCATA
1 AATA-GAATA-TTGGTGCAT-TTTGAAAGCTCATA
6677671 TAAAAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 4 0.13
35 9 0.30
36 17 0.57
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (34 bp):
AATAGAATATTGGTGCATTTTGAAAGCTCATAAC
Found at i:6679171 original size:22 final size:22
Alignment explanation
Indices: 6679118--6679172 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
6679108 ATCTACACTC
*
6679118 TTCAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
6679140 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
6679162 TTCAAAGATGA
1 TTCAAAGATGA
6679173 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:6680170 original size:73 final size:73
Alignment explanation
Indices: 6680047--6681208 Score: 2117
Period size: 73 Copynumber: 15.9 Consensus size: 73
6680037 CAGGATGTTT
*
6680047 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
*
6680112 TTCACTCA
66 TTCACTCG
*
6680120 AAATAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680185 TTCACTCG
66 TTCACTCG
*
6680193 AAACATAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680258 TTCACTCG
66 TTCACTCG
6680266 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680331 TTCACTCG
66 TTCACTCG
*
6680339 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680404 TTCACTCG
66 TTCACTCG
6680412 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680477 TTCACTCG
66 TTCACTCG
* *
6680485 AAACATAACTTTATCTCATTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680550 TTCACTCG
66 TTCACTCG
* *
6680558 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTCAAACAAAATTTGTCTCGCTTGAGATAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680623 TTCACTCG
66 TTCACTCG
*
6680631 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680696 TTCACTCG
66 TTCACTCG
*
6680704 AAACATAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680769 TTCACTCG
66 TTCACTCG
* *
6680777 AAACATAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680842 TTCACTCG
66 TTCACTCG
*
6680850 AAACATAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
*
6680915 TTCAATCG
66 TTCACTCG
* *
6680923 AAACATAACTTTATCTCACTTGAGATTGTTTTTCTTAAAATAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6680988 TTCACTCG
66 TTCACTCG
6680996 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
6681061 TTCACTCG
66 TTCACTCG
*
6681069 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
*
6681134 TTCACTTG
66 TTCACTCG
* * *
6681142 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCACTTGAGACAG
1 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAG
6681207 TT
65 TT
6681209 ATTTCGAGTT
Statistics
Matches: 1056, Mismatches: 32, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
73 1036 0.98
74 20 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (73 bp):
AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
TTCACTCG
Found at i:6681504 original size:76 final size:76
Alignment explanation
Indices: 6681378--6681559 Score: 294
Period size: 76 Copynumber: 2.4 Consensus size: 76
6681368 TATTTCACAT
* * *
6681378 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
6681443 GCCTTAGGGTC
66 GCCTTAGGGCC
*
6681454 ATCTGTAAGTCCTGTAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
6681519 GCCTTAGGGCC
66 GCCTTAGGGCC
*
6681530 ATCTGTAAG-CCTTTCAGTGCATGATGTTTT
1 ATCTGTAAGTCCTAT-AGTGCATGATGTTTT
6681560 TAAGACCTCT
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
75 4 0.04
76 95 0.96
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (76 bp):
ATCTGTAAGTCCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGCC
Found at i:6681720 original size:3 final size:3
Alignment explanation
Indices: 6681712--6681784 Score: 92
Period size: 3 Copynumber: 23.3 Consensus size: 3
6681702 TTTTACTTAA
** *
6681712 ATT ATT ATT ATT AAA ATT ATT ATC ATT ATT ATT ATGT ATT ATAT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT AT-T AT-T
6681760 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6681785 AAATAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
3 52 0.84
4 10 0.16
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:6683108 original size:16 final size:16
Alignment explanation
Indices: 6683067--6683102 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
6683057 TTGCTTTTAA
6683067 ATTTATTTGA-AATATT
1 ATTTATTT-ATAATATT
6683083 ATTTATTTATAATATT
1 ATTTATTTATAATATT
6683099 ATTT
1 ATTT
6683103 TGTTATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:6683125 original size:17 final size:17
Alignment explanation
Indices: 6683105--6683138 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6683095 TATTATTTTG
6683105 TTATTACTTTT-ATATTA
1 TTATTA-TTTTCATATTA
6683122 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
6683139 GTCACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:6683290 original size:25 final size:24
Alignment explanation
Indices: 6683270--6683314 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
6683260 AATATTATAA
6683270 AAATTATTAT-TTTATTTTATT-T
1 AAATTATTATATTTATTTTATTAT
6683292 AAATTATTATATTTATTTT-TTAT
1 AAATTATTATATTTATTTTATTAT
6683315 TAATATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
AAATTATTATATTTATTTTATTAT
Found at i:6694702 original size:2 final size:2
Alignment explanation
Indices: 6694697--6694748 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
6694687 ATTATATACA
*
6694697 AT AT AT AT AT AT -T AT GT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6694737 AT AT AT AT -T AT A
1 AT AT AT AT AT AT A
6694749 CAAATTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6695383 original size:87 final size:87
Alignment explanation
Indices: 6695237--6695397 Score: 288
Period size: 87 Copynumber: 1.9 Consensus size: 87
6695227 TATGTTATAT
6695237 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
6695302 AGCGCTTATTTAATAAAATAGG
66 AGCGCTTATTTAATAAAATAGG
* *
6695324 TATTTAA-CGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGG
1 TATTTAACCGG-AAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGA
6695388 TAGCGCTTAT
65 TAGCGCTTAT
6695398 ATTGACCTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 3 0.04
87 68 0.96
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAACGCTTATATAATGTAATAGAT
AGCGCTTATTTAATAAAATAGG
Found at i:6699117 original size:119 final size:120
Alignment explanation
Indices: 6698905--6699142 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 120
6698895 TCTTCCATTC
*
6698905 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATA
1 TGGACATAAAGTACCGACACAATAATAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATA
6698970 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTA
66 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTA
* * *
6699025 TGGACATAAAGTACCGACACAA-AATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATAATAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATA
* * *
6699089 AAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATT
66 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATT
6699143 CTGGGTTCCA
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 89 0.80
120 22 0.20
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (120 bp):
TGGACATAAAGTACCGACACAATAATAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATA
AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTA
Found at i:6699293 original size:302 final size:303
Alignment explanation
Indices: 6698736--6699329 Score: 1046
Period size: 302 Copynumber: 2.0 Consensus size: 303
6698726 TTAAAATTAG
*
6698736 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * *
6698801 ATAACGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATAACGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCAATATGTAAATGTCAA
6698866 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* *
6698931 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGCCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
6698996 TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTAC
*
6699039 CGACACAA-AATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
1 CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
6699103 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCAATATGTAAATGTCAA
66 ATAACGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCAATATGTAAATGTCAA
6699168 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* ** * * *
6699233 AAAAAGTGCCGATTTAGGTTGTAGACCTATTCGCTCATAAAACTGATATATTTATACCGGTTATA
196 AAAAAGTGCCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
*
6699298 TTACAAAATTATCTATTACATTATAATTATGG
261 TTACAAAATTATCTAGTACATTATAATTATGG
6699330 GTTCCGATGT
Statistics
Matches: 276, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
302 268 0.97
303 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (303 bp):
CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATAACGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCAATATGTAAATGTCAA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGCCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTAC
Found at i:6699333 original size:183 final size:182
Alignment explanation
Indices: 6699025--6699608 Score: 940
Period size: 183 Copynumber: 3.2 Consensus size: 182
6699015 ATTATAATTA
*
6699025 TGGACATAAAGTACCGACACAA-AATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
*
6699089 AAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCAA
66 AAAT-GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAA
*
6699154 TATGTAAATGTCAACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTC
130 TATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTC
* *
6699207 TGGACATAAAGTACCGACACAATATTAAAAAGTGCCGATTTAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
* *
6699272 AAACTGATATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA
66 AAA-TGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAA
* * *
6699337 TGTGTAAATGTCGACACATTTTGACAAGGTATCGACACATTTTTCTTCTATTC
130 TATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTC
*
6699390 TGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
*
6699455 AAATTGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA
66 AAA-TGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC-A
* * * * *
6699520 TGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTC
129 --ATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTC
6699574 TGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGT
6699609 GAAAACTTTG
Statistics
Matches: 372, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
182 22 0.06
183 270 0.73
184 75 0.20
186 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (182 bp):
TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
AAATGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAAT
ATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTC
Found at i:6700868 original size:12 final size:12
Alignment explanation
Indices: 6700819--6700876 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
6700809 CTTGTTTGGA
* *
6700819 TCATCATCATCA
1 TCATCGTCATCT
6700831 TCATCGTCATCT
1 TCATCGTCATCT
6700843 TCATCGTCATCT
1 TCATCGTCATCT
*
6700855 TCATCGTCAGCT
1 TCATCGTCATCT
*
6700867 TCATCTTCAT
1 TCATCGTCAT
6700877 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:6700874 original size:6 final size:6
Alignment explanation
Indices: 6700819--6700876 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
6700809 CTTGTTTGGA
* * * * * *
6700819 TCATCA TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
6700867 TCATCT TCAT
1 TCATCT TCAT
6700877 TGACCGCTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:6702651 original size:200 final size:200
Alignment explanation
Indices: 6702326--6703468 Score: 1690
Period size: 200 Copynumber: 5.8 Consensus size: 200
6702316 AACATTGAAC
* * * * * *
6702326 AGTGTCGATACA-TATTATATACCAATTTTCCCATAAAACCGGTATACTTATACCGGTTAGATTA
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* *
6702390 AAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
*
6702455 GGATCGACACTTTATTGTTGCACCCTGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
6702520 TACAAA
195 TACAAA
* *
6702526 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACTGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
6702591 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACATTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
6702656 GATCAACACTTTATTGTTGCACCCAGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
6702721 ACAAA
196 ACAAA
*
6702726 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
6702791 AAAATTACGTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
6702856 GATCGACACTTTATTGTTGCACCTTGTTTGCCATTCATTATGGACCAAAAATATCGACATAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
6702921 ACAAA
196 ACAAA
* * * *
6702926 AGTGTCGATACATTATTTAGACCTATTCTCTTATAAAATCGATATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
6702991 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC----T-T-TATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* ** * * * ** *
6703050 G-TTG-CACCCT-GT-TTG---CC--ATT--CATTC--T-GGACCAAAAATATCGA-C-ACA-AA
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAA-AT--ATCGACACAA
*
6703098 C-TACAAA
193 ACTACAAA
* *
6703105 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTAA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
6703170 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
6703235 GATCGACACTTTATAT-TTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
131 GATCGACACTTTAT-TGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
6703299 TACAAA
195 TACAAA
*
6703305 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
6703370 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGATACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
6703435 GATCGACACTTTATGGTTGCACCCTATTTGCCAT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCAT
6703469 ATTGTAAATT
Statistics
Matches: 848, Mismatches: 66, Indels: 58
0.87 0.07 0.06
Matches are distributed among these distances:
179 117 0.14
180 8 0.01
181 6 0.01
182 1 0.00
183 7 0.01
184 1 0.00
185 7 0.01
186 2 0.00
187 5 0.01
189 4 0.00
190 3 0.00
191 1 0.00
192 6 0.01
193 2 0.00
194 7 0.01
195 1 0.00
196 7 0.01
197 1 0.00
198 6 0.01
199 8 0.01
200 644 0.76
201 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:6703154 original size:379 final size:379
Alignment explanation
Indices: 6702655--6703425 Score: 1400
Period size: 379 Copynumber: 2.0 Consensus size: 379
6702645 TTTTATATAT
* *
6702655 GGATCAACACTTTATTGTTGCACCCAGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCAGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
6702720 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* * *
6702785 GATTGAAAAATTACGTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTA
131 GATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTA
*
6702850 TATATGGATCGACACTTTAT-TGTTGCACCTTGTTTGCCATTCATTATGGACCAAAAATATCGAC
196 TATATGGATCGACACTTTATAT-TTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGAC
* * *
6702914 ATAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTTATAAAATCGATATACTTGTAC
260 ACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTAC
6702979 CGATTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
325 CGATTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
*
6703034 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCAGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
6703099 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
6703164 GATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTA
131 GATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTA
*
6703229 TATATGGATCGACACTTTATATTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATATTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACA
*
6703294 CAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACC
*
6703359 GATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATG
326 GATTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
*
6703413 GGATCGATACTTT
1 GGATCGACACTTT
6703426 TTATATATGG
Statistics
Matches: 377, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
379 376 1.00
380 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (379 bp):
GGATCGACACTTTATGGTTGCACCCAGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTA
TATATGGATCGACACTTTATATTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACA
CAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACC
GATTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
Found at i:6703155 original size:179 final size:179
Alignment explanation
Indices: 6702855--6703425 Score: 818
Period size: 179 Copynumber: 3.1 Consensus size: 179
6702845 TTTTATATAT
* * * *
6702855 GGATCGACACTTTATTGTTGCACCTTGTTTGCCATTCATTATGGACCAAAAATATCGACATAAAC
1 GGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
6702920 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTTATAAAATCGATATACTTGTACCGATTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
6702985 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
*
6703034 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
6703099 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
* *
6703164 GATTAAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATC
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
*
6703213 GGATCGACACTTTTTATATATGGATCGACACTTTATATTTGCACCCTGTTTGCCATTCATTCTGG
1 GGATCGACAC----T-T-TATGG-TTG-CAC----------CA---TGTTTGCCATTCATTCTGG
6703278 ACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
45 ACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
*
6703343 CCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGT
110 CCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGT
6703408 TTATG
175 TTATG
*
6703413 GGATCGATACTTT
1 GGATCGACACTTT
6703426 TTATATATGG
Statistics
Matches: 352, Mismatches: 19, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
179 178 0.51
183 1 0.00
184 1 0.00
185 5 0.01
186 2 0.01
187 3 0.01
194 1 0.00
195 1 0.00
196 1 0.00
197 1 0.00
200 158 0.45
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (179 bp):
GGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
Done.