Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008489.1 Hibiscus syriacus cultivar Beakdansim tig00111331_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: 1108073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2676 original size:183 final size:183
Alignment explanation
Indices: 2368--3174 Score: 1451
Period size: 183 Copynumber: 4.4 Consensus size: 183
2358 CGACACATTT
* * * * *
2368 TAGGTTGTAGACATATTCGCGCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
2433 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
2498 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
2551 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
2616 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
2681 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
2734 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
2799 ATTACATTATAATTATGGGTTCCGA--TGT-AATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
2861 TTTCCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
2914 TAGGTTGTAGACCTATTCGCTCATACAACCTGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
2979 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
3044 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * *
3097 TAGGTTGTAGACCTATTCGCGT-ATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACC
1 TAGGTTGTAGACCTATTCGC-TCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATC
**
3161 TATTTTATTATAAT
65 TATTACATTATAAT
3175 ATGTTGAAAG
Statistics
Matches: 604, Mismatches: 16, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
180 175 0.29
181 3 0.00
182 3 0.00
183 422 0.70
184 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:3036 original size:363 final size:365
Alignment explanation
Indices: 2368--3174 Score: 1467
Period size: 363 Copynumber: 2.2 Consensus size: 365
2358 CGACACATTT
* * *
2368 TAGGTTGTAGACATATTCGCGCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
2433 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGA-GTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
2498 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
130 TTTCCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
2563 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
195 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
2628 TTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
260 TTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
2693 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
325 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
2734 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
2799 ATTACATTATAATTATGGGTTCCGA-TGT-AATGTCGACACTTTTTTAAATCGTATCGACACATT
66 ATTACATTATAATTATGGGTTCCGAGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATT
2862 TTCCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
131 TTCCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
*
2927 TATTCGCTCATACAACCTGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
196 TATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
2992 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
261 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
3057 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
326 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
3097 TAGGTTGTAGACCTATTCGCGT-ATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACC
1 TAGGTTGTAGACCTATTCGC-TCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATC
**
3161 TATTTTATTATAAT
65 TATTACATTATAAT
3175 ATGTTGAAAG
Statistics
Matches: 426, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
363 337 0.79
364 4 0.01
366 85 0.20
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (365 bp):
TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGAGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATT
TTCCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
TATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:4650 original size:9 final size:9
Alignment explanation
Indices: 4635--4691 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
4625 ACTTGTTTGG
*
4635 ATCATCATC
1 ATCATCGTC
* *
4644 TTCATCATC
1 ATCATCGTC
4653 ATCATCGTC
1 ATCATCGTC
*
4662 ATCATCTTC
1 ATCATCGTC
* *
4671 ATCGTCATC
1 ATCATCGTC
4680 ATCATCGTC
1 ATCATCGTC
4689 ATC
1 ATC
4692 TTCATCGTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.37
Consensus pattern (9 bp):
ATCATCGTC
Found at i:4652 original size:12 final size:12
Alignment explanation
Indices: 4635--4709 Score: 87
Period size: 12 Copynumber: 6.2 Consensus size: 12
4625 ACTTGTTTGG
4635 ATCATCATCTTC
1 ATCATCATCTTC
*
4647 ATCATCATCATC
1 ATCATCATCTTC
*
4659 GTCATCATCTTC
1 ATCATCATCTTC
* *
4671 ATCGTCATCATC
1 ATCATCATCTTC
*
4683 ATCGTCATCTTC
1 ATCATCATCTTC
* *
4695 ATCGTCAGCTTC
1 ATCATCATCTTC
4707 ATC
1 ATC
4710 TTCTGCGACC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:4654 original size:6 final size:6
Alignment explanation
Indices: 4635--4697 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
4625 ACTTGTTTGG
* * * *
4635 ATCATC ATCTTC ATCATC ATCATC GTCATC ATCTTC ATCGTC ATCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* *
4683 ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATC
4698 GTCAGCTTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.38
Consensus pattern (6 bp):
ATCATC
Found at i:4709 original size:24 final size:24
Alignment explanation
Indices: 4635--4701 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
4625 ACTTGTTTGG
*
4635 ATCATCATCTTCATCATCATCATC
1 ATCATCATCTTCATCGTCATCATC
*
4659 GTCATCATCTTCATCGTCATCATC
1 ATCATCATCTTCATCGTCATCATC
*
4683 ATCGTCATCTTCATCGTCA
1 ATCATCATCTTCATCGTCA
4702 GCTTCATCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (24 bp):
ATCATCATCTTCATCGTCATCATC
Found at i:4712 original size:6 final size:6
Alignment explanation
Indices: 4639--4712 Score: 67
Period size: 6 Copynumber: 12.3 Consensus size: 6
4629 GTTTGGATCA
* * * * * * *
4639 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG TCATCA TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
4687 TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TC
4713 TGCGACCGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:6508 original size:197 final size:198
Alignment explanation
Indices: 6172--7448 Score: 2433
Period size: 198 Copynumber: 6.5 Consensus size: 198
6162 TTTAAATTAG
6172 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6237 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6302 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
6366 TAAA
195 AAAA
6370 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC-GTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6434 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6499 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
6564 AAA
196 AAA
6567 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6632 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6696 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG--AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
*
6759 TAA
196 AAA
6762 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6827 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6892 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
6957 AAA
196 AAA
*
6960 TATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
7025 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
7090 CGACACTTTTTATATATGGATTGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
7154 TAAA
195 AAAA
*
7158 TATCGACACAAACTATATTAGTGTCGACATATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
7223 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
7288 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
7353 AAA
196 AAA
7356 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
7420 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
7449 CCTTTTGGCC
Statistics
Matches: 1061, Mismatches: 11, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
195 88 0.08
196 134 0.13
197 341 0.32
198 470 0.44
199 28 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAA
Found at i:7602 original size:19 final size:19
Alignment explanation
Indices: 7571--7619 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
7561 TTATATTCAC
7571 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
7590 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
7609 ATACAAAATTA
1 ATACAAAATTA
7620 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:9442 original size:33 final size:33
Alignment explanation
Indices: 9405--9470 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
9395 CATCTTAATA
*
9405 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
9438 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
9471 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:9544 original size:21 final size:21
Alignment explanation
Indices: 9504--9568 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
9494 CCCCTTATGC
* *
9504 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
9525 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
9546 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
9567 CT
1 CT
9569 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:11815 original size:17 final size:18
Alignment explanation
Indices: 11793--11835 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
11783 ATATATCCGG
11793 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
11810 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
11830 TATCAT
1 TATCAT
11836 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:11853 original size:20 final size:19
Alignment explanation
Indices: 11798--11844 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
11788 TCCGGTATCA
11798 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
11817 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
11838 TTTTACC
1 TTTTACC
11845 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:12010 original size:20 final size:19
Alignment explanation
Indices: 11966--12010 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
11956 CACTTTTAAA
11966 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
11985 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
12006 TTTAC
1 TTTAC
12011 ATGGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:12479 original size:228 final size:226
Alignment explanation
Indices: 12077--12524 Score: 790
Period size: 228 Copynumber: 2.0 Consensus size: 226
12067 TTATAACTGC
12077 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
12142 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAA-TTTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
12207 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
130 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
*
12272 GTATGGACACTTTTATAAAAATGATATATACTT
194 GTATGGACACTTTTATAAAAAGGATATATACTT
*
12305 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
1 TTTT-AAAGTTATGTAATTTATGTTTCAA-TTTATTTAATAGTGTTTCATGTTTTCCACCTACAA
*
12370 TATTAATTTAATAATTTCATTTACACAAAA-TTATTTGATTGTTTTGATATTTTATAAAATATTA
64 TATTAATTTAATAATTTAATTTACACAAAATTTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
12434 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
129 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
12499 GTATGGACACTTTTATAAAAAGGATA
194 GTATGGACACTTTTATAAAAAGGATA
12525 GATAATTTAC
Statistics
Matches: 211, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
227 37 0.18
228 87 0.41
229 24 0.11
230 63 0.30
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATTTATTTGATTGTTTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATATACTT
Found at i:23841 original size:3 final size:3
Alignment explanation
Indices: 23835--24173 Score: 641
Period size: 3 Copynumber: 114.0 Consensus size: 3
23825 GAAGTTATCC
23835 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23883 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23931 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24026 -AT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
24071 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24118 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24165 AAT AAT AAT
1 AAT AAT AAT
24174 TCGAAGTGGA
Statistics
Matches: 331, Mismatches: 0, Indels: 10
0.97 0.00 0.03
Matches are distributed among these distances:
2 8 0.02
3 320 0.97
4 3 0.01
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24988 original size:85 final size:85
Alignment explanation
Indices: 24845--25141 Score: 436
Period size: 85 Copynumber: 3.5 Consensus size: 85
24835 TATGACGCGC
* * * * * **
24845 ATTTATGACGCGGATGTATGGCTTACATTGTGCGTCATTGAAGTCCTTGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
24910 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
24930 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
24995 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
* *
25015 ATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCCCCGTCATAAATCT--GCTT
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAAG-AT
* *
25078 GACATACATTTGTGTGTCATAA
64 GACACACATTTGTGCGTCATAA
* * *
25100 ATATATGGCACGCATGTATGACTTACATTGCGTGTCATTGAA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAA
25142 ACACACATCA
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
84 1 0.01
85 193 0.99
86 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
CACACATTTGTGCGTCATAA
Found at i:33339 original size:18 final size:18
Alignment explanation
Indices: 33316--33362 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
33306 GATGCAATTA
33316 GTATCGATACTGATGTGG
1 GTATCGATACTGATGTGG
33334 GTATCGATACTGATGTGG
1 GTATCGATACTGATGTGG
33352 GTATCGATACT
1 GTATCGATACT
33363 AAGAGAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (18 bp):
GTATCGATACTGATGTGG
Found at i:33969 original size:49 final size:49
Alignment explanation
Indices: 33867--34339 Score: 649
Period size: 49 Copynumber: 9.6 Consensus size: 49
33857 AACTGCTCTA
* *
33867 TAATGAAAGTTAAATGCATAATGGTGCATTTTTTTGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCA-TTTTTGGCAGAAAGGTGCCAC
* * *
33917 TAATGCAAGTTAATTGCATAATGGTGCATTTTTGGCAGAAAGGTACCGC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
33966 TAATGCAAGTTAAATGTATAAAGATGCATTTTTGGCATAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
34015 TAATGCAAGTTAAATGCATATTGGTGCATTTTTGGCAGAAATGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
34064 TAATGCAAGTTAAATGGATAATAGTGCGTTTTTGGCAGAAATGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
34113 TAATGCAAGTTAAATGCATAAAGGTGCATTTTTAGCAGAAAAGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
34162 TAATGGAAGTTAAATGCATAATGGTGCATTTTTGGCATAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * * *
34211 TAATACAAGTTAAATGCATAATGGTGTATTTTTGGCAGAAATGTGTCTC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
34260 TAATGCAAGTTAAATGCATAAAGGTACATTTTTGGTAGAAAGGTGCCTC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
34309 TAATACGAGTTAAATGCATAACGGTGCATTT
1 TAATGCAAGTTAAATGCATAATGGTGCATTT
34340 CGACATAAAG
Statistics
Matches: 372, Mismatches: 51, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
49 346 0.93
50 26 0.07
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:40414 original size:21 final size:23
Alignment explanation
Indices: 40385--40431 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
40375 GGAGAAGAAG
*
40385 AAGATAGAAAGTG-AAAGT-AAA
1 AAGAGAGAAAGTGAAAAGTGAAA
40406 AAGAGAGAAAGTGAAAAGTGAAA
1 AAGAGAGAAAGTGAAAAGTGAAA
40429 AAG
1 AAG
40432 TGGGGTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
22 5 0.22
23 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.11
Consensus pattern (23 bp):
AAGAGAGAAAGTGAAAAGTGAAA
Found at i:50452 original size:3 final size:3
Alignment explanation
Indices: 50444--50474 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
50434 GAATAGGGTT
50444 TTG TTG TTG TTG TTG TTG TTG TTG TATG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG T-TG TTG
50475 AAATATGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.03, C:0.00, G:0.32, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:50951 original size:22 final size:22
Alignment explanation
Indices: 50925--50982 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
50915 ACTGAAAGGG
50925 AGTATCGATACCATAATATAGA
1 AGTATCGATACCATAATATAGA
* *
50947 AGTATTGATACCATAGTATAGA
1 AGTATCGATACCATAATATAGA
50969 AGTATCGATACCAT
1 AGTATCGATACCAT
50983 GGTAGGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (22 bp):
AGTATCGATACCATAATATAGA
Found at i:51429 original size:49 final size:49
Alignment explanation
Indices: 51366--51836 Score: 678
Period size: 49 Copynumber: 9.6 Consensus size: 49
51356 AACTACTCTA
*
51366 TAATGAAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
51415 TAATTCAAGTTAAATGTATAAAGATGCATTTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
51464 TAATGCAAGTTAAATACATAATGGTGCATTTTTGGCAGAAAAGTGCCAA
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
*
51513 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAAAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* ** *
51562 TAATGCAAGTTAAATGCATAATGGTGTATTTTTTACAGAAATGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
*
51611 TAATGCTAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
51660 TAATGCAAGTTAAATGCATAATAGTGCATTTTTGGTAGAAATGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
51709 TAATGCAAGTTAAATGCATAAAGGTAG-A-TTTTGGCATAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGT-GCATTTTTGGCAGAAAGGTGCCAC
* * * *
51757 TAATGCAAGTTAAATGCATAAAGGTGTATTTTTGGCATAAAGGTGCCAT
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
*
51806 TAATG-ACAGTTAAATGTATAATGGTGCATTT
1 TAATGCA-AGTTAAATGCATAATGGTGCATTT
51837 CGGCATAAAA
Statistics
Matches: 377, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.00
48 43 0.11
49 332 0.88
50 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:52518 original size:27 final size:27
Alignment explanation
Indices: 52486--52542 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
52476 ATTCTTATCT
*
52486 TTTTACAACATAAGGGTATTTTCGTAA
1 TTTTACAACATAAGGGTATTTTCATAA
** *
52513 TTTTACCCCATAGGGGTATTTTCATAA
1 TTTTACAACATAAGGGTATTTTCATAA
52540 TTT
1 TTT
52543 CTCATCCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (27 bp):
TTTTACAACATAAGGGTATTTTCATAA
Found at i:54264 original size:26 final size:24
Alignment explanation
Indices: 54178--54261 Score: 69
Period size: 30 Copynumber: 3.2 Consensus size: 24
54168 AAGATAGGAG
*
54178 TAAAATATATTTAATAAATTAAAGTAA
1 TAAAATATATTTAGTAAATT-AAG--A
54205 TAATATAATATATTTAGTAAATTAAGA
1 T-A-A-AATATATTTAGTAAATTAAGA
** *
54232 TAAAATATATTTTTTAAAGTTTAGA
1 TAAAATATATTTAGTAAA-TTAAGA
54257 TAAAA
1 TAAAA
54262 ATAAAATATC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 13 0.27
25 11 0.22
26 1 0.02
27 3 0.06
28 1 0.02
29 4 0.08
30 16 0.33
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAAATATATTTAGTAAATTAAGA
Found at i:66174 original size:42 final size:42
Alignment explanation
Indices: 66128--66338 Score: 147
Period size: 42 Copynumber: 5.1 Consensus size: 42
66118 TCAGCGAAGG
66128 CTTACAAATTACCCGACA-GATTTAATCATCATGCTCGAAAGA
1 CTTACAAATTACCCGA-AGGATTTAATCATCATGCTCGAAAGA
* *
66170 CTTACAAATTACCCGAAGGATTTCATCATCATGCTTGAAAGA
1 CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGA
* * * ** *
66212 CTTAC----T----GATGGATTT--TCTTCACTACTCTTCGGTGGAGG
1 CTTACAAATTACCCGAAGGATTTAATCATCA-T--GC-TC-G-AAAGA
*
66250 CTTACAAATTACCCGAAGGATTTAATCATCATGCTTGAAAGA
1 CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGA
** ** * *
66292 CTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGA
1 CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGA
66334 CTTAC
1 CTTAC
66339 TGATGACACT
Statistics
Matches: 129, Mismatches: 23, Indels: 34
0.69 0.12 0.18
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 8 0.06
35 1 0.01
36 1 0.01
37 1 0.01
38 8 0.06
41 1 0.01
42 86 0.67
43 1 0.01
44 1 0.01
45 1 0.01
46 8 0.06
47 1 0.01
48 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGA
Found at i:66307 original size:122 final size:124
Alignment explanation
Indices: 66097--66449 Score: 451
Period size: 122 Copynumber: 2.8 Consensus size: 124
66087 ACACTTACCA
*
66097 ATGGATTTGCTTCACTACTCTTCAGCGAAGGCTTACAAATTACCCGACA-GATTTAATCATCATG
1 ATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTACAAATTACCCGA-AGGATTTAATCATCATG
** ** * *
66161 CTCGAAAGACTTACAAATTACCCGAAGGATTTCATCATCATGCTTGAAAGACTTAC-TG-
65 CTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACATGT
* * *
66219 ATGGATTTTCTTCACTACTCTTCGGTGGAGGCTTACAAATTACCCGAAGGATTTAATCATCATGC
1 ATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGC
*
66284 TTGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGACACT
66 TCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTAC--ATG-----
66349 TACTT
124 ----T
* *
66354 ATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTACACATTACCCGAAGGATTTAATCATCATGC
1 ATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGC
*
66419 TCGAAAGACTTAATGATGGCCCGAAGGACTT
66 TCGAAAGACTTACTGATGGCCCGAAGGACTT
66450 ATATAGTGCG
Statistics
Matches: 200, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
121 1 0.00
122 107 0.54
125 2 0.01
135 90 0.45
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (124 bp):
ATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGC
TCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACATGT
Found at i:66335 original size:22 final size:21
Alignment explanation
Indices: 66274--66337 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
66264 GAAGGATTTA
*
66274 ATCATCATGCTTGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* * *
66295 A-C-TGATGGCCCGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
66315 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
66337 A
1 A
66338 CTGATGACAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 3 0.09
22 12 0.38
23 3 0.09
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:66621 original size:215 final size:216
Alignment explanation
Indices: 66385--66883 Score: 678
Period size: 215 Copynumber: 2.3 Consensus size: 216
66375 TCTGTGAAGG
* * * *
66385 CTTACACATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGGACTT
1 CTTACAAATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTAATGATGGCCCGAAGGACTT
* * * *
66450 ATATAGTGCGAAATATTGGAAATTACCTTCTTAATTCTCAAATATTTCATTTTC-TAAAACATTA
66 ATATAGTGCGAAATATTGGAAATCACCTTCCTAATTCTCAAAGATTTCATTTTCTTAAAACATCA
* * *
66514 CTTTCTCATTTTTCAACTTTATGTGAAAATATCATACCCGAAGGTCTTATGGATGACCCAAAACA
131 CTTTCTCATTTTTCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATGGATGACCCAAAACA
66579 CTTATCATCTTGCTCTAAAGA
196 CTTATCATCTTGCTCTAAAGA
* * *
66600 CTTACAGATGACCTAAAGGATTTACTCATCATGCTTGAAAGACTTAATGATGGCCCGAAGGACTT
1 CTTACAAATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTAATGATGGCCCGAAGGACTT
* * *
66665 ATATAGTGCGAAATTTTGGAAATCGCCTTCCTACTTCTCAAAGATTTCATTTTCTTAAAACATCA
66 ATATAGTGCGAAATATTGGAAATCACCTTCCTAATTCTCAAAGATTTCATTTTCTTAAAACATCA
* * * * ** **
66730 TTTTCTTATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCTGAAGGA
131 CTTTCTCATTTTTCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATGGATGACCCAAAACA
* *
66795 CTTATCCTCTTGCTCTAAAGG
196 CTTATCATCTTGCTCTAAAGA
* * * *
66816 CTTACAAATGACCCGAAGGATTTTTAATCATCATGCTTGAAAAACTTACA-GATGGCCCTAAAGA
1 CTTACAAATGACCCAAAGGA--TTTAATCATCATGCTTGAAAGACTTA-ATGATGGCCCGAAGGA
66880 CTTA
63 CTTA
66884 ACTTGTTTAC
Statistics
Matches: 247, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
215 107 0.43
216 99 0.40
218 40 0.16
219 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (216 bp):
CTTACAAATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTAATGATGGCCCGAAGGACTT
ATATAGTGCGAAATATTGGAAATCACCTTCCTAATTCTCAAAGATTTCATTTTCTTAAAACATCA
CTTTCTCATTTTTCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATGGATGACCCAAAACA
CTTATCATCTTGCTCTAAAGA
Found at i:74011 original size:683 final size:683
Alignment explanation
Indices: 72629--74675 Score: 3760
Period size: 683 Copynumber: 3.0 Consensus size: 683
72619 CGTCATGAAA
*
72629 ACCTTTTACTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
1 ACCTTTTGCTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
72694 GACAAAGAGAAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTA
66 GACAAAGAG-AAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTA
72759 ACAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGT
130 ACAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGT
* *
72824 TAATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTCGTTACACCATGT
195 TAATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTAGTTATACCATGT
* *
72889 AGTCAAAATACAATTGTGATTCTTCATTTCTTTATTTCCTTGAGTTGTACTCCTAAGTCGTCAGT
260 AGTCAAAATACAATTGTGATTCTTCATTTCTTCATTTCCTTGAGTTGTAATCCTAAGTCGTCAGT
*
72954 GTACTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCCATTTTTACTTCAATGCA
325 GTACTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCA
*
73019 AAGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCTATCTT
390 AAGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCCATCTT
* *
73084 CTGAGGGAATATCTTGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCGTCAT
455 CTGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCAT
*
73149 TCATGGATCTCTTTCGTCATAGATCTGTCTTTAATCAGTCTCA-AGTGTCTTCATCCATCGGATG
520 TCATGGATCTCTTTCGTCATAGATCTGTCTTCAATCAGTCTCAGA-TGTCTTCATCCATCGGATG
* * *
73213 TCATTCTCCATGAATCATTTGAATGTGTTTGGATCTCCGGATTTCGACTACATGGTTAAGATTTC
584 TCATTCTTCATGAATCATTTGAATGTGTTTGGATCTCCAGATTTTGACTACATGGTTAAGATTTC
*
73278 TTGCTTCATTATGACCAACCTTCCTATTAGTCAAC
649 TTGCCTCATTATGACCAACCTTCCTATTAGTCAAC
* *
73313 ACCTTTTGTTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATACAATACA
1 ACCTTTTGCTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
*
73378 GACAAAGAGAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAGATGACCAAAAGTAA
66 GACAAAGAGAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTAA
73443 CAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGTT
131 CAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGTT
* *
73508 AATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTTGTCATACCATGTA
196 AATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTAGTTATACCATGTA
*
73573 GTCAAAATACAATTGTGATTCTTCATTTCTTCATTTTCTTGAGTTGTAATCCTAAGTCGTCAGTG
261 GTCAAAATACAATTGTGATTCTTCATTTCTTCATTTCCTTGAGTTGTAATCCTAAGTCGTCAGTG
*
73638 TATTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCAA
326 TACTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCAA
73703 AGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCCATCTTC
391 AGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCCATCTTC
73768 TGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCATT
456 TGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCATT
*
73833 CATGGATATCTTTCGTCATAGATCTGTCTTCAATCAGTCTCAGATGTCTTCATCCATCGGATGTC
521 CATGGATCTCTTTCGTCATAGATCTGTCTTCAATCAGTCTCAGATGTCTTCATCCATCGGATGTC
*
73898 ATTCTTCATGAATCATTTGAATGTTTTTGGATCTCCAGATTTTGACTACATGGTTAAGATTTCTT
586 ATTCTTCATGAATCATTTGAATGTGTTTGGATCTCCAGATTTTGACTACATGGTTAAGATTTCTT
73963 GCCTCATTATGACCAACCTTCCTATTAGTCAAC
651 GCCTCATTATGACCAACCTTCCTATTAGTCAAC
73996 ACCTTTTGCTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
1 ACCTTTTGCTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
74061 GACAAAGAGAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTAA
66 GACAAAGAGAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTAA
74126 CAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGTT
131 CAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGTT
* *
74191 AATTCCAAAAGCAATCACTATAGAATAACCTTCATTTAGACAACAAGATTTAGTTATACCATGTA
196 AATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTAGTTATACCATGTA
*
74256 GTCAAAATACAATTGTGATTCTTCATTTTTTTCATTTCCTTGAGTTGTAATCCTAAGTCGTCAGT
261 GTCAAAATACAATTGTGATTCTTCA-TTTCTTCATTTCCTTGAGTTGTAATCCTAAGTCGTCAGT
* *
74321 GTACTTGATCACACTTAATGACGTCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCA
325 GTACTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCA
*
74386 AAGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTATTATGATTGCATCCATCTT
390 AAGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCCATCTT
74451 CTGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCAT
455 CTGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCAT
*
74516 TCATGGATCTCTTTCGTCATAGATCTGTCTTCATTCAGTCTCAGATGTCTTCATCCATCGGATGT
520 TCATGGATCTCTTTCGTCATAGATCTGTCTTCAATCAGTCTCAGATGTCTTCATCCATCGGATGT
*
74581 CATTCTTCATG-A--ATTTGAATGTGTTTGGATCTCCAAATTTTGACTACATGGTTAAGATTTCT
585 CATTCTTCATGAATCATTTGAATGTGTTTGGATCTCCAGATTTTGACTACATGGTTAAGATTTCT
74643 TGCCTCATTATGACCAACCTTCCTATTAGTCAA
650 TGCCTCATTATGACCAACCTTCCTATTAGTCAA
74676 TCACTTGTGA
Statistics
Matches: 1322, Mismatches: 39, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
681 81 0.06
683 867 0.66
684 374 0.28
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (683 bp):
ACCTTTTGCTATGATGAACACTCACAAATCAACACCTTTTGATTATGTCATGATTATGCAATACA
GACAAAGAGAAAAAACAACATAAAACAAGTTAGTACAAATAAGATATCAAAATGACCAAAAGTAA
CAATATCAACATAAATAAATAAACTAATGCAAAATAGGAATGCAAATGCAAATGCAAAAGGTGTT
AATTCCAAAAGCGATCACTATAGAACAACCTTCATTTAGACAACAAGATTTAGTTATACCATGTA
GTCAAAATACAATTGTGATTCTTCATTTCTTCATTTCCTTGAGTTGTAATCCTAAGTCGTCAGTG
TACTTTATCACACTTAATGACGCCAAATGTCGAATATTGAGATCTCTATTTTTACTTCAATGCAA
AGTGGTCTTCATGTCTTTGTGAAGATCCTCTCGTCCTTGTCCTTAGTATGATTGCATCCATCTTC
TGAGGGAATATCTCGGTCTTGGCGCCTTTAAAGGTAGTCTTCAATCAACTTCAAACTTCTTCATT
CATGGATCTCTTTCGTCATAGATCTGTCTTCAATCAGTCTCAGATGTCTTCATCCATCGGATGTC
ATTCTTCATGAATCATTTGAATGTGTTTGGATCTCCAGATTTTGACTACATGGTTAAGATTTCTT
GCCTCATTATGACCAACCTTCCTATTAGTCAAC
Found at i:75685 original size:4 final size:4
Alignment explanation
Indices: 75676--75754 Score: 86
Period size: 4 Copynumber: 18.8 Consensus size: 4
75666 ATACCCCTTC
**
75676 AAAT AAAT AAAT AAAT AAAT AAAT AAATT ATTT GAAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT -AAAT AAAT AAAT AAAT
* *
75726 TATT CAAAAT AAAT AAAT AAAT AAAT AAA
1 AAAT --AAAT AAAT AAAT AAAT AAAT AAA
75755 AATTAAATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
4 57 0.90
5 4 0.06
6 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:75713 original size:26 final size:26
Alignment explanation
Indices: 75684--75751 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 26
75674 TCAAATAAAT
75684 AAATAAATAAATAAATAAATTATT--
1 AAATAAATAAATAAATAAATTATTCA
75708 ---TGAAATAAATAAATAAATTATTCA
1 AAAT-AAATAAATAAATAAATTATTCA
75732 AAATAAATAAATAAATAAAT
1 AAATAAATAAATAAATAAAT
75752 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.03
22 20 0.53
26 16 0.42
27 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (26 bp):
AAATAAATAAATAAATAAATTATTCA
Found at i:75716 original size:22 final size:22
Alignment explanation
Indices: 75688--75747 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
75678 ATAAATAAAT
**
75688 AAATAAATAAATAAATTATTTG
1 AAATAAATAAATAAATTATTCA
75710 AAATAAATAAATAAATTATTCA
1 AAATAAATAAATAAATTATTCA
75732 AAATAAATAAATAAAT
1 AAATAAATAAATAAAT
75748 AAATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATAAATAAATAAATTATTCA
Found at i:75757 original size:22 final size:21
Alignment explanation
Indices: 75676--75755 Score: 90
Period size: 22 Copynumber: 3.8 Consensus size: 21
75666 ATACCCCTTC
75676 AAATAAATAAAT-AAATAAAT
1 AAATAAATAAATAAAATAAAT
** *
75696 AAATAAATTATTTGAAATAAAT
1 AAATAAA-TAAATAAAATAAAT
* *
75718 AAATAAATTATTCAAAATAAAT
1 AAATAAATAAAT-AAAATAAAT
75740 AAATAAATAAATAAAA
1 AAATAAATAAATAAAA
75756 ATTAAATCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 7 0.14
21 10 0.20
22 33 0.66
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (21 bp):
AAATAAATAAATAAAATAAAT
Found at i:87481 original size:16 final size:16
Alignment explanation
Indices: 87462--87493 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87452 TTTTCTTTTC
*
87462 TTTTCTTTTCATTTAA
1 TTTTCTTTTAATTTAA
87478 TTTTCTTTTAATTTAA
1 TTTTCTTTTAATTTAA
87494 ATTTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTCTTTTAATTTAA
Found at i:88721 original size:4 final size:4
Alignment explanation
Indices: 88712--88745 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
88702 TATATGTATA
* *
88712 TGCG TGCG TGCG TGCG TGCG TGCA TGTG TGCG TG
1 TGCG TGCG TGCG TGCG TGCG TGCG TGCG TGCG TG
88746 TGCGCGTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.03, C:0.21, G:0.47, T:0.29
Consensus pattern (4 bp):
TGCG
Found at i:88747 original size:8 final size:8
Alignment explanation
Indices: 88715--88758 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
88705 ATGTATATGC
*
88715 GTGCGTGC
1 GTGCGTGT
*
88723 GTGCGTGC
1 GTGCGTGT
*
88731 GTGCATGT
1 GTGCGTGT
88739 GTGCGTGT
1 GTGCGTGT
*
88747 GCGCGTGT
1 GTGCGTGT
88755 GTGC
1 GTGC
88759 ATATGTGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.02, C:0.20, G:0.48, T:0.30
Consensus pattern (8 bp):
GTGCGTGT
Found at i:88752 original size:24 final size:24
Alignment explanation
Indices: 88715--88765 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
88705 ATGTATATGC
* *
88715 GTGCGTGCGTGCGTGCGTGCATGT
1 GTGCGTGCGCGCGTGCGTGCATAT
* *
88739 GTGCGTGTGCGCGTGTGTGCATAT
1 GTGCGTGCGCGCGTGCGTGCATAT
88763 GTG
1 GTG
88766 TTTATAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.06, C:0.18, G:0.45, T:0.31
Consensus pattern (24 bp):
GTGCGTGCGCGCGTGCGTGCATAT
Found at i:99945 original size:21 final size:21
Alignment explanation
Indices: 99921--99961 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99911 AATTTATGTA
99921 TTTGAATATTTGGATGTTTGC
1 TTTGAATATTTGGATGTTTGC
* *
99942 TTTGGATATTTGGTTGTTTG
1 TTTGAATATTTGGATGTTTG
99962 GATTGTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (21 bp):
TTTGAATATTTGGATGTTTGC
Found at i:109635 original size:17 final size:17
Alignment explanation
Indices: 109609--109643 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
109599 ACTATAAAGA
*
109609 TTTTTAATTTTGATTAT
1 TTTTTAATTTTAATTAT
*
109626 TTTTTTATTTTAATTAT
1 TTTTTAATTTTAATTAT
109643 T
1 T
109644 AGATGCTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTAATTAT
Found at i:110095 original size:21 final size:21
Alignment explanation
Indices: 110055--110098 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
110045 TAGATAAAAA
* * *
110055 TTATCTAAAATATTATTATTT
1 TTATCTAAAACATCAATATTT
110076 TTATCTAAAACATCAATATTT
1 TTATCTAAAACATCAATATTT
110097 TT
1 TT
110099 TAACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATCTAAAACATCAATATTT
Found at i:114663 original size:35 final size:34
Alignment explanation
Indices: 114578--114664 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
114568 AAAATAATTT
*
114578 TAAATACAACAAAATTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
114612 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
114650 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
114665 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 25 0.56
36 1 0.02
37 4 0.09
38 10 0.22
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:114904 original size:3 final size:3
Alignment explanation
Indices: 114898--114937 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
114888 TCATCATCAC
* *
114898 CGT CGT CAT CGT CAT CGT CGT CGT CGT CGT CGT CGT CGT C
1 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
114938 CTGAGTAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.35, G:0.28, T:0.33
Consensus pattern (3 bp):
CGT
Found at i:114916 original size:15 final size:15
Alignment explanation
Indices: 114888--114934 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
114878 CTCGCTGTCA
* *
114888 TCATCATCACCGTCG
1 TCATCGTCATCGTCG
114903 TCATCGTCATCGTCG
1 TCATCGTCATCGTCG
* *
114918 TCGTCGTCGTCGTCG
1 TCATCGTCATCGTCG
114933 TC
1 TC
114935 GTCCTGAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.11, C:0.36, G:0.21, T:0.32
Consensus pattern (15 bp):
TCATCGTCATCGTCG
Found at i:115270 original size:27 final size:27
Alignment explanation
Indices: 115240--115293 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
115230 CAGGTGATGG
*
115240 TGGCGGCGGCGACATCGGGTAAGGGAA
1 TGGCGACGGCGACATCGGGTAAGGGAA
* * *
115267 TGGCGACGGCGGCATCTGGTAATGGAA
1 TGGCGACGGCGACATCGGGTAAGGGAA
115294 AGGTGGCAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.19, G:0.44, T:0.15
Consensus pattern (27 bp):
TGGCGACGGCGACATCGGGTAAGGGAA
Found at i:117024 original size:9 final size:9
Alignment explanation
Indices: 116994--117045 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
116984 TCTGCAAAAA
116994 AAATTAAAT
1 AAATTAAAT
*
117003 -AAGTAAA-
1 AAATTAAAT
*
117010 ATATTAAAT
1 AAATTAAAT
117019 AAATTAAAT
1 AAATTAAAT
*
117028 -ACTTAAAT
1 AAATTAAAT
117036 AAATTAAAT
1 AAATTAAAT
117045 A
1 A
117046 CAAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:117026 original size:17 final size:17
Alignment explanation
Indices: 116991--117043 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
116981 ATATCTGCAA
* *
116991 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
117007 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
117024 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
117041 AAA
1 AAA
117044 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:117044 original size:17 final size:17
Alignment explanation
Indices: 116997--117046 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
116987 GCAAAAAAAA
* *
116997 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
117013 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
117030 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
117047 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:118466 original size:22 final size:22
Alignment explanation
Indices: 118441--118487 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
118431 ATTATTTTTA
*
118441 TAAAATATATATTAAA-AATTAT
1 TAAAA-ATATATTAAATAAATAT
*
118463 TAAAAATGTATTAAATAAATAT
1 TAAAAATATATTAAATAAATAT
118485 TAA
1 TAA
118488 GTTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAAATATATTAAATAAATAT
Found at i:118969 original size:24 final size:25
Alignment explanation
Indices: 118938--118984 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
118928 GAAGATAAAG
* *
118938 AAAATATG-TCCAAAAGTAAAAAAA
1 AAAATATGATACAAAAATAAAAAAA
118962 AAAATATGATACAAAAATAAAAA
1 AAAATATGATACAAAAATAAAAA
118985 TTATTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAATATGATACAAAAATAAAAAAA
Found at i:120403 original size:33 final size:33
Alignment explanation
Indices: 120346--120408 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
120336 AATTACGATT
120346 ATTTATTTTGATTTTTTTATTTATAATTTTGAA
1 ATTTATTTTGATTTTTTTATTTATAATTTTGAA
120379 ATTTATTTT-ATTTTATGTTA-TTATAATTTT
1 ATTTATTTTGATTTT-T-TTATTTATAATTTT
120409 TTCGATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 5 0.18
33 20 0.71
34 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (33 bp):
ATTTATTTTGATTTTTTTATTTATAATTTTGAA
Found at i:128006 original size:21 final size:20
Alignment explanation
Indices: 127982--128020 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
127972 CTTTATGGGT
*
127982 AATATTGATACTCTCCCTAAC
1 AATATCGATACTC-CCCTAAC
*
128003 AATATCGATAGTCCCCTA
1 AATATCGATACTCCCCTA
128021 TGAAATCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (20 bp):
AATATCGATACTCCCCTAAC
Found at i:137209 original size:103 final size:103
Alignment explanation
Indices: 137030--137235 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
137020 CGCCTGCCAT
137030 GGTTACTCTGGTTGTAACCCACTCTTATGAGTGTTCTCGGGCCCCTTTGGTCAATTACGTCCTTC
1 GGTTACTCTGGTTGTAACCCACTCTTATGAGTGTTCTCGGGCCCCTTTGGTCAATTACGTCCTTC
137095 ATGGGCTACGTTATACCATTATGGATTATCCATAGCTC
66 ATGGGCTACGTTATACCATTATGGATTATCCATAGCTC
137133 GGTTACTCTGGTTGTAACCCACTCTTATGAGTGTTCTCGGGCCCCTTTGGTCAATTACGTCCTTC
1 GGTTACTCTGGTTGTAACCCACTCTTATGAGTGTTCTCGGGCCCCTTTGGTCAATTACGTCCTTC
137198 ATGGGCTACGTTATACCATTATGGATTATCCATAGCTC
66 ATGGGCTACGTTATACCATTATGGATTATCCATAGCTC
137236 TTATGGGCCT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (103 bp):
GGTTACTCTGGTTGTAACCCACTCTTATGAGTGTTCTCGGGCCCCTTTGGTCAATTACGTCCTTC
ATGGGCTACGTTATACCATTATGGATTATCCATAGCTC
Found at i:139597 original size:27 final size:27
Alignment explanation
Indices: 139567--139636 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
139557 ATTGTAATTT
139567 TTTAGTTAATCGAACTCTAGTTTCATA
1 TTTAGTTAATCGAACTCTAGTTTCATA
139594 TTTAGTTAATCGAACTCTAGTTTCATA
1 TTTAGTTAATCGAACTCTAGTTTCATA
139621 TTTAGTTAATCGAACT
1 TTTAGTTAATCGAACT
139637 TGCAAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (27 bp):
TTTAGTTAATCGAACTCTAGTTTCATA
Found at i:141797 original size:196 final size:199
Alignment explanation
Indices: 141432--141868 Score: 479
Period size: 196 Copynumber: 2.2 Consensus size: 199
141422 TAGTCTCATT
* * * * * *
141432 TAAAACATTAGTTACAATACTACACCTCTAATCTTATAAATTTATAAAAAAATTCAATTAACTTC
1 TAAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAA-TCATAAAAAAATTCAATGAACTAC
* * * *
141497 ATGAAAATACTCCTCGAACATGCCTATCAAGCCATTTTAGCTTCTTTTTCATGGAAAAAACAAGC
65 ATGAAAATACCCCTCGAACATGCCTATCAAACCATTTTAGCTTCGTTTTCATGCAAAAAACAAGC
* * ** *
141562 TTTAAAACCATTTTGAATGTGATTTTTATTTAGCTTACAATATCTCGTATGTGACAATATTACCC
130 TTTAAAACCATTTTCAACGTGATTTTTACCTAGCTTACAATATCTCATATGTGACAATATTACCC
*
141627 CCAAT
195 CCAAC
* * * **
141632 TGAAAGATAAGTTACAATACTTCGCCTCTAATCTTATAAATCATGAAAATTTTCATATGAACTAC
1 TAAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATCATAAAAAAATTCA-ATGAACTAC
* * * *
141697 CTGAAAA-ACCCCTCG-ATATGCCTATTAAACCATTTTAG-TT-GTTTTCATGCACAAAACAAGC
65 ATGAAAATACCCCTCGAACATGCCTATCAAACCATTTTAGCTTCGTTTTCATGCAAAAAACAAGC
** * * * **
141758 TTTGGAACCTTTTTCAACGTGATTTTTAACCTA-CTTACAATATCTCATATGTGTCGATATTGGC
130 TTTAAAACCATTTTCAACGTGATTTTT-ACCTAGCTTACAATATCTCATATGTGACAATATTACC
*
141822 CTCAAC
194 CCCAAC
* * * *
141828 TAAAAGATAAATTCCAATACCACGCCTGTAATCTTATAAAT
1 TAAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAAT
141869 TAAGAATTTT
Statistics
Matches: 196, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
196 105 0.54
197 5 0.03
198 20 0.10
199 18 0.09
200 48 0.24
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (199 bp):
TAAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATCATAAAAAAATTCAATGAACTACA
TGAAAATACCCCTCGAACATGCCTATCAAACCATTTTAGCTTCGTTTTCATGCAAAAAACAAGCT
TTAAAACCATTTTCAACGTGATTTTTACCTAGCTTACAATATCTCATATGTGACAATATTACCCC
CAAC
Found at i:142426 original size:2 final size:2
Alignment explanation
Indices: 142415--142452 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
142405 AGTAGTTTTA
142415 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
142453 TTTTGTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:142974 original size:190 final size:192
Alignment explanation
Indices: 142650--143031 Score: 750
Period size: 190 Copynumber: 2.0 Consensus size: 192
142640 TTTATTATTA
142650 TATATATATATCCAAATATCTATCCTTAAAACTTACTTTAGATCACTAATTGTTGTACATGGATG
1 TATATATATATCCAAATATCTATCCTTAAAACTTACTTTAGATCACTAATTGTTGTACATGGATG
142715 ATGTAGTACGAATTTTTAAATTTTATGTATTTTCTATTTATTTTCTTAAAAAATAAATTAAAAAA
66 ATGTAGTACGAATTTTTAAATTTTATGTATTTTCTATTTATTTTCTTAAAAAATAAATTAAAAAA
142780 TTAAATATATATATATATAAACCAGGTACCCATTACTCT-AAATGTGAGTACCCAACCGATT
131 TTAAATATATATATATATAAACCAGGTACCCATTACTCTAAAATGTGAGTACCCAACCGATT
142841 TATATATATATCCAAATATCTATCCTT-AAACTTACTTTAGATCACTAATTGTTGTACATGGATG
1 TATATATATATCCAAATATCTATCCTTAAAACTTACTTTAGATCACTAATTGTTGTACATGGATG
142905 ATGTAGTACGAATTTTTAAATTTTATGTATTTTCTATTTATTTTCTTAAAAAATAAATTAAAAAA
66 ATGTAGTACGAATTTTTAAATTTTATGTATTTTCTATTTATTTTCTTAAAAAATAAATTAAAAAA
142970 TTAAATATATATATATATAAACCAGGTACCCATTACTCTAAAATGTGAGTACCCAACCGATT
131 TTAAATATATATATATATAAACCAGGTACCCATTACTCTAAAATGTGAGTACCCAACCGATT
143032 ATCGGGTACC
Statistics
Matches: 190, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
190 141 0.74
191 49 0.26
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (192 bp):
TATATATATATCCAAATATCTATCCTTAAAACTTACTTTAGATCACTAATTGTTGTACATGGATG
ATGTAGTACGAATTTTTAAATTTTATGTATTTTCTATTTATTTTCTTAAAAAATAAATTAAAAAA
TTAAATATATATATATATAAACCAGGTACCCATTACTCTAAAATGTGAGTACCCAACCGATT
Found at i:145101 original size:25 final size:25
Alignment explanation
Indices: 145068--145134 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
145058 AATCATGATC
145068 AAAGTTCAAAAAAAAATTATATGTAA
1 AAAG-TCAAAAAAAAATTATATGTAA
* *** *
145094 AAAGTCAACAAATTTTTATATTTAA
1 AAAGTCAAAAAAAAATTATATGTAA
145119 AAAGTCAATAAAAAAA
1 AAAGTCAA-AAAAAAA
145135 GATTTAATAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 24 0.77
26 7 0.23
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (25 bp):
AAAGTCAAAAAAAAATTATATGTAA
Found at i:148918 original size:41 final size:41
Alignment explanation
Indices: 148859--148936 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
148849 ATCACCTCTA
148859 AAAATTTTGAATTATCATATATTTTAAATATTTTATTCCTG
1 AAAATTTTGAATTATCATATATTTTAAATATTTTATTCCTG
* *
148900 AAAATTTTGAATTCTCATATATTTTAGATATTTTATT
1 AAAATTTTGAATTATCATATATTTTAAATATTTTATT
148937 TGTATTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (41 bp):
AAAATTTTGAATTATCATATATTTTAAATATTTTATTCCTG
Found at i:152835 original size:99 final size:99
Alignment explanation
Indices: 152701--153215 Score: 564
Period size: 112 Copynumber: 5.0 Consensus size: 99
152691 CTTTCAACAT
152701 ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACATGTTATA
1 ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACATGTTATA
152766 TTGTAAAGTATCGATATATTTTTATAAAGTATCG
66 TTGTAAAGTATCGATATATTTTTATAAAGTATCG
152800 ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACATGTTATA
1 ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACATGTTATA
152865 TTGTAAAGTATCGATATATTTTTATAAAGTATCG
66 TTGTAAAGTATCGATATATTTTTATAAAGTATCG
*
152899 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTAGTTTTGTCATATT
1 -------------ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATT
* * *
152964 TTTACGTGTTATATTGTAAAGTATCGATACATTTTTATAAAGAATCG
53 TTTACATGTTATATTGTAAAGTATCGATATATTTTTATAAAGTATCG
* * *
153011 ATACTTTTAACATAACCGGTAGCTCTTTACCGATTTTGTCATAAT-AAAATTGATTTTGTCATAT
1 --A----T--C---A--GGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAG-TTTTGTCATAT
* * * * *
153075 TTTTACCTGTTATATTGTAAAGTAGCG--ATACTTTCA-ACA-TAT--
52 TTTTACATGTTATATTGTAAAGTATCGATATATTTTTATAAAGTATCG
* * *
153117 -TTA-GTAGCTTTTTACCGGTTTTGTCATAATGAAACT-GATTTTGTTATATTTTTACATGTTAT
1 ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAG-TTTTGTCATATTTTTACATGTTAT
*
153179 ATTGTAAAGTATCGATACATTTTTATAAAGTATCG
65 ATTGTAAAGTATCGATATATTTTTATAAAGTATCG
153214 AT
1 AT
153216 ACTTTATAGG
Statistics
Matches: 358, Mismatches: 25, Indels: 67
0.80 0.06 0.15
Matches are distributed among these distances:
91 62 0.17
92 4 0.01
93 6 0.02
94 3 0.01
95 3 0.01
98 1 0.00
99 100 0.28
101 3 0.01
105 1 0.00
107 1 0.00
108 2 0.01
109 2 0.01
110 7 0.02
111 5 0.01
112 158 0.44
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (99 bp):
ATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACATGTTATA
TTGTAAAGTATCGATATATTTTTATAAAGTATCG
Found at i:152918 original size:211 final size:216
Alignment explanation
Indices: 152678--153104 Score: 650
Period size: 211 Copynumber: 2.0 Consensus size: 216
152668 TTTTACATTG
*
152678 TAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAGTT
1 TAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTAGTT
* *
152743 TTGTCATATTTTTACATGTTATATTGTAAAGTATCGATATATTTTTATAAAGTATCG-A-T-C-A
66 TTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGAATCGAATTACAA
* *
152804 -GGTAGCTCTTTACCGGTTTTGTCATAATGAAACTAG-TTTTGTCATATTTTTACATGTTATATT
131 CGGTAGCTCTTTACCGATTTTGTCATAAT-AAAATAGATTTTGTCATATTTTTACATGTTATATT
*
152867 GTAAAGTATCGATATATTTTTA
195 GTAAAGTAGCGATATATTTTTA
152889 TAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTAGTT
1 TAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTAGTT
*
152954 TTGTCATATTTTTACGTGTTATATTGTAAAGTATCGATACATTTTTATAAAGAATCGATACTTTT
66 TTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGAATCGA-A---TT
* *
153019 AACATAACCGGTAGCTCTTTACCGATTTTGTCATAATAAAATTGATTTTGTCATATTTTTACCTG
127 -AC--AA-CGGTAGCTCTTTACCGATTTTGTCATAATAAAATAGATTTTGTCATATTTTTACATG
153084 TTATATTGTAAAGTAGCGATA
188 TTATATTGTAAAGTAGCGATA
153105 CTTTCAACAT
Statistics
Matches: 193, Mismatches: 9, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
211 118 0.61
213 1 0.01
217 1 0.01
219 1 0.01
222 1 0.01
223 5 0.03
224 66 0.34
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (216 bp):
TAAAGTATCGATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATAAAACTAGTT
TTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAGAATCGAATTACAA
CGGTAGCTCTTTACCGATTTTGTCATAATAAAATAGATTTTGTCATATTTTTACATGTTATATTG
TAAAGTAGCGATATATTTTTA
Found at i:153010 original size:21 final size:20
Alignment explanation
Indices: 152980--153018 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
152970 TGTTATATTG
*
152980 TAAAGTATCGATACATTTTTA
1 TAAAGAATCGATAC-TTTTTA
153001 TAAAGAATCGATACTTTT
1 TAAAGAATCGATACTTTT
153019 AACATAACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TAAAGAATCGATACTTTTTA
Found at i:153114 original size:91 final size:91
Alignment explanation
Indices: 153009--153196 Score: 268
Period size: 91 Copynumber: 2.1 Consensus size: 91
152999 TATAAAGAAT
* * *
153009 CGATACTTTTAACATAACCGGTAGCTCTTTACCGATTTTGTCATAATAAAATTGATTTTGTCATA
1 CGATACTTTCAACATAACCAGTAGCTCTTTACCGATTTTGTCATAATAAAACTGATTTTGTCATA
*
153074 TTTTTACCTGTTATATTGTAAAGTAG
66 TTTTTACATGTTATATTGTAAAGTAG
*** * * * *
153100 CGATACTTTCAACATATTTAGTAGCTTTTTACCGGTTTTGTCATAATGAAACTGATTTTGTTATA
1 CGATACTTTCAACATAACCAGTAGCTCTTTACCGATTTTGTCATAATAAAACTGATTTTGTCATA
*
153165 TTTTTACATGTTATATTGTAAAGTAT
66 TTTTTACATGTTATATTGTAAAGTAG
153191 CGATAC
1 CGATAC
153197 ATTTTTATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (91 bp):
CGATACTTTCAACATAACCAGTAGCTCTTTACCGATTTTGTCATAATAAAACTGATTTTGTCATA
TTTTTACATGTTATATTGTAAAGTAG
Found at i:153444 original size:73 final size:71
Alignment explanation
Indices: 153302--153541 Score: 369
Period size: 70 Copynumber: 3.4 Consensus size: 71
153292 CAACATATTC
*
153302 GGTAGATAGTTTAATGTAATAGGTAGCGCCTATTTTTGTTACCGTTTACATTATTAGCAACCTTC
1 GGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTT-TTACCGTTTACATTATTAGCAACCTT-
153367 AAAAAAACT
64 -AAAAAACT
* *
153376 TGTAGATATTTTAATGTAATAGATAGCGCTCT-TTTTTTTACCGTTTACATTATTAGCAACCTTA
1 GGTAGATATTTTAATGTAATAGGTAGCGC-CTATTTTTTTACCGTTTACATTATTAGCAACCTTA
153440 AAAAA-T
65 AAAAACT
* *
153446 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAACAACCTTAA
1 GGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACCTTAA
153511 AAAAC-
66 AAAACT
*
153516 GGTAGGTATTTTAATGTAATAGGTAG
1 GGTAGATATTTTAATGTAATAGGTAG
153542 TTTAAATTTT
Statistics
Matches: 156, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
69 2 0.01
70 89 0.57
71 6 0.04
73 26 0.17
74 31 0.20
75 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (71 bp):
GGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACCTTAA
AAAACT
Found at i:153809 original size:23 final size:23
Alignment explanation
Indices: 153761--153810 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
153751 ACATATTTTA
*
153761 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
153784 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
153807 TTAT
1 TTAT
153811 TATCTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:153947 original size:158 final size:158
Alignment explanation
Indices: 153606--154139 Score: 827
Period size: 158 Copynumber: 3.3 Consensus size: 158
153596 ATTAGGTAAT
** * *
153606 TACCTATTTTGTTACATAAGCACTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
*
153671 ACCGGTTATGTTATCATTGGTAACATTTTAGGCGTTTTAGGCGTTTACCTAATATGTTGTAATAA
66 ACCGGTTATGTTATCCTTGGTAAC-----A----TTTTAGGCGTTTACCTAATATGTTGTAATAA
153736 AAAATTAAGTAATTAACATATTTTATTATATAAGCGC
122 AAAATTAAGTAATTAACATATTTTATTATATAAGCGC
153773 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTAT-CTTTGATAATGTTTCCAGTAATT
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGC-TTGATAATGTTTCCAGTAATT
* *
153837 AACTGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAATAAATTAA
65 AACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAAAAAATTAA
153902 GTAATTAACATATTTTATTATATAAGCGC
130 GTAATTAACATATTTTATTATATAAGCGC
* *
153931 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTTCCAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
* * *
153996 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCTTTTACCTAATATGTTGTAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAAAAAATTAAG
* *
154061 TAATTAACCTTTTTTATTATATAAGCGC
131 TAATTAACATATTTTATTATATAAGCGC
* *
154089 TACCTATTACGTTATATAAGCGTTACCTAATATGTTATTGTGCTTGATAAT
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAAT
154140 ATAAGCGTTA
Statistics
Matches: 349, Mismatches: 16, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
158 265 0.76
159 1 0.00
162 1 0.00
166 1 0.00
167 81 0.23
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (158 bp):
TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAAAAAATTAAG
TAATTAACATATTTTATTATATAAGCGC
Found at i:153967 original size:23 final size:23
Alignment explanation
Indices: 153919--153968 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
153909 ACATATTTTA
*
153919 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
153942 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
153965 TTAT
1 TTAT
153969 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:154103 original size:23 final size:23
Alignment explanation
Indices: 154077--154126 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
154067 ACCTTTTTTA
*
154077 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
154100 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
154123 TTAT
1 TTAT
154127 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:154172 original size:36 final size:36
Alignment explanation
Indices: 154102--154177 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
154092 CTATTACGTT
**
154102 ATATAAGCGTTACCTAATATGTTATTGTGCTTGATA
1 ATATAAGCGTTACCTAATATGTTATTGAACTTGATA
*
154138 ATATAAGCGTTACCTAATATGTTATTGAATTTGATA
1 ATATAAGCGTTACCTAATATGTTATTGAACTTGATA
154174 ATAT
1 ATAT
154178 TTTCGGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (36 bp):
ATATAAGCGTTACCTAATATGTTATTGAACTTGATA
Found at i:157297 original size:14 final size:14
Alignment explanation
Indices: 157273--157307 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
157263 TTTAAATTCA
157273 AAATAAAAGATAATT
1 AAAT-AAAGATAATT
157288 AAATAAAGATAATT
1 AAATAAAGATAATT
157302 AAATAA
1 AAATAA
157308 TAAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AAATAAAGATAATT
Found at i:159989 original size:23 final size:23
Alignment explanation
Indices: 159963--160022 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
159953 ATCAAGCACA
* **
159963 ATAATATATTAGGTACCGTTTAT
1 ATAATATAATAGGTACCACTTAT
* *
159986 ATAATGTAATAGGTATCACTTAT
1 ATAATATAATAGGTACCACTTAT
*
160009 ATAATAAAATAGGT
1 ATAATATAATAGGT
160023 TAATTACTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTACCACTTAT
Found at i:160076 original size:23 final size:23
Alignment explanation
Indices: 160050--160129 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
160040 ATCAAACACA
* *
160050 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* * *
160073 ATAATGTAATAGGTATCACTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
160096 ATAATAAAATAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
160119 ATAATAAAATA
1 ATAATATAATA
160130 TGTTAATTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:160077 original size:110 final size:110
Alignment explanation
Indices: 159963--160216 Score: 366
Period size: 110 Copynumber: 2.3 Consensus size: 110
159953 ATCAAGCACA
* * ** **
159963 ATAATATATTAGGTACCGTTTATATAATGTAATAGGTA-TCACTTATATAATAAAATAGGTTAAT
1 ATAATGTAATAGGTACCACTTATATAATAAAATAGGTAGT-ACTTATATAATAAAATAGGTTAAT
* * * *
160027 TACTGGAAACATTATCAAACACAATAACATATTAGGTAGCGCTTAT
65 TACTAGAAACATTATCAAACACAATAACATATTAGATACCACTTAT
* * *
160073 ATAATGTAATAGGTATCACTTATATAATAAAATAGGTAGTGCTTATATAATAAAATATGTTAATT
1 ATAATGTAATAGGTACCACTTATATAATAAAATAGGTAGTACTTATATAATAAAATAGGTTAATT
160138 ACTAGAAACATTATCAAACACAATAACATATTAGATACCACTTAT
66 ACTAGAAACATTATCAAACACAATAACATATTAGATACCACTTAT
*
160183 ATAATGTAATAGGTAACACTTATATAATAAAATA
1 ATAATGTAATAGGTACCACTTATATAATAAAATA
160217 TGTTAATTAC
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
110 128 0.99
111 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (110 bp):
ATAATGTAATAGGTACCACTTATATAATAAAATAGGTAGTACTTATATAATAAAATAGGTTAATT
ACTAGAAACATTATCAAACACAATAACATATTAGATACCACTTAT
Found at i:160108 original size:87 final size:87
Alignment explanation
Indices: 159858--160109 Score: 407
Period size: 87 Copynumber: 2.9 Consensus size: 87
159848 TATTTAATCA
* * *
159858 GAAATATTATCAAGTACAATAACATATTATGTACCGCTTATATAATGTAATAGGTAGT-ACTTAT
1 GAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTA-TCACTTAT
*
159922 ATAATAAAATAGATTAATTACTG
65 ATAATAAAATAGGTTAATTACTG
* * *
159945 AAAACATTATCAAGCACAATAATATATTAGGTACCGTTTATATAATGTAATAGGTATCACTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCACTTATA
160010 TAATAAAATAGGTTAATTACTG
66 TAATAAAATAGGTTAATTACTG
* *
160032 GAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTATCACTTATA
1 GAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCACTTATA
160097 TAATAAAATAGGT
66 TAATAAAATAGGT
160110 AGTGCTTATA
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.01
87 151 0.99
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (87 bp):
GAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCACTTATA
TAATAAAATAGGTTAATTACTG
Found at i:160180 original size:87 final size:87
Alignment explanation
Indices: 160089--160314 Score: 337
Period size: 87 Copynumber: 2.6 Consensus size: 87
160079 TAATAGGTAT
** *
160089 CACTTATATAATAAAATAGGTAGTGCTTATATAATAAAATATGTTAATTACT-AGAAACATTATC
1 CACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGA-AAACATTATC
160153 AAACACAATAACATATTAGATAC
65 AAACACAATAACATATTAGATAC
* *
160176 CACTTATATAATGTAATAGGTAACACTTATATAATAAAATATGTTAATTACTGAAAACATTATCA
1 CACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCA
* * *
160241 AGCACAATAACATATTAGGTAG
66 AACACAATAACATATTAGATAC
* * *
160263 CGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACT
1 CACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACT
160315 TAATTTGTTA
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
87 124 0.99
88 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (87 bp):
CACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCA
AACACAATAACATATTAGATAC
Found at i:160186 original size:23 final size:23
Alignment explanation
Indices: 160160--160209 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
160150 ATCAAACACA
* *
160160 ATAACATATTAGATACCACTTAT
1 ATAACATAATAGATAACACTTAT
** *
160183 ATAATGTAATAGGTAACACTTAT
1 ATAACATAATAGATAACACTTAT
160206 ATAA
1 ATAA
160210 TAAAATATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGATAACACTTAT
Found at i:160236 original size:197 final size:197
Alignment explanation
Indices: 159894--160306 Score: 659
Period size: 197 Copynumber: 2.1 Consensus size: 197
159884 TTATGTACCG
** *
159894 CTTATATAATGTAATAGGTAGTACTTATATAATAAAATAGATTAATTACTGAAAACATTATCAAG
1 CTTATATAATAAAATAGGTAGTACTTATATAATAAAATAGATTAATTACTGAAAACATTATCAAA
* * ** *
159959 CACAATAATATATTAGGTACCGTTTATATAATGTAATAGGTATCACTTATATAATAAAATAGGTT
66 CACAATAACATATTAGATACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTT
* * *
160024 AATTACTGGAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAT
131 AATTACTGAAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAG
160089 CA
196 CA
*
160091 CTTATATAATAAAATAGGTAGTGCTTATATAATAAAATATG-TTAATTACT-AGAAACATTATCA
1 CTTATATAATAAAATAGGTAGTACTTATATAATAAAATA-GATTAATTACTGA-AAACATTATCA
*
160154 AACACAATAACATATTAGATACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATATG
64 AACACAATAACATATTAGATACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATAGG
*
160219 TTAATTACTGAAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGT
129 TTAATTACTGAAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGT
*
160284 AGCG
194 AGCA
160288 CTTATATAATAAAATAGGT
1 CTTATATAATAAAATAGGT
160307 TAATTACTTA
Statistics
Matches: 199, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
196 1 0.01
197 197 0.99
198 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (197 bp):
CTTATATAATAAAATAGGTAGTACTTATATAATAAAATAGATTAATTACTGAAAACATTATCAAA
CACAATAACATATTAGATACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTT
AATTACTGAAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAG
CA
Found at i:160273 original size:23 final size:23
Alignment explanation
Indices: 160247--160306 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
160237 ATCAAGCACA
*
160247 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
160270 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
160293 ATAATAAAATAGGT
1 ATAACATAATAGGT
160307 TAATTACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:160855 original size:24 final size:23
Alignment explanation
Indices: 160828--160883 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
160818 TTACCAATGA
160828 TAACAATAAAATAATATTATTTAT
1 TAACAATAAAATAATATTATTT-T
*
160852 TAACAA-AATAATATTATTATTTT
1 TAACAATAA-AATAATATTATTTT
160875 TAA-AATAAA
1 TAACAATAAA
160884 CATTACAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 8 0.28
24 18 0.62
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAACAATAAAATAATATTATTTT
Found at i:161271 original size:200 final size:198
Alignment explanation
Indices: 160890--161325 Score: 617
Period size: 200 Copynumber: 2.2 Consensus size: 198
160880 TAAACATTAC
* * *
160890 AAATTTACCCATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGT
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACAATTTTAAATGT
*
160955 ATCAACACTTTATACGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTA
66 ATCAACACTTTATACGTGCACCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTA
* *
161020 AAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATCAATATATTTATACCGAG-TACA
131 AAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAATCAATATATTTATACCG-GTTACA
161084 TTGT
195 TTGT
* * *
161088 AAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTAGGATTGATAC-TTTTAATAAAT
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACAATTT--TAAAT
* ** * * ***
161152 GTATCGACACTTTATGTGTGCACCTCGTTTGACATTCATTCTGGACAAAATGTATCGACAC-TTT
64 GTATCAACACTTTATACGTGCACCTCGTTGGACATTCATTCTGGA-AAAAAGTATCGACACAAAC
* * * *
161216 TTAAATTTGTGTCGATACATTATGTTGACATATTCTCTCATAAAATCAGTATATTTATATCGGTT
128 TTAAA-ATGTGTCGATACATTATGTAGACATATTCTCTCATAAAATCAATATATTTATACCGGTT
161281 ACATTGT
192 ACATTGT
161288 AAATTTACCTATTACATTATAATTATCGGTTTCGATGT
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGT
161326 AACATATGTG
Statistics
Matches: 211, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
197 3 0.01
198 48 0.23
199 51 0.24
200 109 0.52
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (198 bp):
AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACAATTTTAAATGT
ATCAACACTTTATACGTGCACCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTA
AAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAATCAATATATTTATACCGGTTACAT
TGT
Found at i:161467 original size:31 final size:31
Alignment explanation
Indices: 161426--161508 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
161416 TTATAATAAA
*
161426 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTTATTAT
* *
161456 TAATAAAATATAATAATCATAATTTTTTTAT
1 TAATAAAATATAATAATAATAATTTTATTAT
*
161487 TTATAAAATTATAGAT-ATAATA
1 TAATAAAA-TATA-ATAATAATA
161509 TTTAATAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 17 0.39
31 16 0.36
32 9 0.20
33 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTATTAT
Found at i:161478 original size:30 final size:32
Alignment explanation
Indices: 161426--161495 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
161416 TTATAATAAA
*
161426 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAATTAATAATAATTTTATTAT
* *
161456 TAATAAAATATAA-TAATCATAATTTTTTTAT
1 TAATAAAATATAATTAATAATAATTTTATTAT
*
161487 TTATAAAAT
1 TAATAAAAT
161496 TATAGATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
TAATAAAATATAATTAATAATAATTTTATTAT
Found at i:161554 original size:14 final size:14
Alignment explanation
Indices: 161503--161546 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
161493 AATTATAGAT
*
161503 ATAATATTTAAT-A
1 ATAATATTAAATAA
*
161516 ATAATATTGACATAA
1 ATAATATT-AAATAA
161531 ATAATATTAAATAA
1 ATAATATTAAATAA
161545 AT
1 AT
161547 TATTTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 8 0.31
14 9 0.35
15 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
ATAATATTAAATAA
Found at i:161606 original size:24 final size:24
Alignment explanation
Indices: 161538--161606 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
161528 TAAATAATAT
*
161538 TAAATAA-ATTATTTTAATATTTTAA
1 TAAATAATATTATTTT-AT-TGTTAA
161563 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATT-TTATTGTTAA
161586 TAAATAATATTATTTTATTGT
1 TAAATAATATTATTTTATTGT
161607 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 7 0.18
24 24 0.62
25 6 0.15
26 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (24 bp):
TAAATAATATTATTTTATTGTTAA
Found at i:162024 original size:32 final size:32
Alignment explanation
Indices: 161988--162048 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
161978 TATGCACAAT
* * *
161988 AATAATAAAACTGGTACCGCTTTTTTTTAGCC
1 AATAACAAAACCGGTACCACTTTTTTTTAGCC
*
162020 AATAACAAAACCGGTACTACTTTTTTTTA
1 AATAACAAAACCGGTACCACTTTTTTTTA
162049 ACAGTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (32 bp):
AATAACAAAACCGGTACCACTTTTTTTTAGCC
Found at i:163384 original size:237 final size:237
Alignment explanation
Indices: 162972--163446 Score: 902
Period size: 237 Copynumber: 2.0 Consensus size: 237
162962 TCTGTGTTTG
162972 TAAAATTGGAAAGCGGGAGCATACGTCGAAATATTTTTGTGGTGCAGGTAATAATATAAAATTAT
1 TAAAATTGGAAAGCGGGAGCATACGTCGAAATATTTTTGTGGTGCAGGTAATAATATAAAATTAT
163037 ATATTTAAATATTTACGTTTATGTGTAAAAATTTATTGTGTTATATTTTCTTTCATATATTATTT
66 ATATTTAAATATTTACGTTTATGTGTAAAAATTTATTGTGTTATATTTTCTTTCATATATTATTT
163102 ATTTAATTATGTTTGTTTCAGTTTTTTTTGCAGATATAATATTGTCGCAC-TTTAAATTCTAAGA
131 ATTTAATTATGTTTGTTTCAGTTTTTTTTGCAGATATAATATTGTCGCACTTTTAAATTCTAAGA
163166 ATGGCGCGACTTTCAACTATTG-TTATTA-GATAGAGAAATT
196 ATGGCGCGACTTTCAACTATTGTTTATTATGATAGAGAAATT
163206 TAAAATTGGAAAGCGGGAGCATACGTCGAAATATTTTTGTGGTGCAGGTAATAATATAAAATTAT
1 TAAAATTGGAAAGCGGGAGCATACGTCGAAATATTTTTGTGGTGCAGGTAATAATATAAAATTAT
163271 ATTATTTAAATTATTTACGTTTATGTGTAAAAATTTTATTGTGTTATATTTTCTTTCATATATTA
66 A-TATTTAAA-TATTTACGTTTATGTGTAAAAA-TTTATTGTGTTATATTTTCTTTCATATATTA
163336 TTTATTTAATTATGTTTGTTTCAGTTTTTTTTGCAGATATAATATTGTCGCACTTTTAAATTCTA
128 TTTATTTAATTATGTTTGTTTCAGTTTTTTTTGCAGATATAATATTGTCGCACTTTTAAATTCTA
163401 AGAATGGCGCGACTTTCAACTATTGTTTATTATGATAGAGAAATT
193 AGAATGGCGCGACTTTCAACTATTGTTTATTATGATAGAGAAATT
163446 T
1 T
163447 GAGAATATGA
Statistics
Matches: 235, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
234 66 0.28
235 8 0.03
236 22 0.09
237 84 0.36
238 36 0.15
239 6 0.03
240 13 0.06
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (237 bp):
TAAAATTGGAAAGCGGGAGCATACGTCGAAATATTTTTGTGGTGCAGGTAATAATATAAAATTAT
ATATTTAAATATTTACGTTTATGTGTAAAAATTTATTGTGTTATATTTTCTTTCATATATTATTT
ATTTAATTATGTTTGTTTCAGTTTTTTTTGCAGATATAATATTGTCGCACTTTTAAATTCTAAGA
ATGGCGCGACTTTCAACTATTGTTTATTATGATAGAGAAATT
Found at i:166686 original size:34 final size:35
Alignment explanation
Indices: 166646--166731 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
166636 AATGGTAATA
* * * *
166646 AACAAAATTATCAAAATATATTA-ACAAAAAGTCC
1 AACAAAATTAACAAAATAAATTATAAAAAAAATCC
*
166680 AACAAAATAAACAAAATAAATTATAAAAAAAATCC
1 AACAAAATTAACAAAATAAATTATAAAAAAAATCC
*
166715 AACTAAATTAACAAAAT
1 AACAAAATTAACAAAAT
166732 TAAGTAAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 20 0.45
35 24 0.55
ACGTcount: A:0.65, C:0.13, G:0.01, T:0.21
Consensus pattern (35 bp):
AACAAAATTAACAAAATAAATTATAAAAAAAATCC
Found at i:168765 original size:17 final size:18
Alignment explanation
Indices: 168747--168779 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
168737 TAATTAAATA
168747 AAATA-TTAAA-AAATTT
1 AAATACTTAAATAAATTT
168763 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
168780 ACAAACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATACTTAAATAAATTT
Found at i:170123 original size:35 final size:34
Alignment explanation
Indices: 170077--170189 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
170067 AAAACAATCC
*
170077 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
170112 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
170147 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
170182 TCAATTTC
1 TCAATTTC
170190 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:171281 original size:35 final size:35
Alignment explanation
Indices: 171233--171344 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
171223 ATTCCTCCTT
* * *
171233 AAATTGAAATATTTTAGAATTTAGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
*
171268 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
* * *
171303 AAAATGAATTACTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
171338 AAATTGA
1 AAATTGA
171345 TGAATGTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
Found at i:171874 original size:15 final size:14
Alignment explanation
Indices: 171847--171888 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
171837 AATATTCATC
171847 TAAATATTAATATT
1 TAAATATTAATATT
171861 TAAATATATAATA-T
1 TAAATAT-TAATATT
*
171875 TAATTATT-ATATT
1 TAAATATTAATATT
171888 T
1 T
171889 CAGAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.12
13 3 0.12
14 14 0.56
15 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATATTAATATT
Found at i:171972 original size:16 final size:15
Alignment explanation
Indices: 171953--171983 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
171943 TAAAAAGTAT
171953 TTTTTTATTTAAATTA
1 TTTTTTA-TTAAATTA
171969 TTTTTTATTAAATTA
1 TTTTTTATTAAATTA
171984 ATTAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTATTAAATTA
Found at i:172924 original size:167 final size:171
Alignment explanation
Indices: 172723--173071 Score: 645
Period size: 167 Copynumber: 2.1 Consensus size: 171
172713 TTTGTCTAAA
172723 AAATTGAAGAACTCGAAAGCCTTTAAATATTAGGGTAAATTACGTGTTCAATACTTAAACTATTA
1 AAATTGAAGAACTCGAAAGCCTTTAAATATTAGGGTAAATTACGTGTTCAATACTTAAACTATTA
172788 ATTTTAATCTATTTTAGTACCTAA-TTTTTTTTAAAAAAAATC-AATTC-ATATGAAATTGAGAA
66 ATTTTAATCTATTTTAGTACCTAATTTTTTTTTAAAAAAAATCAAATTCAATATGAAATTGAGAA
172850 ACCGAAAGTGGAATGTGATGGGTTT-TTTTGGTGATTGAAG
131 ACCGAAAGTGGAATGTGATGGGTTTATTTTGGTGATTGAAG
172890 AAATTGAAGAACTCGAAAGCCTTTAAATATTAGGGTAAATTACGTGTTCAATACTTAAACTATTA
1 AAATTGAAGAACTCGAAAGCCTTTAAATATTAGGGTAAATTACGTGTTCAATACTTAAACTATTA
172955 ATTTTAATCTATTTTAGTACCTAATTTTTTTTTAAAAAAAATCAAATTCATATATGAAATTGAGA
66 ATTTTAATCTATTTTAGTACCTAATTTTTTTTTAAAAAAAATCAAATTCA-ATATGAAATTGAGA
173020 AACCGAAAGTGGAATGTGATGGGTTTATTTTGGTGATTGAAG
130 AACCGAAAGTGGAATGTGATGGGTTTATTTTGGTGATTGAAG
*
173062 -AATTGGAGAA
1 AAATTGAAGAA
173072 GGGCAAGAGT
Statistics
Matches: 176, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
167 89 0.51
168 18 0.10
169 5 0.03
171 49 0.28
172 15 0.09
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (171 bp):
AAATTGAAGAACTCGAAAGCCTTTAAATATTAGGGTAAATTACGTGTTCAATACTTAAACTATTA
ATTTTAATCTATTTTAGTACCTAATTTTTTTTTAAAAAAAATCAAATTCAATATGAAATTGAGAA
ACCGAAAGTGGAATGTGATGGGTTTATTTTGGTGATTGAAG
Found at i:174977 original size:21 final size:20
Alignment explanation
Indices: 174887--174998 Score: 72
Period size: 20 Copynumber: 5.6 Consensus size: 20
174877 AAATGACCAA
*
174887 CAAATTCGCAACGCG-ATCT
1 CAAATTCGCAACGCGAATTT
* *
174906 CAAATTCGCAACTC-AGTTT
1 CAAATTCGCAACGCGAATTT
*
174925 CTGCAATT-GCAACGCGAATTT
1 C--AAATTCGCAACGCGAATTT
**
174946 C-TTTCTCGCAACGCGAATTT
1 CAAAT-TCGCAACGCGAATTT
* *
174966 CCAAATTCGCAACACAGAA-GT
1 -CAAATTCGCAACGC-GAATTT
174987 CAAATTCGCAAC
1 CAAATTCGCAAC
174999 ACATAAGTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 17 0.24
20 31 0.43
21 19 0.26
22 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:174992 original size:20 final size:20
Alignment explanation
Indices: 174967--175017 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
174957 CGCGAATTTC
174967 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
174987 CAAATTCGCAACACATAAGT
1 CAAATTCGCAACACAGAAGT
175007 CAAATTCGCAA
1 CAAATTCGCAA
175018 AGTGCGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:175575 original size:20 final size:20
Alignment explanation
Indices: 175552--175590 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
175542 TTTGAAACTT
175552 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
175572 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
175591 TGCATTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:177100 original size:42 final size:42
Alignment explanation
Indices: 177037--177133 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
177027 CCCCACTTCA
* * *
177037 AGAGCCATCACCTGATTGAGCCGATTCTACAGC-TCGACACCG
1 AGAGCCATCACCTGATCGAGCCGATTATACA-CATCCACACCG
177079 AGAGCCATCACCTGATCGAGCCGATTATACACATCCACACCG
1 AGAGCCATCACCTGATCGAGCCGATTATACACATCCACACCG
*
177121 AGAGTCATCACCT
1 AGAGCCATCACCT
177134 ATTTCATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCGATTATACACATCCACACCG
Found at i:177275 original size:21 final size:21
Alignment explanation
Indices: 177248--177297 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
177238 GTTAGGGGAG
*
177248 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
177269 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
177290 TTACGTGA
1 TTACGTGA
177298 CGATAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:177689 original size:21 final size:21
Alignment explanation
Indices: 177667--177739 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
177657 CACCTTTCAT
*
177667 CGTTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCCTCTCAC
*
177688 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCTCAC
*
177709 CGTTCAAGAGCCCCCTAC-CAC
1 CGTTCAAGAGGCCCCT-CTCAC
177730 CGTTCAAGAG
1 CGTTCAAGAG
177740 CCCGATTCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 47 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.41, G:0.19, T:0.18
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCTCAC
Found at i:179040 original size:18 final size:18
Alignment explanation
Indices: 179017--179052 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
179007 AATCCGGTTG
179017 TGATTGAGATTTTAATTT
1 TGATTGAGATTTTAATTT
* *
179035 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTAATTT
179053 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTAATTT
Found at i:181344 original size:24 final size:24
Alignment explanation
Indices: 181310--181363 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
181300 CTGAAACATC
*
181310 ATCAAAATCCGAGTGTTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
181334 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
181358 ATCAAA
1 ATCAAA
181364 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:182300 original size:18 final size:18
Alignment explanation
Indices: 182277--182311 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
182267 CAAAACATTT
182277 CTGTTGCGAAAATAAAAG
1 CTGTTGCGAAAATAAAAG
* *
182295 CTGTTGTGAAATTAAAA
1 CTGTTGCGAAAATAAAA
182312 TTCGTGTTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (18 bp):
CTGTTGCGAAAATAAAAG
Found at i:182342 original size:20 final size:20
Alignment explanation
Indices: 182317--182524 Score: 59
Period size: 20 Copynumber: 10.3 Consensus size: 20
182307 TAAAATTCGT
182317 GTTGCGAATTTGAAAATCGA
1 GTTGCGAATTTGAAAATCGA
*** *
182337 GTTGCGAA-AACAAAATTCGT
1 GTTGCGAATTTGAAAA-TCGA
**
182357 GTTGCG-ATTTAGAAAATCTT
1 GTTGCGAATTT-GAAAATCGA
*** * * *
182377 GTTGCGAAAAGGAAACTTGT
1 GTTGCGAATTTGAAAATCGA
* *** * *
182397 GTTGAGAAAAAGAAATTCGC
1 GTTGCGAATTTGAAAATCGA
* *
182417 GTTGTGAATTCAGAA-ATCGA
1 GTTGCGAATT-TGAAAATCGA
* *
182437 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAAAT-CGA
*
182458 GTTGCGAATTT-AGAAATAGCA
1 GTTGCGAATTTGA-AAATCG-A
*
182479 -TTGCGAATTTGGAAATCGCA
1 GTTGCGAATTTGAAAATCG-A
* * * *
182499 -TTGTGAATTTGGAAATAGC
1 GTTGCGAATTTGAAAATCGA
182518 GTTGCGA
1 GTTGCGA
182525 TTGAGAAACT
Statistics
Matches: 140, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
19 8 0.06
20 107 0.76
21 25 0.18
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGA
Found at i:182400 original size:40 final size:40
Alignment explanation
Indices: 182308--182386 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
182298 TTGTGAAATT
182308 AAAATTCGTGTTGCGAATTTGAAAATCGAGTTGCGAAAAC
1 AAAATTCGTGTTGCGAATTTGAAAATCGAGTTGCGAAAAC
**
182348 AAAATTCGTGTTGCG-ATTTAGAAAATCTTGTTGCGAAAA
1 AAAATTCGTGTTGCGAATTT-GAAAATCGAGTTGCGAAAA
182387 GGAAACTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (40 bp):
AAAATTCGTGTTGCGAATTTGAAAATCGAGTTGCGAAAAC
Found at i:182473 original size:41 final size:41
Alignment explanation
Indices: 182408--182524 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 41
182398 TTGAGAAAAA
* *
182408 GAAATTCGCGTTGTGAATTCAGAAATCG-AGTTGCGAATTT-
1 GAAATTCGCGTTGCGAATTCAGAAATAGCA-TTGCGAATTTG
* *
182448 GAAATTCCGTGTTGCGAATTTAGAAATAGCATTGCGAATTTG
1 GAAATT-CGCGTTGCGAATTCAGAAATAGCATTGCGAATTTG
* * ** *
182490 GAAA-TCGCATTGTGAATTTGGAAATAGCGTTGCGA
1 GAAATTCGCGTTGCGAATTCAGAAATAGCATTGCGA
182525 TTGAGAAACT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 31 0.48
41 29 0.45
42 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (41 bp):
GAAATTCGCGTTGCGAATTCAGAAATAGCATTGCGAATTTG
Found at i:184348 original size:24 final size:24
Alignment explanation
Indices: 184316--184371 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
184306 GTCTGAAGTT
184316 ACTGTTCCAGATACTCTTGAGCAC
1 ACTGTTCCAGATACTCTTGAGCAC
184340 ACTGTTCCAGATACTCTTGAGCAC
1 ACTGTTCCAGATACTCTTGAGCAC
184364 ACTGTTCC
1 ACTGTTCC
184372 CTCTGAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (24 bp):
ACTGTTCCAGATACTCTTGAGCAC
Found at i:185513 original size:57 final size:57
Alignment explanation
Indices: 185400--185513 Score: 160
Period size: 59 Copynumber: 2.0 Consensus size: 57
185390 AGCCTTTCAT
185400 ATTTTTTACTTTTAATGTTTTAGGTCTGGACCAAAAAAACCCAATAATAAGTTAATTA
1 ATTTTTTACTTTTAATGTTTTAGGTCTGGACCAAAAAAACCC-ATAATAAGTTAATTA
* * *
185458 ATTTTTTACTTTTTAATGTTTTGGGTTTGGACCAAAACAGA-CC-TAATAAGTTAATT
1 ATTTTTTAC-TTTTAATGTTTTAGGTCTGGACCAAAA-AAACCCATAATAAGTTAATT
185514 TGATAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
57 13 0.25
58 9 0.18
59 27 0.53
60 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (57 bp):
ATTTTTTACTTTTAATGTTTTAGGTCTGGACCAAAAAAACCCATAATAAGTTAATTA
Found at i:185774 original size:2 final size:2
Alignment explanation
Indices: 185767--185799 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
185757 ATTAAACTAT
185767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
185800 GTTATTTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:186249 original size:24 final size:24
Alignment explanation
Indices: 186218--186268 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
186208 TGTGATGCAA
186218 GCTGCTTGTGTGATATAAGCGCAT
1 GCTGCTTGTGTGATATAAGCGCAT
186242 GCTGCTTGTGTGATATAAGCGCAT
1 GCTGCTTGTGTGATATAAGCGCAT
186266 GCT
1 GCT
186269 ACTTTTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (24 bp):
GCTGCTTGTGTGATATAAGCGCAT
Found at i:187640 original size:2 final size:2
Alignment explanation
Indices: 187633--187683 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
187623 TAACAATCAT
187633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
187675 TA TA TA TA T
1 TA TA TA TA T
187684 CGGACACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:189432 original size:49 final size:49
Alignment explanation
Indices: 189376--189473 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
189366 GTTTTATATT
189376 TCTGAACCTGGAGTTAATAAAATCTAAATATGAATTTAAATAAAGCCCC
1 TCTGAACCTGGAGTTAATAAAATCTAAATATGAATTTAAATAAAGCCCC
189425 TCTGAACCTGGAGTTAATAAAATCTAAATATGAATTTAAATAAAGCCCC
1 TCTGAACCTGGAGTTAATAAAATCTAAATATGAATTTAAATAAAGCCCC
189474 CAGGGAGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (49 bp):
TCTGAACCTGGAGTTAATAAAATCTAAATATGAATTTAAATAAAGCCCC
Found at i:197354 original size:25 final size:25
Alignment explanation
Indices: 197326--197374 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
197316 GTCACACTCG
*
197326 AAAAGTAATGGGTAACCTCTAAGCA
1 AAAAGGAATGGGTAACCTCTAAGCA
197351 AAAAGGAATGGGTAACCTCTAAGC
1 AAAAGGAATGGGTAACCTCTAAGC
197375 TTAAAAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (25 bp):
AAAAGGAATGGGTAACCTCTAAGCA
Found at i:197499 original size:18 final size:18
Alignment explanation
Indices: 197476--197511 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
197466 CTCATGTATG
197476 TTGAAAATATGTTATGAT
1 TTGAAAATATGTTATGAT
197494 TTGAAAATATGTTATGAT
1 TTGAAAATATGTTATGAT
197512 GAACATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
TTGAAAATATGTTATGAT
Found at i:197641 original size:17 final size:15
Alignment explanation
Indices: 197619--197657 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
197609 AATTGATATC
197619 AATTTTTCAAATGTTTT
1 AATTTTTCAAA--TTTT
*
197636 AATTTTACAAATTTT
1 AATTTTTCAAATTTT
197651 AATTTTT
1 AATTTTT
197658 GACCTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (15 bp):
AATTTTTCAAATTTT
Found at i:198490 original size:9 final size:10
Alignment explanation
Indices: 198466--198558 Score: 64
Period size: 12 Copynumber: 8.6 Consensus size: 10
198456 AAAAATGAAG
198466 AATAAAAATA
1 AATAAAAATA
*
198476 AGTAAAAA-A
1 AATAAAAATA
**
198485 AATAAAAGGA
1 AATAAAAATA
198495 AA-AATAAATA
1 AATAA-AAATA
198505 AATAAATAAATA
1 AAT-AA-AAATA
198517 AATAAATAAATA
1 AAT-AA-AAATA
198529 AATAAATAAATA
1 AAT-AA-AAATA
198541 AATAAATAAATA
1 AAT-AA-AAATA
198553 AATAAA
1 AATAAA
198559 TAAATGAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
9 9 0.12
10 16 0.22
11 2 0.03
12 47 0.64
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (10 bp):
AATAAAAATA
Found at i:198503 original size:4 final size:4
Alignment explanation
Indices: 198496--198614 Score: 143
Period size: 4 Copynumber: 30.0 Consensus size: 4
198486 ATAAAAGGAA
198496 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
198544 AAAT AAAT AAAT AAAT AAAT GAAAT -ATT AAA- ATAT ATAT ATAT ATAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
198591 ATAT ATAT ATAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT
198615 GAGTAAAATA
Statistics
Matches: 108, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
3 4 0.04
4 100 0.93
5 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:198506 original size:16 final size:15
Alignment explanation
Indices: 198447--198502 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
198437 GTTAGAGGGA
*
198447 AAAAATGAAAAAAATG
1 AAAAAT-AAAAAAAGG
* *
198463 AAGAATAAAAATAAGT
1 AAAAATAAAAA-AAGG
198479 AAAAA-AAATAAAAGG
1 AAAAATAAA-AAAAGG
198494 AAAAATAAA
1 AAAAATAAA
198503 TAAATAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 16 0.50
16 16 0.50
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAAAGG
Found at i:198582 original size:2 final size:2
Alignment explanation
Indices: 198575--198603 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
198565 AAATATTAAA
198575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
198604 AATAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198678 original size:18 final size:18
Alignment explanation
Indices: 198629--198682 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
198619 AAAATAGAAA
*
198629 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
198650 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
198669 AATA-TAATATAAAA
1 AATAGTAATATAAAA
198683 AAACCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:198683 original size:18 final size:19
Alignment explanation
Indices: 198633--198683 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
198623 TAGAAAAATA
*
198633 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
198653 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
198672 ATAATATAAAAA
1 ATAATATAAAAA
198684 AACCAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Done.