Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_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: 2348840
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:219614 original size:154 final size:149
Alignment explanation
Indices: 219337--219627 Score: 390
Period size: 154 Copynumber: 1.9 Consensus size: 149
219327 ACATATTTTT
* *
219337 ATTTATCAAAAACCATAGTAATCCCTTCCACCGAACACAACATGATGTGTAGGTTCCCCAGATCC
1 ATTTATCAAAAACCATAGTAATCCC-TCCACCGAACACAACATAATGTGTAGGTTCCCCAGAACC
* * * * *
219402 ACAGCCTCGGCACAACAGTTAGGCCCTAAGCACAAAGCTGAGGAGCCTGCATATATTCTTCCTAC
65 ACAACCCCGGCACAACAGTTAGGCCCTAAGCACAAAGCCGAGGAACAT-CATATATTCTTCCT-C
219467 -AACAATACCACTAAATAAAAC
128 TAACAATACCACTAAATAAAAC
219488 ATTTATCAAAAACCATAGTAAATTCCC-CCAACCGAACACAACATAATGTGTAGGTTCCCCAGAA
1 ATTTATCAAAAACCATAGT-AA-TCCCTCC-ACCGAACACAACATAATGTGTAGGTTCCCCAGAA
* *
219552 CCATACAACCCCGGCACAACAGTTAGGCCCTGAGCACAAAGCCGATGAACAT-ATAAGTATTCTT
63 CC--ACAACCCCGGCACAACAGTTAGGCCCTAAGCACAAAGCCGAGGAACATCAT-A-TATTCTT
219616 CCTCTAACAATA
124 CCTCTAACAATA
219628 AACCCCCAAT
Statistics
Matches: 123, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
151 21 0.17
152 38 0.31
153 6 0.05
154 58 0.47
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (149 bp):
ATTTATCAAAAACCATAGTAATCCCTCCACCGAACACAACATAATGTGTAGGTTCCCCAGAACCA
CAACCCCGGCACAACAGTTAGGCCCTAAGCACAAAGCCGAGGAACATCATATATTCTTCCTCTAA
CAATACCACTAAATAAAAC
Found at i:219695 original size:24 final size:24
Alignment explanation
Indices: 219668--219800 Score: 144
Period size: 24 Copynumber: 5.5 Consensus size: 24
219658 AAACGGAGAT
* * *
219668 ATCAGAAACCAAAACATAATTTAG
1 ATCAGAAATCAGAACATAATTCAG
* * *
219692 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACATAATTCAG
219716 ATCAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACATAATTCAG
* *
219740 ATCAGAAATCAGAACATAATTGAA
1 ATCAGAAATCAGAACATAATTCAG
* *
219764 ATC-GAAAATCAGAACAGAATTCAA
1 ATCAG-AAATCAGAACATAATTCAG
219788 ATC-GAAAATCAGA
1 ATCAG-AAATCAGA
219801 TAAAACATTC
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
23 1 0.01
24 94 0.99
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATTCAG
Found at i:219716 original size:12 final size:12
Alignment explanation
Indices: 219694--219755 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
219684 TAATTTAGAT
*
219694 CAGATATCAGAA
1 CAGAAATCAGAA
*
219706 CAG-AATCCAGAT
1 CAGAAAT-CAGAA
219718 CAGAAATCAGAA
1 CAGAAATCAGAA
* * *
219730 CATAATTCAGAT
1 CAGAAATCAGAA
219742 CAGAAATCAGAA
1 CAGAAATCAGAA
219754 CA
1 CA
219756 TAATTGAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 2 0.05
12 34 0.87
13 3 0.08
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.16
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:226365 original size:22 final size:22
Alignment explanation
Indices: 226337--226392 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
226327 TGTAAAAAAG
226337 ATAGGGATAAATTAGGATTACT
1 ATAGGGATAAATTAGGATTACT
226359 ATAGGGATAAATTAGGATTACT
1 ATAGGGATAAATTAGGATTACT
*
226381 ATAGGGACAAAT
1 ATAGGGATAAAT
226393 GTGATCCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (22 bp):
ATAGGGATAAATTAGGATTACT
Found at i:228064 original size:21 final size:21
Alignment explanation
Indices: 228040--228080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
228030 CAAAATTGAA
* *
228040 TAAATTAAAATAAAAAATAAT
1 TAAAATAAAAGAAAAAATAAT
*
228061 TAAAATAAAAGAAAATATAA
1 TAAAATAAAAGAAAAAATAA
228081 AATTAAGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAATAAAAGAAAAAATAAT
Found at i:229772 original size:2 final size:2
Alignment explanation
Indices: 229765--229793 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
229755 CGATAAACAA
229765 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
229794 AAACCGTATA
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:233660 original size:16 final size:16
Alignment explanation
Indices: 233625--233658 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
233615 CATAATTTTA
233625 TTTAATGTATTTTAAT
1 TTTAATGTATTTTAAT
*
233641 TTTAAT-TATTTTTAT
1 TTTAATGTATTTTAAT
233656 TTT
1 TTT
233659 TATTTTACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTAATGTATTTTAAT
Found at i:233721 original size:14 final size:14
Alignment explanation
Indices: 233686--233724 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
233676 ATTATGAATA
*
233686 ATATTAGTATTATT
1 ATATTATTATTATT
**
233700 ATGGTATTATTATT
1 ATATTATTATTATT
233714 ATATTATTATT
1 ATATTATTATT
233725 TTTAATATAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:234638 original size:2 final size:2
Alignment explanation
Indices: 234631--234666 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
234621 TGATAACCAA
*
234631 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
234667 GAGTTGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:241760 original size:3 final size:3
Alignment explanation
Indices: 241745--241790 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
241735 TAATTGAATT
*
241745 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
241791 GCTACCTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:243020 original size:70 final size:70
Alignment explanation
Indices: 242896--243028 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
242886 TTCAAATAAA
* * *
242896 ATAGCTATATCTAATGAGCAGGGCATGGTTCGTGCAACTTGTACTGTTATGATATAAATTATATA
1 ATAGCTATATCTAATGAGCAGGGCATGGTTCGAGCAACTTGTACTGTCAGGATATAAATTATATA
242961 CAGAT
66 CAGAT
* * * * * *
242966 ATAGCTATATCTAATTAGCATGGTATGGTTGGAGCAACTTGTAGTGTCAGGATATGAATTATA
1 ATAGCTATATCTAATGAGCAGGGCATGGTTCGAGCAACTTGTACTGTCAGGATATAAATTATA
243029 GATATGAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (70 bp):
ATAGCTATATCTAATGAGCAGGGCATGGTTCGAGCAACTTGTACTGTCAGGATATAAATTATATA
CAGAT
Found at i:243055 original size:15 final size:15
Alignment explanation
Indices: 243012--243055 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
243002 ACTTGTAGTG
243012 TCAGGATATGAATTA
1 TCAGGATATGAATTA
243027 T-A-GATATGAATTA
1 TCAGGATATGAATTA
243040 TACAGGATAT-AATTA
1 T-CAGGATATGAATTA
243055 T
1 T
243056 TCCTAATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 8 0.31
16 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (15 bp):
TCAGGATATGAATTA
Found at i:243172 original size:49 final size:49
Alignment explanation
Indices: 243107--243206 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
243097 AATAAAATCC
*
243107 ATCCCAAAAACCTAAGAAATTAGGTTCAATCCATACAAATAATTAAGGA
1 ATCCCAAAAACCTAAGAAATAAGGTTCAATCCATACAAATAATTAAGGA
* * *
243156 ATCCCCAAAACTTAAGAAATAAGGTTCAATCCATGCAAATAATTAAGGA
1 ATCCCAAAAACCTAAGAAATAAGGTTCAATCCATACAAATAATTAAGGA
243205 AT
1 AT
243207 TAGATGAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (49 bp):
ATCCCAAAAACCTAAGAAATAAGGTTCAATCCATACAAATAATTAAGGA
Found at i:248821 original size:24 final size:24
Alignment explanation
Indices: 248726--248823 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
248716 TTCTATTATA
* **
248726 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATTTG
*
248750 ATACTTGACCTGGATTCTGA-TCG
1 ATACTTGACCTGGATTCTGATTTG
* *
248773 AATACTAGACCTGGATTTTGATTTG
1 -ATACTTGACCTGGATTCTGATTTG
* *
248798 ATACTTGACCTGGATTATGTTTTG
1 ATACTTGACCTGGATTCTGATTTG
248822 AT
1 AT
248824 TTTTGATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.02
24 60 0.95
25 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATTTG
Found at i:249004 original size:2 final size:2
Alignment explanation
Indices: 248999--249025 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
248989 TATATATATT
248999 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
249026 TTTAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:253664 original size:29 final size:30
Alignment explanation
Indices: 253632--253699 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
253622 CATTTTACAC
*
253632 AAATAGCACCCT-TTTTAAAATAATTACCA
1 AAATAGCACCCTATTTCAAAATAATTACCA
* * *
253661 AAATAACA-CCTATTTCGAATTAATTACCA
1 AAATAGCACCCTATTTCAAAATAATTACCA
*
253690 GAATAGCACC
1 AAATAGCACC
253700 AAAACCGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.10
29 27 0.87
30 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (30 bp):
AAATAGCACCCTATTTCAAAATAATTACCA
Found at i:253772 original size:30 final size:29
Alignment explanation
Indices: 253677--253787 Score: 168
Period size: 29 Copynumber: 3.8 Consensus size: 29
253667 CACCTATTTC
* *
253677 GAATTAATTACCAGAATAGCACCAAAACC
1 GAATTATTTACCAGAATAGCACCAAAACT
* *
253706 GAATTATGTACCAGAATAACACCAAAACT
1 GAATTATTTACCAGAATAGCACCAAAACT
253735 GAATTATTTACCAGAATAGCACCAAAACT
1 GAATTATTTACCAGAATAGCACCAAAACT
*
253764 GAAATTATTTACCATAATAGCACC
1 G-AATTATTTACCAGAATAGCACC
253788 GGTCAACGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 53 0.72
30 21 0.28
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.23
Consensus pattern (29 bp):
GAATTATTTACCAGAATAGCACCAAAACT
Found at i:253859 original size:23 final size:18
Alignment explanation
Indices: 253796--253848 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
253786 CCGGTCAACG
253796 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCGGGTCGA
253814 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCGGGTCGA
253832 GTCAACGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
253849 TGACCGATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.17
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGA
Found at i:261099 original size:29 final size:29
Alignment explanation
Indices: 261060--261127 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
261050 CATTTTACAC
* *
261060 AAATAGAACCCTTTTTAAAATAATTACCA
1 AAATAGAACCCATTTCAAAATAATTACCA
* * *
261089 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGAACCCATTTCAAAATAATTACCA
*
261118 GAATAGAACC
1 AAATAGAACC
261128 AAAACCGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (29 bp):
AAATAGAACCCATTTCAAAATAATTACCA
Found at i:261136 original size:29 final size:29
Alignment explanation
Indices: 261083--261214 Score: 183
Period size: 29 Copynumber: 4.6 Consensus size: 29
261073 TTTAAAATAA
* *** *
261083 TTACCAAAATAGCACCCATTTCGAATTAA
1 TTACCAAAATAGCACCAAAACCGAATTAT
* *
261112 TTACCAGAATAGAACCAAAACCGAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
* *
261141 TTACCAGAATAGCACCAAAACCAAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
261170 TTACCAAAATAGCACCAAAACCGAATTAT
1 TTACCAAAATAGCACCAAAACCGAATTAT
261199 TTACCAAAATAGCACC
1 TTACCAAAATAGCACC
261215 GGTCAACGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (29 bp):
TTACCAAAATAGCACCAAAACCGAATTAT
Found at i:261250 original size:13 final size:13
Alignment explanation
Indices: 261232--261268 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
261222 GGTCAACGAT
261232 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
261245 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
261258 CGGGTCGGGTC
1 CGGGTCGGGTC
261269 GAGTTAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:261254 original size:18 final size:18
Alignment explanation
Indices: 261245--261307 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
261235 GTCGGGTCAA
*
261245 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTTAACGGGT
*
261263 CGGGTCGAGTTAACGGGT
1 CGGGTCGGGTTAACGGGT
261281 CGGGTCGGGTTAACGGGT
1 CGGGTCGGGTTAACGGGT
*
261299 CAGGTCGGG
1 CGGGTCGGG
261308 ACCGGTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.13, C:0.19, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTTAACGGGT
Found at i:261269 original size:31 final size:30
Alignment explanation
Indices: 261222--261286 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
261212 ACCGGTCAAC
*
261222 GGTCAACGATCGGGTCGGGTCAACGGGTCG
1 GGTCAACGATCGGGTCGAGTCAACGGGTCG
* *
261252 GGTCAACGGGTCGGGTCGAGTTAACGGGTCG
1 GGTCAAC-GATCGGGTCGAGTCAACGGGTCG
261283 GGTC
1 GGTC
261287 GGGTTAACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.15, C:0.22, G:0.45, T:0.18
Consensus pattern (30 bp):
GGTCAACGATCGGGTCGAGTCAACGGGTCG
Found at i:268608 original size:29 final size:29
Alignment explanation
Indices: 268576--268686 Score: 159
Period size: 29 Copynumber: 3.8 Consensus size: 29
268566 GCACCCATTT
* *
268576 CGAATTAATTACCAGATTAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
* * *
268605 CGAATTATTTATCATAATAGCACCAAAAT
1 CGAATTATTTACCAGAATAGCACCAAAAC
* *
268634 GGAATTATTTACCAGAATAGCATCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
268663 CGAATTATTTACCAGAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
268687 GGTCAACGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:268625 original size:58 final size:58
Alignment explanation
Indices: 268555--268686 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
268545 TTTAAAATAA
* * ** *
268555 TTACCAAAATAGCACCCATTTCGAATTAATTACCAGATTAGCACCAAAACCGAATTAT
1 TTACCAGAATAGCACCAAAATCGAATTAATTACCAGAATAGCACCAAAACCGAATTAT
* * * * *
268613 TTATCATAATAGCACCAAAATGGAATTATTTACCAGAATAGCATCAAAACCGAATTAT
1 TTACCAGAATAGCACCAAAATCGAATTAATTACCAGAATAGCACCAAAACCGAATTAT
268671 TTACCAGAATAGCACC
1 TTACCAGAATAGCACC
268687 GGTCAACGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (58 bp):
TTACCAGAATAGCACCAAAATCGAATTAATTACCAGAATAGCACCAAAACCGAATTAT
Found at i:270893 original size:24 final size:24
Alignment explanation
Indices: 270866--270953 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
270856 TGCTATTATA
*
270866 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* * *
270890 ATACTTGACCTAGATTCTAATCGA
1 ATACTTGACCTGGATTCTGATCGG
* *
270914 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
270938 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
270954 ATGTTTTGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:271172 original size:2 final size:2
Alignment explanation
Indices: 271165--271194 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
271155 ATGTAAGTAA
271165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
271195 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:271199 original size:2 final size:2
Alignment explanation
Indices: 271194--271312 Score: 238
Period size: 2 Copynumber: 59.5 Consensus size: 2
271184 TATATATATA
271194 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
271236 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
271278 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
271313 TTTAAGAAGA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 117 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:272316 original size:88 final size:88
Alignment explanation
Indices: 272167--272343 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
272157 TAAATTTTGT
*
272167 TGATGACGATGGATATGATGAAAATCAATGGATAAGTGTCTTATGAATCCTCATAGTCATAATTA
1 TGATGACGATGGATATGATGAAAATCAATGGATAAGTATCTTATGAATCCTCATAGTCATAATTA
272232 ACTAGGTAAACTCGATAATCGAC
66 ACTAGGTAAACTCGATAATCGAC
272255 TGATGACGATGGATATGATGAAAATCAATGGATAAGTATCTTATGAATCCTCATAGTCATAATTA
1 TGATGACGATGGATATGATGAAAATCAATGGATAAGTATCTTATGAATCCTCATAGTCATAATTA
272320 ACTAGGTAAACTCGATAATCGAC
66 ACTAGGTAAACTCGATAATCGAC
272343 T
1 T
272344 CTAACTAGCC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (88 bp):
TGATGACGATGGATATGATGAAAATCAATGGATAAGTATCTTATGAATCCTCATAGTCATAATTA
ACTAGGTAAACTCGATAATCGAC
Found at i:274213 original size:47 final size:47
Alignment explanation
Indices: 274142--274310 Score: 212
Period size: 47 Copynumber: 3.6 Consensus size: 47
274132 GTACATATCA
* * * * * * *
274142 TAACATGTAACGTTCATGGTAAGAACTTATATCATAAATTCATAGTC
1 TAACATATAACTTTCATTGCAAGAACTTACATCATAAATTCATAATT
* **
274189 TGACATATAACTTTCATTAAAAGAACTTACATCATAAATTCATAATT
1 TAACATATAACTTTCATTGCAAGAACTTACATCATAAATTCATAATT
* * * *
274236 TAACATATAGCTTTCATGGCAAGATCTTGCATCATAAATTCATAATT
1 TAACATATAACTTTCATTGCAAGAACTTACATCATAAATTCATAATT
274283 TAACATATAACTTTCATTGCAAGAACTT
1 TAACATATAACTTTCATTGCAAGAACTT
274311 TTTATCATAT
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (47 bp):
TAACATATAACTTTCATTGCAAGAACTTACATCATAAATTCATAATT
Found at i:274695 original size:51 final size:51
Alignment explanation
Indices: 274638--274735 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
274628 ATGATTTTTT
*
274638 TTATCTTTGCATACCGAA-TGAGCCGTAGCTCCT-TATCATTCACATAGCTTC
1 TTATCTTGGCATACC-AAGTGAGCCGTAGCT-CTGTATCATTCACATAGCTTC
** *
274689 TTATCTTGGCATACCAAGTGATTCGTAGCTCTGTATCATTCATATAG
1 TTATCTTGGCATACCAAGTGAGCCGTAGCTCTGTATCATTCACATAG
274736 TTTTCATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 4 0.10
51 37 0.90
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (51 bp):
TTATCTTGGCATACCAAGTGAGCCGTAGCTCTGTATCATTCACATAGCTTC
Found at i:274817 original size:25 final size:24
Alignment explanation
Indices: 274789--274868 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
274779 GCACATGTCA
274789 TAACATGTATTTACACTAGTGAAAG
1 TAACATGTATTTACAC-AGTGAAAG
** **
274814 TAACACATATTATAC-CAGTGAGATT
1 TAACATGTATT-TACACAGTGA-AAG
* *
274839 TGACATGTATTTACACCAATGAAAG
1 TAACATGTATTTACA-CAGTGAAAG
274864 TAACA
1 TAACA
274869 CATAGTATAC
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
24 8 0.20
25 24 0.60
26 8 0.20
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (24 bp):
TAACATGTATTTACACAGTGAAAG
Found at i:274909 original size:75 final size:74
Alignment explanation
Indices: 274817--275021 Score: 268
Period size: 75 Copynumber: 2.7 Consensus size: 74
274807 GTGAAAGTAA
* * * *
274817 CACATATTATACCAGTGAGATTTGACATGTATTTACACCAATGAAAGTAACACATAGTATACCAA
1 CACATATTATACCAGTGAAATTTAACATGTATTTACACCAGTGAAAGTAACACATAATATACCAA
274882 TAAACTTAT
66 TAAACTTAT
* * *
274891 CACATATTTACACCAGTGAAATTTAACATGTATTTCCACCAGTGAAAGTAACGCATAATATACCA
1 CACATA-TTATACCAGTGAAATTTAACATGTATTTACACCAGTGAAAGTAACACATAATATACCA
*
274956 ATGAACTTAT
65 ATAAACTTAT
* * * *
274966 CATAAACTTATA-CATGTGAAATTTAACATGTATTTATACTAGTGAAAGTAACACAT
1 CACATA-TTATACCA-GTGAAATTTAACATGTATTTACACCAGTGAAAGTAACACAT
275022 GTTAAACTGG
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
74 8 0.07
75 105 0.93
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (74 bp):
CACATATTATACCAGTGAAATTTAACATGTATTTACACCAGTGAAAGTAACACATAATATACCAA
TAAACTTAT
Found at i:274924 original size:26 final size:25
Alignment explanation
Indices: 274796--274947 Score: 94
Period size: 26 Copynumber: 6.1 Consensus size: 25
274786 TCATAACATG
* *
274796 TATTTACACTAGTGAAAGTAACACA
1 TATTTACACCAGTGAAATTAACACA
* * * **
274821 TA-TTATACCAGTGAGATTTGACATG
1 TATTTACACCAGTGA-AATTAACACA
* *
274846 TATTTACACCAATGAAAGTAACACA
1 TATTTACACCAGTGAAATTAACACA
* * * *
274871 TA-GTATACCAAT-AAACTTATCACA
1 TATTTACACCAGTGAAA-TTAACACA
**
274895 TATTTACACCAGTGAAATTTAACATG
1 TATTTACACCAGTGAAA-TTAACACA
* * *
274921 TATTTCCACCAGTGAAAGTAACGCA
1 TATTTACACCAGTGAAATTAACACA
274946 TA
1 TA
274948 ATATACCAAT
Statistics
Matches: 92, Mismatches: 30, Indels: 10
0.70 0.23 0.08
Matches are distributed among these distances:
23 3 0.03
24 26 0.28
25 29 0.32
26 34 0.37
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (25 bp):
TATTTACACCAGTGAAATTAACACA
Found at i:276649 original size:17 final size:17
Alignment explanation
Indices: 276623--276674 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
276613 TTTATCTCTT
*
276623 TTCATCTTCTTATTCTC
1 TTCATTTTCTTATTCTC
*
276640 TTCATTTTCTTTATTTATC
1 TTCATTTTC-TTA-TTCTC
*
276659 TTC-TTCTCTTATTCTC
1 TTCATTTTCTTATTCTC
276675 AAAGTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.14
17 11 0.38
18 7 0.24
19 7 0.24
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCATTTTCTTATTCTC
Found at i:277306 original size:25 final size:25
Alignment explanation
Indices: 277278--277358 Score: 126
Period size: 25 Copynumber: 3.2 Consensus size: 25
277268 CCAACACTAG
* *
277278 AAATAGGTTCAAATACTAGGGCTAC
1 AAATAGATTCAAATACTAGCGCTAC
277303 AAATAGATTCAAATACTAGCGCTAC
1 AAATAGATTCAAATACTAGCGCTAC
* *
277328 AAATAGATTCAAATACTAGCACTAG
1 AAATAGATTCAAATACTAGCGCTAC
277353 AAATAG
1 AAATAG
277359 GTTCTAACAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (25 bp):
AAATAGATTCAAATACTAGCGCTAC
Found at i:277382 original size:50 final size:50
Alignment explanation
Indices: 277274--277400 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
277264 GATACCAACA
* ** * *
277274 CTAGAAATAGGTTCAAATACTAGGGCTACAAATAGATTCAAATACTAGCG
1 CTAGAAATAGATTCAAATACTAGCACTACAAATAGATTCAAACACCAGCG
* * * * *
277324 CTACAAATAGATTCAAATACTAGCACTAGAAATAGGTTCTAACACCAGTG
1 CTAGAAATAGATTCAAATACTAGCACTACAAATAGATTCAAACACCAGCG
* *
277374 CTGGAAATAAGTTTC-AATACTAGCACT
1 CTAGAAAT-AGATTCAAATACTAGCACT
277401 GGATTTAACC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 58 0.92
51 5 0.08
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (50 bp):
CTAGAAATAGATTCAAATACTAGCACTACAAATAGATTCAAACACCAGCG
Found at i:277402 original size:25 final size:25
Alignment explanation
Indices: 277272--277403 Score: 77
Period size: 25 Copynumber: 5.3 Consensus size: 25
277262 TCGATACCAA
* *
277272 CACTAGAAATAGGTTCAAATACTAG
1 CACTGGAAATAGGTTCTAATACTAG
** ** * *
277297 GGCTACAAATAGATTCAAATACTAG
1 CACTGGAAATAGGTTCTAATACTAG
* ** * *
277322 CGCTACAAATAGATTCAAATACTAG
1 CACTGGAAATAGGTTCTAATACTAG
* * *
277347 CACTAGAAATAGGTTCTAACACCAG
1 CACTGGAAATAGGTTCTAATACTAG
** *
277372 TGCTGGAAATAAGTT-TCAATACTAG
1 CACTGGAAATAGGTTCT-AATACTAG
277397 CACTGGA
1 CACTGGA
277404 TTTAACCTGA
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
24 1 0.01
25 86 0.99
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (25 bp):
CACTGGAAATAGGTTCTAATACTAG
Found at i:280922 original size:21 final size:21
Alignment explanation
Indices: 280896--280941 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
280886 GAAGAAGTGG
280896 AAGTAGATGAAATACCTTGGT
1 AAGTAGATGAAATACCTTGGT
* *
280917 AAGTAGATGCAGTACCTTGGT
1 AAGTAGATGAAATACCTTGGT
280938 AAGT
1 AAGT
280942 GGTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (21 bp):
AAGTAGATGAAATACCTTGGT
Found at i:282315 original size:8 final size:8
Alignment explanation
Indices: 282304--282363 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
282294 GGATTTTTTA
282304 TTTTTCTT
1 TTTTTCTT
*
282312 TTTTT-GT
1 TTTTTCTT
* *
282319 TTTTGCAT
1 TTTTTCTT
*
282327 TTTTCCTT
1 TTTTTCTT
282335 TTTTTGACTT
1 TTTTT--CTT
282345 TTTTTCTT
1 TTTTTCTT
*
282353 TTTCTCTT
1 TTTTTCTT
282361 TTT
1 TTT
282364 GATGAAAATC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 5 0.12
8 29 0.69
10 8 0.19
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:282338 original size:17 final size:18
Alignment explanation
Indices: 282318--282355 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
282308 TCTTTTTTTG
282318 TTTTTG-CATTTTTCCTT
1 TTTTTGACATTTTTCCTT
* *
282335 TTTTTGACTTTTTTTCTT
1 TTTTTGACATTTTTCCTT
282353 TTT
1 TTT
282356 CTCTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTGACATTTTTCCTT
Found at i:283092 original size:46 final size:46
Alignment explanation
Indices: 282993--283102 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 46
282983 GGAGTATGTA
* * **
282993 GCAATAACGTATGACTAGCAATTTAATGGAGTATGTGGTTTACATG
1 GCAATAATGTATGACTAGCAATTTAATGGAGTAGGTGGAATACATG
* **
283039 GCCATAATGTATGACTAGCAATTTAATGGAGTAGGTGGAATAGGTG
1 GCAATAATGTATGACTAGCAATTTAATGGAGTAGGTGGAATACATG
* *
283085 GTAATAATGTATGGCTAG
1 GCAATAATGTATGACTAG
283103 GAATATTTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (46 bp):
GCAATAATGTATGACTAGCAATTTAATGGAGTAGGTGGAATACATG
Found at i:287692 original size:46 final size:46
Alignment explanation
Indices: 287639--287773 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
287629 AGTTTCTCAT
*
287639 TTTAATGGAGTAGGTGGAATAGGTGGCAATAACGTATGACTAGCAA
1 TTTAATGGAGTAGGTGGAATAGGTGGCAATAATGTATGACTAGCAA
* ** ** *
287685 TTTAATGGAGTATGTGGTTTACATGGCCATAATGTATGACTAGCAA
1 TTTAATGGAGTAGGTGGAATAGGTGGCAATAATGTATGACTAGCAA
* *
287731 TTTAATGGAGTAGGTGGAATAGGTGGTAATAATGTATGGCTAG
1 TTTAATGGAGTAGGTGGAATAGGTGGCAATAATGTATGACTAG
287774 GAATATTTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (46 bp):
TTTAATGGAGTAGGTGGAATAGGTGGCAATAATGTATGACTAGCAA
Found at i:298274 original size:24 final size:21
Alignment explanation
Indices: 298223--298276 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
298213 ACATATAATT
* *
298223 TTTTTTTATAATTGCGGCCTT
1 TTTTTTTATAATTGAGGCCTA
298244 TTATTTTTATAATTGAGGCTCCTAA
1 TT-TTTTTATAATTGAGG--CCT-A
298269 TTTTTTTA
1 TTTTTTTA
298277 ATCTCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.07
22 14 0.52
24 9 0.33
25 2 0.07
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTTTTATAATTGAGGCCTA
Found at i:298296 original size:43 final size:43
Alignment explanation
Indices: 298249--298648 Score: 398
Period size: 43 Copynumber: 9.3 Consensus size: 43
298239 GCCTTTTATT
* *
298249 TTTATAATTGAGGCTCCTAATTTTTTTAATCTCACTTTTTATC
1 TTTATAATTGAAGCTCCTAATTTTTTTAATCTCACTTTTTACC
* *
298292 TTTATAATTGAAGCACTTAATTTTTTTTAATCTCACTTTTTACC
1 TTTATAATTGAAGCTCCTAA-TTTTTTTAATCTCACTTTTTACC
* * * * *
298336 ATTATAATTGAGGCCCCTAATTTTTTCAATCTCACTTTCTACC
1 TTTATAATTGAAGCTCCTAATTTTTTTAATCTCACTTTTTACC
* *
298379 TTTATAATTGAAGC-CTTTAATTTTTTCAAT-TCCACTTTTTACC
1 TTTATAATTGAAGCTC-CTAATTTTTTTAATCT-CACTTTTTACC
* * * * *
298422 TTTATAATTGAGGC-CTCTAATTTTTTCAATCTCGCATTCTACC
1 TTTATAATTGAAGCTC-CTAATTTTTTTAATCTCACTTTTTACC
* * * **
298465 TTTATAATTGAAGTTCCTAATTTTTTTAATCTCGCATTTTAAA
1 TTTATAATTGAAGCTCCTAATTTTTTTAATCTCACTTTTTACC
* ** *
298508 TTTATAATTGAAAC-CTCTAATTTTTCCAATATCAC-TTTTACC
1 TTTATAATTGAAGCTC-CTAATTTTTTTAATCTCACTTTTTACC
* * * * *
298550 TTTATAATTG-AGGTCCCTAATTTTTTTCAATTTTACTTTCTACA
1 TTTATAATTGAAGCT-CCTAATTTTTTT-AATCTCACTTTTTACC
* *
298594 TTTATAATTGAAGCCCCTAATTTTTTTTAATCTCATTTTTTACC
1 TTTATAATTGAAGCTCCTAA-TTTTTTTAATCTCACTTTTTACC
298638 TTTATAATTGA
1 TTTATAATTGA
298649 GGTATCTAAT
Statistics
Matches: 297, Mismatches: 48, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.00
42 27 0.09
43 178 0.60
44 82 0.28
45 9 0.03
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (43 bp):
TTTATAATTGAAGCTCCTAATTTTTTTAATCTCACTTTTTACC
Found at i:298515 original size:129 final size:130
Alignment explanation
Indices: 298249--298666 Score: 456
Period size: 129 Copynumber: 3.2 Consensus size: 130
298239 GCCTTTTATT
* * * *
298249 TTTATAATTG-AGGCTCCTAATTTTTTTAA-TCTCACTTTTTATCTTTATAATTGAAGCACT-TA
1 TTTATAATTGAAGCCT-CTAATTTTTTCAATTC-CACTTTTTACCTTTATAATTGAGGC-CTCTA
* * * * *
298311 ATTTTTTTTAATCTCACTTTTTACCATTATAATTGAGGCCCCTAATTTTTTCAATCTCACTTTCT
63 ATTTTTTTCAATCTCACTTTCTACCTTTATAATTGAAGCCCCTAATTTTTTTAATCTCACTTTCT
**
298376 ACC
128 AAA
*
298379 TTTATAATTGAAGCCTTTAATTTTTTCAATTCCACTTTTTACCTTTATAATTGAGGCCTCTAA-T
1 TTTATAATTGAAGCCTCTAATTTTTTCAATTCCACTTTTTACCTTTATAATTGAGGCCTCTAATT
* * ** *
298443 TTTTTCAATCTCGCATTCTACCTTTATAATTGAAGTTCCTAATTTTTTTAATCTCGCATTT-TAA
66 TTTTTCAATCTCACTTTCTACCTTTATAATTGAAGCCCCTAATTTTTTTAATCTCAC-TTTCTAA
298507 A
130 A
* *
298508 TTTATAATTGAAACCTCTAATTTTTCCAATAT-CAC-TTTTACCTTTATAATTGAGGTCC-CTAA
1 TTTATAATTGAAGCCTCTAATTTTTTCAAT-TCCACTTTTTACCTTTATAATTGAGG-CCTCTAA
* * * * *
298570 TTTTTTTCAATTTTACTTTCTACATTTATAATTGAAGCCCCTAATTTTTTTTAATCTCATTTTTT
64 TTTTTTTCAATCTCACTTTCTACCTTTATAATTGAAGCCCCTAA-TTTTTTTAATCTCACTTTCT
**
298635 ACC
128 AAA
* **
298638 TTTATAATTGAGGTATCTAATTTTTTCAA
1 TTTATAATTGAAGCCTCTAATTTTTTCAA
298667 CCCAAAAATT
Statistics
Matches: 243, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
128 24 0.10
129 123 0.51
130 90 0.37
131 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.50
Consensus pattern (130 bp):
TTTATAATTGAAGCCTCTAATTTTTTCAATTCCACTTTTTACCTTTATAATTGAGGCCTCTAATT
TTTTTCAATCTCACTTTCTACCTTTATAATTGAAGCCCCTAATTTTTTTAATCTCACTTTCTAAA
Found at i:304771 original size:20 final size:20
Alignment explanation
Indices: 304741--304780 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
304731 ACTTCTTCCC
304741 ATGATTTTTTTTTTAAATTTT
1 ATGATTTTTTTTTT-AATTTT
304762 ATGA-TTTTTTTTTAATTTT
1 ATGATTTTTTTTTTAATTTT
304781 GGATGGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
ATGATTTTTTTTTTAATTTT
Found at i:305636 original size:13 final size:13
Alignment explanation
Indices: 305610--305656 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
305600 CAAATATATA
305610 ATATATA-AGATTT
1 ATATATATAG-TTT
*
305623 ATGTATATAGTTT
1 ATATATATAGTTT
*
305636 ATATATATA-TAT
1 ATATATATAGTTT
305648 ATATATATA
1 ATATATATA
305657 TATATATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.37
13 17 0.57
14 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (13 bp):
ATATATATAGTTT
Found at i:305682 original size:2 final size:2
Alignment explanation
Indices: 305603--305663 Score: 63
Period size: 2 Copynumber: 31.0 Consensus size: 2
305593 ATAAAGACAA
* * * *
305603 AT AT AT A- AT AT AT A- AG AT TT AT GT AT AT AGT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
305644 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
305664 TTATTAAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.94
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:305810 original size:18 final size:17
Alignment explanation
Indices: 305783--305823 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
305773 TATATAAAGT
305783 ATATAATTTATAATATA
1 ATATAATTTATAATATA
*
305800 ATATAAGTTTATATTATA
1 ATATAA-TTTATAATATA
*
305818 TTATAA
1 ATATAA
305824 ACTATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATATAATTTATAATATA
Found at i:305830 original size:44 final size:43
Alignment explanation
Indices: 305772--305875 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
305762 AATATATAAA
* *
305772 TTATATAAAGTATATAA-T-TTATAA-TATAATATAAGTTTATAT
1 TTATATAAACTATATAATTATTATAAGTAT-ATATAA-ATTATAT
305814 TATATTATAAACTATATAATTATTATAAGGTATATATAAATTATAT
1 T-TA-TATAAACTATATAATTATTATAA-GTATATATAAATTATAT
*
305860 TTATATGAACTATATA
1 TTATATAAACTATATA
305876 TATAAACTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 25 0.47
45 3 0.06
46 13 0.25
47 6 0.11
48 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (43 bp):
TTATATAAACTATATAATTATTATAAGTATATATAAATTATAT
Found at i:305877 original size:13 final size:13
Alignment explanation
Indices: 305844--305902 Score: 73
Period size: 13 Copynumber: 4.4 Consensus size: 13
305834 TATTATAAGG
*
305844 TATATATAAATTA
1 TATATATAAACTA
*
305857 TATTTATATGAACTA
1 TA--TATATAAACTA
305872 TATATATAAACTA
1 TATATATAAACTA
*
305885 TGTATATAAACTA
1 TATATATAAACTA
305898 TATAT
1 TATAT
305903 GTATAAACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 28 0.72
15 11 0.28
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:306227 original size:24 final size:21
Alignment explanation
Indices: 306162--306265 Score: 94
Period size: 20 Copynumber: 5.1 Consensus size: 21
306152 CTTAAAGTAC
* * *
306162 ATGTATGTATAAACTGTGTAT
1 ATGTATATATAAACTATATAT
306183 A-GTATATATAAAC--TATAT
1 ATGTATATATAAACTATATAT
*
306201 A--TATATATAACCTATAGTAT
1 ATGTATATATAAACTATA-TAT
*
306221 ATGTATATATACAATCTATTTAT
1 ATGTATATATA-AA-CTATATAT
306244 ATGT-TATATAAACTATATAT
1 ATGTATATATAAACTATATAT
306264 AT
1 AT
306266 AACCTATGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
17 10 0.14
18 5 0.07
19 2 0.03
20 24 0.34
21 3 0.04
22 14 0.20
23 8 0.11
24 4 0.06
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (21 bp):
ATGTATATATAAACTATATAT
Found at i:306266 original size:22 final size:22
Alignment explanation
Indices: 306196--306266 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
306186 ATATATAAAC
* *
306196 TATATAT-ATATATAACCTATA
1 TATATATGTTATATAAACTATA
*
306217 -GTATATGTATATATACAATCTAT-
1 TATATATGT-TATATA-AA-CTATA
306240 T-TATATGTTATATAAACTATA
1 TATATATGTTATATAAACTATA
306261 TATATA
1 TATATA
306267 ACCTATGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
20 9 0.22
21 3 0.08
22 16 0.40
23 8 0.20
24 4 0.10
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (22 bp):
TATATATGTTATATAAACTATA
Found at i:306322 original size:7 final size:7
Alignment explanation
Indices: 306306--306372 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
306296 TAGTGTACTA
*
306306 TATAGTT
1 TATAATT
*
306313 TATAACT
1 TATAATT
* *
306320 TATAGTA
1 TATAATT
306327 TATAATT
1 TATAATT
* **
306334 TACAACC
1 TATAATT
306341 TATAATT
1 TATAATT
306348 TATAATT
1 TATAATT
**
306355 TATAAAC
1 TATAATT
306362 TATAATT
1 TATAATT
306369 TATA
1 TATA
306373 TTAATGTACT
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (7 bp):
TATAATT
Found at i:306330 original size:21 final size:21
Alignment explanation
Indices: 306304--306372 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
306294 ATTAGTGTAC
* * *
306304 TATATAGTTTATAACTTATAG
1 TATATAATTTATAACCTATAA
*
306325 TATATAATTTACAACCTATAA
1 TATATAATTTATAACCTATAA
* *
306346 TTTATAATTTATAAACTATAA
1 TATATAATTTATAACCTATAA
*
306367 TTTATA
1 TATATA
306373 TTAATGTACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (21 bp):
TATATAATTTATAACCTATAA
Found at i:306433 original size:15 final size:15
Alignment explanation
Indices: 306383--306433 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
306373 TTAATGTACT
*
306383 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
306398 ATGTTAA-TTATCTTA
1 AT-ATAATTTATATTA
306413 ACTATAATTTATATTA
1 A-TATAATTTATATTA
306429 ATATA
1 ATATA
306434 GTATATATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:307023 original size:16 final size:16
Alignment explanation
Indices: 306998--307030 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
306988 TAATAAATAA
*
306998 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
307014 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
307030 A
1 A
307031 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:307121 original size:16 final size:16
Alignment explanation
Indices: 307100--307160 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
307090 TAATAAATAA
307100 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
307116 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
307132 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
307148 ACGAACATAAACG
1 ACGAACATAAACG
307161 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:307923 original size:14 final size:14
Alignment explanation
Indices: 307906--307961 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
307896 AATGAACATA
*
307906 AACGAACATAATCG
1 AACGAACATAACCG
307920 AACGAACAT-A---
1 AACGAACATAACCG
*
307930 AACGAACATAACCA
1 AACGAACATAACCG
307944 AACGAACATAACCG
1 AACGAACATAACCG
307958 AACG
1 AACG
307962 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:307926 original size:24 final size:24
Alignment explanation
Indices: 307886--307960 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
307876 GATTGTGTTA
*
307886 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
307910 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
307934 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
307958 AAC
1 AAC
307961 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:308730 original size:23 final size:24
Alignment explanation
Indices: 308698--308756 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
308688 TAATATTATT
308698 TATT-CTTTACATAAATTAAACTA
1 TATTACTTTACATAAATTAAACTA
308721 TA-TACTTTACATAAATTAAACTA
1 TATTACTTTACATAAATTAAACTA
*
308744 TATTAATTTACAT
1 TATTACTTTACAT
308757 TTAATCATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 1 0.03
23 23 0.70
24 9 0.27
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTACTTTACATAAATTAAACTA
Found at i:308955 original size:19 final size:19
Alignment explanation
Indices: 308927--308970 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
308917 ATTAATTTTT
*
308927 TAATTATATCATAAA-CTCA
1 TAATTTTATCA-AAATCTCA
*
308946 TAATTTTATCAAAATCTTA
1 TAATTTTATCAAAATCTCA
308965 TAATTT
1 TAATTT
308971 CGTATATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTTTATCAAAATCTCA
Found at i:312961 original size:20 final size:20
Alignment explanation
Indices: 312931--312986 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
312921 TGGATTCCAG
312931 AGCACTTCGATATCGACACCA
1 AGCA-TTCGATATCGACACCA
* *
312952 AGCATTCGATATCGATACTA
1 AGCATTCGATATCGACACCA
* *
312972 AGCGTACGATATCGA
1 AGCATTCGATATCGA
312987 TACTAAGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
AGCATTCGATATCGACACCA
Found at i:313007 original size:26 final size:21
Alignment explanation
Indices: 312937--313011 Score: 93
Period size: 20 Copynumber: 3.7 Consensus size: 21
312927 CCAGAGCACT
* * *
312937 TCGATATCGACACCAAGCAT-
1 TCGATATCGATACTAAGCGTA
312957 TCGATATCGATACTAAGCGTA
1 TCGATATCGATACTAAGCGTA
312978 -CGATATCGATACTAAGCGTA
1 TCGATATCGATACTAAGCGTA
*
312998 TAG-TATCGATACTA
1 TCGATATCGATACTA
313012 CAATCCTCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 48 0.98
21 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (21 bp):
TCGATATCGATACTAAGCGTA
Found at i:315287 original size:25 final size:25
Alignment explanation
Indices: 315235--315287 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
315225 AACATCAGAG
* *
315235 TATTCATTTAACAAGGCTAGAAATA
1 TATTCACTTAACAAGGCAAGAAATA
*
315260 TATTCACTTATCAAGGCAAGGAAA-A
1 TATTCACTTAACAAGGCAA-GAAATA
315285 TAT
1 TAT
315288 CTATTGGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (25 bp):
TATTCACTTAACAAGGCAAGAAATA
Found at i:317499 original size:21 final size:19
Alignment explanation
Indices: 317463--317512 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
317453 CAGTACGATG
317463 ATATCGATACTAATCCCTTTA
1 ATATCGATACTAAT-CC-TTA
* * *
317484 ATATCGATATTGATCCTTC
1 ATATCGATACTAATCCTTA
317503 ATATCGATAC
1 ATATCGATAC
317513 CCACCCTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 2 0.08
21 12 0.48
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (19 bp):
ATATCGATACTAATCCTTA
Found at i:318369 original size:20 final size:19
Alignment explanation
Indices: 318346--318384 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
318336 AATGCCAAGC
*
318346 CTTCGGTATAGATACTCAAT
1 CTTCGATATAGATAC-CAAT
*
318366 CTTCGATATGGATACCAAT
1 CTTCGATATAGATACCAAT
318385 TTACTCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (19 bp):
CTTCGATATAGATACCAAT
Found at i:318464 original size:20 final size:20
Alignment explanation
Indices: 318415--318466 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
318405 AGCCCTTTAG
* *
318415 TATCAATACCAAGCATCCAG
1 TATCAATACTAAGCATCCAA
* * *
318435 TATCGATACTAAGCTTTCAA
1 TATCAATACTAAGCATCCAA
318455 TATCAATACTAA
1 TATCAATACTAA
318467 AACCCTAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (20 bp):
TATCAATACTAAGCATCCAA
Found at i:327880 original size:21 final size:22
Alignment explanation
Indices: 327856--327909 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
327846 TACCAATACC
327856 TGTATCGATACA-CCTTGAATA
1 TGTATCGATACATCCTTGAATA
* * *
327877 TGTACCGATACATTCTTGAATG
1 TGTATCGATACATCCTTGAATA
327899 TGTATCGATAC
1 TGTATCGATAC
327910 CCCAAGGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (22 bp):
TGTATCGATACATCCTTGAATA
Found at i:329781 original size:21 final size:22
Alignment explanation
Indices: 329740--329781 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
329730 TTAGGTGAAT
*
329740 ATTTGGTTTGAATTTGTTTTGG
1 ATTTGGTTTGAATTTGGTTTGG
329762 ATTT-GTTTG-ATTTAGGTTTG
1 ATTTGGTTTGAATTT-GGTTTG
329782 TTTGAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (22 bp):
ATTTGGTTTGAATTTGGTTTGG
Found at i:330195 original size:24 final size:23
Alignment explanation
Indices: 330163--330238 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
330153 GAGATTGTTG
*
330163 AAAACATTTTGATGTTTCAATCTT
1 AAAATATTTTG-TGTTTCAATCTT
330187 AAAATATTTTTGTGTTTCAATCTT
1 AAAATA-TTTTGTGTTTCAATCTT
330211 AAAATATTTT-TG-TT-ATATCTT
1 AAAATATTTTGTGTTTCA-ATCTT
330232 AAAATAT
1 AAAATAT
330239 CTTAAAAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
22 2 0.04
23 4 0.08
24 23 0.47
25 5 0.10
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.50
Consensus pattern (23 bp):
AAAATATTTTGTGTTTCAATCTT
Found at i:336298 original size:94 final size:94
Alignment explanation
Indices: 336186--336364 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 94
336176 ACATTATAAT
* * * *
336186 ATTATATATATAATAAAGCTTGAGTTGTCCCTCT-AGAGCAATT-GTAAAATGCCCCGGCTTTAT
1 ATTATATATATAATAAAGCTTAAGTTGTCCCTATAAG-GCAATTGGTAAAACGCCCCAGCTTTAT
* * * *
336249 GGATAATATTCAGCTAGCCTGATAAAGGCG
65 GGAAAAGATTCAACTAACCTGATAAAGGCG
*
336279 ATTATACTATATAATAAAGCTTAAGTTGTCCCTATAAGGCAATTGGTTAAACGCCCCAGCTTTAT
1 ATTATA-TATATAATAAAGCTTAAGTTGTCCCTATAAGGCAATTGGTAAAACGCCCCAGCTTTAT
336344 GGAAAAGATTCAACTAACCTG
65 GGAAAAGATTCAACTAACCTG
336365 GTGAAGGTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 6 0.08
94 32 0.43
95 36 0.49
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (94 bp):
ATTATATATATAATAAAGCTTAAGTTGTCCCTATAAGGCAATTGGTAAAACGCCCCAGCTTTATG
GAAAAGATTCAACTAACCTGATAAAGGCG
Found at i:337876 original size:37 final size:37
Alignment explanation
Indices: 337809--337895 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
337799 ATTGAAAACA
** * *
337809 TTTCCCTTGAAA-TGAATTTTGTATCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTATCCCTTGAGACAG
*
337845 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTATCCCTTGAGACAG
*
337882 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
337896 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTATCCCTTGAGACAG
Found at i:337898 original size:102 final size:102
Alignment explanation
Indices: 337733--337956 Score: 412
Period size: 102 Copynumber: 2.2 Consensus size: 102
337723 TTTTATCTCG
*
337733 CTTGAGATAGTTTCCCTTGAAACAAAAATTTGTCCCCCTTGAGACAGTTTCTCTTGAAACATAAG
1 CTTGAGATAGTTTCCCTTGAAACAAAAATTTGTCCCCCTTGAGACAGTTTCTCTTGAAACATAAA
337798 CATTGAAAACATTTCCCTTGAAATGAATTTTGTATCT
66 CATTGAAAACATTTCCCTTGAAATGAATTTTGTATCT
* *
337835 CTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 CTTGAGATAGTTTCCCTTGAAACAAAAATTTGTCCCCCTTGAGACAGTTTCTCTTGAAACATAAA
*
337900 CATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCT
66 CATTGAAAACATTTCCCTTGAAATGAATTTTGTATCT
337937 CTTGAGATAGTTTCCCTTGA
1 CTTGAGATAGTTTCCCTTGA
337957 GACAGTTTGT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 118 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (102 bp):
CTTGAGATAGTTTCCCTTGAAACAAAAATTTGTCCCCCTTGAGACAGTTTCTCTTGAAACATAAA
CATTGAAAACATTTCCCTTGAAATGAATTTTGTATCT
Found at i:338002 original size:80 final size:80
Alignment explanation
Indices: 337869--338035 Score: 307
Period size: 80 Copynumber: 2.1 Consensus size: 80
337859 AAATTTTGTC
337869 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
1 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
*
337934 TCTCTTGAGATAGTT
66 TCTCTTGAGACAGTT
* *
337949 TCCCTTGAGACAGTTTGTCTTGGAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
1 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
338014 TCTCTTGAGACAGTT
66 TCTCTTGAGACAGTT
338029 TCCCTTG
1 TCCCTTG
338036 GAACAAATTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (80 bp):
TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
TCTCTTGAGACAGTT
Found at i:338045 original size:36 final size:36
Alignment explanation
Indices: 337991--338076 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
337981 ATTGAAAACA
** *
337991 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
338027 TTTCCCTTGGAACAAATTTTGTCTCCCTTGAGAC-G
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
338062 ATTTCTCTTGAAACA
1 -TTTCCCTTGAAACA
338077 TAAAACTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:338090 original size:182 final size:182
Alignment explanation
Indices: 337768--338103 Score: 568
Period size: 182 Copynumber: 1.8 Consensus size: 182
337758 AAATTTGTCC
*
337768 CCCTTGAGACAGTTTCTCTTGAAACATAAGCATTGAAAACATTTCCCTTGAAATGAATTTTGTAT
1 CCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTAT
*
337833 CTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
66 CTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
337898 AACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT
131 AACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT
* * *
337950 CCCTTGAGACAGTTTGTCTTGGAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCT
1 CCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTAT
*
338015 CTCTTGAGACAGTTTCCCTTGGAAC-AAATTTTGTCTCCCTTGAGAC-GATTTCTCTTGAAACAT
66 CTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTCTTGAAACAT
* *
338078 AAAACTTTGAAAACGTTTCCCTTGAA
130 -AAACATTGAAAACATTTCCCTTGAA
338104 GCACAAAATG
Statistics
Matches: 144, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
180 1 0.01
181 36 0.25
182 107 0.74
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (182 bp):
CCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTAT
CTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
AACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT
Found at i:338169 original size:97 final size:96
Alignment explanation
Indices: 338024--338199 Score: 246
Period size: 97 Copynumber: 1.8 Consensus size: 96
338014 TCTCTTGAGA
* * *
338024 CAGTTTCCCTTGGAACAAATTTTGTCTCCCTTGAGACGATTTCTCTTGAAACATAAAACTTTGAA
1 CAGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACGATTTCCCTTGAAACA-AAAACTTTGAA
338089 AACGTTTCCCTTGAAGCACAAAATGTTTGAAT
65 AACGTTTCCCTTGAAGCACAAAATGTTTGAAT
* * *
338121 CAGTTTCTCTTGAAACAAATTTTGTCTCTCTTAAGAC-AGTTTCCCTTGAAACAAAATCTTTGAA
1 CAGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACGA-TTTCCCTTGAAACAAAAACTTTGAA
* * *
338185 TATGTTTTCCTTGAA
65 AACGTTTCCCTTGAA
338200 ACTAATTTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
96 23 0.33
97 46 0.67
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (96 bp):
CAGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACGATTTCCCTTGAAACAAAAACTTTGAAA
ACGTTTCCCTTGAAGCACAAAATGTTTGAAT
Found at i:338185 original size:65 final size:65
Alignment explanation
Indices: 338092--338228 Score: 179
Period size: 65 Copynumber: 2.1 Consensus size: 65
338082 CTTTGAAAAC
* * * *
338092 GTTTCCCTTGAAGCACAAAATGTTTGAATCAG-TTTCTCTTGAAACAAATTTTGTCTCTCTTAAG
1 GTTTCCCTTGAA--ACAAAATCTTTGAATCAGTTTTC-CTTGAAACAAATTTCGTCTCCCTTGAG
338156 ACA
63 ACA
*
338159 GTTTCCCTTGAAACAAAATCTTTGAAT-ATGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGAC
1 GTTTCCCTTGAAACAAAATCTTTGAATCA-GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
338223 A
65 A
338224 GTTTC
1 GTTTC
338229 TTTTAGAACT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
64 1 0.02
65 46 0.73
66 4 0.06
67 12 0.19
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (65 bp):
GTTTCCCTTGAAACAAAATCTTTGAATCAGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:338256 original size:37 final size:36
Alignment explanation
Indices: 338190--338412 Score: 180
Period size: 37 Copynumber: 6.4 Consensus size: 36
338180 TTGAATATGT
* *
338190 TTTC-CTTGAAACTAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACTAATTTAGTCTCTCTTGAGACAG
* *
338225 TTTCT-TTTAGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGA-AACTAA-TTTAGTCTCTCTTGAGACAG
*
338262 TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACTAATTTAGTCTCTCTTGAGACAG
* **
338298 TTTCCCTTGAAAC-AA---AG--TCT-TTGA-ATTTG
1 TTTCTCTTGAAACTAATTTAGTCTCTCTTGAGA-CAG
* *
338327 TTT-TCCTTGAAACTAATTTCGTCTCCCTTGAGACAG
1 TTTCT-CTTGAAACTAATTTAGTCTCTCTTGAGACAG
* * * * *
338363 TTTCTCTTAAAACAAAATTTTGTCTCCCTTGAGACCG
1 TTTCTCTTGAAAC-TAATTTAGTCTCTCTTGAGACAG
*
338400 TTTCTCATGAAAC
1 TTTCTCTTGAAAC
338413 AACAGATATC
Statistics
Matches: 152, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.01
29 16 0.11
30 5 0.03
32 2 0.01
33 1 0.01
35 11 0.07
36 52 0.34
37 61 0.40
38 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACTAATTTAGTCTCTCTTGAGACAG
Found at i:338287 original size:138 final size:138
Alignment explanation
Indices: 338121--338414 Score: 489
Period size: 138 Copynumber: 2.1 Consensus size: 138
338111 ATGTTTGAAT
*
338121 CAGTTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
1 CAGTTTCTCTTGAAACAAATTTAGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
* * * *
338186 ATGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGTTTTGTCTC
66 ATGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTC
*
338251 TCTTGAGA
131 CCTTGAGA
* *
338259 CAGTTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTCTTTGAAT
1 CAGTTTCTCTTGAAACAAATTTAGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
*
338324 TTGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTC
66 ATGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTC
338389 CCTTGAGA
131 CCTTGAGA
* *
338397 CCGTTTCTCATGAAACAA
1 CAGTTTCTCTTGAAACAA
338415 CAGATATCTT
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 145 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (138 bp):
CAGTTTCTCTTGAAACAAATTTAGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
ATGTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATTTTGTCTC
CCTTGAGA
Found at i:338293 original size:36 final size:36
Alignment explanation
Indices: 338190--338313 Score: 153
Period size: 36 Copynumber: 3.4 Consensus size: 36
338180 TTGAATATGT
* * *
338190 TTTC-CTTGAAACTAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
* * *
338225 TTTCT-TTTAGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGA-AAC-AAATTTAGTCTCTCTTGAGACAG
338262 TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
*
338298 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
338314 GTCTTTGAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
35 7 0.09
36 39 0.51
37 27 0.36
38 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
Found at i:340070 original size:2 final size:2
Alignment explanation
Indices: 340065--340102 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
340055 CCTATTATTA
340065 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
340103 TATTTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:340589 original size:5 final size:5
Alignment explanation
Indices: 340581--340631 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
340571 TATTCTTCTC
* *
340581 TTTAT TTTAT TTTAT TTTAT TTTATT TTTAT TTTAT TCT-T TTTAT CTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT
340631 T
1 T
340632 GGTTCTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
4 3 0.08
5 32 0.80
6 5 0.12
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:340601 original size:15 final size:15
Alignment explanation
Indices: 340581--340631 Score: 68
Period size: 16 Copynumber: 3.4 Consensus size: 15
340571 TATTCTTCTC
340581 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
340596 TTTATTTTATTTTTAT
1 TTTATTTTA-TTTTAT
*
340612 TTTATTCT-TTTTAT
1 TTTATTTTATTTTAT
*
340626 CTTATT
1 TTTATT
340632 GGTTCTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 11 0.33
15 9 0.27
16 13 0.39
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:351737 original size:706 final size:706
Alignment explanation
Indices: 350381--351796 Score: 2742
Period size: 706 Copynumber: 2.0 Consensus size: 706
350371 CTACTTGTGG
350381 TATAGACAAAATAGAATGGTGTTACTACTATTCACTTGTTGGGTCACCTGTTAACCTGACGTTCG
1 TATAGACAAAATAGAATGGTGTTACTACTATTCACTTGTTGGGTCACCTGTTAACCTGACGTTCG
*
350446 ACTTAGGTTTGCTAATTAGTGGCGACACTCTAGTCATTCTCATCATGATTTCCCTCGATTCACCC
66 ACTTAGGTTTGCTAATTAGTGGAGACACTCTAGTCATTCTCATCATGATTTCCCTCGATTCACCC
350511 TTGAATTAGAGAGACGAATGACACACTCTCATCATGTGTAAGTAACTCGTATAGGTTATTTTATT
131 TTGAATTAGAGAGACGAATGACACACTCTCATCATGTGTAAGTAACTCGTATAGGTTATTTTATT
350576 CATTGAGACATATAAGGGTAAATTGGTAATTTTAACCCCAAGTGCATTTTAGCGATGTCACACAC
196 CATTGAGACATATAAGGGTAAATTGGTAATTTTAACCCCAAGTGCATTTTAGCGATGTCACACAC
350641 TCGAGCTAGAAGCATGACCTTAATTGTAACACCCCCAACCCGTACCCGACCCGGATACGAGTCCG
261 TCGAGCTAGAAGCATGACCTTAATTGTAACACCCCCAACCCGTACCCGACCCGGATACGAGTCCG
350706 AGGTGTCACATTGACTTCTCAAACTTTGACTCTTGACAAAATTCAAAGAAAATTTAAAACTTTCC
326 AGGTGTCACATTGACTTCTCAAACTTTGACTCTTGACAAAATTCAAAGAAAATTTAAAACTTTCC
350771 TTAGAGTAAAAGCAGTTTAGTTACATAATGTGACCACAATAACCAAAATCGATCAGAGCATATTT
391 TTAGAGTAAAAGCAGTTTAGTTACATAATGTGACCACAATAACCAAAATCGATCAGAGCATATTT
*
350836 AACTCAATAAATTAGTACATGCCAAATATATTCAAAATAAAAAAAATCATTTAACTCATCTATTT
456 AACTCAATAAATTAGTACATGCCAAATATATTAAAAATAAAAAAAATCATTTAACTCATCTATTT
350901 TCTGATCTGAAATCTTGTAAGGGAGATGCTGACCTATATTGCTCCTCACAGCTTCCATATTCACT
521 TCTGATCTGAAATCTTGTAAGGGAGATGCTGACCTATATTGCTCCTCACAGCTTCCATATTCACT
350966 TTCTGTAACCTGCGTGTGAAACACTCACACGCTAAGTCGATGACTTAGTGAGGCATAAAGAAAAC
586 TTCTGTAACCTGCGTGTGAAACACTCACACGCTAAGTCGATGACTTAGTGAGGCATAAAGAAAAC
351031 ACATCTAATGGAATTCATACCCACTAATCATGCATGACTGTTTTATGCTATCAAAT
651 ACATCTAATGGAATTCATACCCACTAATCATGCATGACTGTTTTATGCTATCAAAT
*
351087 TATAGACAAACTAGAATGGTGTTACTACTATTCACTTGTTGGGTCACCTGTTAACCTGACGTTCG
1 TATAGACAAAATAGAATGGTGTTACTACTATTCACTTGTTGGGTCACCTGTTAACCTGACGTTCG
351152 ACTTAGGTTTGCTAATTAGTGGAGACACTCTAGTCATTCTCATCATGATTTCCCTCGATTCACCC
66 ACTTAGGTTTGCTAATTAGTGGAGACACTCTAGTCATTCTCATCATGATTTCCCTCGATTCACCC
351217 TTGAATTAGAGAGACGAATGACACACTCTCATCATGTGTAAGTAACTCGTATAGGTTATTTTATT
131 TTGAATTAGAGAGACGAATGACACACTCTCATCATGTGTAAGTAACTCGTATAGGTTATTTTATT
351282 CATTGAGACATATAAGGGTAAATTGGTAATTTTAACCCCAAGTGCATTTTAGCGATGTCACACAC
196 CATTGAGACATATAAGGGTAAATTGGTAATTTTAACCCCAAGTGCATTTTAGCGATGTCACACAC
351347 TCGAGCTAGAAGCATGACCTTAATTGTAACACCCCCAACCCGTACCCGACCCGGATACGAGTCCG
261 TCGAGCTAGAAGCATGACCTTAATTGTAACACCCCCAACCCGTACCCGACCCGGATACGAGTCCG
*
351412 AGGTGTCACATTGACTTTTCAAACTTTGACTCTTGACAAAATTCAAAGAAAATTTAAAACTTTCC
326 AGGTGTCACATTGACTTCTCAAACTTTGACTCTTGACAAAATTCAAAGAAAATTTAAAACTTTCC
351477 TTAGAGTAAAAGCAGTTTAGTTACATAATGTGACCACAATAACCAAAATCGATCAGAGCATATTT
391 TTAGAGTAAAAGCAGTTTAGTTACATAATGTGACCACAATAACCAAAATCGATCAGAGCATATTT
* * *
351542 AACTCAATCAATTAGTACATGCCAACTATATTAAAAATAACAAAAATCATTTAACTCATCTATTT
456 AACTCAATAAATTAGTACATGCCAAATATATTAAAAATAAAAAAAATCATTTAACTCATCTATTT
*
351607 TCTGATCTGAAATCTTGTAAGGGAGATGCTGACCTATATTGCTCCTCACGGCTTCCATATTCACT
521 TCTGATCTGAAATCTTGTAAGGGAGATGCTGACCTATATTGCTCCTCACAGCTTCCATATTCACT
* *
351672 TTCTGTAACCTGCGTGTGAAACACTTACACGCTAAGTCGATGACTTAGTGAGGCATAACGAAAAC
586 TTCTGTAACCTGCGTGTGAAACACTCACACGCTAAGTCGATGACTTAGTGAGGCATAAAGAAAAC
351737 ACATCTAATGGAATTCATACCCACTAATCATGCATGACTGTTTTATGCTATCAAAT
651 ACATCTAATGGAATTCATACCCACTAATCATGCATGACTGTTTTATGCTATCAAAT
351793 TATA
1 TATA
351797 CAACTCATTT
Statistics
Matches: 700, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
706 700 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (706 bp):
TATAGACAAAATAGAATGGTGTTACTACTATTCACTTGTTGGGTCACCTGTTAACCTGACGTTCG
ACTTAGGTTTGCTAATTAGTGGAGACACTCTAGTCATTCTCATCATGATTTCCCTCGATTCACCC
TTGAATTAGAGAGACGAATGACACACTCTCATCATGTGTAAGTAACTCGTATAGGTTATTTTATT
CATTGAGACATATAAGGGTAAATTGGTAATTTTAACCCCAAGTGCATTTTAGCGATGTCACACAC
TCGAGCTAGAAGCATGACCTTAATTGTAACACCCCCAACCCGTACCCGACCCGGATACGAGTCCG
AGGTGTCACATTGACTTCTCAAACTTTGACTCTTGACAAAATTCAAAGAAAATTTAAAACTTTCC
TTAGAGTAAAAGCAGTTTAGTTACATAATGTGACCACAATAACCAAAATCGATCAGAGCATATTT
AACTCAATAAATTAGTACATGCCAAATATATTAAAAATAAAAAAAATCATTTAACTCATCTATTT
TCTGATCTGAAATCTTGTAAGGGAGATGCTGACCTATATTGCTCCTCACAGCTTCCATATTCACT
TTCTGTAACCTGCGTGTGAAACACTCACACGCTAAGTCGATGACTTAGTGAGGCATAAAGAAAAC
ACATCTAATGGAATTCATACCCACTAATCATGCATGACTGTTTTATGCTATCAAAT
Found at i:352116 original size:23 final size:23
Alignment explanation
Indices: 352085--352153 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
352075 CACCACAGCT
* *
352085 CGTATAATTGCGCCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
352108 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
352131 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
352154 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:352340 original size:103 final size:103
Alignment explanation
Indices: 352177--352484 Score: 562
Period size: 103 Copynumber: 3.0 Consensus size: 103
352167 ATAAGGACTT
352177 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
*
352242 ACATGTTTCAAAGAATACATATATGTCCCGAAGGACCA
66 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
352280 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
352345 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
66 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
* * * *
352383 CATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAATATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
*
352448 ACATGTTCCAAAGAATACATATATGTCCTGAAGGACC
66 ACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
352485 GCGTAGACCC
Statistics
Matches: 199, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 199 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (103 bp):
CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCAC
ACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
Found at i:354768 original size:13 final size:14
Alignment explanation
Indices: 354750--354789 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
354740 TATTTCCTTT
354750 TTCTTTTTTTCTC-
1 TTCTTTTTTTCTCA
354763 TTCTTTTTTTCTCA
1 TTCTTTTTTTCTCA
*
354777 TTTTTCTTTTTCT
1 TTCTT-TTTTTCT
354790 TTTTCTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 4 0.17
15 7 0.29
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTTTCTCA
Found at i:354771 original size:21 final size:20
Alignment explanation
Indices: 354746--354796 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
354736 TATTTATTTC
354746 CTTTTTCTTTTTTTCTCTTCTT
1 CTTTTTCTTTTTTTCT-TT-TT
*
354768 -TTTTTCTCATTTTTCTTTTT
1 CTTTTTCT-TTTTTTCTTTTT
354788 CTTTTTCTT
1 CTTTTTCTT
354797 CAAGCTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTCTTTTTTTCTTTTT
Found at i:373248 original size:15 final size:15
Alignment explanation
Indices: 373228--373257 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
373218 TTTTTTACTA
373228 TCATGCACCCTAAAT
1 TCATGCACCCTAAAT
373243 TCATGCACCCTAAAT
1 TCATGCACCCTAAAT
373258 CCGATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
TCATGCACCCTAAAT
Found at i:386165 original size:19 final size:19
Alignment explanation
Indices: 386141--386178 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
386131 GATAAATAAG
*
386141 ATAAAATAAAGAGAACAAA
1 ATAAAAAAAAGAGAACAAA
*
386160 ATAAAAAAAAGATAACAAA
1 ATAAAAAAAAGAGAACAAA
386179 TGTAATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (19 bp):
ATAAAAAAAAGAGAACAAA
Found at i:398536 original size:2 final size:2
Alignment explanation
Indices: 398523--398563 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
398513 TACACAAAAG
*
398523 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
398564 CTATTAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:400168 original size:13 final size:13
Alignment explanation
Indices: 400132--400175 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
400122 GGTTACAACC
400132 TGACCCAACCCGT
1 TGACCCAACCCGT
*
400145 TGACCAAACCCGT
1 TGACCCAACCCGT
* *
400158 TGACCCGACCCAT
1 TGACCCAACCCGT
400171 TGACC
1 TGACC
400176 GGCGTTGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.25, C:0.43, G:0.16, T:0.16
Consensus pattern (13 bp):
TGACCCAACCCGT
Found at i:400790 original size:24 final size:27
Alignment explanation
Indices: 400763--400819 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
400753 TTCTATAACT
400763 GAATACT-TGG-A-GGGAAAATTATGA
1 GAATACTCTGGCATGGGAAAATTATGA
*
400787 GAATACTCTGGCATGGTAAAATTATGA
1 GAATACTCTGGCATGGGAAAATTATGA
*
400814 AAATAC
1 GAATAC
400820 CCTTATATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.25
25 3 0.11
26 1 0.04
27 17 0.61
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
GAATACTCTGGCATGGGAAAATTATGA
Found at i:402638 original size:24 final size:24
Alignment explanation
Indices: 402546--402640 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
402536 ATTTCCTACT
* *
402546 TGAATTCTATTCTGA-TACATTATC
1 TGAATTCTATTCTGATTTC-TGATC
* * *
402570 TGAATTTTGTTCCGATTTCTGATC
1 TGAATTCTATTCTGATTTCTGATC
* * *
402594 TGGATTCTGTTCTGATATCTGATC
1 TGAATTCTATTCTGATTTCTGATC
*
402618 TGAATTCTATTTTGATTTCTGAT
1 TGAATTCTATTCTGATTTCTGAT
402641 ATCTCTGTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 55 0.96
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (24 bp):
TGAATTCTATTCTGATTTCTGATC
Found at i:404708 original size:13 final size:13
Alignment explanation
Indices: 404690--404722 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
404680 GGTTACAACC
404690 TGACCCGACCCGT
1 TGACCCGACCCGT
404703 TGACCCGACCCGT
1 TGACCCGACCCGT
404716 TGACCCG
1 TGACCCG
404723 TTGATCGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.45, G:0.24, T:0.15
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:407261 original size:24 final size:23
Alignment explanation
Indices: 407234--407320 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 23
407224 ATTTTCAACT
*
407234 TGAATTCTGTTCTGATACATTACC
1 TGAATTCTGTTCTGATAC-TTATC
* *
407258 TGAATTATGTTCTGAT-TTCTATC
1 TGAATTCTGTTCTGATACT-TATC
* *
407281 TGGATTCTGTTCTGATATCTGATC
1 TGAATTCTGTTCTGATA-CTTATC
*
407305 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
407321 TTCTAATATC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 17 0.33
24 32 0.63
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTTATC
Found at i:407324 original size:12 final size:12
Alignment explanation
Indices: 407265--407324 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
407255 ACCTGAATTA
407265 TGTTCTGATTTC
1 TGTTCTGATTTC
*
407277 T-ATCTGGA-TTC
1 TGTTCT-GATTTC
*
407288 TGTTCTGATATC
1 TGTTCTGATTTC
* *
407300 TGATCTGAATTC
1 TGTTCTGATTTC
*
407312 TGTTTTGATTTC
1 TGTTCTGATTTC
407324 T
1 T
407325 AATATCTTCG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
11 9 0.25
12 27 0.75
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (12 bp):
TGTTCTGATTTC
Found at i:411772 original size:7 final size:6
Alignment explanation
Indices: 411751--411789 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
411741 ATTAACACCT
* *
411751 TTTGCA TTTGCA TTTGGCA TTTACA TTTGCA TTAGCA TT
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TT
411790 GCTTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (6 bp):
TTTGCA
Found at i:414005 original size:2 final size:2
Alignment explanation
Indices: 413994--414027 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
413984 TAAAGGCGAT
413994 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
414028 TTACAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:415878 original size:41 final size:41
Alignment explanation
Indices: 415774--415881 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 41
415764 TTCTTACTTA
* * *
415774 ATAAGTCCTTCAGGCCATC-AGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCTA-TAAGTCTTTCAAGCAAGATG
* * * *
415815 ATTAAATTCTTCGGGTCATCTATCAGTCTTTCAAGCAAGATG
1 A-TAAGTCCTTCGGGCCATCTATAAGTCTTTCAAGCAAGATG
415857 ATAAGTCCTTCGGGCCATCTATAAG
1 ATAAGTCCTTCGGGCCATCTATAAG
415882 ACCTTCGGGC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 21 0.39
42 32 0.59
43 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCTATAAGTCTTTCAAGCAAGATG
Found at i:415894 original size:41 final size:41
Alignment explanation
Indices: 415774--415897 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
415764 TTCTTACTTA
* *
415774 ATAAGTCCTTCAGGCCATC-AGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAAGATG
* * * * *
415815 ATTAAATTCTTCGGGTCATCTATCAGTCTTTCAAGCAAGATG
1 A-TAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATG
* * *
415857 ATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAAGATG
1 ATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATG
415898 TTTTCACCTG
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
41 33 0.50
42 32 0.48
43 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATG
Found at i:416240 original size:258 final size:259
Alignment explanation
Indices: 415775--416470 Score: 999
Period size: 258 Copynumber: 2.7 Consensus size: 259
415765 TCTTACTTAA
* * * *
415775 TAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTCATCTATCA
1 TAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCA
* * *
415840 GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCAC
66 GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGATCTTCAGGCAAGATGTTTTCAT
* *
415905 CTGATTTTCAAAAAATTAGAAAGAG-TTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
131 ATGATTTTCAAAAAATTAGAAAGAGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
* ** *
415969 TTTTTGAAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGT-AGACTATT-TCCAAAATTG
196 TTTCTGAAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAG-CTATTGT-CAAAATTG
416032 G
259 G
* * *
416033 TAAGTCCTTCGGGCCATCAGTAAACCTTTCGAGCATGATGATTAAATCCTTCGTGTGATCTGTCA
1 TAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCA
*
416098 GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGATCTTCAGGCATGATGTTTTCAT
66 GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGATCTTCAGGCAAGATGTTTTCAT
* * *
416163 ATGATTTTCAAAAACTTAGAAAGAGATTTTCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAA
131 ATGATTTTCAAAAAATTAGAAAGAGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
* *
416228 TTTCTG-AAAAGTAAGAAAACGATTTCCAATGTTTCTTACCCAATAAGCTATTGTTAAAATTGG
196 TTTCTGAAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAGCTATTGTCAAAATTGG
*
416291 TAAGTCCTTCGGGCCATCAGTAAATCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTCA
1 TAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCA
* * * * *
416356 GTCTTTCGAGCAAGATGATAAGTCATTTGGGTCATCTATAAGATCTTCAGGAAAGAT-TCTTTCA
66 GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGATCTTCAGGCAAGATGT-TTTCA
* ** *
416420 TGTGGTATTTGAAAGAAAATGAGAAA-ATGATTTTCAAAGTTTCTCATTTAA
130 TAT-G-ATTTTCAA-AAAATTAGAAAGA-GATTTTCAAAGTTTCTCATTTAA
416471 AATATTAAAA
Statistics
Matches: 393, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
257 1 0.00
258 308 0.78
259 45 0.11
260 7 0.02
261 32 0.08
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (259 bp):
TAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCA
GTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGATCTTCAGGCAAGATGTTTTCAT
ATGATTTTCAAAAAATTAGAAAGAGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
TTTCTGAAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAATAAGCTATTGTCAAAATTGG
Found at i:416361 original size:42 final size:41
Alignment explanation
Indices: 416295--416402 Score: 108
Period size: 42 Copynumber: 2.6 Consensus size: 41
416285 AATTGGTAAG
* * *
416295 TCCTTCGGGCCATCAGTAAATCTTTCAAGCATGATGATTAAA
1 TCCTTCGGGTCATCTGTAAATCTTTCAAGCAAGATGA-TAAA
* * * *
416337 TCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAG
1 TCCTTCGGGTCATCTGTAAATCTTTCAAGCAAGATGATAAA
* * *
416378 TCATTTGGGTCATCTATAAGATCTT
1 TCCTTCGGGTCATCTGTAA-ATCTT
416403 CAGGAAAGAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 18 0.34
42 35 0.66
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (41 bp):
TCCTTCGGGTCATCTGTAAATCTTTCAAGCAAGATGATAAA
Found at i:416825 original size:45 final size:44
Alignment explanation
Indices: 416774--417170 Score: 331
Period size: 45 Copynumber: 8.9 Consensus size: 44
416764 AGTGGTGTTA
*
416774 TTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTGTC
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTC
* * *
416818 TTCCTTGACTTTGTTGTGAAGAGGAGTCAAACTTTTAGTGATTGTC
1 TT-CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGT-ATTGTC
*
416864 TTCTTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAG-AGTTGTC
1 TTC-TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTA-TTGTC
* * *
416909 ATTCTTGACTTTCTTGTGAAGAGGAGT-AAACTTTTAGTATTTTC
1 -TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTC
* * * * * *
416953 ATTCTTGAATTTCTCGTGAAGAGAATTCAATCTTTAAGTGTTGGCC
1 -TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATT-GTC
* * * ** * *
416999 TAT-TTGACTTTCTCGTGAAAAGAAATTGATCTTTTAGTGTTGACC
1 T-TCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTG-TC
* * *
417044 TAT-TTGATTTTCTCGTGAAGAGGAGTCGATC-TTTAGTGTTGTCC
1 T-TCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGT-C
* * * * *
417088 TACTTGACTTTATCGTGAAGAGAAATCAACCTTTTAGTGGTATTG--
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTA---GTATTGTC
* * *
417133 TTCTTAACTTTCTCGTGAAGAGAAGTCAACCTTTTAGT
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGT
417171 GATATCATTC
Statistics
Matches: 292, Mismatches: 45, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.01
44 73 0.25
45 169 0.58
46 43 0.15
48 5 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (44 bp):
TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTC
Found at i:417006 original size:89 final size:91
Alignment explanation
Indices: 416759--417211 Score: 365
Period size: 89 Copynumber: 5.0 Consensus size: 91
416749 AGAAATTAAC
* * * * * *
416759 CTTTTAGTG-GTGTTATTCTTGACTTTCTCGTGAAGATG-AGTCAATCTTTTAGTATTGTCTTCC
1 CTTTTAGTGATTGTCATTCTTGAATTTCTCGTGAAGA-GAAGTCAATCTTTTAGTGTTGTCCTAC
* * *
416822 TTGACTTTGTTGTGAAGAGGAGTCAAA
65 TTGACTTTCTCGTGAAGAGAAGTCAAA
* * * * * *
416849 CTTTTAGTGATTGTC-TTCTTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGAGTTGTCATTC
1 CTTTTAGTGATTGTCATTC-TTGAATTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCCTAC
* *
416913 TTGACTTTCTTGTGAAGAGGAGT-AAA
65 TTGACTTTCTCGTGAAGAGAAGTCAAA
* * * * *
416939 CTTTTAGT-ATTTTCATTCTTGAATTTCTCGTGAAGAGAATTCAATCTTTAAGTGTTGGCCTATT
1 CTTTTAGTGATTGTCATTCTTGAATTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCCTACT
* * ** *
417003 TGACTTTCTCGTGAAAAGAAATTGAT
66 TGACTTTCTCGTGAAGAGAAGTCAAA
* * * * *
417029 CTTTTAGTG-TTGACCTAT-TTGATTTTCTCGTGAAGAGGAGTCGATC-TTTAGTGTTGTCCTAC
1 CTTTTAGTGATTGTCAT-TCTTGAATTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCCTAC
* * *
417091 TTGACTTTATCGTGAAGAGAAATCAAC
65 TTGACTTTCTCGTGAAGAGAAGTCAAA
* *
417118 CTTTTAGTGGTATTG---TTCTT-AACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATATCAT
1 CTTTTAGT-G-ATTGTCATTCTTGAA-TTTCTCGTGAAGAGAAGTCAATCTTTTAGTG-T-T--G
*
417179 TCTCAACTTGACTTTCTCGTGGAA-AGAAGTCAA
59 TC-CTACTTGACTTTCTCGT-GAAGAGAAGTCAA
417212 TTTTTCAGTA
Statistics
Matches: 297, Mismatches: 47, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
88 2 0.01
89 126 0.42
90 72 0.24
91 65 0.22
92 4 0.01
94 2 0.01
95 23 0.08
96 3 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (91 bp):
CTTTTAGTGATTGTCATTCTTGAATTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCCTACT
TGACTTTCTCGTGAAGAGAAGTCAAA
Found at i:417167 original size:134 final size:135
Alignment explanation
Indices: 416759--417171 Score: 399
Period size: 134 Copynumber: 3.1 Consensus size: 135
416749 AGAAATTAAC
* ** * * *
416759 CTTTTAGTGGTGTTATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTGTCTTCCTT
1 CTTTTAGTGTTGACATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTCATACTT
* * * * *
416824 GACTTTGTTGTGAAGAGGAGTCAAACTTTTAGTG-ATTGTCTTCTTTGACTTTCTCGTGAAGAGG
66 GACTTTATCGTGAAGAGAAATCAAACTTTTAGTGTATTG-CTTC-TTGACTTTCTCGTGAAGAGA
416888 AGTCAAT
129 AGTCAAT
* * * * * * *
416895 CTTTCAGAGTTGTCATTCTTGACTTTCTTGTGAAGAGGAGT-AAACTTTTAGTATTTTCATTCTT
1 CTTTTAGTGTTGACATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTCATACTT
* * * * * * *
416959 GAATTTCTCGTGAAGAGAATTCAATCTTTAAGTGT-TGGCCTAT-TTGACTTTCTCGTGAAAAGA
66 GACTTTATCGTGAAGAGAAATCAAACTTTTAGTGTATTG-CT-TCTTGACTTTCTCGTGAAGAGA
* **
417022 AATTGAT
129 AGTCAAT
* * * * *
417029 CTTTTAGTGTTGACCTAT-TTGATTTTCTCGTGAAGAGGAGTCGATC-TTTAGTGTTGTCCTACT
1 CTTTTAGTGTTGACAT-TCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTCATACT
* *
417092 TGACTTTATCGTGAAGAGAAATCAACCTTTTAGTGGTATTG-TTCTTAACTTTCTCGTGAAGAGA
65 TGACTTTATCGTGAAGAGAAATCAAACTTTTAGT-GTATTGCTTCTTGACTTTCTCGTGAAGAGA
*
417156 AGTCAAC
129 AGTCAAT
417163 CTTTTAGTG
1 CTTTTAGTG
417172 ATATCATTCT
Statistics
Matches: 222, Mismatches: 48, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
133 1 0.00
134 128 0.58
135 55 0.25
136 38 0.17
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (135 bp):
CTTTTAGTGTTGACATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTATTGTCATACTT
GACTTTATCGTGAAGAGAAATCAAACTTTTAGTGTATTGCTTCTTGACTTTCTCGTGAAGAGAAG
TCAAT
Found at i:417187 original size:45 final size:45
Alignment explanation
Indices: 416759--417216 Score: 326
Period size: 45 Copynumber: 10.1 Consensus size: 45
416749 AGAAATTAAC
* *
416759 CTTTTAGTGGTGTTATTCTTGACTTTCTCGTGAAGATG-AGTCAAT
1 CTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGA-GAAGTCAAT
* * * *
416804 CTTTTAGT-ATTGTC-TTCCTTGACTTTGTTGTGAAGAGGAGTCAAA
1 CTTTTAGTGA-TGTCATT-CTTGACTTTCTCGTGAAGAGAAGTCAAT
*
416849 CTTTTAGTGATTGTC-TTCTTTGACTTTCTCGTGAAGAGGAGTCAAT
1 CTTTTAGTGA-TGTCATTC-TTGACTTTCTCGTGAAGAGAAGTCAAT
* * * * * *
416895 CTTTCAGAGTTGTCATTCTTGACTTTCTTGTGAAGAGGAGT-AAA
1 CTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAAT
* * *
416939 CTTTTAGT-ATTTTCATTCTTGAATTTCTCGTGAAGAGAATTCAAT
1 CTTTTAGTGA-TGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAAT
* * * * * * **
416984 CTTTAAGTGTTGGCCTAT-TTGACTTTCTCGTGAAAAGAAATTGAT
1 CTTTTAGTGATGTCAT-TCTTGACTTTCTCGTGAAGAGAAGTCAAT
* * * * * *
417029 CTTTTAGTGTTGACCTAT-TTGATTTTCTCGTGAAGAGGAGTCGAT
1 CTTTTAGTGATGTCAT-TCTTGACTTTCTCGTGAAGAGAAGTCAAT
* * * * * *
417074 C-TTTAGTGTTGTCCTACTTGACTTTATCGTGAAGAGAAATCAAC
1 CTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAAT
* * ** * *
417118 CTTTTAGTGGTATTGTTCTTAACTTTCTCGTGAAGAGAAGTCAAC
1 CTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAAT
*
417163 CTTTTAGTGATATCATTCTCAACTTGACTTTCTCGTGGAA-AGAAGTCAAT
1 CTTTTAGTGATGTCA-T-T---CTTGACTTTCTCGT-GAAGAGAAGTCAAT
417213 -TTTT
1 CTTTT
417217 CAGTAGTATC
Statistics
Matches: 335, Mismatches: 60, Indels: 32
0.78 0.14 0.07
Matches are distributed among these distances:
44 72 0.21
45 189 0.56
46 44 0.13
47 1 0.00
49 4 0.01
50 22 0.07
51 3 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (45 bp):
CTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAAT
Found at i:417210 original size:50 final size:51
Alignment explanation
Indices: 417139--417247 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 51
417129 ATTGTTCTTA
417139 ACTTTCTCGTGAAGAGAAGTCAACCTTTT-AGT-GATATCATT-CTCAACTTG
1 ACTTTCTCGTGAAGAGAAGTCAA-CTTTTCAGTAG-TATCATTCCTCAACTTG
*
417189 ACTTTCTCGTGGAA-AGAAGTCAATTTTTCAGTAGTATCATTCCTCAACTTG
1 ACTTTCTCGT-GAAGAGAAGTCAACTTTTCAGTAGTATCATTCCTCAACTTG
417240 ACTTTCTC
1 ACTTTCTC
417248 ATATAGAGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
49 4 0.07
50 29 0.54
51 21 0.39
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (51 bp):
ACTTTCTCGTGAAGAGAAGTCAACTTTTCAGTAGTATCATTCCTCAACTTG
Found at i:417263 original size:51 final size:50
Alignment explanation
Indices: 417139--417268 Score: 129
Period size: 51 Copynumber: 2.6 Consensus size: 50
417129 ATTGTTCTTA
* * * *
417139 ACTTTCTCGT-GAAGAGAAGTCAACCTTTTAGT-GATATCATTCTCAACTTG
1 ACTTTCTCATAGAA-AGAAATCAATCTTTCAGTAG-TATCATTCTCAACTTG
* * * *
417189 ACTTTCTCGTGGAAAGAAGTCAATTTTTCAGTAGTATCATTCCTCAACTTG
1 ACTTTCTCATAGAAAGAAATCAATCTTTCAGTAGTATCATT-CTCAACTTG
* *
417240 ACTTTCTCATATAGAGAAATCAATCTTTC
1 ACTTTCTCATAGAAAGAAATCAATCTTTC
417269 TGTAATGTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 32 0.47
51 36 0.53
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (50 bp):
ACTTTCTCATAGAAAGAAATCAATCTTTCAGTAGTATCATTCTCAACTTG
Found at i:418085 original size:134 final size:134
Alignment explanation
Indices: 417818--418441 Score: 668
Period size: 134 Copynumber: 4.6 Consensus size: 134
417808 ATGTTTGACT
* * * **
417818 TTTCAGATTTGGTTTTTTTAAAAGAGTAGTGAAGCAAATC-GTTTCCGATTCAATCTTCCCTGAA
1 TTTCAGATTTGGTCTTTCT-AAAGAGAAGTGAAGCAAATCAAATT-CGATTCAATCTTCCCTGAA
* ** * * * *
417882 GAACAGCAAAGTGAATCAAAATTTTCTCGAGTCTGA-CATCCCCTAAAAAGTAGCGGAGCATATT
64 GAGCAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGATC-TCCCCTAAAGAGTAGCAGAGCAGATT
417946 CTTCTTC
128 CTTCTTC
* * *
417953 TTTCAGATTTAGTCTTTCTAAAGAGAAGTGAAGCAAATCAAATTCGATTCAATATTCCCTAAAGA
1 TTTCAGATTTGGTCTTTCTAAAGAGAAGTGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGA
* * * * *
418018 GCAGCGAAGTGAATCAAA-TTATTATCGAGTCTGATCTCCCCTAAAGAGTAGCAAAACAGATTTT
66 GCAGTGAAGTGAATCAAAGTT-TTCTCGAGTCTGATCTCCCCTAAAGAGTAGCAGAGCAGATTCT
418082 TCTTC
130 TCTTC
* * * * * *
418087 TTTCAAATTTGGTATTCCTAAAGAGCAGCGAAGCAAATCAAAGTCGATTCAATCTTCCCTGAAGA
1 TTTCAGATTTGGTCTTTCTAAAGAGAAGTGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGA
* * * * *
418152 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGACCTCCCTTAAAGAGTAGCAGAGCAAACTCTT
66 GCAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCAGAGCAGATTCTT
*
418217 ATTC
131 CTTC
* * * * *
418221 TTTCAGATTTGGTCTTCCTGAAGA-ACAGTGAAGCAAAT-GAATTCTGATTCAACCTTCACTGAA
1 TTTCAGATTTGGTCTTTCTAAAGAGA-AGTGAAGCAAATCAAATTC-GATTCAATCTTCCCTGAA
* ** *
418284 GAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGATCAGATTC
64 GAGCAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCAGAGCAGATTC
* *
418349 ATGTTC
129 TTCTTC
* * * ***
418355 TTCCAGATTTGGTC-TTCTTGAAGAGCA-TCGAAGCAAATCACGCTCGATTCAATCTTCCCTGAA
1 TTTCAGATTTGGTCTTTC-TAAAGAGAAGT-GAAGCAAATCAAATTCGATTCAATCTTCCCTGAA
* *
418418 GAACAGTGAAGTGAATCGAAGTTT
64 GAGCAGTGAAGTGAATCAAAGTTT
418442 CCAGATATGA
Statistics
Matches: 412, Mismatches: 67, Indels: 21
0.82 0.13 0.04
Matches are distributed among these distances:
133 9 0.02
134 380 0.92
135 23 0.06
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (134 bp):
TTTCAGATTTGGTCTTTCTAAAGAGAAGTGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGA
GCAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCAGAGCAGATTCTT
CTTC
Found at i:418325 original size:268 final size:268
Alignment explanation
Indices: 417863--418441 Score: 752
Period size: 268 Copynumber: 2.2 Consensus size: 268
417853 AAATCGTTTC
** *
417863 CGATTCAATCTTCCCTGAAGAACAGCAAAGTGAATCAAAATTTTCTCGAGTCTGACATCCCCTAA
1 CGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGACATCCCCTAA
* * * * *
417928 AAAGTAGCGGAGCATATTCTTCTTCTTTCAGATTTAGTCTTTCTAAAGAGAAGTGAAGCAAATCA
66 AAAGTAGCAGAGCAAACTCTTATTCTTTCAGATTTAGTCTTCCTAAAGAGAAGTGAAGCAAATCA
* *
417993 AATTCGATTCAATATTCCCTAAAGAGCAGCGAAGTGAATCAAATTATTATCGAGTCTGATCTCCC
131 AATTCGATTCAACATTCACTAAAGAGCAGCGAAGTGAATCAAATTATTATCGAGTCTGATCTCCC
** *
418058 CTAAAGAGTAGCAAAACAGATTTTTCTTCTTTCAAATTTGGTATTCCTAAAGAGCAGCGAAGCAA
196 CTAAAGAGTAGCAAAACAGATTCATCTTCTTCCAAATTTGGTATTCCTAAAGAGCAGCGAAGCAA
418123 ATCAAAG-T
261 ATC-AAGCT
* * * *
418131 CGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGACCTCCCTTAA
1 CGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGACATCCCCTAA
* * *
418196 AGAGTAGCAGAGCAAACTCTTATTCTTTCAGATTTGGTCTTCCTGAAGA-ACAGTGAAGCAAAT-
66 AAAGTAGCAGAGCAAACTCTTATTCTTTCAGATTTAGTCTTCCTAAAGAGA-AGTGAAGCAAATC
* * * * * *
418259 GAATTCTGATTCAACCTTCACTGAAGAGCAGTGAAGTGGATCAAAGTT-TTCTCGAGTCTGATCT
130 AAATTC-GATTCAACATTCACTAAAGAGCAGCGAAGTGAATCAAA-TTATTATCGAGTCTGATCT
*** * * * * * * *
418323 CCCCTAAAGAGTAGTGGATCAGATTCATGTTCTTCCAGATTTGGTCTTCTTGAAGAGCATCGAAG
193 CCCCTAAAGAGTAGCAAAACAGATTCATCTTCTTCCAAATTTGGTATTCCTAAAGAGCAGCGAAG
*
418388 CAAATCACGCT
258 CAAATCAAGCT
*
418399 CGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCGAAGTTT
1 CGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAAGTTT
418442 CCAGATATGA
Statistics
Matches: 267, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
267 8 0.03
268 257 0.96
269 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (268 bp):
CGATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAAGTTTTCTCGAGTCTGACATCCCCTAA
AAAGTAGCAGAGCAAACTCTTATTCTTTCAGATTTAGTCTTCCTAAAGAGAAGTGAAGCAAATCA
AATTCGATTCAACATTCACTAAAGAGCAGCGAAGTGAATCAAATTATTATCGAGTCTGATCTCCC
CTAAAGAGTAGCAAAACAGATTCATCTTCTTCCAAATTTGGTATTCCTAAAGAGCAGCGAAGCAA
ATCAAGCT
Found at i:419855 original size:16 final size:16
Alignment explanation
Indices: 419816--419866 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 16
419806 AACCAAAAAA
419816 ATAACCG-AAAAA-CG
1 ATAACCGAAAAAACCG
419830 AT--CC-AAAAAACCG
1 ATAACCGAAAAAACCG
419843 ATAACCGAAAAAAACCG
1 ATAACCG-AAAAAACCG
419860 A-AACCGA
1 ATAACCGA
419867 TTTGGCGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
12 7 0.23
13 4 0.13
14 2 0.06
15 3 0.10
16 5 0.16
17 10 0.32
ACGTcount: A:0.57, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
ATAACCGAAAAAACCG
Found at i:419856 original size:17 final size:16
Alignment explanation
Indices: 419834--419866 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
419824 AAAACGATCC
419834 AAAAAACCGATAACCGA
1 AAAAAACCGA-AACCGA
419851 AAAAAACCGAAACCGA
1 AAAAAACCGAAACCGA
419867 TTTGGCGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.61, C:0.24, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAACCGAAACCGA
Found at i:424730 original size:60 final size:60
Alignment explanation
Indices: 424664--424802 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 60
424654 ATAAATCGAT
* * *
424664 AATATTAGTGACTAATTTGTTACTTTTT-AAACTTTAG-TGAGAAAAGCAAAAACTCAATCA
1 AATATTAGTGACCAATTTATTA-TTTTTGAAACTTTAGTTG-GAAAAACAAAAACTCAATCA
* * *
424724 AATATTAGTGACCAATTTATTATTTTTGAAACTTTAGTTGGAAAAACATAAACTTACTCA
1 AATATTAGTGACCAATTTATTATTTTTGAAACTTTAGTTGGAAAAACAAAAACTCAATCA
* *
424784 AACATTAGTGATC-ATTTAT
1 AATATTAGTGACCAATTTAT
424803 GTAATTTACC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 11 0.16
60 56 0.81
61 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (60 bp):
AATATTAGTGACCAATTTATTATTTTTGAAACTTTAGTTGGAAAAACAAAAACTCAATCA
Found at i:426422 original size:17 final size:17
Alignment explanation
Indices: 426402--426434 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
426392 ATATTTATTT
*
426402 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
426419 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
426435 TGTAGTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:429779 original size:120 final size:121
Alignment explanation
Indices: 429583--429823 Score: 475
Period size: 120 Copynumber: 2.0 Consensus size: 121
429573 AAAGTTACGT
429583 TTCAGTGGTTTTATTATCGATTTATTTTATTATATTACATTATCCATTGTTATATTTTAGTCACT
1 TTCAGTGGTTTTATTATCGATTTATTTTATTATATTACATTATCCATTGTTATATTTTAGTCACT
429648 GAGCTATTAACTTAGTTTAGTTTGATTGACATATTAAT-AAAAAGATTAATTTTTA
66 GAGCTATTAACTTAGTTTAGTTTGATTGACATATTAATAAAAAAGATTAATTTTTA
429703 TTCAGTGGTTTTATTATCGATTTATTTTATTATATTACATTATCCATTGTTATATTTTAGTCACT
1 TTCAGTGGTTTTATTATCGATTTATTTTATTATATTACATTATCCATTGTTATATTTTAGTCACT
429768 GAGCTATTAACTTAGTTTAGTTTGATTGACATATTAATAAAAAAGATTAATTTTTA
66 GAGCTATTAACTTAGTTTAGTTTGATTGACATATTAATAAAAAAGATTAATTTTTA
429824 ATTTGACTCG
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 103 0.86
121 17 0.14
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (121 bp):
TTCAGTGGTTTTATTATCGATTTATTTTATTATATTACATTATCCATTGTTATATTTTAGTCACT
GAGCTATTAACTTAGTTTAGTTTGATTGACATATTAATAAAAAAGATTAATTTTTA
Found at i:435479 original size:45 final size:45
Alignment explanation
Indices: 435383--435553 Score: 211
Period size: 45 Copynumber: 3.8 Consensus size: 45
435373 ATAAACTGGA
**
435383 AAAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * *
435427 AAAATAAGCTTATGAACTTATGGAACAAATGGTAAGTATAATGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * *
435472 AAGATAAGATTACGAGTTTAT-GAGATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGA-ATAAATGGTAAGTATATTGGT
435517 AAAATAAGCTTACGAGCTTATGGTTAATAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGG--AATAAATGGTAA
435554 AATATTGAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
44 25 0.24
45 67 0.64
46 1 0.01
47 11 0.10
48 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Done.