Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 51 of 335
Found at i:18368503 original size:18 final size:18
Alignment explanation
Indices: 18368480--18368592 Score: 129
Period size: 18 Copynumber: 6.3 Consensus size: 18
18368470 TTTATACAAA
*
18368480 TAATTCGGTTAATTCAAT
1 TAATTCGGTTAATTCGAT
**
18368498 TAATTCGGTTAATTTAAT
1 TAATTCGGTTAATTCGAT
* * * *
18368516 TAA-TCTAGATAATTTGAG
1 TAATTC-GGTTAATTCGAT
18368534 TAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
*
18368552 TAATTAGGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
*
18368570 TAATTCGGTTAATTCGTT
1 TAATTCGGTTAATTCGAT
18368588 TAATT
1 TAATT
18368593 TTATACTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
17 2 0.02
18 77 0.95
19 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:18384553 original size:13 final size:13
Alignment explanation
Indices: 18384535--18384560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18384525 GTTTCACCCC
18384535 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
18384548 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
18384561 GTTGCTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:18386451 original size:20 final size:21
Alignment explanation
Indices: 18386413--18386452 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18386403 CCCATTTTTC
*
18386413 ATTCTTTTTTACGTTTAAATTT
1 ATTCTTTTATACG-TTAAATTT
18386435 ATTCTTTTATACG-TAAAT
1 ATTCTTTTATACGTTAAAT
18386453 CTAGAGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTCTTTTATACGTTAAATTT
Found at i:18395159 original size:50 final size:53
Alignment explanation
Indices: 18395105--18395202 Score: 121
Period size: 50 Copynumber: 1.9 Consensus size: 53
18395095 TTCTATTATA
* ** *
18395105 TATTTATCTAATCTA-TTAT-ATATATTCTAATA-TATATTAGTATTAGAATT
1 TATTTATATAATCTATTTATAATATATTAGAATATTATATTAATATTAGAATT
* *
18395155 TATTTATATATTTTATTTATAATATATTAGAATATTATATTAATATTA
1 TATTTATATAATCTATTTATAATATATTAGAATATTATATTAATATTA
18395203 TTTTTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 12 0.31
51 4 0.10
52 11 0.28
53 12 0.31
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (53 bp):
TATTTATATAATCTATTTATAATATATTAGAATATTATATTAATATTAGAATT
Found at i:18395182 original size:24 final size:24
Alignment explanation
Indices: 18395102--18395182 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 24
18395092 TAATTCTATT
* * *
18395102 ATATATTTATCTAATCTA-TTAT-
1 ATATATTTATATATTTTATTTATA
* *
18395124 ATATATTCTAATATATATTAGTATTAGA
1 ATATATT-T-ATATATTTTA-T-TTATA
*
18395152 ATTTATTTATATATTTTATTTATA
1 ATATATTTATATATTTTATTTATA
18395176 ATATATT
1 ATATATT
18395183 AGAATATTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
22 7 0.16
23 1 0.02
24 16 0.36
25 1 0.02
26 9 0.20
27 4 0.09
28 6 0.14
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATATTTATATATTTTATTTATA
Found at i:18395233 original size:19 final size:19
Alignment explanation
Indices: 18395201--18395237 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18395191 ATATTAATAT
*
18395201 TATTTTTATATTATTTATC
1 TATTTCTATATTATTTATC
*
18395220 TATTTCTATTTTATTTAT
1 TATTTCTATATTATTTAT
18395238 TTCATTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTCTATATTATTTATC
Found at i:18395560 original size:45 final size:44
Alignment explanation
Indices: 18395509--18395643 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 44
18395499 AGTTTTTATT
18395509 TCAAACAAAAGATTACTAGCTTTAGATGGTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGAT-GTAATAAAAATTAAAGC
* * *
18395554 TCAAACAAAAGTTTACTAGGTTTAGATG--CTAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGTAATAAAAATTAAAGC
* *
18395596 TCAATCAAAAGATTACTAGCTTTAGATTCTAAT-AAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGA-TGTAATAAAAATTAAAGC
18395640 TCAA
1 TCAA
18395644 TAACCTATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 36 0.46
43 1 0.01
44 16 0.20
45 26 0.33
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.29
Consensus pattern (44 bp):
TCAAACAAAAGATTACTAGCTTTAGATGTAATAAAAATTAAAGC
Found at i:18398930 original size:100 final size:100
Alignment explanation
Indices: 18398757--18398956 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
18398747 TCTGCACCAA
18398757 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
1 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
*
18398822 TATATTACTCAAAACAGTATTGGGAAAAAAAGGAT
66 TATATTACTCAAAACAATATTGGGAAAAAAAGGAT
18398857 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
1 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
18398922 TATATTACTCAAAACAATATTGGGAAAAAAAGGAT
66 TATATTACTCAAAACAATATTGGGAAAAAAAGGAT
18398957 AGAAGTAGAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (100 bp):
CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
TATATTACTCAAAACAATATTGGGAAAAAAAGGAT
Found at i:18407456 original size:22 final size:22
Alignment explanation
Indices: 18407430--18407472 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18407420 GAGAATGTTC
18407430 ATTCTTGATTATAGACTTGTAT
1 ATTCTTGATTATAGACTTGTAT
18407452 ATTCTTGATTATAGACTTGTA
1 ATTCTTGATTATAGACTTGTA
18407473 CACCTAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTCTTGATTATAGACTTGTAT
Found at i:18415578 original size:46 final size:46
Alignment explanation
Indices: 18415421--18415589 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
18415411 GGCATCCGAA
* *
18415421 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGTCCGAA-
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAG
* * * *
18415466 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCAAG
18415513 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAG
*
18415559 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18415590 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.05
44 3 0.03
45 24 0.24
46 36 0.35
47 23 0.23
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAG
Found at i:18417601 original size:3 final size:3
Alignment explanation
Indices: 18417593--18417643 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
18417583 TATTTACTTC
18417593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18417640 TTA T
1 TTA T
18417644 CAACTAATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18418435 original size:22 final size:21
Alignment explanation
Indices: 18418391--18418448 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
18418381 TATATATATG
*
18418391 ATTTGTATGTATGATT-TGCTA
1 ATTTGTATGTATG-TTATGATA
18418412 ATTATGTATGTATGTTATGATA
1 ATT-TGTATGTATGTTATGATA
18418434 ATTTGT-TGT-TGTTAT
1 ATTTGTATGTATGTTAT
18418449 AATTTGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 6 0.18
20 3 0.09
21 8 0.24
22 17 0.50
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.55
Consensus pattern (21 bp):
ATTTGTATGTATGTTATGATA
Found at i:18419140 original size:20 final size:20
Alignment explanation
Indices: 18419111--18419158 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
18419101 ATATTTTATG
*
18419111 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
18419130 ATTATTTTAATGAGATATTT
1 ATTATTTTAATGAGATATAT
18419150 ATTATTTTA
1 ATTATTTTA
18419159 TTATTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:18419154 original size:3 final size:3
Alignment explanation
Indices: 18419148--18419192 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
18419138 AATGAGATAT
*
18419148 TTA TTA TT- TTA TTA TTA TT- TCA TTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
18419191 TT
1 TT
18419193 TAGTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18419164 original size:11 final size:11
Alignment explanation
Indices: 18419148--18419186 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
18419138 AATGAGATAT
18419148 TTATTATTTTA
1 TTATTATTTTA
*
18419159 TTATTATTTCA
1 TTATTATTTTA
18419170 TTATTATTTTA
1 TTATTATTTTA
18419181 TTATTA
1 TTATTA
18419187 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:18423990 original size:54 final size:54
Alignment explanation
Indices: 18423917--18424054 Score: 249
Period size: 54 Copynumber: 2.6 Consensus size: 54
18423907 ATTGTCGTTG
* *
18423917 CAGGGGATTTAGCCTGGACTGGTAATCCTGATAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
*
18423971 TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
18424025 CAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
18424055 CTGTAAGGAT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:18424146 original size:46 final size:46
Alignment explanation
Indices: 18424092--18424410 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 46
18424082 GCTCTCTGAA
18424092 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
18424138 -TAGAAATGTGTATGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
18424184 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
18424229 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGAAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
18424275 ATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
18424321 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
18424367 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
18424411 TCAAAGATAA
Statistics
Matches: 242, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 42 0.17
46 199 0.82
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:18435264 original size:30 final size:30
Alignment explanation
Indices: 18435230--18435290 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
18435220 GGAAGAATAA
18435230 TATCAGCAAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAACCAAGATATTTCTT
18435260 TATCAGCAAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAACCAAGATATTTCTT
18435290 T
1 T
18435291 CTCTTCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
TATCAGCAAAAAAAAACCAAGATATTTCTT
Found at i:18438805 original size:14 final size:15
Alignment explanation
Indices: 18438781--18438814 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18438771 TCGATATCGT
18438781 AAAAAGTATTTTAAG
1 AAAAAGTATTTTAAG
*
18438796 AAAAAG-ATTTTAAT
1 AAAAAGTATTTTAAG
18438810 AAAAA
1 AAAAA
18438815 AATAGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AAAAAGTATTTTAAG
Found at i:18439456 original size:6 final size:6
Alignment explanation
Indices: 18439445--18439471 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18439435 CATGTTCCAC
18439445 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
18439472 CTCCTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:18441166 original size:20 final size:20
Alignment explanation
Indices: 18441119--18441166 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18441109 GTTTTTTGGG
18441119 TTTCCAAGCTTTTAGCATAA
1 TTTCCAAGCTTTTAGCATAA
* *
18441139 TCTGCCAAG-TTTTTGCATTAA
1 T-TTCCAAGCTTTTAGCA-TAA
18441160 TTTCCAA
1 TTTCCAA
18441167 AGAAGAGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCCAAGCTTTTAGCATAA
Found at i:18450862 original size:8 final size:8
Alignment explanation
Indices: 18450849--18450878 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
18450839 AAAATAGGCT
18450849 TAAAATGA
1 TAAAATGA
18450857 TAAAATGA
1 TAAAATGA
18450865 TAAAATGA
1 TAAAATGA
18450873 TAAAAT
1 TAAAAT
18450879 TCGGTCCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (8 bp):
TAAAATGA
Found at i:18459757 original size:2 final size:2
Alignment explanation
Indices: 18459750--18459776 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18459740 GAAAGACTTT
18459750 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18459777 TAAAACTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18467380 original size:2 final size:2
Alignment explanation
Indices: 18467373--18467411 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
18467363 AAATCTTGGG
*
18467373 AT AT AT AT AT AT AT AT AT AT AC AT AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
18467412 TATGATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18474101 original size:13 final size:14
Alignment explanation
Indices: 18474085--18474118 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
18474075 ATATTATTTT
18474085 TAAATATAAT-AAA
1 TAAATATAATAAAA
*
18474098 TAAAAATAATAAAA
1 TAAATATAATAAAA
18474112 TAAATAT
1 TAAATAT
18474119 TTCTAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATATAATAAAA
Found at i:18474216 original size:22 final size:23
Alignment explanation
Indices: 18474183--18474230 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
18474173 AGGTGTAACT
18474183 TAATAAGCAAA-T-ATATATAAAA
1 TAATAAGCAAATTAATA-ATAAAA
18474205 TAATAA-CAAAATTAATAATAAAA
1 TAATAAGC-AAATTAATAATAAAA
18474228 TAA
1 TAA
18474231 GAGTTATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 9 0.39
23 10 0.43
24 3 0.13
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATAAGCAAATTAATAATAAAA
Found at i:18474281 original size:19 final size:19
Alignment explanation
Indices: 18474254--18474291 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18474244 ACAATATAAT
*
18474254 AATGAAAAAAAAAAGGTAA
1 AATGAAAAAAAAAAAGTAA
*
18474273 AATGCAAAAAAAAAAGTAA
1 AATGAAAAAAAAAAAGTAA
18474292 GAAAATAGCT
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:0.74, C:0.03, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGAAAAAAAAAAAGTAA
Found at i:18474592 original size:28 final size:28
Alignment explanation
Indices: 18474528--18474585 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
18474518 TTAAATTAAT
*
18474528 AAAAATAAATTTTATTTTAATCTTTCTA
1 AAAAATAAATTTTAATTTAATCTTTCTA
18474556 AAAAATAAATTTTAATTTAAT-TTT-TA
1 AAAAATAAATTTTAATTTAATCTTTCTA
18474582 AAAA
1 AAAA
18474586 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.21
27 3 0.10
28 20 0.69
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAAATAAATTTTAATTTAATCTTTCTA
Found at i:18482916 original size:12 final size:12
Alignment explanation
Indices: 18482876--18482910 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18482866 CTTTCCGGCT
18482876 ATCCTTCTTCTC
1 ATCCTTCTTCTC
*
18482888 ATCCTTATTCTC
1 ATCCTTCTTCTC
18482900 ATCCTTCTTCT
1 ATCCTTCTTCT
18482911 TCTCCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.51
Consensus pattern (12 bp):
ATCCTTCTTCTC
Found at i:18488906 original size:22 final size:22
Alignment explanation
Indices: 18488881--18488931 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
18488871 AAATATTTCA
18488881 TTTTATATTGCAATTTT-AATTTT
1 TTTTATATT-C-ATTTTGAATTTT
18488904 TTTTAATATTCATTTTGAATTTT
1 TTTT-ATATTCATTTTGAATTTT
*
18488927 CTTTA
1 TTTTA
18488932 ATTATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.24
23 14 0.56
24 5 0.20
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTATATTCATTTTGAATTTT
Found at i:18490491 original size:3 final size:3
Alignment explanation
Indices: 18490483--18490523 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18490473 TATATATTGC
18490483 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18490524 ATTACATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18491654 original size:21 final size:21
Alignment explanation
Indices: 18491630--18491684 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
18491620 CACCATTGTT
* *
18491630 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAATA
*
18491651 TCTAATCTTACCGCTACAATA
1 TCTAATCTCACCGCTACAATA
*
18491672 ACTAATCTCACCG
1 TCTAATCTCACCG
18491685 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:18496720 original size:43 final size:41
Alignment explanation
Indices: 18496623--18496794 Score: 190
Period size: 43 Copynumber: 4.1 Consensus size: 41
18496613 GTTATTGAGA
18496623 TATGATTACATGTAAGACCATGTCT-GGACATTGGCATTG-
1 TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
18496662 TATTGATATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 TA-TG--ATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
* * * *
18496706 TAATCGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 T-AT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
* * *
18496750 GTATGATAACATGTAAGACCATATCTGGGATA-TGGCATTG-
1 -TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
18496790 TATGA
1 TATGA
18496795 GCTTATGTGA
Statistics
Matches: 114, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
39 7 0.06
40 2 0.02
42 28 0.25
43 69 0.61
44 5 0.04
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (41 bp):
TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:18496762 original size:86 final size:83
Alignment explanation
Indices: 18496626--18496790 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 83
18496616 ATTGAGATAT
* *
18496626 GATTACATGTAAGACCATGTCTGGACATTGGCATTGTATTGATATTACATGTAAGACCATGTCTG
1 GATTACATGTAAGACCATGTCTGGACAGTGGCATTGTATTGATA-TACATGTAAGACCATATCTG
18496691 GGACATTGGCATTGTTAATC
65 GGACA-TGGCATTGTTAATC
* *
18496711 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATGTA-TGATA-ACATGTAAGACCATAT
1 GATTACATGTAAGACCATGTCT-GGACAGTGGCAT---TGTATTGATATACATGTAAGACCATAT
*
18496774 CTGGGATATGGCATTGT
62 CTGGGACATGGCATTGT
18496791 ATGAGCTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
85 29 0.41
86 33 0.46
88 5 0.07
89 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (83 bp):
GATTACATGTAAGACCATGTCTGGACAGTGGCATTGTATTGATATACATGTAAGACCATATCTGG
GACATGGCATTGTTAATC
Found at i:18497691 original size:16 final size:16
Alignment explanation
Indices: 18497670--18497712 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
18497660 ACAACAAGTC
18497670 TTTCATTTTAAACATA
1 TTTCATTTTAAACATA
18497686 TTTCATTTTAAACATA
1 TTTCATTTTAAACATA
*
18497702 TTTCACTTTAA
1 TTTCATTTTAA
18497713 CCAATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTCATTTTAAACATA
Found at i:18499502 original size:47 final size:46
Alignment explanation
Indices: 18499381--18499513 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 46
18499371 ATAATCTCAC
*
18499381 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGAGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGA-TGCTTCGCAT
* *
18499427 CCATAATGAACTTGGAACACAACTCAACGAGTTCAGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GATGCTTCGCAT
* *
18499473 CCATAGGTGAACTCGAAACGCAACTCAACGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTC-GATGC
18499514 CTCATAATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 42 0.55
47 34 0.45
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGATGCTTCGCAT
Found at i:18500176 original size:20 final size:21
Alignment explanation
Indices: 18500142--18500195 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
18500132 TGATGATATC
*
18500142 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
18500163 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
18500183 TTTTATTATTTTA
1 TTATATTATTTTA
18500196 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:18500194 original size:8 final size:8
Alignment explanation
Indices: 18500181--18500222 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
18500171 TTTAATGAGA
18500181 TATTTTAT
1 TATTTTAT
18500189 TATTTTAT
1 TATTTTAT
18500197 TA--TTAT
1 TATTTTAT
18500203 T-TTATTAT
1 TATT-TTAT
18500211 TATTTTAT
1 TATTTTAT
18500219 TATT
1 TATT
18500223 AATTATTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.17
8 23 0.77
9 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTAT
Found at i:18500199 original size:3 final size:3
Alignment explanation
Indices: 18500181--18500229 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
18500171 TTTAATGAGA
18500181 TAT T-T TAT TAT T-T TAT TAT TAT T-T TAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
18500226 TAT T
1 TAT T
18500230 TAGTATAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.20
3 30 0.73
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:18500201 original size:11 final size:11
Alignment explanation
Indices: 18500185--18500223 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
18500175 ATGAGATATT
18500185 TTATTATTTTA
1 TTATTATTTTA
18500196 TTATTATTTTA
1 TTATTATTTTA
18500207 TTATTATTTTA
1 TTATTATTTTA
18500218 TTATTA
1 TTATTA
18500224 ATTATTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:18500205 original size:19 final size:19
Alignment explanation
Indices: 18500181--18500222 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
18500171 TTTAATGAGA
18500181 TATTTTATTATTTTATTAT
1 TATTTTATTATTTTATTAT
18500200 TATTTTATTATTATT-TTAT
1 TATTTTATTATT-TTATTAT
18500219 TATT
1 TATT
18500223 AATTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTATTATTTTATTAT
Found at i:18502402 original size:46 final size:46
Alignment explanation
Indices: 18502280--18502730 Score: 665
Period size: 46 Copynumber: 9.8 Consensus size: 46
18502270 GCTCTTTGAA
* *
18502280 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
**
18502326 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*
18502371 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*
18502417 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
** *
18502463 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
* *
18502508 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*
18502554 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
18502600 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
*** * * * *
18502646 ATGAAATGAAAAAGACCATAGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
* * * *
18502692 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18502731 TCATGTCAAA
Statistics
Matches: 374, Mismatches: 28, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
45 83 0.22
46 291 0.78
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
Found at i:18502526 original size:137 final size:137
Alignment explanation
Indices: 18502280--18502730 Score: 715
Period size: 137 Copynumber: 3.3 Consensus size: 137
18502270 GCTCTTTGAA
*
18502280 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAGAATAAGACCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGACCATG
*
18502345 GTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
66 GTTGAAAGATACCATGGCAACGTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCA
18502410 ACATGAT
131 ACATGAT
18502417 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGACCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGACCATG
* *
18502482 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCA
66 GTTGAAAGATACCATGGCAACGTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCA
*
18502547 ACCTGAT
131 ACATGAT
* * **
18502554 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCAT
** * *
18502619 GGTTGAAAGATACCATGGCAACGTGATATGAAATGAAAAAGACCATAGTTGAAAGATACTATGGC
65 GGTTGAAAGATACCATGGCAACGTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGC
*
18502684 AACATGAC
130 AACATGAT
* * * *
18502692 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18502731 TCATGTCAAA
Statistics
Matches: 292, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
137 184 0.63
138 108 0.37
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (137 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGACCATG
GTTGAAAGATACCATGGCAACGTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCA
ACATGAT
Found at i:18502753 original size:183 final size:182
Alignment explanation
Indices: 18502291--18502753 Score: 592
Period size: 183 Copynumber: 2.5 Consensus size: 182
18502281 TGAAATGTGT
* * * ** * *
18502291 AAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAA-GAATAAGACCATGGTTGAAAGAT
1 AAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAATGAGCAAGACCATAGTTGAAAGAC
* ***
18502355 ACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
66 ACCATGGCAACATGATA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
18502420 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAAT
130 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAAA
* * * * * *
18502473 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGAT
1 AAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAATGAGCAAGACCATAGTTGAAAGAC
* *** *
18502538 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
66 ACCATGGCAACATGATA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
18502603 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAAA
130 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAAA
* *
18502657 AAGACCATAGTTGAAAGATACTATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 AAGACCATAGTTGAAAGATACCATGGCAACATGACATG-AAATGAGCAAGACCATAGTTGAAAGA
* *
18502721 CACTATGGCATCATG-TCA-AAGATAAATAAGACC
65 CACCATGGCAACATGAT-AGAA-ATAAATAAGACC
18502754 GTGGATGGGA
Statistics
Matches: 252, Mismatches: 24, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
182 40 0.16
183 142 0.56
184 70 0.28
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (182 bp):
AAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAATGAGCAAGACCATAGTTGAAAGAC
ACCATGGCAACATGATAGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGA
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAAA
Found at i:18508524 original size:28 final size:28
Alignment explanation
Indices: 18508493--18508548 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18508483 TTTGAGTTGA
18508493 TTTATTTATGTTTATATGACATTGTATT
1 TTTATTTATGTTTATATGACATTGTATT
*
18508521 TTTATTTATGTTTGTATGACATTGTATT
1 TTTATTTATGTTTATATGACATTGTATT
18508549 GTGTTGAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61
Consensus pattern (28 bp):
TTTATTTATGTTTATATGACATTGTATT
Found at i:18508802 original size:42 final size:43
Alignment explanation
Indices: 18508686--18508843 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
18508676 ATGTGTTTTT
* * *
18508686 GTGTAAGACCACGTCTGGGACATTGGCATTG-ACTTATGATTTAC
1 GTGTAAAACCATGTCTGGGACATTGGCATCGTA-TT-TGATTTAC
* * *
18508730 GTGTAAGACCATGTTTGAGACATTGGCATCGTATTTGATTT-C
1 GTGTAAAACCATGTCTGGGACATTGGCATCGTATTTGATTTAC
* * *
18508772 GTTTAAAACCCTGTCTGGGACAGTGGCATCGATATTTGA-TTAC
1 GTGTAAAACCATGTCTGGGACATTGGCATCG-TATTTGATTTAC
* * * *
18508815 ATGTAATACCACGTCTGGGACGTTGGCAT
1 GTGTAAAACCATGTCTGGGACATTGGCAT
18508844 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 28 0.30
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGTAAAACCATGTCTGGGACATTGGCATCGTATTTGATTTAC
Found at i:18509785 original size:130 final size:130
Alignment explanation
Indices: 18509552--18509812 Score: 504
Period size: 130 Copynumber: 2.0 Consensus size: 130
18509542 ATTAGTACAG
18509552 TTTATTAGTTAAAGTCTCCCCTATTTTAGGGTTCGGCTACTCTGACCCCTGTGCACTACGAATCA
1 TTTATTAGTTAAAGTCTCCCCTATTTTAGGGTTCGGCTACTCTGACCCCTGTGCACTACGAATCA
18509617 AATTTATTTATGTACAGAAATCCAATGACTATTTTGTTTATTTCACATAAAAATAGAATCAATAA
66 AATTTATTTATGTACAGAAATCCAATGACTATTTTGTTTATTTCACATAAAAATAGAATCAATAA
*
18509682 TTTATTAGTTAAAGTCTCCCCTGTTTTAGGGTTCGGCTACTCTGACCCCTGTGCACTACGAATCA
1 TTTATTAGTTAAAGTCTCCCCTATTTTAGGGTTCGGCTACTCTGACCCCTGTGCACTACGAATCA
*
18509747 AATTTATTTCTGTACAGAAATCCAATGACTATTTTGTTTATTTCACATAAAAATAGAATCAATAA
66 AATTTATTTATGTACAGAAATCCAATGACTATTTTGTTTATTTCACATAAAAATAGAATCAATAA
18509812 T
1 T
18509813 GAATCCATAC
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (130 bp):
TTTATTAGTTAAAGTCTCCCCTATTTTAGGGTTCGGCTACTCTGACCCCTGTGCACTACGAATCA
AATTTATTTATGTACAGAAATCCAATGACTATTTTGTTTATTTCACATAAAAATAGAATCAATAA
Found at i:18510809 original size:47 final size:47
Alignment explanation
Indices: 18510740--18510903 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
18510730 CACCTATAAG
18510740 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCA
* ** * * *
18510787 CGAACTCAGACTCAACTCAACGAG-T-TTA-G-AC-GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTT-ACAT-C-TCA
* *
18510832 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCA
18510880 CGAACTCGGACTCAACTCAACGAG
1 CGAACTCGGACTCAACTCAACGAG
18510904 TTCAAACGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 3 0.03
46 23 0.25
47 47 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCA
Found at i:18510849 original size:93 final size:93
Alignment explanation
Indices: 18510735--18510961 Score: 391
Period size: 93 Copynumber: 2.4 Consensus size: 93
18510725 TAACGCACCT
*
18510735 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGACTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGACTC
* * *
18510800 AACTCAACGAGTTTAGACGTTCGCATCC
66 AACTCAACGAGTTCAAACGTTAGCATCC
* *
18510828 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGACTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGACTC
18510893 AACTCAACGAGTTCAAACGTTAGCATCC
66 AACTCAACGAGTTCAAACGTTAGCATCC
*
18510921 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA
18510962 AATATCCGAA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 126 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGACTC
AACTCAACGAGTTCAAACGTTAGCATCC
Found at i:18510850 original size:46 final size:45
Alignment explanation
Indices: 18510788--18510952 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
18510778 TACATCTCAC
* *
18510788 GAACTCAGACTCAACTCAACGAGTTTAGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTT-GCATCCATAAGT
* * * * *
18510834 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTGCATCCATAAGT
*
18510881 GAACTCGGACTCAACTCAACGAGTTCAAACGTTAGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTT-GCATCCATAAGT
18510927 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
18510953 GGATGCCCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 49 0.51
47 25 0.26
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTGCATCCATAAGT
Found at i:18515095 original size:12 final size:12
Alignment explanation
Indices: 18515078--18515112 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
18515068 AAATATGGAT
18515078 TTGTAAGCAATA
1 TTGTAAGCAATA
18515090 TTGTAAGCAATA
1 TTGTAAGCAATA
18515102 TTGTAAGCAAT
1 TTGTAAGCAAT
18515113 GGATTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (12 bp):
TTGTAAGCAATA
Found at i:18517493 original size:13 final size:13
Alignment explanation
Indices: 18517475--18517501 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18517465 AGTTTATCGG
18517475 AATTATTATAATT
1 AATTATTATAATT
18517488 AATTATTATAATT
1 AATTATTATAATT
18517501 A
1 A
18517502 TGATTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATTATAATT
Found at i:18518347 original size:28 final size:28
Alignment explanation
Indices: 18518315--18518373 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
18518305 TAAATTATTG
18518315 ATAGTTGAATGTTAGTTTTAAAGAATGA
1 ATAGTTGAATGTTAGTTTTAAAGAATGA
18518343 ATAGTTGAATGTTAGTTTTAAAGAATGA
1 ATAGTTGAATGTTAGTTTTAAAGAATGA
18518371 ATA
1 ATA
18518374 ATTGTGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (28 bp):
ATAGTTGAATGTTAGTTTTAAAGAATGA
Found at i:18520759 original size:38 final size:38
Alignment explanation
Indices: 18520717--18520889 Score: 172
Period size: 38 Copynumber: 4.5 Consensus size: 38
18520707 GGCTTAAAGA
18520717 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAAT
*
18520755 CCCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGG-AATTATATCCGGGTTAAAT
* * * * *
18520793 CCCACAGGCTTCATGCTAGTATTATATCCGAGCTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
* * * *
18520831 CCCGCAGGCCT-AGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGAATTATATCCG-GGTTAAA-T
* *
18520871 CCCGTAGGCTTCGTGCTGG
1 CCCGCAGGCTTCATGCTGG
18520890 TGTTATGTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
37 3 0.03
38 86 0.77
39 6 0.05
40 16 0.14
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
Found at i:18522081 original size:3 final size:3
Alignment explanation
Indices: 18522073--18522120 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
18522063 CTTCCTACAC
18522073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18522121 GTTAACCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18526844 original size:75 final size:76
Alignment explanation
Indices: 18526668--18526845 Score: 234
Period size: 75 Copynumber: 2.4 Consensus size: 76
18526658 GGCACACAAT
* *
18526668 CGTCGGTTAATCCGACTAGCGCTGGGCGCAATTCACCGTTGGTTTATCCAACTAGAGCTGGGCTC
1 CGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGGCTC
*
18526733 ACAATTCTTAT
66 ACAATTCTTAC
* * * * * **
18526744 CGTAGGTTAACCCGGCTAGCACTGGGTACAAAT-ATTGTTGGTTTATCCAACTAGAGCTGGGCTC
1 CGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGGCTC
18526808 AC-ATTCATTAC
66 ACAATTC-TTAC
*
18526819 CGTCGGTTAATCCGACTAGTGCTGGGC
1 CGTCGGTTAATCCGACTAGCGCTGGGC
18526846 GCAACCTCTT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
74 4 0.05
75 55 0.65
76 26 0.31
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (76 bp):
CGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGGCTC
ACAATTCTTAC
Found at i:18528430 original size:43 final size:43
Alignment explanation
Indices: 18528369--18528598 Score: 345
Period size: 43 Copynumber: 5.4 Consensus size: 43
18528359 CGTTTTTCTG
* * *
18528369 AAAAAAGCGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTCTA
1 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
*
18528412 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCAGCGCTTTTA
1 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
* *
18528455 AAAGAAACGCCACTAAAGACCAGGACTTTTAGCAGCGCTTTTA
1 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
* *
18528498 AAAGAAACGCCACTAAAGACCAAGACTTTTAGCGGCGCTTTT-
1 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
* * *
18528540 AAAAAAACGCCGCTAAAGAACGGGACTTTTAGCGGCGCTTTTA
1 AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
*
18528583 AAAAAAACGTCACTAA
1 AAAAAAACGCCACTAA
18528599 TTTGCCCAGT
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
42 37 0.22
43 135 0.78
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (43 bp):
AAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGCTTTTA
Found at i:18537706 original size:7 final size:7
Alignment explanation
Indices: 18537696--18537778 Score: 94
Period size: 7 Copynumber: 11.6 Consensus size: 7
18537686 ATTCCAAAAT
18537696 TAAACCC
1 TAAACCC
18537703 TAAACCCC
1 TAAA-CCC
* *
18537711 TAAATCT
1 TAAACCC
18537718 TAAACCC
1 TAAACCC
18537725 TAAACCC
1 TAAACCC
* *
18537732 TAAGCCT
1 TAAACCC
18537739 TAAACCC
1 TAAACCC
*
18537746 TGAACCC
1 TAAACCC
18537753 TAAACCC
1 TAAACCC
*
18537760 TGAACCC
1 TAAACCC
18537767 TAAACCAC
1 TAAACC-C
18537775 TAAA
1 TAAA
18537779 AATAAAATCT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
7 50 0.81
8 12 0.19
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:18537734 original size:21 final size:21
Alignment explanation
Indices: 18537695--18537778 Score: 105
Period size: 21 Copynumber: 3.9 Consensus size: 21
18537685 AATTCCAAAA
*
18537695 TTAAACCCTAAACCCCTAAATC
1 TTAAACCCTAAA-CCCTAAACC
*
18537717 TTAAACCCTAAACCCTAAGCC
1 TTAAACCCTAAACCCTAAACC
*
18537738 TTAAACCCTGAACCCTAAACC
1 TTAAACCCTAAACCCTAAACC
* *
18537759 CTGAACCCTAAACCACTAAA
1 TTAAACCCTAAACC-CTAAA
18537779 AATAAAATCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 37 0.69
22 17 0.31
ACGTcount: A:0.40, C:0.37, G:0.04, T:0.19
Consensus pattern (21 bp):
TTAAACCCTAAACCCTAAACC
Found at i:18539010 original size:57 final size:57
Alignment explanation
Indices: 18538933--18539047 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
18538923 GGCGTTTTCT
*
18538933 TGAAAACGCCGCTACTGCCAATGAAGCTCATAGAAAATGACGTCGTTTTTCTTAACA
1 TGAAAACGCCGCTACTGCCAATGAAGCTCATAGAAAATGACGCCGTTTTTCTTAACA
*
18538990 TGAAAACGCCGCTATTGCCAATGAAGCTCATAGAAAATGACGCCGTTTTTCTTAACA
1 TGAAAACGCCGCTACTGCCAATGAAGCTCATAGAAAATGACGCCGTTTTTCTTAACA
18539047 T
1 T
18539048 TTTAGTGGCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (57 bp):
TGAAAACGCCGCTACTGCCAATGAAGCTCATAGAAAATGACGCCGTTTTTCTTAACA
Found at i:18539118 original size:73 final size:72
Alignment explanation
Indices: 18539013--18539153 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 72
18539003 ATTGCCAATG
* ** *
18539013 AAGCTCATAGAAAATGACGCCGTTTTTCTTAACATTTTAGTGGCGTTTTTCTAAAAAACGCCACT
1 AAGCTCATAGAAAACGACGCCGTTTTGATTAACATTTTAGCGGCGTTTTT-TAAAAAACGCCACT
18539078 AAAATGTT
65 AAAATGTT
* * * *
18539086 AAGCTCAT-GTAAAACGACGTCGTTTTGATTAACCTTTTAGCGGCGTTTTTTGAAAAACGCCGCT
1 AAGCTCATAG-AAAACGACGCCGTTTTGATTAACATTTTAGCGGCGTTTTTTAAAAAACGCCACT
18539150 AAAA
65 AAAA
18539154 CTCCATCTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
72 17 0.29
73 42 0.71
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
AAGCTCATAGAAAACGACGCCGTTTTGATTAACATTTTAGCGGCGTTTTTTAAAAAACGCCACTA
AAATGTT
Found at i:18542133 original size:60 final size:62
Alignment explanation
Indices: 18542021--18542143 Score: 180
Period size: 61 Copynumber: 2.0 Consensus size: 62
18542011 TCAATTTGTA
* *
18542021 TTAGATATTATAATTATTTAAATTTATTTTTATCTAATTAATATTTAGATACTA-TTTATAT
1 TTAGATATTATAATTATTTAAATTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
* *
18542082 TTAGATATTGTAATTA-TTAAATTTTATTTTTA-CCAAATAATATTTATATACTATTTTATAT
1 TTAGATATTATAATTATTTAAA-TTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
18542143 T
1 T
18542144 ATTTGACTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 23 0.41
61 33 0.59
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.55
Consensus pattern (62 bp):
TTAGATATTATAATTATTTAAATTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
Found at i:18544002 original size:58 final size:60
Alignment explanation
Indices: 18543919--18544035 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 60
18543909 TTACCTTATA
* * *
18543919 ATTACAACCATAACTTTGGAGACAAATC-A-AAGGTTTCCTCGTCCTCACTAATTACCTT
1 ATTACAACCACAACTTTGGAAACAAATCAATAAAGTTTCCTCGTCCTCACTAATTACCTT
* *
18543977 ATTACACCCACAAGTTTGGAAACAAATCAAATTAAAGTTTCCTCGTCCTCACTAATTAC
1 ATTACAACCACAACTTTGGAAACAAATC-AA-TAAAGTTTCCTCGTCCTCACTAATTAC
18544036 TCAGTAAGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 24 0.48
60 1 0.02
62 25 0.50
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (60 bp):
ATTACAACCACAACTTTGGAAACAAATCAATAAAGTTTCCTCGTCCTCACTAATTACCTT
Found at i:18545053 original size:46 final size:45
Alignment explanation
Indices: 18544998--18545084 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
18544988 TGAAATTAAA
18544998 TTATGATTTTTATAATAATAAAAATATAATTTTATTATTTTAATAAC
1 TTATGATTTTTATAATAATAAAAATA-AATTTTA-TATTTTAATAAC
* * *
18545045 TTAT-ATTTTTATAATTATTAAATTAAATTTTATATTTTAA
1 TTATGATTTTTATAATAATAAAAATAAATTTTATATTTTAA
18545085 AAAAGGGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 8 0.22
45 7 0.19
46 18 0.49
47 4 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (45 bp):
TTATGATTTTTATAATAATAAAAATAAATTTTATATTTTAATAAC
Found at i:18548853 original size:6 final size:6
Alignment explanation
Indices: 18548844--18548871 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18548834 ACGCTTCCGC
18548844 GTGCGT GTGCGT GTGCGT GTGCGT GTGC
1 GTGCGT GTGCGT GTGCGT GTGCGT GTGC
18548872 ATCCAAGGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (6 bp):
GTGCGT
Found at i:18549724 original size:25 final size:25
Alignment explanation
Indices: 18549696--18549746 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
18549686 CAACAAAAAT
*
18549696 AAAATCTATTCTAAAAAGAAAAAGA
1 AAAATCTAATCTAAAAAGAAAAAGA
*
18549721 AAAATCTAATCTAAAAATAAAAAGA
1 AAAATCTAATCTAAAAAGAAAAAGA
18549746 A
1 A
18549747 TATAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAATCTAATCTAAAAAGAAAAAGA
Found at i:18553857 original size:69 final size:69
Alignment explanation
Indices: 18553746--18553875 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
18553736 TGGGATGCTA
*
18553746 AAACTATGCTATGATCATGTAGAATAATGATTTCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
18553811 ATAG
66 ATAG
18553815 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
18553876 ATATCTGAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (69 bp):
AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
ATAG
Found at i:18559334 original size:15 final size:15
Alignment explanation
Indices: 18559314--18559343 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18559304 CATATTTTAT
*
18559314 TTAATATTATATAAA
1 TTAATATAATATAAA
18559329 TTAATATAATATAAA
1 TTAATATAATATAAA
18559344 AATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATATAATATAAA
Found at i:18562453 original size:13 final size:13
Alignment explanation
Indices: 18562435--18562460 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18562425 TAAGTTCAAT
18562435 TAGTTACGGTATA
1 TAGTTACGGTATA
18562448 TAGTTACGGTATA
1 TAGTTACGGTATA
18562461 ATAATGCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAGTTACGGTATA
Found at i:18563303 original size:11 final size:11
Alignment explanation
Indices: 18563287--18563311 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18563277 TCCAAACTCT
18563287 AAAAATTAAAA
1 AAAAATTAAAA
18563298 AAAAATTAAAA
1 AAAAATTAAAA
18563309 AAA
1 AAA
18563312 CCATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATTAAAA
Found at i:18572342 original size:24 final size:25
Alignment explanation
Indices: 18572292--18572344 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
18572282 TTACATATAC
* *
18572292 AAATAATTTTATTTACTTAATACAA
1 AAATAATTTAATGTACTTAATACAA
*
18572317 AAATAATTTAATGTATTTAATA-AA
1 AAATAATTTAATGTACTTAATACAA
18572341 AAAT
1 AAAT
18572345 TCATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATAATTTAATGTACTTAATACAA
Found at i:18572375 original size:31 final size:30
Alignment explanation
Indices: 18572340--18572403 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
18572330 TATTTAATAA
18572340 AAAATTCATATATATATAATT-ATACTAAATT
1 AAAATTCATA-ATATA-AATTCATACTAAATT
* *
18572371 AAAATTTATAATATAAATTGCATATTAAATT
1 AAAATTCATAATATAAATT-CATACTAAATT
18572402 AA
1 AA
18572404 CACTCAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 5 0.17
31 20 0.69
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTCATAATATAAATTCATACTAAATT
Found at i:18582327 original size:15 final size:15
Alignment explanation
Indices: 18582278--18582332 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
18582268 ATTTTTTTTA
18582278 AAAAAATATTTGTT--
1 AAAAAATATTT-TTCG
*
18582292 AAAATAATATTTTTTG
1 AAAA-AATATTTTTCG
* *
18582308 TAAAATTATTTTTCG
1 AAAAAATATTTTTCG
18582323 AAAAAATATT
1 AAAAAATATT
18582333 CAAATGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 6 0.18
15 24 0.73
16 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (15 bp):
AAAAAATATTTTTCG
Found at i:18588835 original size:6 final size:6
Alignment explanation
Indices: 18588826--18588858 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18588816 TATTTTTCTA
18588826 TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTT
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCAC TTT
18588859 TTTCCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTCAC
Found at i:18589789 original size:17 final size:17
Alignment explanation
Indices: 18589767--18589800 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18589757 TGAATATTGG
18589767 GAAAAAGAA-GGAAATAA
1 GAAAAA-AATGGAAATAA
18589784 GAAAAAAATGGAAATAA
1 GAAAAAAATGGAAATAA
18589801 TTTTTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (17 bp):
GAAAAAAATGGAAATAA
Found at i:18606253 original size:18 final size:18
Alignment explanation
Indices: 18606225--18606310 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
18606215 GAACGATAAT
* *
18606225 TTATTTAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
18606243 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
18606261 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
* *
18606279 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAG
18606298 TTATTCAGTAACA
1 TTATTCAGTAACA
18606311 GTCGATCTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 40 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:18606265 original size:36 final size:37
Alignment explanation
Indices: 18606225--18606313 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
18606215 GAACGATAAT
* * *
18606225 TTATTTAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * *
18606261 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
18606298 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
18606314 GATCTTTCTA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 27 0.63
37 16 0.37
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:18606541 original size:45 final size:45
Alignment explanation
Indices: 18606478--18606587 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
18606468 TCCGGAACAG
* **
18606478 TAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGA
* * ** *
18606523 TAACGGTTACAGTAACAGTATTTGACACACAAAGTGCCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGA
*
18606568 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
18606588 ACGGTAGTCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGA
Found at i:18606582 original size:12 final size:12
Alignment explanation
Indices: 18606565--18606593 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18606555 AGTGCCAAAT
18606565 CGGTAACAGTAA
1 CGGTAACAGTAA
18606577 CGGTAACAGTAA
1 CGGTAACAGTAA
18606589 CGGTA
1 CGGTA
18606594 GTCAGCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:18607360 original size:15 final size:15
Alignment explanation
Indices: 18607337--18607389 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
18607327 TTGCTCTCTG
*
18607337 TTTCGTTTCATTCTT
1 TTTCTTTTCATTCTT
18607352 TTTCTTTTC-TATCTT
1 TTTCTTTTCAT-TCTT
18607367 TTT-TTTTCATTTCTT
1 TTTCTTTTCA-TTCTT
18607382 TTTCTTTT
1 TTTCTTTT
18607390 GTTTTACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 6 0.18
15 22 0.67
16 5 0.15
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTCTTTTCATTCTT
Found at i:18607555 original size:31 final size:32
Alignment explanation
Indices: 18607499--18607561 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
18607489 CACACTTGTC
*
18607499 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
18607531 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
18607562 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:18610250 original size:21 final size:21
Alignment explanation
Indices: 18610225--18610293 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
18610215 TATAATGATT
18610225 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
18610246 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
18610266 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
18610286 ATTATTAT
1 ATTATTAT
18610294 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:18610306 original size:15 final size:14
Alignment explanation
Indices: 18610280--18610310 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18610270 TATGGTTTTA
18610280 TATTAGATTATTAT
1 TATTAGATTATTAT
18610294 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
18610309 TA
1 TA
18610311 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:18610706 original size:12 final size:12
Alignment explanation
Indices: 18610689--18610719 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18610679 GAAGCAGGGG
18610689 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
18610701 AGAAAAAGGGAA
1 AGAAAAAGAGAA
18610713 AGAAAAA
1 AGAAAAA
18610720 AAAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:18618284 original size:49 final size:49
Alignment explanation
Indices: 18618212--18618399 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
18618202 TAGCCGAATC
* *
18618212 TATCTGGTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
18618261 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
18618312 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
18618361 TATCCGGTACACGTAGTAGCCTGCACTTAATACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
18618400 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:18618331 original size:100 final size:100
Alignment explanation
Indices: 18618217--18618397 Score: 326
Period size: 100 Copynumber: 1.8 Consensus size: 100
18618207 GAATCTATCT
* *
18618217 GGTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
18618282 TGCACTTAGTACTACATATGTGATCACAGTTTTCA
66 TGCACTTAATACTACATATGTGATCACAGTTTTCA
*
18618317 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
18618382 TGCACTTAATACTACA
66 TGCACTTAATACTACA
18618398 CACGTGACCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAATACTACATATGTGATCACAGTTTTCA
Found at i:18625192 original size:18 final size:18
Alignment explanation
Indices: 18625169--18625254 Score: 93
Period size: 18 Copynumber: 4.7 Consensus size: 18
18625159 GAACGATTAT
* *
18625169 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
18625187 TTATTC-GATAACAATCAA
1 TTATTCAG-TAACAATCAA
* * *
18625205 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
18625223 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
18625242 TTATTCAGTAACA
1 TTATTCAGTAACA
18625255 GCCGATCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
17 1 0.02
18 40 0.71
19 15 0.27
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:18625223 original size:36 final size:37
Alignment explanation
Indices: 18625135--18625254 Score: 113
Period size: 36 Copynumber: 3.3 Consensus size: 37
18625125 CAATCAGTAA
* * * * *
18625135 TATTCATTAACAATCAGTCAATCAG-AACGATT-ATT
1 TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
* * *
18625170 TATTCAGTAACAGTCAGTTATTC-GATAACAA-TCAAT
1 TATTCAATAACAATCAGTTATTCAG-TAACAATTAAAT
*
18625206 TATTCAATAATAATCAGTTATTCAGTAACAATTAAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
*
18625243 TATTCAGTAACA
1 TATTCAATAACA
18625255 GCCGATCTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
34 1 0.01
35 20 0.29
36 32 0.47
37 15 0.22
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
Found at i:18625497 original size:45 final size:45
Alignment explanation
Indices: 18625434--18625543 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
18625424 TCCGGAACAG
* * *
18625434 TAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATTGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * ** *
18625479 TAACGGTTACAGTAACAGTATTTGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
18625524 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
18625544 ACGGTAGTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:18625538 original size:12 final size:12
Alignment explanation
Indices: 18625521--18625549 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18625511 AGTGCCGAAT
18625521 CGGTAACAGTAA
1 CGGTAACAGTAA
18625533 CGGTAACAGTAA
1 CGGTAACAGTAA
18625545 CGGTA
1 CGGTA
18625550 GTCGGCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:18626366 original size:2 final size:2
Alignment explanation
Indices: 18626359--18626392 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18626349 TGTTTTACTT
18626359 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18626393 GTTATCTTAA
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:18626525 original size:31 final size:32
Alignment explanation
Indices: 18626469--18626531 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
18626459 CACACTTGTC
*
18626469 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
18626501 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
18626532 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:18627867 original size:96 final size:96
Alignment explanation
Indices: 18627698--18627887 Score: 265
Period size: 96 Copynumber: 2.0 Consensus size: 96
18627688 GTGTTCGAGG
* *
18627698 AAGTTTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTAGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCCTAGTTCGAGCAAGGG
* * *
18627763 AAGAGCCGAAGCTAAGGGGGCAAAGAGGAAC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAAC
* ** * * *
18627794 AAGTCTGTCATTGAAGGGAACGATGGAGTAGACGAA-GAGCCTAAGAAGCCTGGTTCGAGTAAGG
1 AAGTCTGTCATCGAAGGGAACGATGGAACAGAC-AAGGAGCCCAAGAAGCCTAGTTCGAGCAAGG
18627858 GAAAAGCCGAAGCCAAGAGGGCAAAGAGGA
65 GAAAAGCCGAAGCCAAGAGGGCAAAGAGGA
18627888 GCAAAAAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 80 0.98
97 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.35, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCCTAGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAAC
Found at i:18629441 original size:10 final size:11
Alignment explanation
Indices: 18629402--18629443 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
18629392 TATTTACAAA
*
18629402 GTTAATTGAGTG
1 GTTAATT-AGAG
18629414 GTTAATTAGAG
1 GTTAATTAGAG
*
18629425 TTTAATTA-AG
1 GTTAATTAGAG
18629435 GTTAATTAG
1 GTTAATTAG
18629444 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:18629888 original size:24 final size:23
Alignment explanation
Indices: 18629861--18629913 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
18629851 TATGTATTTG
18629861 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
18629885 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
18629906 TTATTAAA
1 TTATTAAA
18629914 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:18630035 original size:3 final size:3
Alignment explanation
Indices: 18630027--18630072 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
18630017 ATGAATTAAA
*
18630027 TAT TAT TA- TAT TA- TAT TAT TAT TAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
18630071 TA
1 TA
18630073 ACTAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18630044 original size:13 final size:13
Alignment explanation
Indices: 18630026--18630070 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 13
18630016 TATGAATTAA
18630026 ATATTATTATATT
1 ATATTATTATATT
18630039 ATATTATTATTATGT
1 ATATTATTA-TAT-T
18630054 ATTATTATTAATATT
1 A-TATTATT-ATATT
18630069 AT
1 AT
18630071 TAACTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 4 0.14
16 10 0.36
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:18630048 original size:16 final size:17
Alignment explanation
Indices: 18630027--18630072 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
18630017 ATGAATTAAA
18630027 TATTATTA-TATTATAT
1 TATTATTATTATTATAT
18630043 TATTATTATGTATTATTAT
1 TATTATTAT-TATTA-TAT
*
18630062 TAATATTATTA
1 TATTATTATTA
18630073 ACTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:18641033 original size:42 final size:42
Alignment explanation
Indices: 18640974--18641060 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
18640964 TTATATTTAA
18640974 AAAGTACCAACAAGTGCTTCATCCTCACCAGTACAACCATGT
1 AAAGTACCAACAAGTGCTTCATCCTCACCAGTACAACCATGT
18641016 AAAGTACCAACAAGTGCTTCATCCTCACCAGTACAACCATGT
1 AAAGTACCAACAAGTGCTTCATCCTCACCAGTACAACCATGT
18641058 AAA
1 AAA
18641061 ACAGCACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (42 bp):
AAAGTACCAACAAGTGCTTCATCCTCACCAGTACAACCATGT
Found at i:18644302 original size:51 final size:51
Alignment explanation
Indices: 18644226--18644388 Score: 247
Period size: 51 Copynumber: 3.2 Consensus size: 51
18644216 TATCCTGATA
*
18644226 AAATATGAAGCTCTTGTTGAAGCTAGAGTAATAAAGTAATTATTCTGGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCTGGATG
* **
18644277 AAATATGAAGCTCTTGTTGAAGCTAGA-TCAACAAAGTAATTAATCCAGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGT-AACAAAGTAATTATTCTGGATG
* * *
18644328 AAATATGAAGCTCTTGTTGAAGTTAGAGTAACAAGGTAATAATTCTGGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCTGGATG
18644379 AAATATGAAG
1 AAATATGAAG
18644389 TAAGTTTGAG
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 98 0.98
52 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCTGGATG
Found at i:18657147 original size:21 final size:19
Alignment explanation
Indices: 18657108--18657147 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
18657098 TGAAAATGTG
*
18657108 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
18657127 TTTATTAGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
18657148 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:18657357 original size:12 final size:12
Alignment explanation
Indices: 18657340--18657364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18657330 GCCGACTACT
18657340 GTTACTGTTACC
1 GTTACTGTTACC
18657352 GTTACTGTTACC
1 GTTACTGTTACC
18657364 G
1 G
18657365 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:18657729 original size:54 final size:54
Alignment explanation
Indices: 18657666--18657772 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
18657656 AACTGAATAT
* *
18657666 TACTGAATAA-TTGATCATTACTGAATAACTGATTGTCACTGAATGAA-TGACTGC
1 TACTAAATAACTTAATCATTACTGAATAACTGATT-TCACTGAAT-AATTGACTGC
** * *
18657720 TACTAAATAACTTAATTGTTACTGAATATCTGATTTTACTGAATAATTGACTG
1 TACTAAATAACTTAATCATTACTGAATAACTGATTTCACTGAATAATTGACTG
18657773 TTATTGGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.04
54 23 0.51
55 20 0.44
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (54 bp):
TACTAAATAACTTAATCATTACTGAATAACTGATTTCACTGAATAATTGACTGC
Found at i:18657871 original size:36 final size:36
Alignment explanation
Indices: 18657581--18657876 Score: 181
Period size: 36 Copynumber: 8.0 Consensus size: 36
18657571 AAAGGTATAA
* *
18657581 AATAACTGATTATTACTGAATAATTGACTGTTA-TCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACT-G
* * * * *
18657617 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATT-GATTGTTACTG
* * **
18657653 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * *
18657689 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTA
1 AATAACTGATTGTTACTGAAT-AATTGATTGTTACTG
*
18657725 AATAACTTAATTGTTACTGAAT-ATCTGATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * * *
18657761 AATAATTGACTGTTATTGGATAACCGATTAATTGATCGATACTG
1 AAT-A---ACTG--ATT-G-TTACTGAATAATTGATTGTTACTG
* * * *
18657805 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
18657841 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
18657876 A
1 A
18657877 GAGTTAATGA
Statistics
Matches: 195, Mismatches: 48, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
35 7 0.04
36 130 0.67
37 24 0.12
38 2 0.01
39 1 0.01
40 6 0.03
41 3 0.02
42 1 0.01
43 11 0.06
44 10 0.05
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:18657872 original size:18 final size:18
Alignment explanation
Indices: 18657581--18657876 Score: 105
Period size: 18 Copynumber: 16.1 Consensus size: 18
18657571 AAAGGTATAA
* *
18657581 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* *
18657599 AATAATTGACTGTTA-TCG
1 AATAAATGATTGTTACT-G
* * *
18657617 GATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
18657635 GAT-ATTAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
18657653 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* **
18657671 AATAATTGATCATTACTG
1 AATAAATGATTGTTACTG
* *
18657689 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
* * * *
18657707 AATGAATGACTGCTACTA
1 AATAAATGATTGTTACTG
* *
18657725 AATAACTTAATTGTTACTG
1 AATAA-ATGATTGTTACTG
**
18657744 AATATCTGATT-TTACTG
1 AATAAATGATTGTTACTG
* * *
18657761 AATAATTGACTGTTATTG
1 AATAAATGATTGTTACTG
* *
18657779 GATAACCGATTAATTGATCGATACTG
1 AATAA---A-TGATTG-T---TACTG
* * * *
18657805 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
18657823 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
18657841 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
18657859 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
18657876 A
1 A
18657877 GAGTTAATGA
Statistics
Matches: 208, Mismatches: 56, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
17 22 0.11
18 154 0.74
19 15 0.07
21 1 0.00
22 7 0.03
23 1 0.00
26 8 0.04
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:18659017 original size:21 final size:21
Alignment explanation
Indices: 18658991--18659073 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
18658981 TGATCAGTAT
*
18658991 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
18659012 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
18659033 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
18659055 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
18659074 GATCGATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:18659057 original size:23 final size:22
Alignment explanation
Indices: 18658989--18659063 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
18658979 CCTGATCAGT
** *
18658989 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
18659011 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
18659031 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
18659054 ATACGACACA
1 ATACGACACA
18659064 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:18660760 original size:5 final size:5
Alignment explanation
Indices: 18660752--18660783 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
18660742 TCTTTAGTTT
18660752 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
18660784 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:18660818 original size:8 final size:8
Alignment explanation
Indices: 18660805--18660841 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
18660795 TATCTTTATT
18660805 ATATAATA
1 ATATAATA
18660813 ATATAATA
1 ATATAATA
18660821 ATATAATA
1 ATATAATA
18660829 ATATAATA
1 ATATAATA
18660837 ATATA
1 ATATA
18660842 CTAAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:18665858 original size:5 final size:6
Alignment explanation
Indices: 18665842--18665927 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
18665832 ATATTTTATA
*
18665842 ATTTTT ATTTTT ATTTTT -TTATCAAT ATTTTAT AATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATT-T--TT ATTTT-T -ATTTTT ATTTTT ATTTTT
*
18665894 -TTATCAAT ATTTTAT AATTTTT ATTTTT ATTTTT
1 ATT-T--TT ATTTT-T -ATTTTT ATTTTT ATTTTT
18665928 TTATACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
5 4 0.06
6 38 0.59
7 4 0.06
8 14 0.22
9 4 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:18665858 original size:20 final size:21
Alignment explanation
Indices: 18665833--18665931 Score: 50
Period size: 20 Copynumber: 4.9 Consensus size: 21
18665823 AGAGAAGCAA
18665833 TATTTTATA-ATTTTTATTTT
1 TATTTTATATATTTTTATTTT
* ***
18665853 TATTTT-TTTATCAATATTTT
1 TATTTTATATATTTTTATTTT
*
18665873 ATAATTT-T-TATTTTTATTTT
1 -TATTTTATATATTTTTATTTT
*
18665893 T-TTATCA-ATATTTTATAATTTT
1 TATT-TTATATATTTT-T-ATTTT
*
18665915 TATTTT-TATTTTTTTAT
1 TATTTTATATATTTTTAT
18665932 ACTTTTTCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 31 0.53
21 8 0.14
22 13 0.22
23 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TATTTTATATATTTTTATTTT
Found at i:18665868 original size:34 final size:34
Alignment explanation
Indices: 18665830--18665931 Score: 204
Period size: 34 Copynumber: 3.0 Consensus size: 34
18665820 TTAAGAGAAG
18665830 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
1 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
18665864 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
1 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
18665898 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
1 CAATATTTTATAATTTTTATTTTTATTTTTTTAT
18665932 ACTTTTTCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (34 bp):
CAATATTTTATAATTTTTATTTTTATTTTTTTAT
Found at i:18665872 original size:11 final size:9
Alignment explanation
Indices: 18665835--18665917 Score: 56
Period size: 8 Copynumber: 9.7 Consensus size: 9
18665825 AGAAGCAATA
18665835 TTTTATAA-
1 TTTTATAAT
18665843 TTTT-T-AT
1 TTTTATAAT
*
18665850 TTTTAT-TT
1 TTTTATAAT
18665858 TTTTATCAAT
1 TTTTAT-AAT
18665868 ATTTTATAA-
1 -TTTTATAAT
18665877 TTTT-T-AT
1 TTTTATAAT
*
18665884 TTTTAT-TT
1 TTTTATAAT
18665892 TTTTATCAAT
1 TTTTAT-AAT
18665902 ATTTTATAAT
1 -TTTTATAAT
18665912 TTTTAT
1 TTTTAT
18665918 TTTTATTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 19
0.73 0.05 0.23
Matches are distributed among these distances:
6 2 0.03
7 10 0.16
8 24 0.39
9 6 0.10
10 7 0.11
11 12 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18665928 original size:14 final size:14
Alignment explanation
Indices: 18665843--18665931 Score: 54
Period size: 14 Copynumber: 5.9 Consensus size: 14
18665833 TATTTTATAA
18665843 TTTTTATTTTTATTT
1 TTTTTATTTTTA-TT
*
18665858 TTTTATCAATATTTTATAA
1 TTTT-T--AT-TTTTAT-T
18665877 TTTTTATTTTTATT
1 TTTTTATTTTTATT
***
18665891 TTTTTATCAATATT
1 TTTTTATTTTTATT
* *
18665905 TTATAATTTTTATT
1 TTTTTATTTTTATT
18665919 TTTATT-TTTTTAT
1 TTT-TTATTTTTAT
18665932 ACTTTTTCAA
Statistics
Matches: 56, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
14 29 0.52
15 11 0.20
16 3 0.05
18 4 0.07
19 9 0.16
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:18674980 original size:33 final size:33
Alignment explanation
Indices: 18674943--18675007 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
18674933 AATATTTGAC
18674943 CTCGTACATCATTTGATTTGATTTCTATAATGG
1 CTCGTACATCATTTGATTTGATTTCTATAATGG
18674976 CTCGTACATCATTTGATTTGATTTCTATAATG
1 CTCGTACATCATTTGATTTGATTTCTATAATG
18675008 ACTTGACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (33 bp):
CTCGTACATCATTTGATTTGATTTCTATAATGG
Found at i:18684747 original size:7 final size:7
Alignment explanation
Indices: 18684735--18684766 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18684725 ACAGAACTTG
18684735 TTTTAAT
1 TTTTAAT
18684742 TTTTAAT
1 TTTTAAT
18684749 TTTTAAT
1 TTTTAAT
18684756 TTTTAAT
1 TTTTAAT
18684763 TTTT
1 TTTT
18684767 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTAAT
Found at i:18684775 original size:26 final size:24
Alignment explanation
Indices: 18684741--18684800 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
18684731 CTTGTTTTAA
18684741 TTTTTAATTT-TTAATTTTTAATTTT
1 TTTTTAATTTATT--TTTTTAATTTT
*
18684766 TTTTGTAATTTATTTTTTTTATTTT
1 TTTT-TAATTTATTTTTTTAATTTT
*
18684791 TTTTAAATTT
1 TTTTTAATTT
18684801 CGATAGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 5 0.16
25 18 0.58
26 6 0.19
27 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTAATTTATTTTTTTAATTTT
Found at i:18686961 original size:2 final size:2
Alignment explanation
Indices: 18686954--18686982 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18686944 CTAATTATTT
18686954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18686983 TAGTACATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18688835 original size:3 final size:3
Alignment explanation
Indices: 18688771--18688817 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
18688761 ATCTTTAACT
*
18688771 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18688818 TAAAACCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18690774 original size:17 final size:18
Alignment explanation
Indices: 18690754--18690787 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18690744 AATGAATTGT
18690754 TTTATTGAAT-AAATTAA
1 TTTATTGAATGAAATTAA
18690771 TTTATTGAATGAAATTA
1 TTTATTGAATGAAATTA
18690788 TTAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
TTTATTGAATGAAATTAA
Done.