Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 50 of 135
Found at i:17789272 original size:21 final size:22
Alignment explanation
Indices: 17789236--17789282 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17789226 ACTCATTAAG
17789236 CCCAAATCCTATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
*
17789258 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
17789279 CCCA
1 CCCA
17789283 TTTGAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (22 bp):
CCCAAATCCTATTTAAACCAAA
Found at i:17789284 original size:15 final size:15
Alignment explanation
Indices: 17789266--17789295 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17789256 AACCCAAATT
17789266 CATTTAAACCAAACC
1 CATTTAAACCAAACC
*
17789281 CATTTGAACCAAACC
1 CATTTAAACCAAACC
17789296 AAATGAACCA
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:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:17789375 original size:21 final size:20
Alignment explanation
Indices: 17789332--17789376 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17789322 AGTCAAACCA
*
17789332 TTGACCGACGTTGATTGTCG
1 TTGACCGACGTTGATGGTCG
17789352 TTGACCGACCGTTGATCGGT-G
1 TTGACCGA-CGTTGAT-GGTCG
17789373 TTGA
1 TTGA
17789377 TTGATAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 12 0.55
22 2 0.09
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (20 bp):
TTGACCGACGTTGATGGTCG
Found at i:17789409 original size:20 final size:20
Alignment explanation
Indices: 17789397--17789465 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
17789387 ACCGTTAATT
17789397 GTTGACTTTGACCGTTGACC
1 GTTGACTTTGACCGTTGACC
* *
17789417 GTTGACTTTGACCATTGCCC
1 GTTGACTTTGACCGTTGACC
17789437 GTTGACTTTGACCGTTGACC
1 GTTGACTTTGACCGTTGACC
17789457 GTTGACTTT
1 GTTGACTTT
17789466 TTTGAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGACTTTGACCGTTGACC
Found at i:17789415 original size:13 final size:13
Alignment explanation
Indices: 17789397--17789455 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
17789387 ACCGTTAATT
17789397 GTTGACTTTGACC
1 GTTGACTTTGACC
*
17789410 GTTGACCGTTGA-C
1 GTTGA-CTTTGACC
* * *
17789423 TTTGACCATTGCCC
1 GTTGA-CTTTGACC
17789437 GTTGACTTTGACC
1 GTTGACTTTGACC
17789450 GTTGAC
1 GTTGAC
17789456 CGTTGACTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 27 0.73
14 10 0.27
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:17789416 original size:7 final size:7
Alignment explanation
Indices: 17789404--17789462 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
17789394 ATTGTTGACT
17789404 TTGACCG
1 TTGACCG
17789411 TTGACCG
1 TTGACCG
*
17789418 TTGA-CT
1 TTGACCG
*
17789424 TTGACCA
1 TTGACCG
*
17789431 TTGCCCG
1 TTGACCG
*
17789438 TTGA-CT
1 TTGACCG
17789444 TTGACCG
1 TTGACCG
17789451 TTGACCG
1 TTGACCG
17789458 TTGAC
1 TTGAC
17789463 TTTTTTGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 10 0.23
7 33 0.77
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (7 bp):
TTGACCG
Found at i:17804544 original size:5 final size:5
Alignment explanation
Indices: 17804531--17804577 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
17804521 AAAAATTAAA
* *
17804531 TTTTCC TTTTC TTTCC TTTCC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
17804578 GTCTAATTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:17806204 original size:5 final size:5
Alignment explanation
Indices: 17806194--17806223 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
17806184 TAGAAACCTT
17806194 CAATG CAATG CAATG CAATG CAATG CAATG
1 CAATG CAATG CAATG CAATG CAATG CAATG
17806224 AAAGAACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
CAATG
Found at i:17812401 original size:33 final size:33
Alignment explanation
Indices: 17812359--17812428 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
17812349 ACTTTTGTTG
17812359 AGATATTATATTCGCATAAGCAATACATGAAAC
1 AGATATTATATTCGCATAAGCAATACATGAAAC
*
17812392 AGATATTATATTCGCATAAGCAATACATGAAGC
1 AGATATTATATTCGCATAAGCAATACATGAAAC
17812425 AGAT
1 AGAT
17812429 TTGTACCACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (33 bp):
AGATATTATATTCGCATAAGCAATACATGAAAC
Found at i:17814865 original size:27 final size:28
Alignment explanation
Indices: 17814811--17814866 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
17814801 TTATCCAAAT
*
17814811 AATATAAAAATAATAATTAATTACGAAA
1 AATATAAAAATAATAATTAATAACGAAA
* * *
17814839 AATATGAAAATTAT-ATTAATAATGAAA
1 AATATAAAAATAATAATTAATAACGAAA
17814866 A
1 A
17814867 TATTCATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
AATATAAAAATAATAATTAATAACGAAA
Found at i:17817366 original size:24 final size:24
Alignment explanation
Indices: 17817330--17817376 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17817320 AGAATTTTTT
* *
17817330 AAATTTAATAATTTTTTTAAATAC
1 AAATTTAAGAATTTTTATAAATAC
*
17817354 AAATTTTAGAATTTTTATAAATA
1 AAATTTAAGAATTTTTATAAATA
17817377 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATTTAAGAATTTTTATAAATAC
Found at i:17819913 original size:13 final size:13
Alignment explanation
Indices: 17819895--17819920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17819885 TGTTCAAGCC
17819895 ATTCAAGGTCCGA
1 ATTCAAGGTCCGA
17819908 ATTCAAGGTCCGA
1 ATTCAAGGTCCGA
17819921 GCCCAACACA
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:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
ATTCAAGGTCCGA
Found at i:17820798 original size:31 final size:32
Alignment explanation
Indices: 17820752--17820822 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
17820742 TGTATTTAAA
*
17820752 TTTTTTATCTAATTTGATA-CTCAAATTTGACAC
1 TTTTTT-TCTAATTTGATATCT-AAACTTGACAC
*
17820785 TTTTTTT-TAATTTGATATCTAAACTTGATAC
1 TTTTTTTCTAATTTGATATCTAAACTTGACAC
17820816 TTTTTTT
1 TTTTTTT
17820823 AAGTGGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 26 0.74
32 3 0.09
33 6 0.17
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (32 bp):
TTTTTTTCTAATTTGATATCTAAACTTGACAC
Found at i:17820838 original size:30 final size:31
Alignment explanation
Indices: 17820767--17820840 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
17820757 TATCTAATTT
* * * *
17820767 GATACTCAAATTTGACACTTTTTTTTAATTT
1 GATACTTAAACTTGACACTTTTTTTTAAGTG
*
17820798 GATA-TCTAAACTTGATAC-TTTTTTTAAGTG
1 GATACT-TAAACTTGACACTTTTTTTTAAGTG
17820828 GATACTTAAACTT
1 GATACTTAAACTT
17820841 TTCCTAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (31 bp):
GATACTTAAACTTGACACTTTTTTTTAAGTG
Found at i:17821607 original size:22 final size:23
Alignment explanation
Indices: 17821565--17821616 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
17821555 TATTTAATTT
* *
17821565 TATTATTATATTTTATAATAAAA
1 TATTATTATATATAATAATAAAA
17821588 TATTATTAT-TATAATAATAAAA
1 TATTATTATATATAATAATAAAA
17821610 TATTATT
1 TATTATT
17821617 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTATTATATATAATAATAAAA
Found at i:17821613 original size:19 final size:19
Alignment explanation
Indices: 17821572--17821616 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17821562 TTTTATTATT
17821572 ATATT-TTATAATAAAATA
1 ATATTATTATAATAAAATA
*
17821590 TTATTATTATAATAATAA-A
1 ATATTATTATAATAA-AATA
17821609 ATATTATT
1 ATATTATT
17821617 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 17 0.74
20 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTATTATAATAAAATA
Found at i:17821628 original size:19 final size:20
Alignment explanation
Indices: 17821568--17821629 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 20
17821558 TTAATTTTAT
*
17821568 TATTATATTTTATAATAAAA
1 TATTATTTTTTATAATAAAA
*
17821588 TATTATTATTATAATAATAAAA
1 TATTATT-TT-TTATAATAAAA
*
17821610 TATTATTTTTTTTAA-AAAA
1 TATTATTTTTTATAATAAAA
17821629 T
1 T
17821630 TAAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.14
20 10 0.28
21 4 0.11
22 17 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATTTTTTATAATAAAA
Found at i:17826779 original size:61 final size:61
Alignment explanation
Indices: 17826704--17826825 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
17826694 CACTGCTATT
* * * *
17826704 CCACGCTTGGTTCTTTCCGCATTGGTGAGTAGTCTTTGCTTAAGGATAGTCCAAATGAAGA
1 CCACGCTTGGTTCTTTCCACATTGGTGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
17826765 CCACGCTTGGTTCTTTCCACATTGGTGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
1 CCACGCTTGGTTCTTTCCACATTGGTGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
17826826 AACAAACCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (61 bp):
CCACGCTTGGTTCTTTCCACATTGGTGAGGAGCCTTTGCTTAAGGACAGTCCAAATGAAGA
Found at i:17830268 original size:24 final size:24
Alignment explanation
Indices: 17830236--17830283 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17830226 CCCGGCCCAG
17830236 ATTTATAATAATAATTTTATTTTT
1 ATTTATAATAATAATTTTATTTTT
* * *
17830260 ATTTTTAATACTAATTTTTTTTTT
1 ATTTATAATAATAATTTTATTTTT
17830284 GCTTGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTATAATAATAATTTTATTTTT
Found at i:17830292 original size:24 final size:24
Alignment explanation
Indices: 17830241--17830295 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
17830231 CCCAGATTTA
* *
17830241 TAATAATAATTTTATTTTTATTTT
1 TAATAATAATTTTATTTTTACTTG
* * *
17830265 TAATACTAATTTTTTTTTTGCTTG
1 TAATAATAATTTTATTTTTACTTG
17830289 TAATAAT
1 TAATAAT
17830296 GATTGAATTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
TAATAATAATTTTATTTTTACTTG
Found at i:17832449 original size:23 final size:22
Alignment explanation
Indices: 17832400--17832449 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
17832390 AAAATTTAGT
17832400 TTTTATATTTTTATCTTCAAGA
1 TTTTATATTTTTATCTTCAAGA
* *
17832422 ATTTAGTATTTTTATTTTTCAA-A
1 TTTTA-TATTTTTA-TCTTCAAGA
17832445 TTTTA
1 TTTTA
17832450 AAATGTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTATATTTTTATCTTCAAGA
Found at i:17834401 original size:309 final size:306
Alignment explanation
Indices: 17833784--17834708 Score: 1067
Period size: 309 Copynumber: 3.0 Consensus size: 306
17833774 GGACTAAAAT
* * *
17833784 CATATGATGAAATTACTCTCATGGAAATACCTCAACAAGAAGAC-GACAATGGAGGGCCTCAGAA
1 CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAG-CAATGGAGGGCCTCAGAA
* * * * *
17833848 TGAATTGAAAGTTTTGATTAAAA-AGAAAATAAGATTGTTTGGGCAAAATATTTG-GGAAGAGTT
65 TGAATTGAAGGTTCTGATTAAAAGA-AAAATAAGATTGTTTGGGCAAGACATTTGAGG-AGAGGT
* * *
17833911 CATGGTGTAAATTACCAAAAG-CTTTTCTACGCTATTG-TTGGGGGAGCCACTAGAAAATAAAAA
128 CATGGTGTAAATTACCAAAAGTTTTTTATAC-C-ATTGTTTGGGGGAG-CACTAGAAAATAAGAA
* * * * * *
17833974 CTATTACTAAAGTTAAGTCTTTCATGTACCAAATGTTTCCTT-GTATTGAGTAAAACTCGTGATT
190 CAAGTACTAAAGTTATGTCTTTCATGTACCAAATGTTT-CTTCATATTGAATAAAACTCGTGGTT
* * **
17834038 CCAAAGATATATTAATTATCTTCTTTCTTTTATTCATTACAAATATTGGCTAC
254 CCAAATATATATTAATTATCTTATCCCTTTTATTCATTACAAATATTGGCTAC
** *
17834091 CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAGCACCGGAGAGCCTCAGAAT
1 CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAGCAATGGAGGGCCTCAGAAT
*
17834156 GAATTGAAGGTTCTGATTAAAAGAAAAATAAGATTGTTTGGGCAAGACATTGTGAGGAGAGGTCG
66 GAATTGAAGGTTCTGATTAAAAGAAAAATAAGATTGTTTGGGCAAGACATT-TGAGGAGAGGTCA
* *
17834221 TGGTGTAAATTTCCAAAAGTTTTTTATATCATTGTTGTGGGGGAGTCACTAGAAAATAAGAACAA
130 TGGTGTAAATTACCAAAAGTTTTTTATACCATTGTT-TGGGGGAG-CACTAGAAAATAAGAACAA
* * *
17834286 GTAATAAAGCTATGTCTTTCATGTACCAAATGTTTTTTCATATTGAATAAAACTCGTGGTTCCAA
193 GTACTAAAGTTATGTCTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTCGTGGTTCCAA
* *
17834351 ATATATATTAATTACCTTATCCCTTTTATTCATTACAAATATTAGCTAC
258 ATATATATTAATTATCTTATCCCTTTTATTCATTACAAATATTGGCTAC
* * ** *
17834400 CATATGATGAAATCACTCTCATGACAATACCTCAACAAGAAGGCAACAATGGAGGGTTTTAGAAT
1 CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAGCAATGGAGGGCCTCAGAAT
* * * * * * * * * * *
17834465 GATTTCAAGGTTCCGGTTGAAGGGAAAATAAAATTATTTGGGTAAGACATTTTCA-GAG-GGCTC
66 GAATTGAAGGTTCTGATTAAAAGAAAAATAAGATTGTTTGGGCAAGACA-TTTGAGGAGAGG-TC
* * * * * * *
17834528 ATGGTGTAAATTACCACAAA-CTTTTTATGCCATTATTAGGGGAAGCAAGTAGAAAATAGGAACA
129 ATGGTGTAAATTACCA-AAAGTTTTTTATACCATTGTTTGGGGGAGC-ACTAGAAAATAAGAACA
* * * * * * * * *
17834592 TGTACCAAAGTTATCTATTTTATGTACCAAATGTTTCCTCATATTGATTAAAATTTGTGGTTCCA
192 AGTACTAAAGTTATGTCTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTCGTGGTTCCA
* *
17834657 AATATATATTAACTATCTTTTCCCTTTTATTCATTACAAATATTGGCTAC
257 AATATATATTAATTATCTTATCCCTTTTATTCATTACAAATATTGGCTAC
17834707 CA
1 CA
17834709 ATTCTTTCAA
Statistics
Matches: 528, Mismatches: 78, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
306 1 0.00
307 230 0.44
308 64 0.12
309 231 0.44
310 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (306 bp):
CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAGCAATGGAGGGCCTCAGAAT
GAATTGAAGGTTCTGATTAAAAGAAAAATAAGATTGTTTGGGCAAGACATTTGAGGAGAGGTCAT
GGTGTAAATTACCAAAAGTTTTTTATACCATTGTTTGGGGGAGCACTAGAAAATAAGAACAAGTA
CTAAAGTTATGTCTTTCATGTACCAAATGTTTCTTCATATTGAATAAAACTCGTGGTTCCAAATA
TATATTAATTATCTTATCCCTTTTATTCATTACAAATATTGGCTAC
Found at i:17834708 original size:307 final size:304
Alignment explanation
Indices: 17833784--17834708 Score: 1088
Period size: 307 Copynumber: 3.0 Consensus size: 304
17833774 GGACTAAAAT
* * *
17833784 CATATGATGAAATTACTCTCATGGA-AATACCTCAACAAGAAGACGACAATGGAGGGCCTCAGAA
1 CATATGATGAAATCACTCTCAT-GACAATACCTCAACAAGAAGGCAACAATGGAGGGCCTCAGAA
* * * * *
17833848 TGAATTGAAAGTTTTGATTAAAAAGAAAATAAGATTGTTTGGGCAA-A-ATATTTGGGAAGAGTT
65 TGAATTGAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACAT-TTTGAG-AG-GGT
* * *
17833911 CATGGTGTAAATTACCAAAAGCTTTTCTACGCTATTGTTGGGGGAGCCACTAGAAAATAAAAACT
127 CATGGTGTAAATTACCAAAAGCTTTT-TATGCCATTGTTGGGGGAG-CACTAGAAAATAAGAAC-
* ** * *
17833976 AT-TACTAAAGTTAAGTCTTTCATGTACCAAATGTTTCCTTGTATTGAGTAAAACTCGTGATTCC
189 ATGTACTAAAGTTATGTCTTTCATGTACCAAATGTTTCCTCATATTGAATAAAACTCGTGGTTCC
* *
17834040 AAAGATATATTAATTATCTTCTT-TCTTTTATTCATTACAAATATTGGCTAC
254 AAATATATATTAATTATCTT-TTCCCTTTTATTCATTACAAATATTGGCTAC
* * ** *
17834091 CATATGATGAAATCACTCTCATGGCAATACCTCAACAAGAAGGCAGCACCGGAGAGCCTCAGAAT
1 CATATGATGAAATCACTCTCATGACAATACCTCAACAAGAAGGCAACAATGGAGGGCCTCAGAAT
* * *
17834156 GAATTGAAGGTTCTGATTAAAAGAAAAATAAGATTGTTTGGGCAAGACATTGTGAGGAGAGGTCG
66 GAATTGAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTTGA-GAG-GGTCA
* * ** *
17834221 TGGTGTAAATTTCCAAAAGTTTTTTATATCATTGTTGTGGGGGAGTCACTAGAAAATAAGAACAA
129 TGGTGTAAATTACCAAAAGCTTTTTATGCCATTG-T-TGGGGGAG-CACTAGAAAATAAGAACAT
* * **
17834286 GTAATAAAGCTATGTCTTTCATGTACCAAATGTTTTTTCATATTGAATAAAACTCGTGGTTCCAA
191 GTACTAAAGTTATGTCTTTCATGTACCAAATGTTTCCTCATATTGAATAAAACTCGTGGTTCCAA
* * *
17834351 ATATATATTAATTACCTTATCCCTTTTATTCATTACAAATATTAGCTAC
256 ATATATATTAATTATCTTTTCCCTTTTATTCATTACAAATATTGGCTAC
** *
17834400 CATATGATGAAATCACTCTCATGACAATACCTCAACAAGAAGGCAACAATGGAGGGTTTTAGAAT
1 CATATGATGAAATCACTCTCATGACAATACCTCAACAAGAAGGCAACAATGGAGGGCCTCAGAAT
* * * * * * * * * *
17834465 GATTTCAAGGTTCCGGTTGAAGGGAAAATAAAATTATTTGGGTAAGACATTTTCAGAGGGCTCAT
66 GAATTGAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTTGAGAGGG-TCAT
* * * *
17834530 GGTGTAAATTACCACAAA-CTTTTTATGCCATTATTAGGGGAAGCAAGTAGAAAATAGGAACATG
130 GGTGTAAATTACCA-AAAGCTTTTTATGCCATTGTT-GGGGGAGC-ACTAGAAAATAAGAACATG
* * * * * * *
17834594 TACCAAAGTTATCTATTTTATGTACCAAATGTTTCCTCATATTGATTAAAATTTGTGGTTCCAAA
192 TACTAAAGTTATGTCTTTCATGTACCAAATGTTTCCTCATATTGAATAAAACTCGTGGTTCCAAA
*
17834659 TATATATTAACTATCTTTTCCCTTTTATTCATTACAAATATTGGCTAC
257 TATATATTAATTATCTTTTCCCTTTTATTCATTACAAATATTGGCTAC
17834707 CA
1 CA
17834709 ATTCTTTCAA
Statistics
Matches: 522, Mismatches: 84, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
306 3 0.01
307 227 0.43
308 65 0.12
309 227 0.43
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (304 bp):
CATATGATGAAATCACTCTCATGACAATACCTCAACAAGAAGGCAACAATGGAGGGCCTCAGAAT
GAATTGAAGGTTCTGATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTTGAGAGGGTCATG
GTGTAAATTACCAAAAGCTTTTTATGCCATTGTTGGGGGAGCACTAGAAAATAAGAACATGTACT
AAAGTTATGTCTTTCATGTACCAAATGTTTCCTCATATTGAATAAAACTCGTGGTTCCAAATATA
TATTAATTATCTTTTCCCTTTTATTCATTACAAATATTGGCTAC
Found at i:17835171 original size:21 final size:21
Alignment explanation
Indices: 17835147--17835202 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
17835137 CAACTAGGAG
*
17835147 TTCTACCGATACAATTCTA-AC
1 TTCTACCGATACAA-TCCAGAC
* *
17835168 TTCTATCTATACAATCCAGAC
1 TTCTACCGATACAATCCAGAC
*
17835189 TTCTACCGGTACAA
1 TTCTACCGATACAA
17835203 CAAACTACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (21 bp):
TTCTACCGATACAATCCAGAC
Found at i:17841006 original size:17 final size:17
Alignment explanation
Indices: 17840984--17841016 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17840974 ATTCAAAACT
17840984 AATAAAAATAATATAAA
1 AATAAAAATAATATAAA
*
17841001 AATAAAATTAATATAA
1 AATAAAAATAATATAA
17841017 TTAATCATAA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAATAATATAAA
Found at i:17841841 original size:18 final size:18
Alignment explanation
Indices: 17841790--17841842 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
17841780 CTTATATTTT
*
17841790 ATATTATTATATAA-TAAA
1 ATATTATTAT-TAATTATA
*
17841808 ATATTATTATTTATTATA
1 ATATTATTATTAATTATA
17841826 ATATTATTATTAATTAT
1 ATATTATTATTAATTAT
17841843 CTTTTGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 2 0.06
18 29 0.94
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATTATTAATTATA
Found at i:17846071 original size:30 final size:30
Alignment explanation
Indices: 17846037--17846102 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
17846027 AGTAAGAACC
*
17846037 AATTCTGGAGCATACTTGGACAAACGAAGA
1 AATTCTGGAGCATACTTAGACAAACGAAGA
17846067 AATTCTGGAGCATACTTAGACAAACGAAGA
1 AATTCTGGAGCATACTTAGACAAACGAAGA
17846097 AATTCT
1 AATTCT
17846103 CGTTCATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (30 bp):
AATTCTGGAGCATACTTAGACAAACGAAGA
Found at i:17848776 original size:14 final size:15
Alignment explanation
Indices: 17848748--17848777 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17848738 CAAATATTCG
17848748 TTATTTCTATTATTT
1 TTATTTCTATTATTT
17848763 TTATTTCT-TTATTT
1 TTATTTCTATTATTT
17848777 T
1 T
17848778 CAATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTCTATTATTT
Found at i:17850465 original size:13 final size:14
Alignment explanation
Indices: 17850447--17850476 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17850437 AAGAATACTT
17850447 ATTTTATTA-CAAA
1 ATTTTATTATCAAA
17850460 ATTTTATTATCAAA
1 ATTTTATTATCAAA
17850474 ATT
1 ATT
17850477 CAAATGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTATTATCAAA
Found at i:17853838 original size:18 final size:18
Alignment explanation
Indices: 17853815--17853849 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17853805 CTATCATCCT
* *
17853815 CTAAGGGGAAGCAGAAAG
1 CTAAGGGAAAGAAGAAAG
17853833 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
17853850 CCGACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.34, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:17862870 original size:6 final size:6
Alignment explanation
Indices: 17862856--17862914 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
17862846 AGATGAAACT
* *
17862856 GAGGAA GAGGGA GAGGAA GAGGGA GAGGAA GAGGAA GAGGAA GAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
17862904 GAGGAA G-GGAA
1 GAGGAA GAGGAA
17862915 CGATTCGGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 4 0.08
6 45 0.92
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:17867583 original size:27 final size:27
Alignment explanation
Indices: 17867545--17867596 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
17867535 GCAATAATGG
17867545 TATGGTTGTTGCCTTTAAGCTCCTTGA
1 TATGGTTGTTGCCTTTAAGCTCCTTGA
17867572 TATGGTTGTTGCCTTTAAGCTCCTT
1 TATGGTTGTTGCCTTTAAGCTCCTT
17867597 TTTTTACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (27 bp):
TATGGTTGTTGCCTTTAAGCTCCTTGA
Found at i:17885108 original size:19 final size:20
Alignment explanation
Indices: 17885080--17885118 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
17885070 AATAAAAGGT
*
17885080 CAAAATAAAAAAGA-AAAAG
1 CAAAAAAAAAAAGAGAAAAG
*
17885099 CAAAAAAAAAGAGAGAAAAG
1 CAAAAAAAAAAAGAGAAAAG
17885119 AGAAGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (20 bp):
CAAAAAAAAAAAGAGAAAAG
Found at i:17885399 original size:15 final size:15
Alignment explanation
Indices: 17885381--17885423 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
17885371 AAAGATGTGG
*
17885381 AAAAGATAAAGAAGC
1 AAAAGAAAAAGAAGC
* *
17885396 AAAAGAAAAAAAAGG
1 AAAAGAAAAAGAAGC
17885411 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
17885424 ATTTCTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAGC
Found at i:17885738 original size:2 final size:2
Alignment explanation
Indices: 17885696--17885721 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17885686 ACAAACTGCG
17885696 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
17885722 ATTATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17888792 original size:6 final size:6
Alignment explanation
Indices: 17888781--17888825 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
17888771 TGATCAAAAT
* * *
17888781 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
17888826 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:17892764 original size:18 final size:18
Alignment explanation
Indices: 17892741--17892780 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17892731 TCAACATCGA
17892741 GTCTAGTGGCATTAAGGT
1 GTCTAGTGGCATTAAGGT
*
17892759 GTCTAGTGGCATTAATGT
1 GTCTAGTGGCATTAAGGT
17892777 GTCT
1 GTCT
17892781 CGTGAGGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (18 bp):
GTCTAGTGGCATTAAGGT
Found at i:17895319 original size:16 final size:18
Alignment explanation
Indices: 17895284--17895320 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17895274 AAAAGTTGTG
*
17895284 ATAATTATATATTTAGAA
1 ATAATTATATACTTAGAA
17895302 ATAATTATA-ACTTA-AA
1 ATAATTATATACTTAGAA
17895318 ATA
1 ATA
17895321 TATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAATTATATACTTAGAA
Found at i:17895327 original size:20 final size:20
Alignment explanation
Indices: 17895302--17895339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17895292 ATATTTAGAA
17895302 ATAATTATAACTTAAAATAT
1 ATAATTATAACTTAAAATAT
* *
17895322 ATAATTATTAGTTAAAAT
1 ATAATTATAACTTAAAAT
17895340 GTTGTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
ATAATTATAACTTAAAATAT
Found at i:17901536 original size:30 final size:31
Alignment explanation
Indices: 17901500--17901563 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
17901490 TACATTTCAA
17901500 TCCCTCAAC-TTTGAAAATGTGACAAAACAG
1 TCCCTCAACTTTTGAAAATGTGACAAAACAG
17901530 TCCCTCAACTTTTGAAAATGTGACAAAACAG
1 TCCCTCAACTTTTGAAAATGTGACAAAACAG
17901561 TCC
1 TCC
17901564 TTTTTCGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (31 bp):
TCCCTCAACTTTTGAAAATGTGACAAAACAG
Found at i:17907958 original size:24 final size:25
Alignment explanation
Indices: 17907898--17907958 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
17907888 TAATTAAAAA
** *
17907898 TTAATTAAAACCATTTTTTAGATGT
1 TTAATTAAAATTACTTTTTAGATGT
*
17907923 TTAATTATAATTACTTTTTAGATGT
1 TTAATTAAAATTACTTTTTAGATGT
17907948 TTAA-TAAAATT
1 TTAATTAAAATT
17907959 TTAATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
TTAATTAAAATTACTTTTTAGATGT
Found at i:17909735 original size:16 final size:16
Alignment explanation
Indices: 17909716--17909748 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17909706 ACTTGTAACA
17909716 TATATATA-ATTTCATT
1 TATATATACA-TTCATT
17909732 TATATATACATTCATT
1 TATATATACATTCATT
17909748 T
1 T
17909749 CGACCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATACATTCATT
Found at i:17910172 original size:24 final size:24
Alignment explanation
Indices: 17910145--17910190 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17910135 CTTATTATTG
17910145 AATTCGTAT-CAATTCCATATTTGT
1 AATT-GTATGCAATTCCATATTTGT
* *
17910169 AATTGTATGCACTTTCATATTT
1 AATTGTATGCAATTCCATATTT
17910191 CAAATAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (24 bp):
AATTGTATGCAATTCCATATTTGT
Found at i:17912095 original size:1 final size:1
Alignment explanation
Indices: 17912089--17912119 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
17912079 TTTCCATTAG
17912089 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
17912120 TTTTTGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:17913858 original size:2 final size:2
Alignment explanation
Indices: 17913851--17913919 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
17913841 GGGTACATTG
17913851 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17913893 CT CT CT CT CT CT CT CT CT CT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17913920 GAAGACAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:17915122 original size:104 final size:103
Alignment explanation
Indices: 17914857--17915164 Score: 278
Period size: 109 Copynumber: 2.9 Consensus size: 103
17914847 TTTAAACGAA
* * * * * ** * *
17914857 ATATTCGATTACTTAGGTTCAAGGTAAAATCATACCCAACACGTTAGGGCACAATTTTTCGAGTC
1 ATATTCAATTACTAAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
* * ** *
17914922 CCCTAAAATAATAG-AATATTGAGCATTAATTGGTTCTGAATAGG
66 CCCT-AAATAA-AGAAACATT--GCCTCGATT--TT-TGAATAAG
* * * * *
17914966 ATATTCAATTATTTAGGTTCAAAGAAAAATCATACTCAACATGTTAGGGCACAATTCCTCGACTT
1 ATATTCAATTACTAAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
17915031 CCCTAAAATAAA-AGAACATTGCCTCGATTTTTGAATAAG
66 CCCT-AAATAAAGA-AACATTGCCTCGATTTTTGAATAAG
* * ** * * *
17915070 ATATTCAATTACTAAGGTTCGAAGAAAAATTATACCCAGTACGTTTGAGCACAATTTCTCGAGTT
1 ATATTCAATTACTAAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
*
17915135 CCCTATATAAAGAAACATTGCCTCGATTTT
66 CCCTAAATAAAGAAACATTGCCTCGATTTT
17915165 GAAAATATTT
Statistics
Matches: 168, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
103 23 0.14
104 65 0.39
105 2 0.01
107 6 0.04
108 1 0.01
109 71 0.42
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (103 bp):
ATATTCAATTACTAAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
CCCTAAATAAAGAAACATTGCCTCGATTTTTGAATAAG
Found at i:17915358 original size:14 final size:14
Alignment explanation
Indices: 17915319--17915360 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
17915309 TACGAGTAAT
*
17915319 AAATACACAAAATA
1 AAATAAACAAAATA
*
17915333 AATATATA-AAAATA
1 AA-ATAAACAAAATA
17915347 AAATAAACAAAATA
1 AAATAAACAAAATA
17915361 CGCAATGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAACAAAATA
Found at i:17915564 original size:30 final size:30
Alignment explanation
Indices: 17915497--17915650 Score: 123
Period size: 30 Copynumber: 5.1 Consensus size: 30
17915487 GGAAAAATGA
** *
17915497 GGTCAAAAATGAAATTTT-GAAAAGTTTAGG
1 GGTCAAATTTGAATTTTTGGAAAA-TTTAGG
* *
17915527 GGCCAAATTTGAATTTTTGGAAAATTTACG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
** *
17915557 GGTCAAATTCAAATTTTT-GAAAAGTTTGGG
1 GGTCAAATTTGAATTTTTGGAAAA-TTTAGG
** * * **
17915587 GAGTCAAAAATGAAATTTTGGAAAGTTCGGG
1 G-GTCAAATTTGAATTTTTGGAAAATTTAGG
* *
17915618 GGTTAAATTTGAATTTTTGGAAAGTTTAGG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
17915648 GGT
1 GGT
17915651 GAAAATATTA
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
29 5 0.05
30 65 0.67
31 23 0.24
32 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.34
Consensus pattern (30 bp):
GGTCAAATTTGAATTTTTGGAAAATTTAGG
Found at i:17915626 original size:61 final size:60
Alignment explanation
Indices: 17915511--17915649 Score: 143
Period size: 61 Copynumber: 2.3 Consensus size: 60
17915501 AAAAATGAAA
* ** * *
17915511 TTTTGAAAAGTTTAGGGGCCAAATTTGAATTTTTGGAAAATTTACGGGTCAAATTCAAAT
1 TTTTGAAAAGTTTGGGGGCCAAAAATGAAATTTTGGAAAATTCACGGGTCAAATTCAAAT
* * ** * **
17915571 TTTTGAAAAGTTTGGGGAGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTTAAATTTGAAT
1 TTTTGAAAAGTTTGGGG-GCCAAAAATGAAATTTTGGAAAATTCACGGGTCAAATTCAAAT
* *
17915632 TTTTGGAAAGTTTAGGGG
1 TTTTGAAAAGTTTGGGGG
17915650 TGAAAATATT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 17 0.27
61 47 0.73
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (60 bp):
TTTTGAAAAGTTTGGGGGCCAAAAATGAAATTTTGGAAAATTCACGGGTCAAATTCAAAT
Found at i:17916474 original size:112 final size:115
Alignment explanation
Indices: 17916272--17916495 Score: 346
Period size: 112 Copynumber: 2.0 Consensus size: 115
17916262 TATTCTTTAT
* *
17916272 ATCATTAGACCACTAACTGTTATTTCAAATGCAAAAAATGCTTGAATTAAGGTTGTAAGGTGGAT
1 ATCATTAGACCACTAACCGTTATTTCAAATGCAAAAAATGCTTGAATCAAGGTTGTAAGGTGGAT
* * *
17916337 GAAATTGAGTTTTATTGGAGACAAAGCTCGTATGAATGAAAAGATTACGA
66 AAAATTGAATTTTATTAGAGACAAAGCTCGTATGAATGAAAAGATTACGA
* * *
17916387 ATCATTGGTCCACTAACCGTTATTTC-GATGC-AAAAATGCTTGAA-CAAGGTTGTAAGGTGGAT
1 ATCATTAGACCACTAACCGTTATTTCAAATGCAAAAAATGCTTGAATCAAGGTTGTAAGGTGGAT
*
17916449 AAAATTGAATTTTATTAGAGGCAAAGCTCGTATGAATGAAAAGATTA
66 AAAATTGAATTTTATTAGAGACAAAGCTCGTATGAATGAAAAGATTA
17916496 AAAATGAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
112 60 0.60
113 13 0.13
114 4 0.04
115 23 0.23
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (115 bp):
ATCATTAGACCACTAACCGTTATTTCAAATGCAAAAAATGCTTGAATCAAGGTTGTAAGGTGGAT
AAAATTGAATTTTATTAGAGACAAAGCTCGTATGAATGAAAAGATTACGA
Found at i:17920541 original size:42 final size:42
Alignment explanation
Indices: 17920482--17920565 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
17920472 TAAATATTTT
*
17920482 TAAACCCAAATATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
*
17920524 TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
17920566 AACTCCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:17923008 original size:14 final size:14
Alignment explanation
Indices: 17922968--17923008 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
17922958 TACGAGTAAT
17922968 AAATACACAAAA-A
1 AAATACACAAAATA
*
17922981 AATATATA-AAAATA
1 AA-ATACACAAAATA
17922995 AAATACACAAAATA
1 AAATACACAAAATA
17923009 CGCAATGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATACACAAAATA
Found at i:17923240 original size:30 final size:30
Alignment explanation
Indices: 17923145--17923326 Score: 174
Period size: 30 Copynumber: 6.1 Consensus size: 30
17923135 TAAGTAAAAT
* *
17923145 GGGGTCAAAATGAAA-TTTTGGAAAGTTTG
1 GGGGTCAAAATCAAATTTTTGGAAAGTTTA
* * ** * *
17923174 GGGGCCAAATTTGAATTTTTAGAAAATTT-
1 GGGGTCAAAATCAAATTTTTGGAAAGTTTA
*
17923203 GAAGGTCAAAATCAAATTTTTGGAAAGTTTA
1 G-GGGTCAAAATCAAATTTTTGGAAAGTTTA
* *
17923234 GGGGTC-AAATCAAATATTTGGAAAGTTTCG
1 GGGGTCAAAATCAAATTTTTGGAAAGTTT-A
* *
17923264 GGGGTCAAAAATTATA-TTTTGGAAAGTTTA
1 GGGGTC-AAAATCAAATTTTTGGAAAGTTTA
* *
17923294 GGGGTCAAATTCAAATTTTTGAAAAGTTTA
1 GGGGTCAAAATCAAATTTTTGGAAAGTTTA
17923324 GGG
1 GGG
17923327 TTTAAAATAT
Statistics
Matches: 122, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
29 39 0.32
30 64 0.52
31 13 0.11
32 6 0.05
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (30 bp):
GGGGTCAAAATCAAATTTTTGGAAAGTTTA
Found at i:17923243 original size:60 final size:59
Alignment explanation
Indices: 17923147--17923318 Score: 195
Period size: 60 Copynumber: 2.9 Consensus size: 59
17923137 AGTAAAATGG
* * * **
17923147 GGTCAAAATGAAATTTTGGAAAGTTTGGGGGCCAAATTTGAATTTTTAGAAAATTT-GAA
1 GGTCAAAATCAAATTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTT-GAAAATTTCGAA
* * **
17923206 GGTCAAAATCAAATTTTTGGAAAGTTTAGGGGTCAAA-TCAAATATTTGGAAAGTTTCGGG
1 GGTCAAAATCAAA-TTTTGGAAAGTTTAGGGGTCAAATTCAAAT-TTTTGAAAATTTCGAA
* *
17923266 GGTCAAAAATTATATTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTGAAAA
1 GGTC-AAAATCAAATTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTGAAAA
17923319 GTTTAGGGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
59 23 0.24
60 59 0.62
61 13 0.14
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (59 bp):
GGTCAAAATCAAATTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTGAAAATTTCGAA
Found at i:17929307 original size:16 final size:16
Alignment explanation
Indices: 17929269--17929307 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
17929259 AAAAGGAAAA
17929269 AGTTTTTAGCGTTTTT
1 AGTTTTTAGCGTTTTT
*
17929285 AGGTTTTAGCAG-TTTT
1 AGTTTTTAGC-GTTTTT
17929301 AGTTTTT
1 AGTTTTT
17929308 TTTATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.15, C:0.05, G:0.21, T:0.59
Consensus pattern (16 bp):
AGTTTTTAGCGTTTTT
Found at i:17930755 original size:17 final size:18
Alignment explanation
Indices: 17930733--17930772 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17930723 AAAAATATGA
17930733 TAAAATATTTAAAA-AA-T
1 TAAAAT-TTTAAAATAACT
17930750 TAAAATTTTAAAATAACT
1 TAAAATTTTAAAATAACT
17930768 TAAAA
1 TAAAA
17930773 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 8 0.38
18 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATTTTAAAATAACT
Found at i:17933573 original size:27 final size:28
Alignment explanation
Indices: 17933540--17933608 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
17933530 CAAAGTTTCA
*
17933540 TATGTATAATT-ATACTAAATCAAAATT
1 TATGTATAATTCACACTAAATCAAAATT
* *
17933567 TATGTATCATATTGCACATTAAATTAAAATT
1 TATGTAT-A-ATT-CACACTAAATCAAAATT
17933598 TATGTATAATT
1 TATGTATAATT
17933609 TTGAAAATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 7 0.20
28 1 0.03
29 6 0.17
30 1 0.03
31 20 0.57
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (28 bp):
TATGTATAATTCACACTAAATCAAAATT
Found at i:17934089 original size:12 final size:12
Alignment explanation
Indices: 17934072--17934098 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17934062 TTTAATGATC
17934072 GATACCTCCTCA
1 GATACCTCCTCA
17934084 GATACCTCCTCA
1 GATACCTCCTCA
17934096 GAT
1 GAT
17934099 CTCACCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (12 bp):
GATACCTCCTCA
Found at i:17944809 original size:6 final size:6
Alignment explanation
Indices: 17944798--17944832 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
17944788 CCTCTCTCAT
* *
17944798 CATCAC CATCAC TATCAC CATCAC CATCAT CATCA
1 CATCAC CATCAC CATCAC CATCAC CATCAC CATCA
17944833 AAAGCTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (6 bp):
CATCAC
Found at i:17949033 original size:9 final size:9
Alignment explanation
Indices: 17948983--17949091 Score: 76
Period size: 10 Copynumber: 11.3 Consensus size: 9
17948973 AGAAAACATT
17948983 AAAATTGATA
1 AAAATT-ATA
*
17948993 TAAATTTATA
1 -AAAATTATA
*
17949003 AAAATTACA
1 AAAATTATA
*
17949012 AGAATTATAA
1 AAAATTAT-A
*
17949022 AAAATCATA
1 AAAATTATA
17949031 AAAACTTATA
1 AAAA-TTATA
* *
17949041 AATATGATA
1 AAAATTATA
17949050 AACAATTATAA
1 AA-AATTAT-A
17949061 AAAATTATA
1 AAAATTATA
*
17949070 ATAAATTGT-
1 A-AAATTATA
17949079 AAAATTAATA
1 AAAATT-ATA
17949089 AAA
1 AAA
17949092 CATAGTTTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
8 5 0.06
9 28 0.36
10 36 0.47
11 8 0.10
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:17949034 original size:29 final size:29
Alignment explanation
Indices: 17949002--17949067 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
17948992 ATAAATTTAT
*
17949002 AAAAATTACAAGA-ATTATAAAAAATCATA
1 AAAAATTACAA-ATATGATAAAAAATCATA
* * * *
17949031 AAAACTTATAAATATGATAAACAATTATA
1 AAAAATTACAAATATGATAAAAAATCATA
17949060 AAAAATTA
1 AAAAATTA
17949068 TAATAAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAAATTACAAATATGATAAAAAATCATA
Found at i:17949058 original size:19 final size:18
Alignment explanation
Indices: 17948998--17949082 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 18
17948988 TGATATAAAT
* * *
17948998 TTATAAAAATTACAAGAA
1 TTATAAAAATCATAAAAA
17949016 TTATAAAAAATCATAAAAA
1 TTAT-AAAAATCATAAAAA
* *
17949035 CTTATAAATATGATAAACAA
1 -TTATAAAAATCATAAA-AA
*
17949055 TTATAAAAAATTATAATAAA
1 TTAT-AAAAATCATAA-AAA
*
17949075 TTGTAAAA
1 TTATAAAA
17949083 TTAATAAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.07
19 29 0.54
20 20 0.37
21 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (18 bp):
TTATAAAAATCATAAAAA
Found at i:17949388 original size:3 final size:3
Alignment explanation
Indices: 17949375--17949432 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
17949365 AACCTTCTCT
*
17949375 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17949423 TTA TTA TTA T
1 TTA TTA TTA T
17949433 ATCTCCAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17949746 original size:24 final size:24
Alignment explanation
Indices: 17949719--17949764 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17949709 TTTTAAAATT
*
17949719 TTATGATTTTATAA-TATTTTATCA
1 TTATGAGTTTATAAGT-TTTTATCA
*
17949743 TTATTAGTTTATAAGTTTTTAT
1 TTATGAGTTTATAAGTTTTTAT
17949765 GATGTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
TTATGAGTTTATAAGTTTTTATCA
Found at i:17949812 original size:29 final size:30
Alignment explanation
Indices: 17949779--17949882 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 30
17949769 TTTTAATAAG
*
17949779 TTTTATAATTATTGA-TA-ATTTTTTAGAGT
1 TTTTATAATTATTGATTAGATTTTAT-GAGT
* *
17949808 TTTTATAA-TATTTATTAGATTTTATGATT
1 TTTTATAATTATTGATTAGATTTTATGAGT
* * *
17949837 TTTTATAATT-TTTATTAGTTTTTAT-AAT
1 TTTTATAATTATTGATTAGATTTTATGAGT
*
17949865 ATTTATAAGTTATT-ATTA
1 TTTTATAA-TTATTGATTA
17949883 TTTTTGTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
28 14 0.22
29 41 0.64
30 9 0.14
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (30 bp):
TTTTATAATTATTGATTAGATTTTATGAGT
Found at i:17949821 original size:9 final size:9
Alignment explanation
Indices: 17949697--17949934 Score: 99
Period size: 10 Copynumber: 24.7 Consensus size: 9
17949687 CTATAAATGG
17949697 ATTTTTATA
1 ATTTTTATA
*
17949706 TAGTTTTA-A
1 -ATTTTTATA
* *
17949715 AATTTTATG
1 ATTTTTATA
17949724 A-TTTTATA
1 ATTTTTATA
17949732 ATATTTTATCA
1 AT-TTTTAT-A
17949743 TTATTAGTTTATA
1 --ATT--TTTATA
*
17949756 AGTTTTTATG
1 A-TTTTTATA
17949766 ATGTTTTAATA
1 AT-TTTT-ATA
*
17949777 AGTTTTATA
1 ATTTTTATA
*
17949786 ATTATTGATA
1 ATT-TTTATA
17949796 ATTTTT-TA
1 ATTTTTATA
17949804 GAGTTTTTATA
1 -A-TTTTTATA
*
17949815 ATATTTATTA
1 ATTTTTA-TA
17949825 GA-TTTTATGA
1 -ATTTTTAT-A
*
17949835 TTTTTTATA
1 ATTTTTATA
17949844 ATTTTTATTA
1 ATTTTTA-TA
*
17949854 GTTTTTATA
1 ATTTTTATA
*
17949863 ATATTTATA
1 ATTTTTATA
* *
17949872 AGTTATTATT
1 A-TTTTTATA
*
17949882 ATTTTTGTA
1 ATTTTTATA
*
17949891 TTTTTTATA
1 ATTTTTATA
* *
17949900 AGTTTATCTA
1 A-TTTTTATA
17949910 ATATTTTA-A
1 AT-TTTTATA
*
17949919 TATTTTTATT
1 -ATTTTTATA
17949929 ATTTTT
1 ATTTTT
17949935 TTACAATTTT
Statistics
Matches: 172, Mismatches: 31, Indels: 51
0.68 0.12 0.20
Matches are distributed among these distances:
8 15 0.09
9 59 0.34
10 79 0.46
11 8 0.05
12 3 0.02
13 3 0.02
14 5 0.03
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:17949825 original size:21 final size:18
Alignment explanation
Indices: 17949750--17949851 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 18
17949740 TCATTATTAG
*
17949750 TTTATAAGTTTTTATGATGT
1 TTTATAATTTTTTA-GAT-T
*
17949770 TTTAATAAGTTTTATA-ATT
1 TTT-ATAA-TTTTTTAGATT
*
17949789 ATTGATAATTTTTTAGAGTT
1 -TTTATAATTTTTTAGA-TT
17949809 TTTATAATATTTATTAGA-T
1 TTTATAAT-TTT-TTAGATT
* *
17949828 TTTATGATTTTTTATAATT
1 TTTATAATTTTTTA-GATT
17949847 TTTAT
1 TTTAT
17949852 TAGTTTTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
17 3 0.05
18 10 0.15
19 27 0.41
20 12 0.18
21 9 0.14
22 5 0.08
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTATAATTTTTTAGATT
Found at i:17949845 original size:48 final size:47
Alignment explanation
Indices: 17949750--17949915 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 47
17949740 TCATTATTAG
* * * *
17949750 TTTATAAGTTTTTATGATGTTTTAATAAGTTTTATAATTATTGATAATT
1 TTTATGAGTTTTTATAAT-ATTT-ATAAGTTTTATAATTTTTGATAATT
* * *
17949799 TTT-TAGAGTTTTTATAATATTTATTAGATTTTATGATTTTTTATAATT
1 TTTAT-GAGTTTTTATAATATTTATAAG-TTTTATAATTTTTGATAATT
* * *
17949847 TTTATTAGTTTTTATAATATTTATAAGTTATTATTATTTTTG-TATTT
1 TTTATGAGTTTTTATAATATTTATAAGTT-TTATAATTTTTGATAATT
* * *
17949894 TTTATAAGTTTATCTAATATTT
1 TTTATGAGTTTTTATAATATTT
17949916 TAATATTTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 29 0.30
48 54 0.55
49 15 0.15
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (47 bp):
TTTATGAGTTTTTATAATATTTATAAGTTTTATAATTTTTGATAATT
Found at i:17949858 original size:19 final size:19
Alignment explanation
Indices: 17949836--17949946 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 19
17949826 ATTTTATGAT
17949836 TTTTTATAATTTTTATTAG
1 TTTTTATAATTTTTATTAG
* *
17949855 TTTTTATAATATTTATAAG
1 TTTTTATAATTTTTATTAG
* * * *
17949874 TTATTATTATTTTT-GTAT
1 TTTTTATAATTTTTATTAG
* *
17949892 TTTTTATAA-GTTTATCTAA
1 TTTTTATAATTTTTAT-TAG
*
17949911 TATTTTA-ATATTTTTATTATT
1 T-TTTTATA-ATTTTTATTA-G
*
17949932 TTTTTACAATTTTTA
1 TTTTTATAATTTTTA
17949947 ATATGAAAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
17 3 0.04
18 8 0.11
19 32 0.46
20 20 0.29
21 7 0.10
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTTTTATTAG
Found at i:17949901 original size:28 final size:28
Alignment explanation
Indices: 17949826--17949903 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
17949816 TATTTATTAG
*
17949826 ATTTTATG-ATTTTTTATAA-TTTTTATT
1 ATTTT-TGTATTTTTTATAAGTTATTATT
* * *
17949853 AGTTTTTATAATATTTATAAGTTATTATT
1 A-TTTTTGTATTTTTTATAAGTTATTATT
17949882 ATTTTTGTATTTTTTATAAGTT
1 ATTTTTGTATTTTTTATAAGTT
17949904 TATCTAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
27 2 0.05
28 31 0.76
29 8 0.20
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.65
Consensus pattern (28 bp):
ATTTTTGTATTTTTTATAAGTTATTATT
Found at i:17949906 original size:29 final size:29
Alignment explanation
Indices: 17949834--17949925 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 29
17949824 AGATTTTATG
17949834 ATTTTTTATAA-TTT-TTATTAGTTTTTAT
1 ATTTTTTATAAGTTTATTATTA-TTTTTAT
* * *
17949862 AATATTTATAAG-TTATTATTATTTTTGT
1 ATTTTTTATAAGTTTATTATTATTTTTAT
* *
17949890 ATTTTTTATAAGTTTATCTAATATTTTAAT
1 ATTTTTTATAAGTTTAT-TATTATTTTTAT
17949920 ATTTTT
1 ATTTTT
17949926 ATTATTTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 27 0.52
29 10 0.19
30 15 0.29
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (29 bp):
ATTTTTTATAAGTTTATTATTATTTTTAT
Found at i:17965192 original size:494 final size:493
Alignment explanation
Indices: 17964249--17965237 Score: 1658
Period size: 494 Copynumber: 2.0 Consensus size: 493
17964239 GATTTGAGCA
*
17964249 GAAATCAAAATAGATCTAACATTAAAAGGTACTTCCATGCACAATTAAAGTCATCAGAATTTATC
1 GAAATCAAAATAGATCTAACATTAAAAGGTACTTCCATACACAATTAAAGTCATCAGAATTTATC
17964314 AACATTTAAGAGGAATTAAAGAATAAGTTGAAGCATTCTATTCCTAGCCTACTAGAACTCTTCCG
66 AACATTTAAGAGGAATTAAAGAATAAGTTGAAGCATTCTATTCCTAGCCTACTAGAACTCTTCCG
*
17964379 TAAATGCTCCTCTTGTGTCACACTTAGAACACTCCTCATCAGGAGTAGATGCTTCCTTCTTCTCG
131 TAAATGCTCCTCTTGTGTCACACTTAGAACACTCCTCATCAGGAGTAGATGCTGCCTTCTTCTCG
17964444 CATCAGTTCACCCTCCAAGGATTTAAGCTTCCATGGCAGCTTGCTTAAGAAAAATCAGAAATGGA
196 CATCAGTTCACCCTCCAAGGATTTAAGCTTCCATGGCAGCTTGCTTAAGAAAAATCAGAAATGGA
* * *
17964509 ATTAATTTGTCACGAGCTTGATGATCTCCCCTTTCTCTTCTCTCTCTCCTCAGTATTTATCTTCA
261 ATTAATTTGTCACAAGCTTGATGATCTACCCTTTCTCTTCTCTCTCTCCTCAGCATTTATCTTCA
* * ** *
17964574 CTGCCCAGTACAGGTGTCCTTTTGCTCTCAGATCTAACTTCCTTGCAGTTGTACTAGTTAGTTAA
326 CTGCCCAGTACAGGTGTCCTTTTGCTCTCAAATCTAACTTCATTGCAACTGTACAAGTTAGTTAA
* * *
17964639 TCCAACTGTACAATCACGCAGATCTGGGTTATGCAGTAAGCAGTTGTAGGTTTTCGCGACATTTC
391 TCCAACTGTACAATCACGCAGATCTGGGTTATGCAGTAAACAGTTGCAGGTTGTCGCGACATTTC
* *
17964704 TGGACGCAAATTTATACTTTAATTTGCTGTGACAACTTT
456 T-GACGCAAATTTATACTTTAATTTCCTGCGACAACTTT
*
17964743 GAAATCAAAATAGATCTAACATTAAAAGGTACTTCCATACACAATTAAAGTTATCAGAATTTATC
1 GAAATCAAAATAGATCTAACATTAAAAGGTACTTCCATACACAATTAAAGTCATCAGAATTTATC
* *
17964808 AACGTTTAAGAGGAATTAAAGAATAAGTTGAAGCATTCTATTCTTAGCCTACTAGAACTCTTCCG
66 AACATTTAAGAGGAATTAAAGAATAAGTTGAAGCATTCTATTCCTAGCCTACTAGAACTCTTCCG
* *
17964873 TAAATGCTCCTCTTGTGTCGCACTTAGAACACTCCTCGTCAGGAGTAGATGCTGCCTTC-TCGTC
131 TAAATGCTCCTCTTGTGTCACACTTAGAACACTCCTCATCAGGAGTAGATGCTGCCTTCTTC-TC
* *
17964937 GCATCAGTTCAGCCTCCAAGGATTTAAGCTTCCATGGCAGCTTGCTTAAGAAAAATTAGAAATGG
195 GCATCAGTTCACCCTCCAAGGATTTAAGCTTCCATGGCAGCTTGCTTAAGAAAAATCAGAAATGG
*
17965002 AATTAATTTGTCACAAGCTTGATGATCTACCCTTTCTCTTCTCTCTCTCCTTAGCATTTATCTTC
260 AATTAATTTGTCACAAGCTTGATGATCTACCCTTTCTCTTCTCTCTCTCCTCAGCATTTATCTTC
*
17965067 ACTGCCCAGTACAGGTGTCCTTCTT-TTCTCAAATCTAACTTCATTGCAACTGTACAAGTTAGTT
325 ACTGCCCAGTACAGGTGTCCTT-TTGCTCTCAAATCTAACTTCATTGCAACTGTACAAGTTAGTT
* * * * *
17965131 AATCCAATTGTATAATCACGCAGATTTGGTTTATGCAGTAAATAGTTGCAGGTTGTCGCGACATT
389 AATCCAACTGTACAATCACGCAGATCTGGGTTATGCAGTAAACAGTTGCAGGTTGTCGCGACATT
* *
17965196 TCTGATGCAAATTTATACTTTAATTTCCTGCGGCAACTTT
454 TCTGACGCAAATTTATACTTTAATTTCCTGCGACAACTTT
17965236 GA
1 GA
17965238 CATCCTTATG
Statistics
Matches: 462, Mismatches: 31, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
493 37 0.08
494 423 0.92
495 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (493 bp):
GAAATCAAAATAGATCTAACATTAAAAGGTACTTCCATACACAATTAAAGTCATCAGAATTTATC
AACATTTAAGAGGAATTAAAGAATAAGTTGAAGCATTCTATTCCTAGCCTACTAGAACTCTTCCG
TAAATGCTCCTCTTGTGTCACACTTAGAACACTCCTCATCAGGAGTAGATGCTGCCTTCTTCTCG
CATCAGTTCACCCTCCAAGGATTTAAGCTTCCATGGCAGCTTGCTTAAGAAAAATCAGAAATGGA
ATTAATTTGTCACAAGCTTGATGATCTACCCTTTCTCTTCTCTCTCTCCTCAGCATTTATCTTCA
CTGCCCAGTACAGGTGTCCTTTTGCTCTCAAATCTAACTTCATTGCAACTGTACAAGTTAGTTAA
TCCAACTGTACAATCACGCAGATCTGGGTTATGCAGTAAACAGTTGCAGGTTGTCGCGACATTTC
TGACGCAAATTTATACTTTAATTTCCTGCGACAACTTT
Found at i:17976447 original size:56 final size:55
Alignment explanation
Indices: 17976356--17976503 Score: 199
Period size: 56 Copynumber: 2.7 Consensus size: 55
17976346 GAGAGGGTGT
* *
17976356 TAGGATATTATTATGCGATATTATCTTTTAACAATTTAATTCCTAAT-GTGATATTA
1 TAGGATATTATTATGAGATATTATC-TTTAGCAATTTAATTCCTAATAG-GATATTA
* * * *
17976412 TAGGATATTATTATGAAATATTATCTCTTAGCAATTTGATTTCTAATAGGATATTG
1 TAGGATATTATTATGAGATATTATCT-TTAGCAATTTAATTCCTAATAGGATATTA
*
17976468 TAGGATATTATTATGAGATATTATCTTTAGTAATTT
1 TAGGATATTATTATGAGATATTATCTTTAGCAATTT
17976504 GATTTCTATG
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
55 10 0.12
56 71 0.87
57 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (55 bp):
TAGGATATTATTATGAGATATTATCTTTAGCAATTTAATTCCTAATAGGATATTA
Found at i:17979861 original size:15 final size:15
Alignment explanation
Indices: 17979841--17979870 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17979831 ACAAACTAGA
17979841 CTGGTCTGCTCTGGT
1 CTGGTCTGCTCTGGT
17979856 CTGGTCTGCTCTGGT
1 CTGGTCTGCTCTGGT
17979871 TTTACTCATG
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:0.00, C:0.27, G:0.33, T:0.40
Consensus pattern (15 bp):
CTGGTCTGCTCTGGT
Found at i:17980604 original size:26 final size:26
Alignment explanation
Indices: 17980575--17980633 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
17980565 AATTTTTTTG
*
17980575 AATCGAGTCGAGTAAAATGAAATTCA
1 AATCGAGTCGAGTAAAATAAAATTCA
* *
17980601 AATCGAGTCGAGTGAAATAAAATTTA
1 AATCGAGTCGAGTAAAATAAAATTCA
17980627 AATCGAG
1 AATCGAG
17980634 ACAAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (26 bp):
AATCGAGTCGAGTAAAATAAAATTCA
Found at i:17980751 original size:16 final size:16
Alignment explanation
Indices: 17980730--17980760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17980720 CATATTAAAG
17980730 CACATAAATTTGAAAC
1 CACATAAATTTGAAAC
*
17980746 CACATATATTTGAAA
1 CACATAAATTTGAAA
17980761 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
CACATAAATTTGAAAC
Found at i:17982571 original size:17 final size:18
Alignment explanation
Indices: 17982544--17982583 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
17982534 GACATATATT
*
17982544 ATATACATAACATTCATA
1 ATATACATAACATTCACA
17982562 ATAT-CATAACATTCACA
1 ATATACATAACATTCACA
17982579 ATATA
1 ATATA
17982584 ATATACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATACATAACATTCACA
Found at i:17996327 original size:23 final size:24
Alignment explanation
Indices: 17996301--17996358 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
17996291 CATAAAGTAG
17996301 AAGCGTGCCACGA-GACAG-AGAAA
1 AAGCGTGCCAC-ATGACAGAAGAAA
* *
17996324 AAGCATGCCACATGATAGAAGAAA
1 AAGCGTGCCACATGACAGAAGAAA
17996348 AA-CGTGCCACA
1 AAGCGTGCCACA
17996359 AAGGCAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 22 0.73
24 7 0.23
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (24 bp):
AAGCGTGCCACATGACAGAAGAAA
Found at i:17996878 original size:15 final size:15
Alignment explanation
Indices: 17996858--17996909 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
17996848 ACTACAAAAC
17996858 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
17996873 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
17996892 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
17996907 ATT
1 ATT
17996910 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:17996973 original size:16 final size:16
Alignment explanation
Indices: 17996942--17996978 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17996932 ATAAGAAGAA
17996942 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17996958 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17996974 TATTA
1 TATTA
17996979 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17998967 original size:46 final size:46
Alignment explanation
Indices: 17998900--17999046 Score: 186
Period size: 46 Copynumber: 3.2 Consensus size: 46
17998890 ATTCTTGTCC
* * *
17998900 AGGTTCCCAGCTCTTGTATATGTTACGTATTGGTGAATACGGATTT
1 AGGTTCCCAGCTCTTGTATATGTTACGGACTGGAGAATACGGATTT
* * **
17998946 AGGTTCCCAGCTCATGTATATGTTACGGACTGAAGAATACGGATGC
1 AGGTTCCCAGCTCTTGTATATGTTACGGACTGGAGAATACGGATTT
* * **
17998992 AGGTTCCCAGCTCTTGCATACGTTGTGGACTGGAGAATACGGATTT
1 AGGTTCCCAGCTCTTGTATATGTTACGGACTGGAGAATACGGATTT
*
17999038 AAGTTCCCA
1 AGGTTCCCA
17999047 TTTACTACAT
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (46 bp):
AGGTTCCCAGCTCTTGTATATGTTACGGACTGGAGAATACGGATTT
Found at i:18002776 original size:55 final size:53
Alignment explanation
Indices: 18002716--18002856 Score: 147
Period size: 55 Copynumber: 2.5 Consensus size: 53
18002706 AACACGATCA
* * *
18002716 TGTGACCCTATTTTGAACATACACATGGGCAGGCACACGGGTTAGGACACGGCTG
1 TGTGACCC-ATTTTGAA-ATACACACGGGCAGACACACGGGTTAGGACACGGCCG
* * * * *
18002771 TGTGACCCAACTTCGAAATCACACACGGGCAGACACTCGGGTTGGGACATGGCCG
1 TGTGACCC-ATTTTGAAAT-ACACACGGGCAGACACACGGGTTAGGACACGGCCG
*
18002826 TGTGATCCCATTTTGAATACACACACGGGCA
1 TGTGA-CCCATTTTGAA-ATACACACGGGCA
18002857 CAGACACGAC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 2 0.03
55 65 0.92
56 4 0.06
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (53 bp):
TGTGACCCATTTTGAAATACACACGGGCAGACACACGGGTTAGGACACGGCCG
Found at i:18005754 original size:14 final size:14
Alignment explanation
Indices: 18005737--18005763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18005727 CATGCAAACT
18005737 AAAAAAAACAAAAG
1 AAAAAAAACAAAAG
18005751 AAAAAAAACAAAA
1 AAAAAAAACAAAA
18005764 TAAATTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAG
Found at i:18008627 original size:20 final size:20
Alignment explanation
Indices: 18008602--18008672 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
18008592 GCTTTTCAAA
*
18008602 AAAGTCAACGGTTAACGGTC
1 AAAGTCAACGGTCAACGGTC
* *
18008622 AAAGTCAACGATCAACGATC
1 AAAGTCAACGGTCAACGGTC
*
18008642 AACGATCAACGGTCAACGGTC
1 AAAG-TCAACGGTCAACGGTC
18008663 AAAGTCAACG
1 AAAGTCAACG
18008673 ATAAATGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:18008636 original size:7 final size:7
Alignment explanation
Indices: 18008626--18008674 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
18008616 ACGGTCAAAG
18008626 TCAACGA
1 TCAACGA
18008633 TCAACGA
1 TCAACGA
18008640 TCAACGA
1 TCAACGA
*
18008647 TCAACGG
1 TCAACGA
*
18008654 TCAACGG
1 TCAACGA
*
18008661 TCAAAG-
1 TCAACGA
18008667 TCAACGA
1 TCAACGA
18008674 T
1 T
18008675 AAATGGTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (7 bp):
TCAACGA
Found at i:18008645 original size:14 final size:13
Alignment explanation
Indices: 18008615--18008674 Score: 66
Period size: 14 Copynumber: 4.5 Consensus size: 13
18008605 GTCAACGGTT
* *
18008615 AACGGTCAAAGTC
1 AACGATCAACGTC
18008628 AACGATCAACGATC
1 AACGATCAACG-TC
18008642 AACGATCAACGGTC
1 AACGATCAAC-GTC
* *
18008656 AACGGTCAAAGTC
1 AACGATCAACGTC
18008669 AACGAT
1 AACGAT
18008675 AAATGGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 17 0.43
14 22 0.55
15 1 0.03
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (13 bp):
AACGATCAACGTC
Found at i:18008673 original size:27 final size:27
Alignment explanation
Indices: 18008625--18008699 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
18008615 AACGGTCAAA
* * *
18008625 GTCAACGATCAACGATCAACGATCAACG
1 GTCAACGGTCAAAG-TCAACGATAAACG
*
18008653 GTCAACGGTCAAAGTCAACGATAAATG
1 GTCAACGGTCAAAGTCAACGATAAACG
*
18008680 GTTAACGGTCAAAGTCAACG
1 GTCAACGGTCAAAGTCAACG
18008700 GGTAACGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 30 0.71
28 12 0.29
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
GTCAACGGTCAAAGTCAACGATAAACG
Found at i:18008707 original size:34 final size:34
Alignment explanation
Indices: 18008608--18008711 Score: 113
Period size: 34 Copynumber: 3.1 Consensus size: 34
18008598 CAAAAAAGTC
* *
18008608 AACGGTTAACGGTCAAAGTCAACGATCAACGATC
1 AACGGTTAACGGTCAAAGTCAACGGTCAACGATA
* * * *
18008642 AACGATCAACGGTCAACGGTCAA-AGTCAACGATA
1 AACGGTTAACGGTCAA-AGTCAACGGTCAACGATA
*
18008676 AATGGTTAACGGTCAAAGTCAACGGGT-AACGATA
1 AACGGTTAACGGTCAAAGTCAAC-GGTCAACGATA
18008710 AA
1 AA
18008712 AGTCAACGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
33 5 0.09
34 44 0.79
35 7 0.12
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.17
Consensus pattern (34 bp):
AACGGTTAACGGTCAAAGTCAACGGTCAACGATA
Found at i:18015855 original size:27 final size:27
Alignment explanation
Indices: 18015807--18015862 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
18015797 GATTTTTCGA
*
18015807 AAAAGTCAATGATCAACAGTCAAAGTC
1 AAAAGTCAACGATCAACAGTCAAAGTC
* * *
18015834 AAAAGTCAACGGTTAACGGTCAAAGTC
1 AAAAGTCAACGATCAACAGTCAAAGTC
18015861 AA
1 AA
18015863 CGGTCAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAAGTCAACGATCAACAGTCAAAGTC
Found at i:18015876 original size:34 final size:34
Alignment explanation
Indices: 18015838--18015908 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
18015828 AAAGTCAAAA
* *
18015838 GTCAACGGTTAACGGTCAAAGTCAACGGTCAATG
1 GTCAACGATTAACGGTCAAAGTCAACGGTCAACG
* *
18015872 GTCAATGATTAACGGTCAAAGTCAGCGGTCAACG
1 GTCAACGATTAACGGTCAAAGTCAACGGTCAACG
18015906 GTC
1 GTC
18015909 GATCAATGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (34 bp):
GTCAACGATTAACGGTCAAAGTCAACGGTCAACG
Found at i:18015895 original size:20 final size:20
Alignment explanation
Indices: 18015808--18015895 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
18015798 ATTTTTCGAA
*
18015808 AAAGTCAATGATCAACAGTC
1 AAAGTCAATGATCAACGGTC
* *
18015828 AAAGTCAA-AAGTCAACGGTT
1 AAAGTCAATGA-TCAACGGTC
* *
18015848 AACGGTCAAAG-TCAACGGTC
1 AA-AGTCAATGATCAACGGTC
* *
18015868 AATGGTCAATGATTAACGGTC
1 AA-AGTCAATGATCAACGGTC
18015889 AAAGTCA
1 AAAGTCA
18015896 GCGGTCAACG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 38 0.70
21 15 0.28
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (20 bp):
AAAGTCAATGATCAACGGTC
Found at i:18015907 original size:7 final size:7
Alignment explanation
Indices: 18015838--18015908 Score: 56
Period size: 7 Copynumber: 10.4 Consensus size: 7
18015828 AAAGTCAAAA
18015838 GTCAACG
1 GTCAACG
*
18015845 GTTAACG
1 GTCAACG
*
18015852 GTCAA-A
1 GTCAACG
18015858 GTCAACG
1 GTCAACG
*
18015865 GTCAATG
1 GTCAACG
*
18015872 GTCAATG
1 GTCAACG
* *
18015879 ATTAACG
1 GTCAACG
*
18015886 GTCAA-A
1 GTCAACG
*
18015892 GTCAGCG
1 GTCAACG
18015899 GTCAACG
1 GTCAACG
18015906 GTC
1 GTC
18015909 GATCAATGAC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 9 0.19
7 39 0.81
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (7 bp):
GTCAACG
Found at i:18015936 original size:11 final size:11
Alignment explanation
Indices: 18015922--18015951 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18015912 CAATGACCAA
*
18015922 TCAACGGTCGG
1 TCAACGATCGG
18015933 TCAACGATCGG
1 TCAACGATCGG
18015944 TCAACGAT
1 TCAACGAT
18015952 TTGACTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (11 bp):
TCAACGATCGG
Found at i:18015947 original size:22 final size:22
Alignment explanation
Indices: 18015897--18015949 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
18015887 TCAAAGTCAG
*
18015897 CGGTCAACGGTCGATCAATGAC
1 CGGTCAACGGTCGATCAACGAC
** * *
18015919 CAATCAACGGTCGGTCAACGAT
1 CGGTCAACGGTCGATCAACGAC
18015941 CGGTCAACG
1 CGGTCAACG
18015950 ATTTGACTTG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (22 bp):
CGGTCAACGGTCGATCAACGAC
Found at i:18018486 original size:21 final size:21
Alignment explanation
Indices: 18018461--18018523 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
18018451 ACTAGGGTTC
18018461 GCATATACTTACTAAGTGTTT
1 GCATATACTTACTAAGTGTTT
* *
18018482 GCATA-ACATTCCTTAAGGGTTT
1 GCATATAC-TTAC-TAAGTGTTT
18018504 GCATATACTTACTAAGTGTT
1 GCATATACTTACTAAGTGTT
18018524 CTTTTATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 16 0.46
23 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
GCATATACTTACTAAGTGTTT
Found at i:18018502 original size:43 final size:43
Alignment explanation
Indices: 18018454--18018546 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
18018444 TTCGCATACT
18018454 AGGGTTCGCATATACTTACTAAGTGTT-TGCATAACATTCCTTA
1 AGGGTTCGCATATACTTACTAAGTGTTCT-CATAACATTCCTTA
* ** *
18018497 AGGGTTTGCATATACTTACTAAGTGTTCTTTTATCATTCCTTA
1 AGGGTTCGCATATACTTACTAAGTGTTCTCATAACATTCCTTA
18018540 AGGGTTC
1 AGGGTTC
18018547 ACATCATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (43 bp):
AGGGTTCGCATATACTTACTAAGTGTTCTCATAACATTCCTTA
Found at i:18051464 original size:31 final size:31
Alignment explanation
Indices: 18051423--18051500 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
18051413 TTAATATAAT
* * *
18051423 ATTTGATACCTGAACTTGACA-TTTTTTCTTA
1 ATTTGGTACCTAAACTCGACACTTTTTT-TTA
18051454 ATTTGGTACCTAAACTCGACACTTTTTTTTA
1 ATTTGGTACCTAAACTCGACACTTTTTTTTA
* *
18051485 AGTTGGTACTTAAACT
1 ATTTGGTACCTAAACT
18051501 TTTTGGGGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 35 0.85
32 6 0.15
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACTCGACACTTTTTTTTA
Found at i:18051551 original size:30 final size:31
Alignment explanation
Indices: 18051509--18051581 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
18051499 CTTTTTGGGG
* *
18051509 TCTAATTCGGTACTTGAACTCGA-T-TTTTT
1 TCTAATTTGGTACTTAAACTCGACTCTTTTT
18051538 TCCTAATTTGGTACTTAAACTCGACTCTTTTT
1 T-CTAATTTGGTACTTAAACTCGACTCTTTTT
18051570 TCTAATTTGGTA
1 TCTAATTTGGTA
18051582 TCTAATCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 1 0.03
30 20 0.51
31 12 0.31
32 6 0.15
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (31 bp):
TCTAATTTGGTACTTAAACTCGACTCTTTTT
Found at i:18051575 original size:31 final size:29
Alignment explanation
Indices: 18051444--18051581 Score: 113
Period size: 31 Copynumber: 4.6 Consensus size: 29
18051434 GAACTTGACA
*
18051444 TTTTTTCTTAATTTGGTACCTAAACTCGACACT
1 TTTTTTC-TAATTTGGTACTTAAACTCG--A-T
*
18051477 TTTTTT-TAAGTTGGTACTTAAACT---T
1 TTTTTTCTAATTTGGTACTTAAACTCGAT
** * *
18051502 TTTGGGGTCTAATTCGGTACTTGAACTCGAT
1 TTT--TTTCTAATTTGGTACTTAAACTCGAT
18051533 TTTTTTCCTAATTTGGTACTTAAACTCGACT
1 TTTTTT-CTAATTTGGTACTTAAACTCGA-T
18051564 CTTTTTTCTAATTTGGTA
1 -TTTTTTCTAATTTGGTA
18051582 TCTAATCTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 20
0.73 0.09 0.17
Matches are distributed among these distances:
25 4 0.05
27 1 0.01
28 15 0.18
29 1 0.01
30 20 0.24
31 32 0.38
32 6 0.07
33 6 0.07
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTTTTCTAATTTGGTACTTAAACTCGAT
Found at i:18055125 original size:24 final size:24
Alignment explanation
Indices: 18055076--18055126 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
18055066 AAGTTGAAAT
* *
18055076 AATTTTAAAATTCAAATTTATGAA
1 AATTTTAAAATTCAAATATATAAA
*
18055100 AATTTTAATATTCATAA-ATATAAA
1 AATTTTAAAATTCA-AATATATAAA
18055124 AAT
1 AAT
18055127 CATTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
AATTTTAAAATTCAAATATATAAA
Found at i:18066709 original size:19 final size:19
Alignment explanation
Indices: 18066685--18066724 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18066675 AAAAATTATA
* *
18066685 TATATATTTTTTATATTTT
1 TATATATTCTATATATTTT
18066704 TATATATTCTATATATTTT
1 TATATATTCTATATATTTT
18066723 TA
1 TA
18066725 AAAAATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATATTCTATATATTTT
Found at i:18067236 original size:20 final size:19
Alignment explanation
Indices: 18067211--18067251 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18067201 ATAAGGAAAT
*
18067211 ATTTTTTAAAATATTAATTA
1 ATTTTTTAAAA-ATGAATTA
18067231 A-TTTTTAAAAATGAATTA
1 ATTTTTTAAAAATGAATTA
18067249 ATT
1 ATT
18067252 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 8 0.42
19 10 0.53
20 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTTTAAAAATGAATTA
Found at i:18067247 original size:18 final size:19
Alignment explanation
Indices: 18067213--18067251 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18067203 AAGGAAATAT
*
18067213 TTTTTAAAATATTAATTAA
1 TTTTTAAAATATGAATTAA
18067232 TTTTTAAAA-ATGAATTAA
1 TTTTTAAAATATGAATTAA
18067250 TT
1 TT
18067252 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTTAAAATATGAATTAA
Found at i:18067251 original size:22 final size:20
Alignment explanation
Indices: 18067211--18067252 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18067201 ATAAGGAAAT
*
18067211 ATTTTTTAAAATATTAATTA
1 ATTTTTAAAAATATTAATTA
18067231 ATTTTTAAAAATGAATTAATTA
1 ATTTTTAAAAAT--ATTAATTA
18067253 CTTATGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTTAAAAATATTAATTA
Found at i:18068983 original size:16 final size:15
Alignment explanation
Indices: 18068958--18068987 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18068948 AATAATAAAA
18068958 AAATCTAAAATTAAT
1 AAATCTAAAATTAAT
18068973 AAATCCTAAAATTAA
1 AAAT-CTAAAATTAA
18068988 AATAAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATCTAAAATTAAT
Found at i:18069455 original size:3 final size:3
Alignment explanation
Indices: 18069447--18069487 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18069437 TTCTGTCGTT
18069447 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
18069488 TTCTTCTTCT
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:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:18074363 original size:3 final size:3
Alignment explanation
Indices: 18074355--18074388 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18074345 ATTTATTGAT
18074355 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
18074389 CTCGGTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:18075001 original size:3 final size:3
Alignment explanation
Indices: 18074993--18075032 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18074983 TTCTAATTTT
18074993 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
18075033 ACAACCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18081003 original size:21 final size:21
Alignment explanation
Indices: 18080956--18081037 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
18080946 CCTTACACTA
*
18080956 CGTTGTGGATAAAACACTCAT
1 CGTTGTGGATAAACCACTCAT
* *
18080977 CATTGTGGATGAACCAC-CAAT
1 CGTTGTGGATAAACCACTC-AT
* **
18080998 CGTTGTAGATAAACTGCTCAT
1 CGTTGTGGATAAACCACTCAT
*
18081019 CGTTGTGGATGAACCACTC
1 CGTTGTGGATAAACCACTC
18081038 GTAATAAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.96
22 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (21 bp):
CGTTGTGGATAAACCACTCAT
Found at i:18083929 original size:8 final size:8
Alignment explanation
Indices: 18083907--18083993 Score: 70
Period size: 8 Copynumber: 10.6 Consensus size: 8
18083897 TATTATTTTG
18083907 AATATATA
1 AATATATA
18083915 TAATATATA
1 -AATATATA
18083924 AATATATA
1 AATATATA
*
18083932 AATCTTATA
1 AAT-ATATA
18083941 AATATATAA
1 AATATAT-A
* *
18083950 AAGCATGTA
1 AA-TATATA
*
18083959 AATTTATA
1 AATATATA
18083967 AATATAT-
1 AATATATA
*
18083974 ATTATA-A
1 AATATATA
*
18083981 AATTTATA
1 AATATATA
18083989 AATAT
1 AATAT
18083994 GTATTATAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
7 9 0.15
8 28 0.46
9 21 0.34
10 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (8 bp):
AATATATA
Found at i:18083929 original size:17 final size:17
Alignment explanation
Indices: 18083907--18083974 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
18083897 TATTATTTTG
18083907 AATATATATAAT-ATATA
1 AATATATA-AATCATATA
*
18083924 AATATATAAATCTTATA
1 AATATATAAATCATATA
* *
18083941 AATATATAAAAGCATGTA
1 AATATAT-AAATCATATA
*
18083959 AATTTATAAAT-ATATA
1 AATATATAAATCATATA
18083975 TTATAAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
16 7 0.17
17 22 0.52
18 13 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATATATAAATCATATA
Found at i:18083984 original size:22 final size:23
Alignment explanation
Indices: 18083958--18084013 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
18083948 AAAAGCATGT
18083958 AAATTTATAAATATATATTAT-A
1 AAATTTATAAATATATATTATAA
*
18083980 AAATTTATAAATATGTATTATAA
1 AAATTTATAAATATATATTATAA
18084003 AAATTTATAAA
1 AAATTTATAAA
18084014 AAAATAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTATAAATATATATTATAA
Found at i:18091986 original size:12 final size:12
Alignment explanation
Indices: 18091971--18091996 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18091961 AAATACAAAG
18091971 ATAAAATCTCGA
1 ATAAAATCTCGA
18091983 ATAAAATCTCGA
1 ATAAAATCTCGA
18091995 AT
1 AT
18091997 TTGAACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAATCTCGA
Found at i:18097651 original size:31 final size:31
Alignment explanation
Indices: 18097592--18097651 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
18097582 TCACATAGCG
* * *
18097592 CCTTTAAATGTTCATAGGCTTTAGTCTCATT
1 CCTTTAAATGTTAATAGACTTGAGTCTCATT
18097623 CCTTTAAATGTTTAATAGACTTGA-TCTCA
1 CCTTTAAATG-TTAATAGACTTGAGTCTCA
18097652 ATTTAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (31 bp):
CCTTTAAATGTTAATAGACTTGAGTCTCATT
Found at i:18105906 original size:31 final size:31
Alignment explanation
Indices: 18105829--18105908 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
18105819 TTAATATAAC
* *
18105829 ATTTAGTACCTAAACTTGACACTTTTTTTTCTA
1 ATTTTGTACATAAACTTGACAC--TTTTTTCTA
*
18105862 A-TTTGATATATAAACTTGACAC-TTTTTCATA
1 ATTTTG-TACATAAACTTGACACTTTTTTC-TA
18105893 ATTTTGTACATAAACT
1 ATTTTGTACATAAACT
18105909 ATTTTTGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 6 0.15
31 12 0.30
32 7 0.17
33 15 0.38
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (31 bp):
ATTTTGTACATAAACTTGACACTTTTTTCTA
Found at i:18107789 original size:6 final size:6
Alignment explanation
Indices: 18107775--18107904 Score: 91
Period size: 6 Copynumber: 20.7 Consensus size: 6
18107765 TCTCCTTTCT
*
18107775 CCTTTC CCTTCC CCTTCC CCTT-C CCTTCC CCTTCCC CCTTCCC CCTTCCC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTT-CC CCTT-CC CCTT-CC
* * * * * * *
18107825 CCTTTCTC CTTTCTC CTTTCTC CTTTCT CCTTTC CCTTTC CCTTTC CCTTCC
1 CC-TTC-C CCTTC-C CCTTC-C CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
* * *
18107877 CCTTCC CTTTCC CCTCCC CCTCCC CCTT
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTT
18107905 TCTCCTTTCC
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.05
6 64 0.59
7 36 0.33
8 4 0.04
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
CCTTCC
Found at i:18107829 original size:78 final size:76
Alignment explanation
Indices: 18107755--18107921 Score: 266
Period size: 78 Copynumber: 2.2 Consensus size: 76
18107745 CTCCTTTCTC
18107755 CTTTCTCCTTTCTCCTTTCTCCTTTCCCTTCCCCTTCCCCTT-CCCTTCCCCTTCCCCCTTCCCC
1 CTTTCTCCTTTCTCCTTTCTCCTTTCCCTTCCCCTTCCCCTTCCCCTT-CCCTTCCCCC-TCCCC
18107819 CTTCCCCCTTTCTC
64 C-TCCCCCTTTCTC
* * *
18107833 CTTTCTCCTTTCTCCTTTCTCCTTTCCCTTTCCCTTTCCCTTCCCCTTCCCTTTCCCCTCCCCCT
1 CTTTCTCCTTTCTCCTTTCTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCTTCCCCCTCCCCCT
18107898 CCCCCTTTCTC
66 CCCCCTTTCTC
18107909 CTTTC-CCTTTCTC
1 CTTTCTCCTTTCTC
18107922 GTTTTCAATT
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
75 8 0.09
76 17 0.20
77 6 0.07
78 49 0.58
79 5 0.06
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (76 bp):
CTTTCTCCTTTCTCCTTTCTCCTTTCCCTTCCCCTTCCCCTTCCCCTTCCCTTCCCCCTCCCCCT
CCCCCTTTCTC
Found at i:18107917 original size:6 final size:6
Alignment explanation
Indices: 18107736--18107919 Score: 129
Period size: 7 Copynumber: 28.7 Consensus size: 6
18107726 CTCTCCCCCA
18107736 TTTCCC TTTCTCC TTTCTCC TTTCTCC TTTCTCC TTTCTCC TTTCCC -TTCCC
1 TTTCCC TTTC-CC TTTC-CC TTTC-CC TTTC-CC TTTC-CC TTTCCC TTTCCC
* * * * * *
18107788 CTTCCC CTTCCC TTCCCC TTCCCCC TTCCCCC TTCCCCC TTTCTCC TTTCTCC
1 TTTCCC TTTCCC TTTCCC TT-TCCC TT-TCCC TT-TCCC TTTC-CC TTTC-CC
*
18107841 TTTCTCC TTTCTCC TTTCCC TTTCCC TTTCCC -TTCCC CTTCCC TTTCCCC
1 TTTC-CC TTTC-CC TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTT-CCC
** **
18107891 TCCCCC TCCCCC TTTCTCC TTTCCC TTTC
1 TTTCCC TTTCCC TTTC-CC TTTCCC TTTC
18107920 TCGTTTTCAA
Statistics
Matches: 163, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
5 10 0.06
6 62 0.38
7 91 0.56
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTCCC
Found at i:18115193 original size:3 final size:3
Alignment explanation
Indices: 18115185--18115216 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18115175 TGTTAATTTG
18115185 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18115217 TATTAGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18116839 original size:38 final size:38
Alignment explanation
Indices: 18116797--18116871 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
18116787 AGTTTATGTG
18116797 AGCATATATGGTTACGTGTTACATTTACAGCTCGTGTA
1 AGCATATATGGTTACGTGTTACATTTACAGCTCGTGTA
* *
18116835 AGCATATATGGTTATGTGTTATATTTACAGCTCGTGT
1 AGCATATATGGTTACGTGTTACATTTACAGCTCGTGT
18116872 GACCATTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (38 bp):
AGCATATATGGTTACGTGTTACATTTACAGCTCGTGTA
Done.