Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 154 of 182
Found at i:47310603 original size:18 final size:18
Alignment explanation
Indices: 47310580--47310629 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47310570 TGTCAATTTG
47310580 GTATCGAT-TTTGGAATAA
1 GTATCGATATTTGGAA-AA
*
47310598 GTATCGATATTTTGAAAA
1 GTATCGATATTTGGAAAA
* *
47310616 CTATCGATACTTGG
1 GTATCGATATTTGG
47310630 TGAAAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (18 bp):
GTATCGATATTTGGAAAA
Found at i:47312807 original size:228 final size:228
Alignment explanation
Indices: 47312410--47312865 Score: 876
Period size: 228 Copynumber: 2.0 Consensus size: 228
47312400 TCATTTCAGA
47312410 AGCAAGGGGTAGTTGCTTAAACACGAAGGAAGGTTCTTACATCTGTAACATGAACATACCAAACC
1 AGCAAGGGGTAGTTGCTTAAACACGAAGGAAGGTTCTTACATCTGTAACATGAACATACCAAACC
47312475 AGATTGATAATAACAAGAATTCATCACTCTTGTACAAACATTTCATCTTCATAGAATATGTATAT
66 AGATTGATAATAACAAGAATTCATCACTCTTGTACAAACATTTCATCTTCATAGAATATGTATAT
47312540 TTACCTTAATCCAAACATAAACAAAGGCATTACACACACATGGAGTAAGAAGGAAATCACGAGAA
131 TTACCTTAATCCAAACATAAACAAAGGCATTACACACACATGGAGTAAGAAGGAAATCACGAGAA
47312605 AATGTAGCAAATTCAAACAACATGGCTCTTTCC
196 AATGTAGCAAATTCAAACAACATGGCTCTTTCC
47312638 AGCAAGGGGTAGTTGCTTAAACACGAAGGAAGGTTCTTACATCTGTAACATGAACATACCAAACC
1 AGCAAGGGGTAGTTGCTTAAACACGAAGGAAGGTTCTTACATCTGTAACATGAACATACCAAACC
47312703 AGATTGATAATAACAAGAATTCATCACTCTTGTACAAACATTTCATCTTCATAGAATATGTATAT
66 AGATTGATAATAACAAGAATTCATCACTCTTGTACAAACATTTCATCTTCATAGAATATGTATAT
**
47312768 TTACCTTAATCCAAACATAAACAAAGGCATTACACACACATGGAGTCGGAAGGAAATCACGAGAA
131 TTACCTTAATCCAAACATAAACAAAGGCATTACACACACATGGAGTAAGAAGGAAATCACGAGAA
* *
47312833 AATGTAGCAATTTCAAACATCATGGCTCTTTCC
196 AATGTAGCAAATTCAAACAACATGGCTCTTTCC
47312866 CTTATCACGA
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 224 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (228 bp):
AGCAAGGGGTAGTTGCTTAAACACGAAGGAAGGTTCTTACATCTGTAACATGAACATACCAAACC
AGATTGATAATAACAAGAATTCATCACTCTTGTACAAACATTTCATCTTCATAGAATATGTATAT
TTACCTTAATCCAAACATAAACAAAGGCATTACACACACATGGAGTAAGAAGGAAATCACGAGAA
AATGTAGCAAATTCAAACAACATGGCTCTTTCC
Found at i:47313125 original size:22 final size:22
Alignment explanation
Indices: 47313095--47313146 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
47313085 AGGTGTTAAA
*
47313095 ACAACGAAAGAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
*
47313117 ACAATGAAAAAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
47313139 ACAACGAA
1 ACAACGAA
47313147 CCCAAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (22 bp):
ACAACGAAAAAGTTGTCTGAGT
Found at i:47315243 original size:23 final size:25
Alignment explanation
Indices: 47315217--47315263 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47315207 TTTAAAATTT
*
47315217 AAAA-TTATTAAA-AACTTATAAAC
1 AAAATTTATAAAATAACTTATAAAC
*
47315240 AAAATTTATAAAATAAGTTATAAA
1 AAAATTTATAAAATAACTTATAAA
47315264 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATTTATAAAATAACTTATAAAC
Found at i:47322489 original size:3 final size:3
Alignment explanation
Indices: 47322481--47322548 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
47322471 TGTTATTAAT
* ** *
47322481 TTA TTA TTA TTA TTA TAA TTA TTAA TTA TTA TTA TCG TTT TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA
* *
47322527 TAA ATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
47322549 AGTATTTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 1 0.02
3 45 0.88
4 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47323205 original size:17 final size:18
Alignment explanation
Indices: 47323183--47323216 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47323173 GAAATGAGTT
47323183 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
47323200 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
47323217 AAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:47330066 original size:13 final size:13
Alignment explanation
Indices: 47330048--47330089 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
47330038 TATGAATTAA
47330048 ATATTATTATATT
1 ATATTATTATATT
*
47330061 ATATTATTATAAT
1 ATATTATTATATT
*
47330074 GTATTATTAATATT
1 ATATTATT-ATATT
47330088 AT
1 AT
47330090 TAACTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:47330108 original size:24 final size:22
Alignment explanation
Indices: 47330055--47330109 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
47330045 TAAATATTAT
* *
47330055 TATATTATATTATTATAATGTA
1 TATATAATATTATTATAATATA
47330077 T-TATTAATATTATTAACTAATATA
1 TATA-TAATATTATT-A-TAATATA
47330101 TATATAATA
1 TATATAATA
47330110 AAGTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 2 0.07
22 10 0.37
23 1 0.04
24 12 0.44
25 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATAATATTATTATAATATA
Found at i:47336454 original size:23 final size:23
Alignment explanation
Indices: 47336425--47336491 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
47336415 TAAATGACAT
47336425 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
47336448 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
47336468 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
47336491 T
1 T
47336492 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:47342579 original size:18 final size:18
Alignment explanation
Indices: 47342546--47342598 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
47342536 ATTCACCTAA
*
47342546 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
47342565 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
47342583 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
47342599 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:47342710 original size:9 final size:9
Alignment explanation
Indices: 47342696--47342753 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
47342686 GTAGTGATTC
47342696 AATTCGGTT
1 AATTCGGTT
*
47342705 AATTCGGGT
1 AATTCGGTT
47342714 AATTCGGTT
1 AATTCGGTT
*
47342723 AATTCAAG-T
1 AATTC-GGTT
47342732 AATTCGGTT
1 AATTCGGTT
47342741 AATTCGGTT
1 AATTCGGTT
47342750 AATT
1 AATT
47342754 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.95
10 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:47345402 original size:19 final size:20
Alignment explanation
Indices: 47345365--47345412 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
47345355 TTCGGGGATC
47345365 ATTTTGAAACAAAACAAAAA
1 ATTTTGAAACAAAACAAAAA
* *
47345385 ATTTTGGAA-AAAATAAAAA
1 ATTTTGAAACAAAACAAAAA
*
47345404 ATTTCGAAA
1 ATTTTGAAA
47345413 ACAAGGGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (20 bp):
ATTTTGAAACAAAACAAAAA
Found at i:47352901 original size:20 final size:19
Alignment explanation
Indices: 47352876--47352925 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
47352866 TTCGGTGATC
* *
47352876 ATTTTGAAACAAAATAGTAA
1 ATTTTGAAAAAAAAT-GAAA
47352896 ATTTTGAAAAAAAATGAAA
1 ATTTTGAAAAAAAATGAAA
47352915 ACTTTTGAAAA
1 A-TTTTGAAAA
47352926 CAGGGGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (19 bp):
ATTTTGAAAAAAAATGAAA
Found at i:47356116 original size:53 final size:53
Alignment explanation
Indices: 47356058--47356187 Score: 133
Period size: 53 Copynumber: 2.4 Consensus size: 53
47356048 TAATATAAAA
47356058 TTTAAATCTATTATTATATATTTTTAAAAAAAT-ATTTATATACTTTTATA-TAT
1 TTTAAAT-TATTATTATATATTTTTAAAAAAATCATTTATA-ACTTTTATATTAT
** * * * *
47356111 TTTAAATTTATATATTAT-TATTTTTTCAATAATCATTTTTAATTTTTATATTTT
1 TTTAAA-TTAT-TATTATATATTTTTAAAAAAATCATTTATAACTTTTATATTAT
47356165 TTTAAATT-TTATTATTATATTTT
1 TTTAAATTATTATTA-TATATTTT
47356188 AAATTTATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
51 5 0.08
52 2 0.03
53 37 0.57
54 21 0.32
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (53 bp):
TTTAAATTATTATTATATATTTTTAAAAAAATCATTTATAACTTTTATATTAT
Found at i:47356182 original size:51 final size:53
Alignment explanation
Indices: 47356101--47356217 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 53
47356091 ATTTATATAC
* *
47356101 TTTTATA-TATTTTAAATTTATATATTATTATTTTTTCAATAATCATTT-TTAAT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTT-AA-AATCATTTATTAAT
* * *
47356154 TTTTATATTTTTTTAAA-TT-T-TATTATTATATTTTAAATTTATTTATTTAT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTAAT
47356204 TTTTATATTTTTTT
1 TTTTATATTTTTTT
47356218 TGAATTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 6 0.11
50 20 0.35
51 13 0.23
52 1 0.02
53 9 0.16
54 8 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (53 bp):
TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTAAT
Found at i:47356195 original size:36 final size:37
Alignment explanation
Indices: 47356106--47356200 Score: 86
Period size: 38 Copynumber: 2.6 Consensus size: 37
47356096 TATACTTTTA
**
47356106 TATATTTTAAATTTATATATTATTATTTTTTCAATAAT
1 TATATTTTAAATTTATATATTATTAAATTTT-AATAAT
* * * * *
47356144 CAT-TTTTAATTTTTATATTTTTTTAAATTTT-ATTAT
1 TATATTTTAA-ATTTATATATTATTAAATTTTAATAAT
*
47356180 TATATTTTAAATTTATTTATT
1 TATATTTTAAATTTATATATT
47356201 TATTTTTATA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
36 14 0.32
37 12 0.27
38 18 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TATATTTTAAATTTATATATTATTAAATTTTAATAAT
Found at i:47356196 original size:19 final size:20
Alignment explanation
Indices: 47356145--47356206 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 20
47356135 TTCAATAATC
* *
47356145 ATTTTTAATTTT-TATATTT
1 ATTTTAAATTTTATTTATTT
47356164 -TTTTAAATTTTA-TTATTAT
1 ATTTTAAATTTTATTTATT-T
47356183 ATTTTAAA-TTTATTTATTT
1 ATTTTAAATTTTATTTATTT
47356202 ATTTT
1 ATTTT
47356207 TATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 14 0.38
19 11 0.30
20 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTAAATTTTATTTATTT
Found at i:47356207 original size:20 final size:19
Alignment explanation
Indices: 47356145--47356214 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
47356135 TTCAATAATC
*
47356145 ATTTTTAATTTTTA-TATT
1 ATTTTTAAATTTTATTATT
47356163 -TTTTTAAATTTTATTATT
1 ATTTTTAAATTTTATTATT
47356181 ATATTTTAAA-TTTATTTATTT
1 AT-TTTTAAATTTTA-TTA-TT
*
47356202 ATTTTTATATTTT
1 ATTTTTAAATTTT
47356215 TTTTGAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.27
18 4 0.09
19 5 0.11
20 16 0.36
21 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTTAAATTTTATTATT
Found at i:47364075 original size:29 final size:29
Alignment explanation
Indices: 47364038--47364124 Score: 131
Period size: 29 Copynumber: 2.9 Consensus size: 29
47364028 ATAATAAATA
47364038 TTTTT-ATTTTTTTAATTTTAAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATACTT
47364066 TTTTTAATTTTTTTAATTTTAAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATACTT
47364095 TTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTAA--TTT-TTTTAA-TTTTAAAATA
47364125 AAATTTTGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
28 5 0.09
29 30 0.56
31 3 0.06
32 6 0.11
33 10 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTAATTTTTTTAATTTTAAAATACTT
Found at i:47370477 original size:17 final size:18
Alignment explanation
Indices: 47370455--47370490 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47370445 CAATTTGGGT
47370455 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
47370472 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
47370490 C
1 C
47370491 GAACACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.17, C:0.33, G:0.39, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:47370841 original size:23 final size:24
Alignment explanation
Indices: 47370815--47370859 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47370805 ATATCCCCAC
*
47370815 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
47370838 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
47370860 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:47373397 original size:507 final size:507
Alignment explanation
Indices: 47372439--47373445 Score: 1606
Period size: 507 Copynumber: 2.0 Consensus size: 507
47372429 GGGGAGTGAG
*
47372439 ATCTTTCTACCTTGGTCGAGAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
1 ATCTTTCTACCTTGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
* * * ** *
47372504 GAACATCGAAACTACTTATCTAATGTGATCTCTGTACTGGTGGCGGAGAAGTTGGTTCGTAAGGG
66 GAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGG
47372569 ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
131 ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
* * * *
47372634 GAACAGAAAAGGATGTTCCAGACATTTTTCCTGATGAGCTATCGGGTTTACCTCCGAATTGTGAA
196 AAACAGAAAAGGATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAA
* *
47372699 GTGGAGTTTGGGATAGAGCTCATTCCTGGTACAGCTCCGGTGTCCATCGCTTCTTATAGAATGGC
261 GTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATGGC
* * *
47372764 ACCGAAGGAGTTTGTGGAGTTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
326 ACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
47372829 CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
391 CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
* * *
47372894 TGCATCGACTACAAACAGCTGAATAAATTAACCATTAAGAATAAGTAATGAA
456 TGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAGTAATGAA
* * *
47372946 ATCTTTCTGCCTTGGTCGAAAAGGCGAAAATCA-CCGAGGAGGATATGGAGGTAGTCATGATCGG
1 ATCTTTCTACCTTGGTCGAAAAGGCGAAAAT-AGCCAAGAAGGATATGGAGGTAGTCATGATCGG
*
47373010 AGAACTTCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGG
65 AGAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGG
*
47373075 GATGTGAGGCATTCTTGGCCTATGTAAGTGTTTTAGATTCTAGGGACTCTACAGTTAAGGATATC
130 GATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATC
** * * * * *
47373140 AAAATGGTAAATGATGTTCC-GAACGTCTTTCCTAATGAGCTATTGGGTTTACCTTCGAATCGTG
195 AAAACAGAAAAGGATGTTCCAG-ACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTG
*
47373204 AAGTGGAGTTTGGGATAGAGCTCTTTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATG
259 AAGTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATG
* * *
47373269 GCACCGAAGGAGCTTGAGGAGCTTAAGGCTCAGATTCAAGAGCTTTTAGATCGTGGGTTCATCTG
324 GCACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTA
* * *
47373334 CCCTAGTGTGTCTCCGTGGGGAGCACCGGTTCTGTTTGTAAAGAAACAA-GATGGATCCATGCGT
389 CCCTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAA-AAGGATGGATACATGCGT
**
47373398 ATGTGCATCAACTACAGGCAACTAAATAAATTAACCATTAAGAATAAG
453 ATGTGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAG
47373446 GGCCCCTACC
Statistics
Matches: 457, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
506 1 0.00
507 453 0.99
508 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (507 bp):
ATCTTTCTACCTTGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGA
GAACATCAAAACTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGG
ATGTGAGGCATTCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCA
AAACAGAAAAGGATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAA
GTGGAGTTTGGGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTCCTTATAGAATGGC
ACCGAAGGAGCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACC
CTAGTGTATCTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATG
TGCATCAACTACAAACAACTAAATAAATTAACCATTAAGAATAAGTAATGAA
Found at i:47375106 original size:287 final size:287
Alignment explanation
Indices: 47374590--47375165 Score: 1152
Period size: 287 Copynumber: 2.0 Consensus size: 287
47374580 ATTACTATTG
47374590 AATAATTGACATATTAGCTCAATTTTATTGCTTTGGTTGTTTCAATTTATGAAAGTTAATATTTT
1 AATAATTGACATATTAGCTCAATTTTATTGCTTTGGTTGTTTCAATTTATGAAAGTTAATATTTT
47374655 AGCTTAATAATTGAGTATTATTTATTTAATTTGATTTATTTATAAATAAATCATTGCAATATATG
66 AGCTTAATAATTGAGTATTATTTATTTAATTTGATTTATTTATAAATAAATCATTGCAATATATG
47374720 TAAAAACAATTTAACATATTAATTTATTAATATATATAATAAACTCAATTAAAAAATAAAAAGAT
131 TAAAAACAATTTAACATATTAATTTATTAATATATATAATAAACTCAATTAAAAAATAAAAAGAT
47374785 AATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGCTTTTATGAAATATTTTCAGGAAATC
196 AATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGCTTTTATGAAATATTTTCAGGAAATC
47374850 TGCCAAACAACAGAAAATATTTTATAC
261 TGCCAAACAACAGAAAATATTTTATAC
47374877 AATAATTGACATATTAGCTCAATTTTATTGCTTTGGTTGTTTCAATTTATGAAAGTTAATATTTT
1 AATAATTGACATATTAGCTCAATTTTATTGCTTTGGTTGTTTCAATTTATGAAAGTTAATATTTT
47374942 AGCTTAATAATTGAGTATTATTTATTTAATTTGATTTATTTATAAATAAATCATTGCAATATATG
66 AGCTTAATAATTGAGTATTATTTATTTAATTTGATTTATTTATAAATAAATCATTGCAATATATG
47375007 TAAAAACAATTTAACATATTAATTTATTAATATATATAATAAACTCAATTAAAAAATAAAAAGAT
131 TAAAAACAATTTAACATATTAATTTATTAATATATATAATAAACTCAATTAAAAAATAAAAAGAT
47375072 AATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGCTTTTATGAAATATTTTCAGGAAATC
196 AATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGCTTTTATGAAATATTTTCAGGAAATC
47375137 TGCCAAACAACAGAAAATATTTTATAC
261 TGCCAAACAACAGAAAATATTTTATAC
47375164 AA
1 AA
47375166 ATTCATCCAA
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
287 289 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (287 bp):
AATAATTGACATATTAGCTCAATTTTATTGCTTTGGTTGTTTCAATTTATGAAAGTTAATATTTT
AGCTTAATAATTGAGTATTATTTATTTAATTTGATTTATTTATAAATAAATCATTGCAATATATG
TAAAAACAATTTAACATATTAATTTATTAATATATATAATAAACTCAATTAAAAAATAAAAAGAT
AATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGCTTTTATGAAATATTTTCAGGAAATC
TGCCAAACAACAGAAAATATTTTATAC
Found at i:47375203 original size:19 final size:20
Alignment explanation
Indices: 47375179--47375224 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
47375169 CATCCAAATA
47375179 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
47375198 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
47375218 CCAGAAA
1 CCAGAAA
47375225 TTATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:47379133 original size:47 final size:48
Alignment explanation
Indices: 47379064--47379166 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 48
47379054 GGTGACCAGG
**
47379064 CACTATTATTCATTATTCGTGTAGGTTTAACCCTGATAGGTAACCAAA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
* * *
47379112 CACTATTATTCATT-TTTGTGTAGGTTTAACCCAAATGGGTAACCAGA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
47379159 CACTATTA
1 CACTATTA
47379167 CTTTCACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 36 0.72
48 14 0.28
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (48 bp):
CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
Found at i:47384843 original size:26 final size:26
Alignment explanation
Indices: 47384807--47384858 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47384797 ACTAATCCCT
47384807 ATAGAGGGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
47384833 ATAGAGGGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
47384859 TGAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (26 bp):
ATAGAGGGAATTAGTGAGTGGAGATA
Found at i:47386355 original size:54 final size:54
Alignment explanation
Indices: 47386238--47386649 Score: 269
Period size: 54 Copynumber: 7.8 Consensus size: 54
47386228 AATTTGCTAA
* * * * * *
47386238 TTACAAGATTTTTTGAGTCTTG-TGACTTGTC-AATTAAGATTGCAACCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAG-CTTGTCGATTTAAGATCGTAACCTTATAC
*** * * *
47386291 TTATTGGATTTTTCGAATCTTGCAGTTTGTCGATTTAAGATCGTAATCTTATGC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
*
47386345 TTAAAAGA-TTTTCTGAATCTTGCAGCTTGTCGATTTAAGATCG-AAGCCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAA-CCTTATAC
* * * * * * * * *
47386399 TTACAAGATTTTTTGTATCTTACGGCTCGTCAATTTAATATTGTAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * *
47386453 TCATAAGATTTTTCGAATCTTGCAGCTT-TCTGATTTAAGATTGCAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTC-GATTTAAGATCGTAACCTTATAC
* * * * *
47386507 TTACAAGA-TTTTCTGAATCTTG-TGGTT-T-G---CAATATCGCAACCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * ** *
47386555 TTACAAGA-TTCTCAGAATCTTGCAGCTCGTCGATGTAAAATCCCAAACTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * *
47386609 TTACAAGA-TTTCCAAAATCTTGTAG-TTGCCGATTTAAGATC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATC
47386650 ACAACATTCT
Statistics
Matches: 282, Mismatches: 63, Indels: 28
0.76 0.17 0.08
Matches are distributed among these distances:
48 35 0.12
49 2 0.01
50 1 0.00
51 2 0.01
53 52 0.18
54 185 0.66
55 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (54 bp):
TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
Found at i:47386471 original size:162 final size:161
Alignment explanation
Indices: 47386238--47386528 Score: 388
Period size: 162 Copynumber: 1.8 Consensus size: 161
47386228 AATTTGCTAA
** * * **
47386238 TTACAAGATTTTTTGAGTCTTGTGACTTGTCAATTAAGATTGCAACCTTATACTTATTGGATTTT
1 TTACAAGATTTTTTGAGTCTTACGACTCGTCAATTAAGATTGCAACCTTATACTCATAAGATTTT
* * * *
47386303 TCGAATCTTGCAG-TTTGTCGATTTAAGATCGTAATCTTATGCTTAAAAGATTTTCTGAATCTTG
66 TCGAATCTTGCAGCTTTCT-GATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTTG
47386367 CAGCTTGTCGATTTAAGATCGAAGCCTTATAC
130 CAGCTTGTCGATTTAAGATCGAAGCCTTATAC
* * * *
47386399 TTACAAGATTTTTTGTA-TCTTACGGCTCGTCAATTTAATATTGTAGCCTTATACTCATAAGATT
1 TTACAAGATTTTTTG-AGTCTTACGACTCGTCAA-TTAAGATTGCAACCTTATACTCATAAGATT
* * *
47386463 TTTCGAATCTTGCAGCTTTCTGATTTAAGATTGCAGCCTTATACTTACAAGATTTTCTGAATCTT
64 TTTCGAATCTTGCAGCTTTCTGATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTT
47386528 G
129 G
47386529 TGGTTTGCAA
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
161 27 0.25
162 79 0.72
163 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (161 bp):
TTACAAGATTTTTTGAGTCTTACGACTCGTCAATTAAGATTGCAACCTTATACTCATAAGATTTT
TCGAATCTTGCAGCTTTCTGATTTAAGATCGCAACCTTATACTTAAAAGATTTTCTGAATCTTGC
AGCTTGTCGATTTAAGATCGAAGCCTTATAC
Found at i:47386891 original size:23 final size:23
Alignment explanation
Indices: 47386865--47386922 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
47386855 AGCACAACTT
47386865 GCTGAA-ATTTCATTGTACAGCTC
1 GCTGAATATTTCA-TGTACAGCTC
* *
47386888 GCTGAATTTTTGATGTACAGCTC
1 GCTGAATATTTCATGTACAGCTC
* *
47386911 GCTTAATTTTTC
1 GCTGAATATTTC
47386923 GATTTATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (23 bp):
GCTGAATATTTCATGTACAGCTC
Found at i:47389168 original size:3 final size:3
Alignment explanation
Indices: 47389160--47389184 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47389150 TGAGGAAGAC
47389160 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
47389185 TTGCTGCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:47392746 original size:21 final size:21
Alignment explanation
Indices: 47392698--47392748 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
47392688 GAAAAAAAAC
*
47392698 AAGAAAAAAAAAGCAAACAAT
1 AAGAAAAAAAAAGAAAACAAT
* *
47392719 AATAAAAAAACAAGAAAACAGT
1 AAGAAAAAAA-AAGAAAACAAT
47392741 -AGAAAAAA
1 AAGAAAAAA
47392749 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.76, C:0.08, G:0.10, T:0.06
Consensus pattern (21 bp):
AAGAAAAAAAAAGAAAACAAT
Found at i:47394304 original size:13 final size:13
Alignment explanation
Indices: 47394286--47394313 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47394276 ATTGGGAATA
47394286 AGTTAAAAATTTT
1 AGTTAAAAATTTT
47394299 AGTTAAAAATTTT
1 AGTTAAAAATTTT
47394312 AG
1 AG
47394314 GCCGAGCCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
AGTTAAAAATTTT
Found at i:47402024 original size:47 final size:47
Alignment explanation
Indices: 47401965--47402317 Score: 568
Period size: 47 Copynumber: 7.6 Consensus size: 47
47401955 ATTCATGAAT
* ** **
47401965 TTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
47402012 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
47402059 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
47402105 TTGGACAGCATATATGTAATAAATTGAGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
47402152 TTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
47402198 TTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
47402245 TTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
47402291 TTGGACAGCATATATGTAATAAATTGG
1 TTGGACAGCATATATGTAACAAATTGG
47402318 TTCAACTCAT
Statistics
Matches: 284, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 131 0.46
47 153 0.54
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:47402147 original size:93 final size:93
Alignment explanation
Indices: 47401988--47402317 Score: 624
Period size: 93 Copynumber: 3.5 Consensus size: 93
47401978 ATAAAACAGT
* *
47401988 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
47402053 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
* *
47402081 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGAGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
47402146 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
47402174 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
47402239 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
47402267 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
47402318 TTCAACTCAT
Statistics
Matches: 231, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 231 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (93 bp):
TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
TCAAAATTGGACAGCATTATGTAACAAA
Found at i:47403231 original size:43 final size:42
Alignment explanation
Indices: 47403162--47403290 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 42
47403152 AACTCGTACA
* * *
47403162 ATGCAAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACACGTAA-CACATATCG
47403205 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACACGT-AACACATA-TCG
*
47403248 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACACG-TAACACATATCG
47403291 GAAATCCTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
42 4 0.05
43 63 0.85
44 7 0.09
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACACGTAACACATATCG
Found at i:47409640 original size:28 final size:28
Alignment explanation
Indices: 47409603--47409663 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
47409593 GAATTTAGAA
*
47409603 GAATGGCGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
47409631 GAATGACGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
47409659 GAATG
1 GAATG
47409664 TTATTTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.41
Consensus pattern (28 bp):
GAATGACGTTGAATGCTATTTTGAATTT
Found at i:47415635 original size:9 final size:9
Alignment explanation
Indices: 47415617--47415671 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
47415607 TTTTGGGTAC
47415617 TTCGGTTAA
1 TTCGGTTAA
*
47415626 TTCAGTTAA
1 TTCGGTTAA
47415635 TTCGGTTAA
1 TTCGGTTAA
47415644 TTCGGTTAA
1 TTCGGTTAA
*
47415653 -TCGGGTAA
1 TTCGGTTAA
*
47415661 TTCGGGTAA
1 TTCGGTTAA
47415670 TT
1 TT
47415672 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
8 7 0.17
9 35 0.83
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:47415661 original size:17 final size:17
Alignment explanation
Indices: 47415618--47415670 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
47415608 TTTGGGTACT
*
47415618 TCGGTTAATTCAGTTAA
1 TCGGTTAATTCGGTTAA
47415635 TTCGGTTAATTCGGTTAA
1 -TCGGTTAATTCGGTTAA
* *
47415653 TCGGGTAATTCGGGTAA
1 TCGGTTAATTCGGTTAA
47415670 T
1 T
47415671 TTTTAACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (17 bp):
TCGGTTAATTCGGTTAA
Found at i:47415848 original size:12 final size:12
Alignment explanation
Indices: 47415831--47415855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47415821 AGCAATTTCG
47415831 GGTCGGTTAACC
1 GGTCGGTTAACC
47415843 GGTCGGTTAACC
1 GGTCGGTTAACC
47415855 G
1 G
47415856 AATGAACACC
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:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:47416648 original size:4 final size:4
Alignment explanation
Indices: 47416635--47416666 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
47416625 ATGCAAATTT
47416635 GAAA GAAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAA
47416667 GAAGGGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:47417845 original size:20 final size:18
Alignment explanation
Indices: 47417798--47417854 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
47417788 GACGAAAAGG
*
47417798 ATGAGAAATGGATATGAT
1 ATGAGAAATGGATATGAA
*
47417816 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
47417835 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
47417855 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:47417846 original size:27 final size:27
Alignment explanation
Indices: 47417811--47417865 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47417801 AGAAATGGAT
*
47417811 ATGATATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
47417838 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
47417865 A
1 A
47417866 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:47417863 original size:19 final size:20
Alignment explanation
Indices: 47417802--47417864 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
47417792 AAAAGGATGA
*
47417802 GAAAT-GGATATG-ATATGG
1 GAAATGGGATATGAATATGT
*
47417820 GAAATGGAATATGAA-ATGAT
1 GAAATGGGATATGAATATG-T
47417840 GAAATGGGATATGAATAT-T
1 GAAATGGGATATGAATATGT
47417859 GAAATG
1 GAAATG
47417865 AATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 15 0.39
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
GAAATGGGATATGAATATGT
Found at i:47430022 original size:16 final size:16
Alignment explanation
Indices: 47430000--47430036 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
47429990 AGCACACTTC
47430000 CTTTTTTTCTTTT--TT
1 CTTTTTTT-TTTTGATT
47430015 CTTTTTTTTTTTGATT
1 CTTTTTTTTTTTGATT
47430031 CTTTTT
1 CTTTTT
47430037 AATGCCTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (16 bp):
CTTTTTTTTTTTGATT
Found at i:47431673 original size:3 final size:3
Alignment explanation
Indices: 47431667--47431695 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47431657 GCAACAACAA
47431667 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
47431696 ACTGCAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:47438438 original size:21 final size:21
Alignment explanation
Indices: 47438388--47438439 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
47438378 AATAATAATG
*
47438388 TCTATTCAAACAACAAAAGAA
1 TCTATTCAAACAACAAAACAA
* * *
47438409 TCGAGTCAATCAACAAAACAA
1 TCTATTCAAACAACAAAACAA
47438430 TCTATTCAAA
1 TCTATTCAAA
47438440 GTGGCTACAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (21 bp):
TCTATTCAAACAACAAAACAA
Found at i:47439026 original size:15 final size:15
Alignment explanation
Indices: 47438974--47439031 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 15
47438964 CATCTTGGCC
47438974 AGCTCGCATTTTGATG
1 AGCTCGCATTTTG-TG
47438990 AGCTCGCATTTTGGTG
1 AGCTCGCATTTT-GTG
47439006 AGCTCGCACTTTTGT-
1 AGCTCGCA-TTTTGTG
47439021 AGCTCGC-TTTT
1 AGCTCGCATTTT
47439032 CATTCAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.10
15 7 0.17
16 24 0.60
17 5 0.12
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (15 bp):
AGCTCGCATTTTGTG
Found at i:47448911 original size:18 final size:18
Alignment explanation
Indices: 47448888--47448963 Score: 113
Period size: 18 Copynumber: 4.4 Consensus size: 18
47448878 CAAAGTCACG
*
47448888 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
47448906 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
*
47448924 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
47448942 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
47448957 ATCAATA
1 ATCAATA
47448964 AGAAAACCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.18
16 1 0.02
18 44 0.80
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:47448923 original size:9 final size:9
Alignment explanation
Indices: 47448896--47448939 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
47448886 CGATCAATAG
47448896 CGTCACTAT
1 CGTCACTAT
* *
47448905 CATCAATAT
1 CGTCACTAT
47448914 CGTCACTAT
1 CGTCACTAT
* *
47448923 CATCAATAT
1 CGTCACTAT
47448932 CGTCACTA
1 CGTCACTA
47448940 GCATCAATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (9 bp):
CGTCACTAT
Found at i:47450048 original size:24 final size:24
Alignment explanation
Indices: 47450002--47450072 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
47449992 ATCTATGTAG
47450002 ATTTTATATATTTTATTATAAAT-CAT
1 ATTTTATATA-TTTA-TA-AAATACAT
*
47450028 ATTTTATATATTTATACAAATATAT
1 ATTTTATATATTTATA-AAATACAT
47450053 ATTTTATAT-TTTATAAAATA
1 ATTTTATATATTTATAAAATA
47450073 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 15 0.36
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTATATATTTATAAAATACAT
Found at i:47450060 original size:23 final size:23
Alignment explanation
Indices: 47450002--47450072 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 23
47449992 ATCTATGTAG
47450002 ATTTTATATATTTTATTATAAATCAT
1 ATTTTATATATTTTA-TA-AAAT-AT
47450028 ATTTTATATA-TTTATACAAATAT
1 ATTTTATATATTTTATA-AAATAT
47450051 ATATTT-TATATTTTATAAAATA
1 AT-TTTATATATTTTATAAAATA
47450073 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 13 0.31
24 15 0.36
25 4 0.10
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTATATATTTTATAAAATAT
Found at i:47450520 original size:43 final size:43
Alignment explanation
Indices: 47450392--47450739 Score: 340
Period size: 42 Copynumber: 8.3 Consensus size: 43
47450382 AAAGTACCAA
* **
47450392 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
47450435 AAACACCGCTAAAGACCA-AACCTTTAGCGGCACTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
47450477 AAACGCCGCTAAAGACCATGACCTTTAGCAGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
47450520 AAACGCCGCTAAAGACGAAGACCTTTA-----GCTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
47450558 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
47450601 AAACGCCGCTATAGA--ATCGACCTGTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
* * *
47450643 AAACACCGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
* * * * * * * *
47450685 AAACGCCGATATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
47450727 AAACGCCACTAAA
1 AAACGCCGCTAAA
47450740 AACATAACAT
Statistics
Matches: 256, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
38 34 0.13
41 2 0.01
42 136 0.53
43 83 0.32
44 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:47450582 original size:81 final size:82
Alignment explanation
Indices: 47450386--47450711 Score: 331
Period size: 85 Copynumber: 3.9 Consensus size: 82
47450376 CCGCTAAAAG
* * * *
47450386 TACCAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTAACAAACACCGCTAAAGAC
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
47450451 CAAACCTTTAGCGGCACTTT
66 CAAACCTTTA--GG-ACTTT
* * *
47450471 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCAGTGCTTTTCCCACAAACGCCGCTAAAGAC
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
*
47450536 GAAGACCTTTA-G-CTTT
66 CAA-ACCTTTAGGACTTT
* * *
47450552 TACCACAAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATAGAA
1 TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAG-A
* * * *
47450617 TC-GACCTGTAGCGGCGTTTT
65 CCAAACCTTTAG-GAC--TTT
* * * * *
47450637 TCCCACAAACACCGCTATAGA--ATAGACCTTTAGCGGCGCTTTT-CACACAAACGCCGATATAG
1 TACCACAAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCA-ACAAACGCCGCTAAAG
*
47450699 AACAAACCTTTAG
64 ACCAAACCTTTAG
47450712 CGACGCTTCT
Statistics
Matches: 205, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
80 6 0.03
81 62 0.30
82 2 0.01
83 7 0.03
84 41 0.20
85 80 0.39
86 7 0.03
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (82 bp):
TACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGAC
CAAACCTTTAGGACTTT
Found at i:47458393 original size:8 final size:8
Alignment explanation
Indices: 47458380--47458412 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
47458370 ACCCGGCCCT
47458380 TAAATCCC
1 TAAATCCC
47458388 TAAAT-CC
1 TAAATCCC
47458395 TAAA-CCC
1 TAAATCCC
47458402 TAAATCCC
1 TAAATCCC
47458410 TAA
1 TAA
47458413 CTCTTACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 12 0.52
8 11 0.48
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAATCCC
Found at i:47458733 original size:7 final size:7
Alignment explanation
Indices: 47458721--47458869 Score: 50
Period size: 7 Copynumber: 20.7 Consensus size: 7
47458711 ACTAGTTAAT
47458721 CTAAACC
1 CTAAACC
47458728 CTAAACC
1 CTAAACC
*
47458735 CTAAAACT
1 CT-AAACC
47458743 CTAAAACC
1 CT-AAACC
*
47458751 ATAAACC
1 CTAAACC
* *
47458758 CTTAACA
1 CTAAACC
47458765 C-ATAACC
1 CTA-AACC
*
47458772 TCTAAAGC
1 -CTAAACC
47458780 CTAAACC
1 CTAAACC
* *
47458787 C-CAGCC
1 CTAAACC
*
47458793 TTTAAACC
1 -CTAAACC
*
47458801 ATAAACC
1 CTAAACC
*
47458808 ATAAACC
1 CTAAACC
**
47458815 AAAAACC
1 CTAAACC
*
47458822 GTAAACC
1 CTAAACC
* *
47458829 ATAAATC
1 CTAAACC
* *
47458836 ATAACCC
1 CTAAACC
47458843 CTAAACC
1 CTAAACC
*
47458850 CATAATCC
1 C-TAAACC
*
47458858 ATAAACC
1 CTAAACC
*
47458865 TTAAA
1 CTAAA
47458870 ATGGTAACAC
Statistics
Matches: 106, Mismatches: 29, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
6 3 0.03
7 78 0.74
8 24 0.23
9 1 0.01
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:47458812 original size:14 final size:14
Alignment explanation
Indices: 47458795--47458869 Score: 78
Period size: 14 Copynumber: 5.3 Consensus size: 14
47458785 CCCCAGCCTT
47458795 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
47458809 TAAACCAAAAACCG
1 TAAACCATAAACCA
*
47458823 TAAACCATAAATCA
1 TAAACCATAAACCA
* *
47458837 TAACCCCTAAACCCA
1 TAAACCATAAA-CCA
* *
47458852 TAATCCATAAACCT
1 TAAACCATAAACCA
47458866 TAAA
1 TAAA
47458870 ATGGTAACAC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
14 37 0.77
15 11 0.23
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:47458820 original size:21 final size:21
Alignment explanation
Indices: 47458795--47458869 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
47458785 CCCCAGCCTT
47458795 TAAACCATAAACCATAAACCA
1 TAAACCATAAACCATAAACCA
* * *
47458816 AAAACCGTAAACCATAAATCA
1 TAAACCATAAACCATAAACCA
* * *
47458837 TAACCCCTAAACCCATAATCCA
1 TAAACCATAAA-CCATAAACCA
*
47458859 TAAACCTTAAA
1 TAAACCATAAA
47458870 ATGGTAACAC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCA
Found at i:47458899 original size:14 final size:14
Alignment explanation
Indices: 47458880--47458931 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
47458870 ATGGTAACAC
*
47458880 CTAAACCTTAAACT
1 CTAAACCATAAACT
*
47458894 CTAAACCATATAC-
1 CTAAACCATAAACT
*
47458907 CTAAACCAAAAACT
1 CTAAACCATAAACT
*
47458921 CTAAACTATAA
1 CTAAACCATAA
47458932 TGATAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCATAAACT
Found at i:47459248 original size:41 final size:41
Alignment explanation
Indices: 47459100--47459267 Score: 162
Period size: 41 Copynumber: 4.1 Consensus size: 41
47459090 TAAATTATTT
* ** *
47459100 TAAATCCTTGAGCATTAGCGGCGCATTTTAC-AAGACGCCGC
1 TAAATCCATGAGCATTAGCGGCGC-TTTCCCAAAAACGCCGC
* * ** *
47459141 TAAA--AATAGAGCATTAGCAGCGCTTTATCAAAAACGTCGC
1 TAAATCCAT-GAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
47459181 TAAAAGCCCTGAGCATTAGCGACGCTTTCCCGAAAACGCTGC
1 T-AAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
47459223 TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
47459264 TAAA
1 TAAA
47459268 GCCCCGAAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
39 5 0.05
40 23 0.23
41 46 0.46
42 26 0.26
43 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
TAAATCCATGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:47459363 original size:39 final size:40
Alignment explanation
Indices: 47459320--47459452 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
47459310 CGCTTTCTGG
* * *
47459320 AAAGCGCCGCTAATTCTTG-TTTTTAACGGCGTTTTTCAT
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
* * * * * *
47459359 AAAGCACCGCTAGTACTCGATCTTTAGCGGTGTTTTCCAA
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
* * *
47459399 AAAGCGCCGTTAATGCTCGATTTTTAGCGGCGTTTTTTAT
1 AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
*
47459439 CCAAGCGCCGCTAA
1 -AAAGCGCCGCTAA
47459453 AGCCTGTTTT
Statistics
Matches: 72, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 15 0.21
40 46 0.64
41 11 0.15
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAGCGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCAT
Found at i:47459986 original size:19 final size:20
Alignment explanation
Indices: 47459944--47459988 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
47459934 TTTAGCCACC
*
47459944 AAAAAAAATATCGAAAATTA
1 AAAAAAAATATCGAAAACTA
47459964 AAAAAAAA-ATCGAAAACTGA
1 AAAAAAAATATCGAAAACT-A
47459984 AAAAA
1 AAAAA
47459989 GAAAAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAAATATCGAAAACTA
Found at i:47459987 original size:21 final size:19
Alignment explanation
Indices: 47459944--47459994 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
47459934 TTTAGCCACC
* *
47459944 AAAAAAAATATCGAAAATT
1 AAAAAAAAAATCGAAAATA
47459963 AAAAAAAAAATCGAAAACTGA
1 AAAAAAAAAATCGAAAA-T-A
47459984 AAAAAGAAAAA
1 AAAAA-AAAAA
47459995 GTGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 16 0.59
20 1 0.04
21 5 0.19
22 5 0.19
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (19 bp):
AAAAAAAAAATCGAAAATA
Found at i:47461692 original size:26 final size:26
Alignment explanation
Indices: 47461657--47461710 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
47461647 CTTGTGATGT
47461657 TAAATCGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
*
47461683 TAAATTGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
47461709 TA
1 TA
47461711 TTGGCACGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (26 bp):
TAAATCGGTGTCCTTAACTATTCATG
Found at i:47465892 original size:26 final size:26
Alignment explanation
Indices: 47465861--47465935 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
47465851 ATGAATTTTC
*
47465861 TCAAAATTTT-TCTAAGGG-TACAATTG
1 TCAAAATTTTAT-T-AGGGATAAAATTG
*
47465887 TCAAAATTTTATTGGGGATAAAATTG
1 TCAAAATTTTATTAGGGATAAAATTG
47465913 TCAAAATTTTACTT--GGATAAAAT
1 TCAAAATTTTA-TTAGGGATAAAAT
47465936 CGGGGTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 12 0.27
26 29 0.66
27 3 0.07
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (26 bp):
TCAAAATTTTATTAGGGATAAAATTG
Found at i:47474333 original size:45 final size:45
Alignment explanation
Indices: 47474277--47474362 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
47474267 GAATACCGAA
* * * *
47474277 TATAATGCCATGGTATCTTTCAACCATGGTCTTTTCCTTTTTGAG
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
* *
47474322 TATAATACCATGATGTATTTCAATCACGGTCTTTTCCTTTT
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTT
47474363 CCCAAATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (45 bp):
TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
Found at i:47478239 original size:17 final size:18
Alignment explanation
Indices: 47478205--47478241 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
47478195 TGTCATTTAC
47478205 AATATAAGTTCAATATCA
1 AATATAAGTTCAATATCA
47478223 AATAT-AGTTCCAA-ATCA
1 AATATAAGTT-CAATATCA
47478240 AA
1 AA
47478242 CTTATCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATATAAGTTCAATATCA
Found at i:47482163 original size:44 final size:44
Alignment explanation
Indices: 47482093--47482695 Score: 526
Period size: 44 Copynumber: 13.7 Consensus size: 44
47482083 CCAATATAAA
* *
47482093 AAGACAGGATCTGCTATCTTCGATCTACTTCACGCTAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * * * * ***
47482137 AAGATAAGATCTGCTTTCGTT-GATCTATTTCGCCACCAATATGGG
1 AAGACAAGATCTGCTATC-TTCGATCTACTTC-ACGCCAATACATG
* * * *
47482182 AATACAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
* *
47482225 AAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * * * * *
47482269 AAGACGAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
* * *
47482313 AAGACAGGATCTGCTAACTTCGATCTACTTCACACCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
*
47482357 AATACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * * * * *
47482401 AAGACGAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
* *
47482445 AAGACATGATCTGCTATCTTCGATCTACTTCACGCTAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * * * * ***
47482489 AAGACAAGATATGCTTTCTTTGATCTACTTTGC-CACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTAC-TT-CACGCCAATACATG
* * * * * *
47482534 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACTAGTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
* * *
47482577 AAGACATGATCTGCTATCTTCGATCTATTTCACGCAAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * * *
47482621 AAGACAAGATTTGCTTTCTTCGATCTACTT--CGCCACTAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT--G
*
47482666 AAGACAAGATCTGC-ATCTTCGATCCACTTC
1 AAGACAAGATCTGCTATCTTCGATCTACTTC
47482696 CTACCAGTAT
Statistics
Matches: 451, Mismatches: 89, Indels: 37
0.78 0.15 0.06
Matches are distributed among these distances:
42 9 0.02
43 51 0.11
44 330 0.73
45 60 0.13
46 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
Found at i:47482334 original size:132 final size:131
Alignment explanation
Indices: 47482093--47482724 Score: 728
Period size: 132 Copynumber: 4.8 Consensus size: 131
47482083 CCAATATAAA
* * * *
47482093 AAGACAGGATCTGCTATCTTCGATCTACTTCACGCTAATACATGAAGATAAGATCTGCTTTCGTT
1 AAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-TT
* * * * * *
47482158 -GATCTATTTCGCCACCAATATGGGAATACAAGATCTGC-ATCTTCGATCTACTTCCTACCAATA
65 CGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCC-ACCAATA
* *
47482221 TAGG
128 CATG
* *
47482225 AAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTGCTTTCTTC
1 AAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
*
47482290 GATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTAACTTCGATCTACTTCACACCAATACA
66 GATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-CACCAATACA
47482355 TG
130 TG
* * *
47482357 AATACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTGCTTTCTTC
1 AAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
*
47482422 GATCCACTTCCTACCAATATAGGAAGACATGATCTGCTATCTTCGATCTACTT-CACGCTAATAC
66 GATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCCAC-C-AATAC
47482486 ATG
129 ATG
* * * * *** *
47482489 AAGACAAGATATGCTT-TCTTTGATCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGC-ATC
1 AAGACAAGATCTG-TTATCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTTTC
* * * *
47482551 TTCGATCCACTTCCTACTAGTATAGGAAGACATGATCTGCTATCTTCGATCTA-TTTCACGCAAA
63 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCCAC-C-AA
47482615 TACATG
126 TACATG
* * * *
47482621 AAGACAAGATTTGCTT-TCTTCGATCTACTT--CGCCACTAGTATGGGAAGACAAGATCTGC-AT
1 AAGACAAGATCTG-TTATCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTTT
*
47482682 CTTCGATCCACTTCCTACCAGTATAGGAAGACAGGATCTGCTA
62 CTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
47482725 CTTTTTAACC
Statistics
Matches: 448, Mismatches: 40, Indels: 24
0.88 0.08 0.05
Matches are distributed among these distances:
129 6 0.01
130 4 0.01
131 30 0.07
132 383 0.85
133 24 0.05
134 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (131 bp):
AAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
GATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCCACCAATACAT
G
Found at i:47485949 original size:45 final size:45
Alignment explanation
Indices: 47485885--47485970 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
47485875 TTAAAGGGTC
47485885 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
1 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
47485930 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATT
1 TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATT
47485971 CCCTCAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (45 bp):
TAATTTTGAAATCAGCCAAGTCCTATGATAAAGCAAGTATTGCCT
Found at i:47503810 original size:30 final size:31
Alignment explanation
Indices: 47503774--47503833 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47503764 GTATAAATAT
*
47503774 AAAAATATTCATTTAAAAAA-ACAAATATAG
1 AAAAATATTCATTAAAAAAATACAAATATAG
* *
47503804 AAAAATATTTATTAAAAAAATAGAAATATA
1 AAAAATATTCATTAAAAAAATACAAATATA
47503834 TATGCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
AAAAATATTCATTAAAAAAATACAAATATAG
Found at i:47503866 original size:22 final size:21
Alignment explanation
Indices: 47503838--47503883 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
47503828 AATATATATG
47503838 CATATATAGATAAGAAAAATTA
1 CATATATAGATAA-AAAAATTA
* *
47503860 CATATATATATAAAATAATTA
1 CATATATAGATAAAAAAATTA
47503881 CAT
1 CAT
47503884 TATCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
CATATATAGATAAAAAAATTA
Found at i:47513613 original size:12 final size:12
Alignment explanation
Indices: 47513596--47513620 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47513586 TTCTCTTGAT
47513596 CCAAGTTGTGAG
1 CCAAGTTGTGAG
47513608 CCAAGTTGTGAG
1 CCAAGTTGTGAG
47513620 C
1 C
47513621 GTCAGACATG
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:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (12 bp):
CCAAGTTGTGAG
Found at i:47521905 original size:161 final size:161
Alignment explanation
Indices: 47521640--47522032 Score: 716
Period size: 161 Copynumber: 2.4 Consensus size: 161
47521630 TGTGTTGTTG
*
47521640 AAGGATGGATTTAACTGGCACAGGTGACTTC-GGGAGTAACTCATGTGAAACAAACAGATACTAA
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGG-GTAACTCATGTGAAACAAACAGATACTAA
47521704 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
65 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
*
47521769 CGAAAGAGTAAATTGGCACCTTATTTTTTTTT
130 CGAAAGAGTAAATTGGCACCTTATTTTTTTCT
47521801 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
47521866 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
66 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
47521931 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
131 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
* * * *
47521962 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGCAACTCACGTGAAGCCAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
47522027 CGGCCA
66 CGGCCA
47522033 AGTAAATTTT
Statistics
Matches: 225, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
161 222 0.99
162 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (161 bp):
AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
GAAAGAGTAAATTGGCACCTTATTTTTTTCT
Found at i:47527491 original size:37 final size:37
Alignment explanation
Indices: 47527439--47527529 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
47527429 TTAGTGCCGA
*
47527439 GGCGTGTTATCGGTTGGATTAGGT-TACATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCT-CATGAGCATTT
* *
47527476 GGCGTGTTATTGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
*
47527513 GGCGTGTT-TCAGTTGGA
1 GGCGTGTTATCGGTTGGA
47527530 CTACTTGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 7 0.15
37 40 0.83
38 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.40
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
Found at i:47530124 original size:37 final size:37
Alignment explanation
Indices: 47530074--47530150 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
47530064 TTATTACGAA
* * *
47530074 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47530111 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47530148 GTC
1 GTC
47530151 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47530349 original size:47 final size:47
Alignment explanation
Indices: 47530271--47530603 Score: 594
Period size: 47 Copynumber: 7.1 Consensus size: 47
47530261 CCCTTCGGGA
* * * * * *
47530271 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47530318 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530365 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530459 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530506 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47530600 CTTA
1 CTTA
47530604 CTATCATTTC
Statistics
Matches: 276, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47534784 original size:13 final size:13
Alignment explanation
Indices: 47534766--47534791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47534756 GAAGTTTCGT
47534766 TAAGCTTATGATA
1 TAAGCTTATGATA
47534779 TAAGCTTATGATA
1 TAAGCTTATGATA
47534792 ACTAATGTGA
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TAAGCTTATGATA
Found at i:47536714 original size:19 final size:20
Alignment explanation
Indices: 47536682--47536732 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
47536672 GATTAAAAAC
47536682 TAGTTTATTAAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
47536702 TAGTTT-TTGAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
47536721 TAATTTGATTAA
1 TAGTTT-ATTAA
47536733 ATATTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 17 0.65
20 6 0.23
21 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TAGTTTATTAAGTAAATTAT
Found at i:47536737 original size:16 final size:17
Alignment explanation
Indices: 47536692--47536739 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
47536682 TAGTTTATTA
*
47536692 AGTAAATTATTAGTTTTTG
1 AGTAAATTATTA--ATTTG
47536711 AGTAAATTATTAATTTG
1 AGTAAATTATTAATTTG
*
47536728 ATTAAA-TATTAA
1 AGTAAATTATTAA
47536740 AAGTTGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
19 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (17 bp):
AGTAAATTATTAATTTG
Found at i:47541729 original size:23 final size:23
Alignment explanation
Indices: 47541703--47541746 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47541693 ACACAAAAAT
47541703 TTGGACAACATAAATACAACAAC
1 TTGGACAACATAAATACAACAAC
* * *
47541726 TTGGGCAGCATATATACAACA
1 TTGGACAACATAAATACAACA
47541747 GTTTGAGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (23 bp):
TTGGACAACATAAATACAACAAC
Found at i:47541783 original size:46 final size:47
Alignment explanation
Indices: 47541731--47541927 Score: 202
Period size: 47 Copynumber: 4.2 Consensus size: 47
47541721 ACAACTTGGG
** *
47541731 CAGCATATATACAACAGTTTGAGCA-CATTTTTA-CACCAAAACTGGA
1 CAGCATATATACAACAAATTGAGCAGCA-TTTAAGCACCAAAACTGGA
* * * *
47541777 CAGCATATATGCAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
** * *
47541824 CAGCATATATGTAACAAATTG-GACAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAG-CAGCATTTAAGCACCAAAACTGGA
** * * * *
47541871 CAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
47541918 CAGCATATAT
1 CAGCATATAT
47541928 GTAAAAAATT
Statistics
Matches: 138, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
46 26 0.19
47 111 0.80
48 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (47 bp):
CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
Found at i:47541794 original size:24 final size:24
Alignment explanation
Indices: 47541767--47541939 Score: 174
Period size: 23 Copynumber: 7.4 Consensus size: 24
47541757 ATTTTTACAC
*
47541767 CAAAACTGGACAGCATATATGCAA
1 CAAAATTGGACAGCATATATGCAA
* * * *
47541791 C-AAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
47541814 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
* * *
47541838 C-AAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
47541861 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
** * * *
47541885 C-AAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
47541908 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
47541932 -AAAATTGG
1 CAAAATTGG
47541940 TTCAACTCAT
Statistics
Matches: 116, Mismatches: 30, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
23 62 0.53
24 54 0.47
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (24 bp):
CAAAATTGGACAGCATATATGCAA
Found at i:47541824 original size:47 final size:47
Alignment explanation
Indices: 47541767--47541939 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
47541757 ATTTTTACAC
* *
47541767 CAAAACTGGACAGCATATATGCAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
47541814 CAAAATTGGACAGCATATATGTAACAAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
47541861 CAAAATTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
47541908 CAAAATTGGACAGCATATATGTAAAAAATTGG
1 CAAAATTGGACAGCATATATGTAACAAATTGG
47541940 TTCAACTCAT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
Found at i:47542847 original size:43 final size:42
Alignment explanation
Indices: 47542779--47542908 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
47542769 AACTCGTACA
*
47542779 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
*
47542822 ATGCC-ACTGTCCCAGACAGT-TTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
*
47542865 ATGCCAACGTTCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
47542908 A
1 A
47542909 AAATCCTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
42 5 0.07
43 62 0.83
44 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:47552552 original size:51 final size:50
Alignment explanation
Indices: 47552456--47552600 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 50
47552446 GATATCGGTT
* * *
47552456 CACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-CACTATCCGATA
* * * * *
47552507 CACGTGGTAGCTTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCACA-CTATCCGATA
**
47552558 CGTATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-CACT
47552601 TTCACTTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
50 3 0.04
51 70 0.92
52 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCACACTATCCGATA
Found at i:47552616 original size:51 final size:50
Alignment explanation
Indices: 47552454--47552626 Score: 145
Period size: 51 Copynumber: 3.4 Consensus size: 50
47552444 ATGATATCGG
* * *
47552454 TTCACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGA
1 TTCACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC-CA
* * * * * *
47552505 TACACGTGGTAGCTTGCACATAGTACTACACACGTGATCGA--AGCTATCCG
1 TTCACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCA
* * *
47552555 GT-ACGTATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACT
1 TTCAC--ATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC-CA
* *
47552607 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
47552627 CAGTCCATGC
Statistics
Matches: 94, Mismatches: 20, Indels: 16
0.72 0.15 0.12
Matches are distributed among these distances:
49 2 0.02
50 3 0.03
51 82 0.87
52 5 0.05
53 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (50 bp):
TTCACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCA
Found at i:47555132 original size:23 final size:23
Alignment explanation
Indices: 47555088--47555132 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
47555078 TTATATTAAT
* **
47555088 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
47555111 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
47555133 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:47575759 original size:23 final size:23
Alignment explanation
Indices: 47575733--47575778 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47575723 TTTTTAACCA
*
47575733 CTTTTT-TTTCTTTTAGATTTTTT
1 CTTTTTCTTT-TTTTACATTTTTT
*
47575756 CTTTTTCTTTTTTTCCATTTTTT
1 CTTTTTCTTTTTTTACATTTTTT
47575779 GTGGCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTTTCTTTTTTTACATTTTTT
Found at i:47582739 original size:15 final size:17
Alignment explanation
Indices: 47582719--47582755 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
47582709 GTCAAACATT
47582719 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
47582734 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
47582751 ATTAT
1 ATTAT
47582756 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:47585768 original size:322 final size:322
Alignment explanation
Indices: 47585183--47585826 Score: 1288
Period size: 322 Copynumber: 2.0 Consensus size: 322
47585173 ATATTGGACT
47585183 GACTCACTATGAGTATGTTTCTTGGATTATTATTTAATAGTCACAACATTACTCATAGTGATTAC
1 GACTCACTATGAGTATGTTTCTTGGATTATTATTTAATAGTCACAACATTACTCATAGTGATTAC
47585248 TATGTATATGATCTTCAGACTTGAGATCACCATTATCCCAACATCGTGAGTCGTATATTTTGATA
66 TATGTATATGATCTTCAGACTTGAGATCACCATTATCCCAACATCGTGAGTCGTATATTTTGATA
47585313 CAGTCAAGCGTCTACCTTAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATG
131 CAGTCAAGCGTCTACCTTAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATG
47585378 TAGTGGGATATGGTTGATCAATATATAATTTGTCTCTCCTAAATAATGGGAGCAATATCCAATGC
196 TAGTGGGATATGGTTGATCAATATATAATTTGTCTCTCCTAAATAATGGGAGCAATATCCAATGC
47585443 CACTTGTTTGAGTGAGACTAGAAATGCATGACCATGCTCGAATAAGTTGATATGAGATATCA
261 CACTTGTTTGAGTGAGACTAGAAATGCATGACCATGCTCGAATAAGTTGATATGAGATATCA
47585505 GACTCACTATGAGTATGTTTCTTGGATTATTATTTAATAGTCACAACATTACTCATAGTGATTAC
1 GACTCACTATGAGTATGTTTCTTGGATTATTATTTAATAGTCACAACATTACTCATAGTGATTAC
47585570 TATGTATATGATCTTCAGACTTGAGATCACCATTATCCCAACATCGTGAGTCGTATATTTTGATA
66 TATGTATATGATCTTCAGACTTGAGATCACCATTATCCCAACATCGTGAGTCGTATATTTTGATA
47585635 CAGTCAAGCGTCTACCTTAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATG
131 CAGTCAAGCGTCTACCTTAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATG
47585700 TAGTGGGATATGGTTGATCAATATATAATTTGTCTCTCCTAAATAATGGGAGCAATATCCAATGC
196 TAGTGGGATATGGTTGATCAATATATAATTTGTCTCTCCTAAATAATGGGAGCAATATCCAATGC
47585765 CACTTGTTTGAGTGAGACTAGAAATGCATGACCATGCTCGAATAAGTTGATATGAGATATCA
261 CACTTGTTTGAGTGAGACTAGAAATGCATGACCATGCTCGAATAAGTTGATATGAGATATCA
47585827 TACTTATTTG
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 322 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (322 bp):
GACTCACTATGAGTATGTTTCTTGGATTATTATTTAATAGTCACAACATTACTCATAGTGATTAC
TATGTATATGATCTTCAGACTTGAGATCACCATTATCCCAACATCGTGAGTCGTATATTTTGATA
CAGTCAAGCGTCTACCTTAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATG
TAGTGGGATATGGTTGATCAATATATAATTTGTCTCTCCTAAATAATGGGAGCAATATCCAATGC
CACTTGTTTGAGTGAGACTAGAAATGCATGACCATGCTCGAATAAGTTGATATGAGATATCA
Found at i:47586413 original size:15 final size:17
Alignment explanation
Indices: 47586393--47586429 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
47586383 GTCAAACATT
47586393 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
47586408 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
47586425 ATTAT
1 ATTAT
47586430 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:47595170 original size:46 final size:46
Alignment explanation
Indices: 47595085--47595190 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
47595075 GAAAGAGAAG
* * * * *
47595085 AAGAGAAGAAGAAGAAAGAGAAGGAGATGGCGGGAAGGGAAGGGAAA
1 AAGAGAAGAAAAAAAAAGAGAAGGAGATAGAGAGAAGGGAA-GGAAA
*
47595132 AAGA-AAGAAAAAAAAAGAGAAGGAGAATAGAGAG-AGGGAAGGAGA
1 AAGAGAAGAAAAAAAAAGAGAAGGAG-ATAGAGAGAAGGGAAGGAAA
47595177 AAGAGAAGAAAAAA
1 AAGAGAAGAAAAAA
47595191 GTAAATAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 8 0.16
46 34 0.67
47 9 0.18
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (46 bp):
AAGAGAAGAAAAAAAAAGAGAAGGAGATAGAGAGAAGGGAAGGAAA
Found at i:47595744 original size:21 final size:20
Alignment explanation
Indices: 47595704--47595744 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47595694 AGAATAAGAG
*
47595704 TTTATGTTTTTAAATTTTAT
1 TTTATGTTTTTAAATATTAT
*
47595724 TTTATTTTTTATAAATATTAT
1 TTTATGTTTT-TAAATATTAT
47595745 AAATGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATGTTTTTAAATATTAT
Found at i:47600230 original size:14 final size:14
Alignment explanation
Indices: 47600211--47600245 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47600201 GACATTTTTT
*
47600211 TTCTAATGACACTA
1 TTCTAACGACACTA
*
47600225 TTCTAACGATACTA
1 TTCTAACGACACTA
47600239 TTCTAAC
1 TTCTAAC
47600246 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGACACTA
Found at i:47601558 original size:62 final size:61
Alignment explanation
Indices: 47601471--47601759 Score: 397
Period size: 62 Copynumber: 4.7 Consensus size: 61
47601461 CAACATTACA
* * * * * *
47601471 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTGTAATATAAATTATAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGT-ATATAAATTAAAT
47601533 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTGCTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
**
47601594 ACATTACAACATTAAAAATTAGGGCAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
* *
47601656 ACCTTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-TACTAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATA-TAAATTAAAT
* *
47601717 ACATTACAACATT--AAATTTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTAG-AACAAACTTTGTAATATAAATT
47601760 AGGTACATTG
Statistics
Matches: 207, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
59 6 0.03
60 23 0.11
61 79 0.38
62 99 0.48
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (61 bp):
ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATATAAATTAAAT
Found at i:47601640 original size:123 final size:123
Alignment explanation
Indices: 47601495--47601732 Score: 399
Period size: 123 Copynumber: 1.9 Consensus size: 123
47601485 AAACTTGGAA
* *
47601495 CAAACTTTGTAATATAATTTTTGTAATATAAATTATATACATTACAACATTAAAAATTAGAACAA
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
47601560 ACTTTGTAATATAAA-TTTGCTATA-TAAATTAAATACATTACAACATTAAAAATTAGGG
66 ACTTTGTAATATAAATTTTG-T-TACTAAATTAAATACATTACAACATTAAAAATTAGGG
* * *
47601618 CAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACCTTACAACATTAAAAATTGGAACAA
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
47601683 ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAA
66 ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAA
47601733 TTTGAAACAA
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
122 2 0.02
123 102 0.94
124 4 0.04
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (123 bp):
CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTAGAACAA
ACTTTGTAATATAAATTTTGTTACTAAATTAAATACATTACAACATTAAAAATTAGGG
Found at i:47605154 original size:19 final size:20
Alignment explanation
Indices: 47605130--47605173 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47605120 TTTCTGCTTC
47605130 TTCTTCT-CGTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
**
47605149 TTCTTCTATTTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
47605169 TTCTT
1 TTCTT
47605174 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.64
Consensus pattern (20 bp):
TTCTTCTACGTACGTTTCTT
Found at i:47610066 original size:16 final size:16
Alignment explanation
Indices: 47610045--47610075 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47610035 AAATTATATT
47610045 TTTTTATTTTTAATAA
1 TTTTTATTTTTAATAA
47610061 TTTTTATTTTTAATA
1 TTTTTATTTTTAATA
47610076 TTCCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTAATAA
Found at i:47612493 original size:49 final size:49
Alignment explanation
Indices: 47612420--47612523 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
47612410 TCATGTAATA
* * * *
47612420 TAATTTTATAAAGTGTTGAGCTTTTGGTACATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
*
47612469 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
47612518 TAATTT
1 TAATTT
47612524 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
Found at i:47614255 original size:16 final size:18
Alignment explanation
Indices: 47614218--47614253 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47614208 AATATTAAGA
47614218 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
47614236 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
47614254 TTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATTAAATTATAT
Found at i:47614507 original size:120 final size:120
Alignment explanation
Indices: 47613912--47614513 Score: 1079
Period size: 120 Copynumber: 5.0 Consensus size: 120
47613902 AAGTAGATTA
47613912 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
47613977 AAAAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAAT-T
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGT
47614032 TAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
47614093 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAATAATTATGT
*
47614149 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
47614214 AAGAATTTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAA-TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
47614270 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
47614335 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
47614390 TAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
47614455 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
47614510 TAAA
1 TAAA
47614514 ATATGCTTAA
Statistics
Matches: 467, Mismatches: 8, Indels: 14
0.96 0.02 0.03
Matches are distributed among these distances:
116 55 0.12
117 23 0.05
118 35 0.07
119 35 0.07
120 180 0.39
121 107 0.23
122 32 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
Found at i:47615731 original size:3 final size:3
Alignment explanation
Indices: 47615717--47615745 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
47615707 GGAAGAAAGA
47615717 ATC ATC AT- ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
47615746 TATTCGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:47623256 original size:65 final size:64
Alignment explanation
Indices: 47623163--47623352 Score: 281
Period size: 65 Copynumber: 2.9 Consensus size: 64
47623153 CTAGTCATAA
*
47623163 ATTACCAGCAAAAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * * *
47623228 ATTATCAGCGTTAAAAAACCTTAATTTCTATGATACTTCCTTATTGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * *
47623293 ATTACCAGCATAAAAAACCCTTACGTTCTATGATACTTCCTCATCAAGGAATTACTCTAT
1 ATTACCAGCATAAAAAA-CCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTAT
47623353 GCTCTTACCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 7 0.06
65 104 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (64 bp):
ATTACCAGCATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
Found at i:47627667 original size:16 final size:16
Alignment explanation
Indices: 47627646--47627676 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47627636 AACTACAATT
47627646 ATTTTTATGTAAAAGA
1 ATTTTTATGTAAAAGA
*
47627662 ATTTTTTTGTAAAAG
1 ATTTTTATGTAAAAG
47627677 TCAAAAGAGA
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:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (16 bp):
ATTTTTATGTAAAAGA
Found at i:47630485 original size:64 final size:63
Alignment explanation
Indices: 47630365--47630485 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
47630355 TATCCCTAGA
**
47630365 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGTGCT
* * * *
47630428 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACT
47630486 GAAACTGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 26 0.51
64 25 0.49
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.33
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGTGCT
Found at i:47630494 original size:64 final size:63
Alignment explanation
Indices: 47630365--47630503 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
47630355 TATCCCTAGA
** **
47630365 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
* * * *
47630428 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT-GAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTAG-AACT
* *
47630492 GAAGGTGATGAT
1 GAATGTGTTGAT
47630504 ACGAGGAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 27 0.42
64 37 0.58
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
Found at i:47630512 original size:64 final size:64
Alignment explanation
Indices: 47630365--47630520 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
47630355 TATCCCTAGA
* * ** **
47630365 GAATGTGTTGATGTAAGGAATGA-TGGGGC-ATGCTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGTAGGGAATGAGT-GTGCAATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
* *
47630428 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACT-GAAACT
1 GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTAG-AACT
47630492 GAA-G-G-TGATGATACGAGGAATGAGTGTGC
1 GAATGTGTTGATG-TA-G-GGAATGAGTGTGC
47630521 GTGTTGTGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
61 5 0.06
62 3 0.04
63 28 0.35
64 43 0.54
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (64 bp):
GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTAGAACT
Found at i:47636954 original size:7 final size:7
Alignment explanation
Indices: 47636933--47637025 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
47636923 AGACTGAGGT
47636933 TTGAAAA
1 TTGAAAA
47636940 TTTG-AAA
1 -TTGAAAA
47636947 TTGAAAA
1 TTGAAAA
47636954 TT-AAAA
1 TTGAAAA
*
47636960 TTTGAAGA
1 -TTGAAAA
47636968 TTGAAAA
1 TTGAAAA
47636975 TAT-AAAA
1 T-TGAAAA
47636982 TTGAAAA
1 TTGAAAA
***
47636989 TTGGGGA
1 TTGAAAA
**
47636996 TTGAGGA
1 TTGAAAA
**
47637003 TTGAAGG
1 TTGAAAA
47637010 TTGAAAA
1 TTGAAAA
47637017 TTGAAAA
1 TTGAAAA
47637024 TT
1 TT
47637026 TAGGAAGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
6 8 0.11
7 55 0.79
8 7 0.10
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:47636972 original size:21 final size:21
Alignment explanation
Indices: 47636936--47636987 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
47636926 CTGAGGTTTG
47636936 AAAATTTGAAATTGAAAAT-T
1 AAAATTTGAAATTGAAAATAT
47636956 AAAATTTGAAGATTGAAAATAT
1 AAAATTTGAA-ATTGAAAATAT
47636978 AAAA-TTGAAA
1 AAAATTTGAAA
47636988 ATTGGGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.37
21 14 0.47
22 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (21 bp):
AAAATTTGAAATTGAAAATAT
Found at i:47639975 original size:30 final size:30
Alignment explanation
Indices: 47639941--47640001 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
47639931 TTAGAGGAAA
47639941 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
47639971 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
47640001 T
1 T
47640002 CTTTTCGTTA
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:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (30 bp):
TTTAGTTATTAGACTCTGCATTGAAGTCTT
Found at i:47641874 original size:31 final size:31
Alignment explanation
Indices: 47641836--47641897 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
47641826 GTAAGTATGA
47641836 AAAATCTTAAGTCTTAATCCATTATCTTTTC
1 AAAATCTTAAGTCTTAATCCATTATCTTTTC
47641867 AAAATCTTAAGTCTTAATCCATTATCTTTTC
1 AAAATCTTAAGTCTTAATCCATTATCTTTTC
47641898 TGATGATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (31 bp):
AAAATCTTAAGTCTTAATCCATTATCTTTTC
Found at i:47651656 original size:54 final size:55
Alignment explanation
Indices: 47651597--47651782 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 55
47651587 CTATCATGCA
* * *
47651597 CCTTCTCCCTTCTCCTTTCACCATCT-AGATCCCTGTCCCGGCTCTTCCCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
** * * *
47651651 CCTTCTCCCTTCTCCTTTC-CC-TCTCCATTTCTCTCTCCCTACTCCTCTCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCT-CAGATCCCTCTCCCGACTCCTCCCTCGCT
* * * * **
47651705 CCTTCTCCCTTCTCCTTTCACCA-CTCATG-TCTCTATCTCTACTCCTTGCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCA-GATCCCTCTCCCGACTCCTCCCTCGCT
* *
47651759 CCCTCTCCCTTCTCCTCTCACCAT
1 CCTTCTCCCTTCTCCTTTCACCAT
47651783 AAATCTCCCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 102 0.92
55 4 0.04
ACGTcount: A:0.07, C:0.49, G:0.05, T:0.39
Consensus pattern (55 bp):
CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
Found at i:47651676 original size:24 final size:24
Alignment explanation
Indices: 47651647--47651723 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
47651637 GCTCTTCCCT
47651647 CGCTCCTTCTCCCTTCTCCTTTCC
1 CGCTCCTTCTCCCTTCTCCTTTCC
* * * *
47651671 CTCTCCATTTCTCTCTCCCTACTCCTCTCT
1 CGCT-C----CT-TCTCCCTTCTCCTTTCC
47651701 CGCTCCTTCTCCCTTCTCCTTTC
1 CGCTCCTTCTCCCTTCTCCTTTC
47651724 ACCACTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 17 0.43
25 3 0.08
29 3 0.08
30 17 0.43
ACGTcount: A:0.03, C:0.52, G:0.03, T:0.43
Consensus pattern (24 bp):
CGCTCCTTCTCCCTTCTCCTTTCC
Found at i:47653279 original size:15 final size:15
Alignment explanation
Indices: 47653261--47653294 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47653251 TGCGATGGCG
*
47653261 GTGGTGACGATGTTT
1 GTGGTGACGATGCTT
*
47653276 GTGGTGGCGATGCTT
1 GTGGTGACGATGCTT
47653291 GTGG
1 GTGG
47653295 CGTTTGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.47, T:0.35
Consensus pattern (15 bp):
GTGGTGACGATGCTT
Found at i:47660609 original size:12 final size:13
Alignment explanation
Indices: 47660585--47660613 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47660575 CGCCACAGCC
47660585 AAAACAAACCAAA
1 AAAACAAACCAAA
47660598 AAAACAAA-CAAA
1 AAAACAAACCAAA
47660610 AAAA
1 AAAA
47660614 AAAAGGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACCAAA
Found at i:47660614 original size:13 final size:13
Alignment explanation
Indices: 47660585--47660614 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47660575 CGCCACAGCC
*
47660585 AAAACAAACCAAA
1 AAAACAAACAAAA
47660598 AAAACAAACAAAA
1 AAAACAAACAAAA
47660611 AAAA
1 AAAA
47660615 AAAGGAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAA
Found at i:47672061 original size:14 final size:14
Alignment explanation
Indices: 47672042--47672074 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47672032 TAATATAGTT
47672042 TTATTTATTTATTA
1 TTATTTATTTATTA
*
47672056 TTATTTATTTATTG
1 TTATTTATTTATTA
47672070 TTATT
1 TTATT
47672075 ATTATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:47672088 original size:20 final size:20
Alignment explanation
Indices: 47672050--47672088 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47672040 TTTTATTTAT
*
47672050 TTATTATTATTTATTTATTG
1 TTATTATTATTTATATATTG
*
47672070 TTATTATTATTTCTATATT
1 TTATTATTATTTATATATT
47672089 TATGCACGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTATTATTTATATATTG
Found at i:47672143 original size:22 final size:21
Alignment explanation
Indices: 47672101--47672143 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
47672091 TGCACGCATT
47672101 TTTTAATATATATATGCATTTA
1 TTTTAATATATATAT-CATTTA
47672123 TTTTATATAATATATAT-ATTT
1 TTTTA-AT-ATATATATCATTT
47672144 TTTGACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAATATATATATCATTTA
Found at i:47675762 original size:12 final size:12
Alignment explanation
Indices: 47675745--47675769 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47675735 GAAGCAAATG
47675745 AAAGTCGTAATA
1 AAAGTCGTAATA
47675757 AAAGTCGTAATA
1 AAAGTCGTAATA
47675769 A
1 A
47675770 TGAACAACTT
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAGTCGTAATA
Done.