Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 64 of 250
Found at i:19655320 original size:48 final size:47
Alignment explanation
Indices: 19655267--19655407 Score: 142
Period size: 48 Copynumber: 2.9 Consensus size: 47
19655257 GGCTATATAA
*
19655267 CGGGAAGCTCATAAGAGCC-ATAATCAGGAAGTTCACAAAGAACTATAT
1 CGGGAAGCTCATAAGAGCCAAT-ATCAGGAAGTTCA-AAAGAACAATAT
* * * *
19655315 TGGGAAGCTC-TAGATAGCCAATATCAGGAAGTTCAAGAGAGCAATAT
1 CGGGAAGCTCATA-AGAGCCAATATCAGGAAGTTCAAAAGAACAATAT
* *
19655362 CGGGAAGCTCATAAAGAGCCAATTTAACGGGAAGTTCATAAAGAAC
1 CGGGAAGCTCAT-AAGAGCCAA--TATCAGGAAGTTCA-AAAGAAC
19655408 CTTAAATCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
47 20 0.27
48 35 0.47
49 3 0.04
50 12 0.16
51 5 0.07
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (47 bp):
CGGGAAGCTCATAAGAGCCAATATCAGGAAGTTCAAAAGAACAATAT
Found at i:19655338 original size:24 final size:23
Alignment explanation
Indices: 19655311--19655372 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 23
19655301 ACAAAGAACT
* * *
19655311 ATATTGGGAAGCTCTAGATAGCCA
1 ATATCGGGAAGCTCAAGAGAG-CA
* *
19655335 ATATCAGGAAGTTCAAGAGAGCA
1 ATATCGGGAAGCTCAAGAGAGCA
19655358 ATATCGGGAAGCTCA
1 ATATCGGGAAGCTCA
19655373 TAAAGAGCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (23 bp):
ATATCGGGAAGCTCAAGAGAGCA
Found at i:19656449 original size:25 final size:25
Alignment explanation
Indices: 19656419--19656468 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
19656409 AATTTAGTCT
*
19656419 TTAGTCTTTTTTAATTTTTCCATGG
1 TTAGTCTTTTCTAATTTTTCCATGG
19656444 TTAGTCTTTTCTAATTTTTCCATGG
1 TTAGTCTTTTCTAATTTTTCCATGG
19656469 ATGAATCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (25 bp):
TTAGTCTTTTCTAATTTTTCCATGG
Found at i:19667748 original size:68 final size:68
Alignment explanation
Indices: 19667638--19667940 Score: 295
Period size: 68 Copynumber: 4.5 Consensus size: 68
19667628 GAATTTTTTT
* * * * * *
19667638 TTGTCATAACTGACCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCATTGTAGACTCTAT
1 TTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACCCAATGTTTAATGTCCTAGTAGACTCTAT
19667703 TGG
66 TGG
*
19667706 TTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACCTC-ATGTTTAATTTCCTAGTAGACTCTA
1 TTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACC-CAATGTTTAATGTCCTAGTAGACTCTA
19667770 TTGG
65 TTGG
** * * * * * * * * * *
19667774 TTGTTGTAGTCGAGCTCTAGTCTTACACTTTGTAACCCAATATGTAAGGTCCTTGTGGATTCTAT
1 TTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACCCAATGTTTAATGTCCTAGTAGACTCTAT
19667839 TGG
66 TGG
* * * * * * ** *
19667842 TTGTCATAGCCTAACTATGGCCTTTCACCTT-TAAACCCTATGTTTAATATCCTAGCGGACTCGA
1 TTGTCATAGCCGAGCTATGGTCTTACACCTTGT-AACCCAATGTTTAATGTCCTAGTAGACTCTA
19667906 TTGG
65 TTGG
** *
19667910 TTACCATAACCGAGCTATGGTCTTACACCTT
1 TTGTCATAGCCGAGCTATGGTCTTACACCTT
19667941 ATACCTCTTT
Statistics
Matches: 187, Mismatches: 45, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
67 2 0.01
68 184 0.98
69 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (68 bp):
TTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACCCAATGTTTAATGTCCTAGTAGACTCTAT
TGG
Found at i:19667903 original size:136 final size:136
Alignment explanation
Indices: 19667657--19667911 Score: 334
Period size: 136 Copynumber: 1.9 Consensus size: 136
19667647 CTGACCTATG
* * * * *
19667657 GTCTTACACCTTGTAACCCCATGTTTAATGTCATTGTAGACTCTATTGGTTGTCATAGCCGAGCT
1 GTCTTACACCTTGTAACCCAATATGTAAGGTCATTGTAGACTCTATTGGTTGTCATAGCCGAACT
* * * *
19667722 ATGGTCTTACACCTTGTAACCTCATGTTTAATTTCCTAGTAGACTCTATTGGTTGTTGTAGTCGA
66 ATGGCCTTACACCTTGTAACCTCATGTTTAATATCCTAGCAGACTCGATTGGTTGTTGTAGTCGA
19667787 GCTCTA
131 GCTCTA
* * * * *
19667793 GTCTTACACTTTGTAACCCAATATGTAAGGTCCTTGTGGATTCTATTGGTTGTCATAGCCTAACT
1 GTCTTACACCTTGTAACCCAATATGTAAGGTCATTGTAGACTCTATTGGTTGTCATAGCCGAACT
* *
19667858 ATGGCCTTTCACCTT-TAAACC-CTATGTTTAATATCCTAGCGGACTCGATTGGTT
66 ATGGCCTTACACCTTGT-AACCTC-ATGTTTAATATCCTAGCAGACTCGATTGGTT
19667912 ACCATAACCG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
135 2 0.02
136 99 0.98
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (136 bp):
GTCTTACACCTTGTAACCCAATATGTAAGGTCATTGTAGACTCTATTGGTTGTCATAGCCGAACT
ATGGCCTTACACCTTGTAACCTCATGTTTAATATCCTAGCAGACTCGATTGGTTGTTGTAGTCGA
GCTCTA
Found at i:19673605 original size:17 final size:17
Alignment explanation
Indices: 19673583--19673619 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19673573 ACTTAGAAGG
19673583 ATTATTTGTCGTCTACA
1 ATTATTTGTCGTCTACA
*
19673600 ATTATTTGTCGTCTATA
1 ATTATTTGTCGTCTACA
19673617 ATT
1 ATT
19673620 CCAATTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATTTGTCGTCTACA
Found at i:19674715 original size:20 final size:20
Alignment explanation
Indices: 19674672--19674718 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
19674662 CTTGAGATCG
* *
19674672 AAAATTGAGCTCAACAACTC
1 AAAATTGAGATCAACAACTA
* *
19674692 AAAATTGAGATCAAGACCTA
1 AAAATTGAGATCAACAACTA
19674712 AAAATTG
1 AAAATTG
19674719 GTTGAACCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (20 bp):
AAAATTGAGATCAACAACTA
Found at i:19683586 original size:46 final size:46
Alignment explanation
Indices: 19683536--19683708 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
19683526 TGGTTGAGCA
19683536 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19683582 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19683627 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19683675 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19683709 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19683692 original size:93 final size:93
Alignment explanation
Indices: 19683533--19683703 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19683523 GGATGGTTGA
* *
19683533 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19683598 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19683626 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19683691 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19683704 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19692258 original size:41 final size:41
Alignment explanation
Indices: 19692203--19692523 Score: 463
Period size: 41 Copynumber: 7.8 Consensus size: 41
19692193 GAATGTAATA
* *
19692203 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
19692244 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
19692285 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
19692326 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
19692367 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
19692408 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
19692449 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
19692490 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
19692524 ATCTGTTTAA
Statistics
Matches: 263, Mismatches: 10, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.03
41 250 0.95
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:19699963 original size:41 final size:41
Alignment explanation
Indices: 19699908--19700187 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
19699898 GAATGTAATA
* *
19699908 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
19699949 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
19699990 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
19700031 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
19700072 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
19700113 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
19700154 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
19700188 ATCTGTTTAA
Statistics
Matches: 222, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 209 0.94
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:19701563 original size:28 final size:28
Alignment explanation
Indices: 19701523--19701596 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
19701513 GTTCAAATTG
* *
19701523 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
19701551 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
19701579 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
19701597 GGCTTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:19708225 original size:11 final size:11
Alignment explanation
Indices: 19708211--19708255 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
19708201 AGATTAATAT
19708211 TATTTTATTAA
1 TATTTTATTAA
*
19708222 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
19708235 TATTTTATTAT
1 TATTTTATTAA
19708246 TATTTTATTA
1 TATTTTATTA
19708256 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19710420 original size:46 final size:45
Alignment explanation
Indices: 19710352--19710688 Score: 320
Period size: 46 Copynumber: 7.6 Consensus size: 45
19710342 TGCTTTCTGA
**
19710352 AATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** * * *
19710397 ATATGAAATGTGTAAGACCATGGTTGTAAGATACCATGGAAACGTG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
19710443 ACATGAAAAGAATAAGACCATGGTTGAAAGATATCATGGTAACATG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
*
19710489 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** * * * *
19710535 ACGGGAATGAATAAGACAATTGTTGAAAGATGCCATGGCAAC---
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
19710577 --------GCACAAGACCATGGTTGAAAGATACCTTGGCAACATG
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
**
19710614 ACGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 AATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
19710660 -ATAGAAAATGAGTAAGACCATAGTTGAAA
1 AAT-G-AAATGAATAAGACCATGGTTGAAA
19710689 AACACTATGG
Statistics
Matches: 245, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
34 28 0.11
45 35 0.14
46 182 0.74
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (45 bp):
AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:19710516 original size:21 final size:21
Alignment explanation
Indices: 19710446--19710517 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
19710436 AAACGTGACA
19710446 TGAAAAGAATAAGACCATGGT
1 TGAAAAGAATAAGACCATGGT
* * **
19710467 TG-AAAGATATCATGGTAACATGACA
1 TGAAAAGA-AT-A-AG-ACCATG-GT
19710492 TGAAAAGAATAAGACCATGGT
1 TGAAAAGAATAAGACCATGGT
19710513 TGAAA
1 TGAAA
19710518 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 5 0.14
21 9 0.24
22 6 0.16
23 2 0.05
24 6 0.16
25 4 0.11
26 5 0.14
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (21 bp):
TGAAAAGAATAAGACCATGGT
Found at i:19710699 original size:46 final size:46
Alignment explanation
Indices: 19710581--19710723 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 46
19710571 GGCAACGCAC
*
19710581 AAGACCATGGTTGAAAGATAC-CT-TGGCAACATGACGGAAAATGAAT
1 AAGACCATGGTTGAAA-A-ACACTATGGCAACATGACAGAAAATGAAT
* * * * *
19710627 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGT
1 AAGACCATGGTTGAAAAACACTATGGCAACATGACAGAAAATGAAT
* * * * *
19710673 AAGACCATAGTTGAAAAACACTATGGCATCATGTC-GAAGATAAAT
1 AAGACCATGGTTGAAAAACACTATGGCAACATGACAGAAAATGAAT
19710718 AAGACC
1 AAGACC
19710724 GTGGATGGGA
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 14 0.18
46 64 0.81
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (46 bp):
AAGACCATGGTTGAAAAACACTATGGCAACATGACAGAAAATGAAT
Found at i:19710721 original size:171 final size:171
Alignment explanation
Indices: 19710410--19710722 Score: 425
Period size: 171 Copynumber: 1.8 Consensus size: 171
19710400 TGAAATGTGT
* * *
19710410 AAGACCATGGTTGTAAGATACCATGGAAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGAAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGAT
* * * * * *
19710475 ATCATGGTAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 ACCATGGCAACATGACATGAAAAGAATAAGACCATAGTTGAAAAACACCATGGCAACATGACGAG
*
19710540 AATGAATAAGACAATTGTTGAAAGATGCCATGGCAACGCAC
131 AATAAATAAGACAATTGTTGAAAGATGCCATGGCAACGCAC
* *
19710581 AAGACCATGGTTGAAAGATACCTTGGCAACATGAC-GGAAAATGAATAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGAAACATGACAGGAAAA-GAATAAGACCATGGTTGAAAGA
* * * * *
19710645 TACCATGGCAACATGATA-GAAAATGAGTAAGACCATAGTTGAAAAACACTATGGCATCATGTCG
65 TACCATGGCAACATGACATGAAAA-GAATAAGACCATAGTTGAAAAACACCATGGCAACATGACG
19710709 A-AGATAAATAAGAC
129 AGA-ATAAATAAGAC
19710723 CGTGGATGGG
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
170 11 0.09
171 111 0.91
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (171 bp):
AAGACCATGGTTGAAAGATACCATGGAAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAAAGAATAAGACCATAGTTGAAAAACACCATGGCAACATGACGAG
AATAAATAAGACAATTGTTGAAAGATGCCATGGCAACGCAC
Found at i:19713134 original size:57 final size:57
Alignment explanation
Indices: 19713067--19713230 Score: 177
Period size: 57 Copynumber: 2.9 Consensus size: 57
19713057 AAAGGCGTTG
* * **
19713067 TTTAAGAGGTTCACCACT-AAGGCTTACCTTTCTAGAGTTTTGCCATGAAGGCAATCC
1 TTTAACAGGTTCACCA-TAAAGACTTACCTTTCTAGAGTTTTGCCACAAAGGCAATCC
** * ***
19713124 TTTAACAGGTTCGTCATAAAGACTTACCTTTCTAGAGTTCTGCCACAAAGGTTGTCC
1 TTTAACAGGTTCACCATAAAGACTTACCTTTCTAGAGTTTTGCCACAAAGGCAATCC
* * * * *
19713181 TTTAATACGTTTACCATAAAAACTTACCTTTCTAGAGTTTTGCCTCAAAG
1 TTTAACAGGTTCACCATAAAGACTTACCTTTCTAGAGTTTTGCCACAAAG
19713231 AAGTCCTTAA
Statistics
Matches: 88, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
56 1 0.01
57 87 0.99
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (57 bp):
TTTAACAGGTTCACCATAAAGACTTACCTTTCTAGAGTTTTGCCACAAAGGCAATCC
Found at i:19713444 original size:53 final size:53
Alignment explanation
Indices: 19713381--19713483 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
19713371 TCATTAAATA
* * * *
19713381 TTTCCATATGATGTCATAACCTACCAATTACGGTCTAACACTATATGGTCTTT
1 TTTCCATATGATGCCATAACCCACCAATTACAGTCTAACACGATATGGTCTTT
* * *
19713434 TTTCCATATGATGCCATAACCCACCAGTTACAGTTTTACACGATATGGTC
1 TTTCCATATGATGCCATAACCCACCAATTACAGTCTAACACGATATGGTC
19713484 CTTCAGTGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (53 bp):
TTTCCATATGATGCCATAACCCACCAATTACAGTCTAACACGATATGGTCTTT
Found at i:19715309 original size:46 final size:46
Alignment explanation
Indices: 19715244--19715931 Score: 892
Period size: 46 Copynumber: 15.0 Consensus size: 46
19715234 TTATCTTTGA
* * * * * *
19715244 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *** *
19715290 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** * *
19715336 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCGT-T
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT-TCATAT
*
19715382 -ATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19715427 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19715473 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
19715519 CCTGTTTTCCATAGTATCTTTCAACCATGTTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19715566 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTC-T---TA---CACATTTCATAT
*
19715619 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19715665 CATGTTGCCATGGTATCTTTCAGCCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19715711 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19715757 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19715803 CATGTTGTCATGG------T-GACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19715842 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
19715888 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
19715932 TTCAGAAAGC
Statistics
Matches: 577, Mismatches: 46, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
39 35 0.06
40 1 0.00
44 2 0.00
45 40 0.07
46 406 0.70
47 45 0.08
49 2 0.00
50 2 0.00
52 1 0.00
53 43 0.07
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:19715759 original size:284 final size:278
Alignment explanation
Indices: 19715251--19715932 Score: 928
Period size: 284 Copynumber: 2.5 Consensus size: 278
19715241 TGACATGATG
* * * * *
19715251 CCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAACC
1 CCATAGT-TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTGTCTTTCAACC
* * * ** **
19715315 ATGGTC-TT-GTT--CATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
64 ATGGTCTTTATTTCACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
* * * *
19715376 CCCGTTATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCATGTTTCCATGGT
129 -TCATTATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGT
* *
19715441 ATCTTTCAACCATGGTCTTACACATTTTATATCATGTTTCCATGGTATCTTTCAACCATGGTCTT
193 ATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* *
19715506 ACACATTTTATATCCTGTTTT
258 ACACATTTTATATCATGTTGT
*
19715527 CCATAGTATCTTTCAACCATGTTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCA
1 CCATAGT-TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCA
*
19715592 TGGTCTTACATATTTCACATTTCATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA
65 TGGTCTT---TATTTCACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* * *
19715657 TTTCATATCATGTTGCCATGGTATCTTTCAGCCATGGTCTTACACATTTTATATCCTGTTGCCAT
127 TTTCAT-T-ATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAT
19715722 GGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGT
190 GGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGT
19715787 CTTACACATTTTATATCATGTTGT
255 CTTACACATTTTATATCATGTTGT
* *
19715811 -CAT-G----GT-GACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCAT
1 CCATAGTTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCAT
19715869 GGTC-TTA---CACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
66 GGTCTTTATTTCACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
19715930 ATT
131 ATT
19715933 TCAGAAAGCA
Statistics
Matches: 366, Mismatches: 30, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
268 1 0.00
269 55 0.15
272 2 0.01
275 5 0.01
276 112 0.31
277 2 0.01
280 1 0.00
281 2 0.01
282 3 0.01
283 47 0.13
284 136 0.37
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (278 bp):
CCATAGTTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCAT
GGTCTTTATTTCACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
ATTATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTTATATCATGTTGT
Found at i:19715876 original size:85 final size:85
Alignment explanation
Indices: 19715733--19715901 Score: 311
Period size: 85 Copynumber: 2.0 Consensus size: 85
19715723 GTATCTTTCA
19715733 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
* *
19715798 TATATCATGTTGTCATGGTG
66 CATATCATGTTGCCATGGTG
*
19715818 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
19715883 CATATCATGTTGCCATGGT
66 CATATCATGTTGCCATGGT
19715902 ATCTTTCAAC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (85 bp):
ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
CATATCATGTTGCCATGGTG
Found at i:19721516 original size:30 final size:29
Alignment explanation
Indices: 19721475--19721533 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
19721465 ATATTTGTAT
*
19721475 TATATTTAAATTACATAATATATATTAAAAC
1 TATATTTAAATTAAATAA-ATA-ATTAAAAC
19721506 TATA-TTAAATTAAATAAATAATTAAAAC
1 TATATTTAAATTAAATAAATAATTAAAAC
19721534 AATTATTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.30
29 3 0.11
30 12 0.44
31 4 0.15
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (29 bp):
TATATTTAAATTAAATAAATAATTAAAAC
Found at i:19721546 original size:29 final size:30
Alignment explanation
Indices: 19721480--19721548 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
19721470 TGTATTATAT
* *
19721480 TTAAATTACATAATATATATTAAAACTATA
1 TTAAATTAAATAATATATATTAAAACAATA
19721510 TTAAATTAAATAA-ATA-ATTAAAACAATTA
1 TTAAATTAAATAATATATATTAAAACAA-TA
*
19721539 TTACATTAAA
1 TTAAATTAAA
19721549 ATAACAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 9 0.26
29 14 0.40
30 12 0.34
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (30 bp):
TTAAATTAAATAATATATATTAAAACAATA
Found at i:19723782 original size:55 final size:55
Alignment explanation
Indices: 19723717--19723821 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
19723707 TATAGATTGC
* * ** *
19723717 AAATTAATTATTTATGATTACTATTTAAATTAAAAGTGATGATTTATCATTTTGT
1 AAATTAATTATTCATAACCACTATTCAAATTAAAAGTGATGATTTATCATTTTGT
19723772 AAATTAATTATTCATAACCACTATTCAAATTAAAAGTGATGATTTATCAT
1 AAATTAATTATTCATAACCACTATTCAAATTAAAAGTGATGATTTATCAT
19723822 CCAATGGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (55 bp):
AAATTAATTATTCATAACCACTATTCAAATTAAAAGTGATGATTTATCATTTTGT
Found at i:19726396 original size:27 final size:27
Alignment explanation
Indices: 19726366--19726543 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
19726356 ATATTGAGCC
* * *
19726366 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
19726393 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
19726420 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
19726448 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
19726475 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
19726502 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
19726529 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19726544 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:19726459 original size:55 final size:55
Alignment explanation
Indices: 19726366--19726543 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
19726356 ATATTGAGCC
* * *
19726366 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
19726420 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
19726475 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
19726529 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19726544 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:19726505 original size:82 final size:81
Alignment explanation
Indices: 19726387--19726542 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
19726377 TGCTATACAA
* * *
19726387 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
19726452 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
19726469 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
19726533 CACTTAGTGC
65 CACTTAGTGC
19726543 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19734501 original size:27 final size:27
Alignment explanation
Indices: 19734471--19734648 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
19734461 ATATTGAGCC
* * *
19734471 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
19734498 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
19734525 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
19734553 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
19734580 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
19734607 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
19734634 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19734649 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:19734564 original size:55 final size:55
Alignment explanation
Indices: 19734471--19734648 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
19734461 ATATTGAGCC
* * *
19734471 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
19734525 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
19734580 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
19734634 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19734649 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:19734610 original size:82 final size:81
Alignment explanation
Indices: 19734492--19734647 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
19734482 TGCTATACAA
* * *
19734492 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
19734557 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
19734574 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
19734638 CACTTAGTGC
65 CACTTAGTGC
19734648 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19737630 original size:38 final size:39
Alignment explanation
Indices: 19737582--19737678 Score: 124
Period size: 38 Copynumber: 2.5 Consensus size: 39
19737572 TAAATTAGTT
* *
19737582 TGAGTCTTAATTATGTCATAATATGAGCATCATTAAT-A
1 TGAGTTTTAATTATGTCATAATATGAACATCATTAATAA
* *
19737620 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATAA
1 TGAGTTTTAATTATGTCATAATATGAACATCATTAATAA
* *
19737659 GGTATTTTTAATTATGTCAT
1 TG-AGTTTTAATTATGTCAT
19737679 GGTTTATGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 33 0.65
39 2 0.04
40 16 0.31
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (39 bp):
TGAGTTTTAATTATGTCATAATATGAACATCATTAATAA
Found at i:19737722 original size:25 final size:25
Alignment explanation
Indices: 19737664--19737722 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
19737654 AATAAGGTAT
*
19737664 TTTTAATTATGTCATGGTTTATGACA
1 TTTTAA-TATGTCATAGTTTATGACA
* *
19737690 TTTAAATATGTCCTAGTTTA-GACA
1 TTTTAATATGTCATAGTTTATGACA
19737714 TCTTTAATA
1 T-TTTAATA
19737723 CATGTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 5 0.18
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (25 bp):
TTTTAATATGTCATAGTTTATGACA
Found at i:19740028 original size:36 final size:36
Alignment explanation
Indices: 19739981--19740054 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
19739971 GGCTCCACAT
19739981 GGATAAAATCAATGGTACATGGTAATTACTAGATTA
1 GGATAAAATCAATGGTACATGGTAATTACTAGATTA
*
19740017 GGATAAAATCAATGGTACGTGGTAATTACTAGATTA
1 GGATAAAATCAATGGTACATGGTAATTACTAGATTA
19740053 GG
1 GG
19740055 CTATTTAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (36 bp):
GGATAAAATCAATGGTACATGGTAATTACTAGATTA
Found at i:19740572 original size:20 final size:20
Alignment explanation
Indices: 19740549--19740651 Score: 134
Period size: 20 Copynumber: 5.2 Consensus size: 20
19740539 ATATTTACGA
* *
19740549 CTTTGTTCCGCTATTGATGG
1 CTTTGTGCCACTATTGATGG
* *
19740569 CTTTGTACCATTATTGATGG
1 CTTTGTGCCACTATTGATGG
*
19740589 CTTTGTGCCACTAGTGATGG
1 CTTTGTGCCACTATTGATGG
19740609 CTTTGTGCCACTATTGATGG
1 CTTTGTGCCACTATTGATGG
* * *
19740629 CTTTGTGCCGCTACTGATAG
1 CTTTGTGCCACTATTGATGG
19740649 CTT
1 CTT
19740652 CAAGCCGCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
CTTTGTGCCACTATTGATGG
Found at i:19742426 original size:18 final size:20
Alignment explanation
Indices: 19742387--19742432 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
19742377 TAAGGGCGAG
*
19742387 AATAAAAATAAACAAGCCAA
1 AATAAAAATAAACAAGCAAA
19742407 AATAAAAA-AAA-AAGCAAA
1 AATAAAAATAAACAAGCAAA
19742425 AACTAAAA
1 AA-TAAAA
19742433 GTTTGAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.76, C:0.11, G:0.04, T:0.09
Consensus pattern (20 bp):
AATAAAAATAAACAAGCAAA
Found at i:19742530 original size:21 final size:20
Alignment explanation
Indices: 19742505--19742544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
19742495 TTAAAAAATA
*
19742505 ATATTAATAATAATGATAATG
1 ATATTAAAAATAAT-ATAATG
19742526 ATATTAAAAATAATATAAT
1 ATATTAAAAATAATATAAT
19742545 AAAAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATTAAAAATAATATAATG
Found at i:19745928 original size:27 final size:28
Alignment explanation
Indices: 19745844--19745939 Score: 124
Period size: 27 Copynumber: 3.4 Consensus size: 28
19745834 CATGAGATTG
* * *
19745844 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
19745873 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19745901 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19745928 GCACTGAGTGTG
1 GCACTAAGTGTG
19745940 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.35
28 21 0.34
29 19 0.31
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19745954 original size:29 final size:27
Alignment explanation
Indices: 19745872--19745956 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
19745862 TAAATTGTTC
* *
19745872 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
19745900 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
* *
19745927 AGCACTGAGTGTGTGGACTTAATATATAT
1 AGCACTAAGTGTG-CGACTTAAT-TATAT
19745956 A
1 A
19745957 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:19753908 original size:27 final size:28
Alignment explanation
Indices: 19753824--19753921 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
19753814 CATGAGATTG
* * *
19753824 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
19753853 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19753881 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19753908 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19753922 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19753935 original size:29 final size:27
Alignment explanation
Indices: 19753852--19753936 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
19753842 TAAATTGTTC
* *
19753852 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
19753880 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
19753907 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
19753936 A
1 A
19753937 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:19756156 original size:38 final size:40
Alignment explanation
Indices: 19756105--19756201 Score: 126
Period size: 38 Copynumber: 2.5 Consensus size: 40
19756095 TAGATTAGCT
* * *
19756105 TGAGTCTTAATTATGTCATAATTTGAGCATCATTAAT-A-
1 TGAGTTTTAATTATGTCATAATCTGAACATCATTAATAAG
*
19756143 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATAAG
1 TGAGTTTTAATTATGTCATAATCTGAACATCATTAATAAG
* *
19756183 GGATTTTTAATTATGTCAT
1 TGAGTTTTAATTATGTCAT
19756202 GGTTTATGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 33 0.65
39 1 0.02
40 17 0.33
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (40 bp):
TGAGTTTTAATTATGTCATAATCTGAACATCATTAATAAG
Found at i:19756245 original size:25 final size:25
Alignment explanation
Indices: 19756187--19756245 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
19756177 AATAAGGGAT
*
19756187 TTTTAATTATGTCATGGTTTATGACA
1 TTTTAA-TATGTCATAGTTTATGACA
* *
19756213 TTTAAATATGTCCTAGTTTA-GACA
1 TTTTAATATGTCATAGTTTATGACA
19756237 TCTTTAATA
1 T-TTTAATA
19756246 CATGTCTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 5 0.18
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (25 bp):
TTTTAATATGTCATAGTTTATGACA
Found at i:19759371 original size:21 final size:21
Alignment explanation
Indices: 19759322--19759389 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
19759312 GCCCGTGTGG
19759322 AGGCCGTGTGG-CGA-GACA-T
1 AGGCCGTGTGGTCGACGA-AGT
*
19759341 -GGCTGTGTGGTCGACGAAGT
1 AGGCCGTGTGGTCGACGAAGT
*
19759361 AGGCCGTGTGGTCGACAAAGT
1 AGGCCGTGTGGTCGACGAAGT
19759382 AGGCCGTG
1 AGGCCGTG
19759390 CGCGTGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.21
19 4 0.10
20 3 0.07
21 26 0.62
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.19
Consensus pattern (21 bp):
AGGCCGTGTGGTCGACGAAGT
Found at i:19760006 original size:40 final size:40
Alignment explanation
Indices: 19759944--19760020 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
19759934 ACGGTACCAT
* * *
19759944 TTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATGC
1 TTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCATGC
*
19759984 TTGGTGTGTAAGGCTGGGTGGGTCGATTTTATCCCCA
1 TTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCA
19760021 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.14, G:0.35, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCATGC
Found at i:19765041 original size:68 final size:67
Alignment explanation
Indices: 19764969--19765118 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
19764959 CATCATGTGT
* * * *
19764969 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19765031 ATGTAG
62 ATGTAG
** * *
19765037 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19765102 AG
66 AG
19765104 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
19765119 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19765074 original size:64 final size:64
Alignment explanation
Indices: 19764993--19765176 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
19764983 AGACATTATG
* *
19764993 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19765057 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19765122 AA
63 AA
* * * *
19765124 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19765177 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19770821 original size:40 final size:40
Alignment explanation
Indices: 19770743--19770823 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
19770733 ATACTGTACC
* ** *
19770743 ACTTGGTGTGTAGGGTTGGATGGGTTGATTCTATCCTCAT
1 ACTTGGTGTGTAGGGTAGGATGGGTCAATTCTACCCTCAT
*
19770783 ACTTGGTGTGTAGGGCTAGG-TGGGTCAATTTTACCCTCAT
1 ACTTGGTGTGTAGGG-TAGGATGGGTCAATTCTACCCTCAT
19770823 A
1 A
19770824 TAGTGCGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGTAGGATGGGTCAATTCTACCCTCAT
Found at i:19772877 original size:14 final size:14
Alignment explanation
Indices: 19772858--19772884 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19772848 CAAAATTGAT
19772858 AAAATTTTCTTATC
1 AAAATTTTCTTATC
19772872 AAAATTTTCTTAT
1 AAAATTTTCTTAT
19772885 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:19776660 original size:24 final size:24
Alignment explanation
Indices: 19776606--19776660 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
19776596 AACCTCATAC
* *
19776606 GAGCCAATAATGGGTAGCTCCAAA
1 GAGCCATTAATGGGAAGCTCCAAA
* *
19776630 GATCCATTAATGGGAAGCTCCAGA
1 GAGCCATTAATGGGAAGCTCCAAA
*
19776654 TAGCCAT
1 GAGCCAT
19776661 ATATCAAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
GAGCCATTAATGGGAAGCTCCAAA
Found at i:19779506 original size:55 final size:55
Alignment explanation
Indices: 19779440--19779549 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
19779430 AAATTATAGA
19779440 TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
*
19779495 TTGCAAATTAATTATTTATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
19779550 CAATGGATGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
Found at i:19779531 original size:26 final size:26
Alignment explanation
Indices: 19779443--19779531 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
19779433 TTATAGATTG
*
19779443 CAAATTAATTATTCATAAGCACTATT
1 CAAATTAATTATTTATAAGCACTATT
*
19779469 CAAATTAAAAGTGATGATTTAT---CATCT-TG
1 CAAATT--AA-T--T-ATTTATAAGCA-CTATT
19779498 CAAATTAATTATTTATAAGCACTATT
1 CAAATTAATTATTTATAAGCACTATT
19779524 CAAATTAA
1 CAAATTAA
19779532 AAGTGATGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
23 6 0.12
24 1 0.02
25 2 0.04
26 18 0.37
27 2 0.04
28 2 0.04
29 10 0.20
30 2 0.04
31 1 0.02
32 5 0.10
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (26 bp):
CAAATTAATTATTTATAAGCACTATT
Found at i:19780214 original size:13 final size:13
Alignment explanation
Indices: 19780196--19780233 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19780186 TATTCGAAAC
19780196 AATAATTAATTAA
1 AATAATTAATTAA
**
19780209 AATAATTAATTCT
1 AATAATTAATTAA
19780222 AAT-ATTAATTAA
1 AATAATTAATTAA
19780234 GTGATAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
AATAATTAATTAA
Found at i:19781228 original size:44 final size:44
Alignment explanation
Indices: 19781174--19781259 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
19781164 TATAATTTAG
* *
19781174 ATTATAATTATTTTTAAATGTGTAATTATCACAACTTCTATTAA
1 ATTACAATTATTTTTAAATGTATAATTATCACAACTTCTATTAA
*
19781218 ATTACAATTATTTTTAAATGTATAATTATCACAACTTTTATT
1 ATTACAATTATTTTTAAATGTATAATTATCACAACTTCTATT
19781260 TTTATTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (44 bp):
ATTACAATTATTTTTAAATGTATAATTATCACAACTTCTATTAA
Found at i:19788054 original size:21 final size:20
Alignment explanation
Indices: 19788030--19788069 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19788020 ATGTTCAAGT
*
19788030 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCATG-TGCCCA
*
19788051 TCCACATGGGCATGTGCCC
1 TCCACACGGGCATGTGCCC
19788070 TGTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.20
Consensus pattern (20 bp):
TCCACACGGGCATGTGCCCA
Found at i:19794396 original size:47 final size:47
Alignment explanation
Indices: 19794326--19794702 Score: 219
Period size: 47 Copynumber: 8.0 Consensus size: 47
19794316 TGGCCACATT
* * *
19794326 ATGAAAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT-AG
* * * *
19794374 ATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TAG
* * *
19794420 ATGTA-AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC--T--
1 ATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAG
* * *
19794461 ATGAGATGTCTCAGTGTAAGACTATGT-TTGGACATGGCATCGGCACGTATAG
1 ATGAGA-G-CT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAT-TAG
* * * * *
19794513 A-G-GTG-TCAGTGTAAGACCATTTCTAGGACATGGAATCGGCACAAATATG
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-ATTA-G
* * * *
19794562 -TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCCAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TAG
* * * *
19794609 TTCGATAGTTAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TT-G
1 AT-GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAG
** *
19794655 ATGAATGAGCTAGTGTAAGACCACATCTGGGACATGGCATCGGCATTA
1 ATG-A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTA
19794703 TACCCTATGT
Statistics
Matches: 258, Mismatches: 43, Indels: 55
0.72 0.12 0.15
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 1 0.00
43 1 0.00
44 16 0.06
45 10 0.04
46 48 0.19
47 62 0.24
48 41 0.16
49 40 0.16
50 31 0.12
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAG
Found at i:19794435 original size:46 final size:45
Alignment explanation
Indices: 19794289--19794459 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
19794279 TTTGTGTGCT
* * * * *
19794289 AGTGTAAGACATGTATGGGACATGTATTGGCCAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-AATG-AAGCC
* * * * * *
19794335 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAAATGA-AGCC
19794383 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATG-AAGCC
*
19794429 AGTGTAAGACATGTTTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
19794460 TATGAGATGT
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 55 0.53
47 27 0.26
48 20 0.19
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATGAAGCC
Found at i:19795839 original size:21 final size:20
Alignment explanation
Indices: 19795815--19795854 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
19795805 GTGTTCAAGT
19795815 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
*
19795836 TCCACACGGGTGTGTGCCC
1 TCCACACGGGCGTGTGCCC
19795855 TGTTTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:19802860 original size:16 final size:15
Alignment explanation
Indices: 19802830--19802864 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
19802820 GCATCAATTC
19802830 AATA-TTTATTAACA
1 AATATTTTATTAACA
19802844 AATATTTTATGTAACA
1 AATATTTTAT-TAACA
19802860 AATAT
1 AATAT
19802865 CAGAAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (15 bp):
AATATTTTATTAACA
Found at i:19815641 original size:19 final size:19
Alignment explanation
Indices: 19815591--19815659 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
19815581 ATATTGGAGT
*
19815591 ACGAAGTGAATCCTGGCAC
1 ACGAAGTGTATCCTGGCAC
** ***
19815610 ATAAAGCACATCCTGGCAC
1 ACGAAGTGTATCCTGGCAC
*
19815629 ACGAAGTGTATCCTAGCAC
1 ACGAAGTGTATCCTGGCAC
19815648 AC-AGAGTGTATC
1 ACGA-AGTGTATC
19815660 TTACCACACA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
18 1 0.03
19 37 0.97
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (19 bp):
ACGAAGTGTATCCTGGCAC
Found at i:19815667 original size:19 final size:19
Alignment explanation
Indices: 19815633--19815669 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19815623 TGGCACACGA
*
19815633 AGTGTATCCTAGCACACAG
1 AGTGTATCCTACCACACAG
*
19815652 AGTGTATCTTACCACACA
1 AGTGTATCCTACCACACA
19815670 ATATGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AGTGTATCCTACCACACAG
Found at i:19817773 original size:22 final size:21
Alignment explanation
Indices: 19817759--19817806 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
19817749 ATTTATATGT
19817759 TTTATAATT-ATAATTTATAA
1 TTTATAATTGATAATTTATAA
19817779 TTTATAATTGATAATATTATAA
1 TTTATAATTGATAAT-TTATAA
19817801 TTTATA
1 TTTATA
19817807 TCAACGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 9 0.35
21 5 0.19
22 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTATAATTGATAATTTATAA
Found at i:19817778 original size:7 final size:7
Alignment explanation
Indices: 19817759--19817806 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
19817749 ATTTATATGT
19817759 TTTATAA
1 TTTATAA
19817766 -TTATAA
1 TTTATAA
19817772 TTTATAA
1 TTTATAA
19817779 TTTATAA
1 TTTATAA
*
19817786 TTGATAA
1 TTTATAA
19817793 TATTATAA
1 T-TTATAA
19817801 TTTATA
1 TTTATA
19817807 TCAACGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 25 0.68
8 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (7 bp):
TTTATAA
Found at i:19827318 original size:24 final size:24
Alignment explanation
Indices: 19827288--19827353 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
19827278 TAGACTTACT
19827288 GGCGATCATTGTTTGCTATCCACTA
1 GGCGATCATTGTTTGCTATCCAC-A
* *
19827313 -GCGATCATTGCTCGCTATCCACA
1 GGCGATCATTGTTTGCTATCCACA
*
19827336 GGCGATCATAGTTTGCTA
1 GGCGATCATTGTTTGCTA
19827354 AATCCATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (24 bp):
GGCGATCATTGTTTGCTATCCACA
Found at i:19830346 original size:47 final size:47
Alignment explanation
Indices: 19830218--19830733 Score: 844
Period size: 47 Copynumber: 11.1 Consensus size: 47
19830208 GAAATGATAG
19830218 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19830265 TAAGGCCTAAT-G--GATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19830309 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19830356 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19830403 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19830450 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19830496 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19830543 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19830590 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19830637 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
19830683 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19830730 TAAG
1 TAAG
19830734 TCCCGAAGGG
Statistics
Matches: 443, Mismatches: 21, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
44 42 0.09
45 1 0.00
46 87 0.20
47 313 0.71
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19830549 original size:187 final size:186
Alignment explanation
Indices: 19830218--19830733 Score: 831
Period size: 187 Copynumber: 2.8 Consensus size: 186
19830208 GAAATGATAG
19830218 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG--GATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
*
19830281 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATAT-AGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
19830346 ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
130 ATATATGTGATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
*
19830403 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
*
19830468 GTGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
65 GTGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
19830533 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
130 ATATATGTGATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
19830590 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
* * * * * * *
19830655 GTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
65 GTGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19830719 CATAAATGTGATAAG
129 TATATATGTGATAAG
19830734 TCCCGAAGGG
Statistics
Matches: 308, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
185 57 0.19
186 21 0.07
187 204 0.66
188 26 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (186 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
TGATGAATGTGAAAGTGTATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATGTGATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
Found at i:19830571 original size:140 final size:141
Alignment explanation
Indices: 19830218--19830733 Score: 844
Period size: 140 Copynumber: 3.7 Consensus size: 141
19830208 GAAATGATAG
19830218 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-G--GAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19830280 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
19830345 TATATATGTGA
131 TATATATGTGA
* *
19830356 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
19830421 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
19830486 TATATA-GTGA
131 TATATATGTGA
* *
19830496 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19830561 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
19830626 TATATATGTGA
131 TATATATGTGA
* * * * * *
19830637 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
19830701 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
19830734 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
138 56 0.16
139 1 0.00
140 198 0.56
141 97 0.28
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:19830907 original size:36 final size:36
Alignment explanation
Indices: 19830852--19830929 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
19830842 CCGAGCTCTA
* * *
19830852 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19830889 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
19830925 AAGAC
1 AAGAC
19830930 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19832863 original size:43 final size:42
Alignment explanation
Indices: 19832803--19832888 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 42
19832793 GAGATTGGCA
19832803 CAATAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGG
1 CAATAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGG
19832845 CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGG
1 CAAT-AGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGG
19832888 C
1 C
19832889 TTGAAATGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (42 bp):
CAATAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGG
Found at i:19832905 original size:29 final size:29
Alignment explanation
Indices: 19832870--19832943 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
19832860 GTTGTGAGAT
* *
19832870 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
19832899 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19832928 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19832944 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19836809 original size:47 final size:47
Alignment explanation
Indices: 19836743--19837304 Score: 859
Period size: 47 Copynumber: 12.1 Consensus size: 47
19836733 GAAATGATAG
19836743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19836790 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19836835 TAAGGCC-AATGGCCGATGT-ATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
19836880 TAAGGCCAAATGGCCGATGTGATGAATGTGAAATTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19836927 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGA
*
19836975 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19837021 TAAGGCCTAAT-ACCGATGTGATGAATGTGAAAGTGTATATTTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** *
19837067 TAAGGCCTAATAACCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19837114 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19837161 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19837208 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
19837254 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19837301 TAAG
1 TAAG
19837305 TCCCGAAGGG
Statistics
Matches: 479, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
43 15 0.03
44 11 0.02
45 60 0.13
46 84 0.18
47 263 0.55
48 46 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19837058 original size:140 final size:141
Alignment explanation
Indices: 19836743--19837304 Score: 859
Period size: 140 Copynumber: 4.0 Consensus size: 141
19836733 GAAATGATAG
* * *
19836743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGTCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
19836808 GTGATGAATGTGAAAGTG--TATATGTGATAAGGCC-AATGGCCGATGT-ATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
19836869 TATATATGTGA
131 TATATATGTGA
* * *
19836880 TAAGGCCAAATGGCCGATGTGATGAATGTGAAATTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
19836945 GTGATGAATGTGAAAGTGTATATAGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
19837010 GTATAT-TGTGA
130 GTATATATGTGA
* * *
19837021 TAAGGCCTAAT-ACCGATGTGATGAATGTGAAAGTGTATATTTGTGATAAGGCCTAATAACCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
19837085 GTGATGAATGTGAAAGTGTATATAGGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
19837150 TATATATGTAA
131 TATATATGTGA
*
19837161 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* * * * * * * *
19837226 GTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
19837290 CATAAATGTGA
131 TATATATGTGA
19837301 TAAG
1 TAAG
19837305 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 30, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
137 77 0.20
139 49 0.13
140 164 0.42
141 78 0.20
142 20 0.05
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:19837285 original size:187 final size:187
Alignment explanation
Indices: 19836743--19837304 Score: 857
Period size: 187 Copynumber: 3.0 Consensus size: 187
19836733 GAAATGATAG
* * *
19836743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGTCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19836808 GTGATGAATGTGAAAGTG--TATATGTGATAAGGCC-AATGGCCGATGTATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTGAATGTGAAAGTGT
*
19836870 ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAATTGTATAT-GTGTGA
131 ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATAG-GTGA
*
19836927 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGTGTGATAAGGCCTAATAGCCGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCTAATGGCCGA
*
19836992 TGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTAAT-ACCGATGTGATGAATGTGAAAGT
65 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGT
* * **
19837055 GTATATTTGTGATAAGGCCTAATAACCGATGTGATGAATGTGAAAGTGTATATAGGTGA
129 GTATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
*
19837114 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
19837179 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTGAATGTGAAAGTGT
* * * * * * * * * *
19837244 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
131 ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
19837301 TAAG
1 TAAG
19837305 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 27, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
184 41 0.12
185 38 0.11
186 63 0.18
187 192 0.56
188 9 0.03
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (187 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTGAATGTGAAAGTGT
ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
Found at i:19837479 original size:37 final size:37
Alignment explanation
Indices: 19837423--19837501 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19837413 CCGAGGTCTA
* * *
19837423 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19837460 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19837497 AAGAC
1 AAGAC
19837502 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19839317 original size:36 final size:36
Alignment explanation
Indices: 19839270--19839339 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
19839260 AGAGTCCGAC
*
19839270 AAACCTTGGAGTTCG-CTGAATCTTGGAGTTCTCCCA
1 AAACCTTGGAGTTCGTC-GAATCTTGAAGTTCTCCCA
*
19839306 AAACCTTGGAGTTTGTCGAATCTTGAAGTTCTCC
1 AAACCTTGGAGTTCGTCGAATCTTGAAGTTCTCC
19839340 AAATGGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (36 bp):
AAACCTTGGAGTTCGTCGAATCTTGAAGTTCTCCCA
Found at i:19843347 original size:21 final size:22
Alignment explanation
Indices: 19843312--19843373 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
19843302 ATACATTATT
19843312 AAAATTATATTTTATTTATAAA
1 AAAATTATATTTTATTTATAAA
* * * *
19843334 TATATTTTA-TTTATTGATAAA
1 AAAATTATATTTTATTTATAAA
19843355 AAAATTATATTTTATTTAT
1 AAAATTATATTTTATTTAT
19843374 TTATTCCAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAATTATATTTTATTTATAAA
Found at i:19843521 original size:20 final size:20
Alignment explanation
Indices: 19843496--19843533 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19843486 TCACTTGTAT
*
19843496 TCATTTTCAATAATTTAATG
1 TCATTTTAAATAATTTAATG
19843516 TCATTTTAAATAATTTAA
1 TCATTTTAAATAATTTAA
19843534 AAAATCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
TCATTTTAAATAATTTAATG
Found at i:19843757 original size:141 final size:138
Alignment explanation
Indices: 19843575--19843836 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 138
19843565 CTTACTCCAA
* *
19843575 AAAAAAAATCAAATCCCTTTCCTTAAAAAAAACTCAAATCCCTAAAATAAATCTCAATTCTATCA
1 AAAAAAAATCAAATCCCTTTCATTAAAAAAAACTCAAATCCCTAAAATAAATCTCAATTATATCA
* *
19843640 CA-AGTCATTTATC-GATTCCTTGGTATCGTTTCATAAATTTCGATCATGGAGTTCACATTAAAT
66 CATA-TCATTTA-CAAATTCCTTGGTATAGTTT-ATAAATTTC-ATCATGGAGTTCACATTAAAT
19843703 CCCTTTTAGTCC
127 CCCTTTTAGTCC
* * *
19843715 AAAAAAATTGAAA-CCCTTTCATTCAAAAAAAAGCTCAAATCCCTAAAATAGATCTCAATTATAT
1 AAAAAAAATCAAATCCCTTTCATT-AAAAAAAA-CTCAAATCCCTAAAATAAATCTCAATTATAT
* * * * *
19843779 TACATATTATTTACAAATTCCTTTGTATAGTTTATCAATTTCATCATGGCGTTCACAT
64 CACATATCATTTACAAATTCCTTGGTATAGTTTATAAATTTCATCATGGAGTTCACAT
19843837 AAACATTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
139 24 0.23
140 28 0.26
141 53 0.50
142 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (138 bp):
AAAAAAAATCAAATCCCTTTCATTAAAAAAAACTCAAATCCCTAAAATAAATCTCAATTATATCA
CATATCATTTACAAATTCCTTGGTATAGTTTATAAATTTCATCATGGAGTTCACATTAAATCCCT
TTTAGTCC
Found at i:19848395 original size:30 final size:30
Alignment explanation
Indices: 19848340--19848401 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
19848330 CACTAAGCAA
19848340 GTTTCATATACATGTATAATCCATTT-CAT
1 GTTTCATATACATGTATAATCCATTTCCAT
19848369 GTTTCAATATATCATGTA-ATAT-CATTTCCAT
1 GTTTC-ATATA-CATGTATA-ATCCATTTCCAT
19848400 GT
1 GT
19848402 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 11 0.38
31 13 0.45
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATAATCCATTTCCAT
Found at i:19858262 original size:25 final size:25
Alignment explanation
Indices: 19858234--19858313 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
19858224 TGCTCTCTCA
* *
19858234 AGCTAAAAATAAGTAAGCTCATATG
1 AGCTGAAAATAGGTAAGCTCATATG
* *
19858259 AGCTGAGAATCGGTAAGCTC-TCATG
1 AGCTGAAAATAGGTAAGCTCAT-ATG
* * *
19858284 AGCTGCAAATTGGTAAGCTCATAAG
1 AGCTGAAAATAGGTAAGCTCATATG
19858309 AGCTG
1 AGCTG
19858314 TGGTGTGTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
AGCTGAAAATAGGTAAGCTCATATG
Found at i:19871189 original size:13 final size:13
Alignment explanation
Indices: 19871171--19871205 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
19871161 GTGCAGACAT
19871171 CACATGCCCTGGG
1 CACATGCCCTGGG
19871184 CACATGCCCTGGG
1 CACATGCCCTGGG
19871197 CACATGCCC
1 CACATGCCC
19871206 ATGTACCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (13 bp):
CACATGCCCTGGG
Found at i:19872121 original size:20 final size:20
Alignment explanation
Indices: 19872093--19872136 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19872083 TACCAACTTG
*
19872093 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
19872113 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
19872133 CAAC
1 CAAC
19872137 TTAAACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:19872300 original size:43 final size:41
Alignment explanation
Indices: 19872234--19872333 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 41
19872224 GCCATATTCC
**** * *
19872234 AGATATGGTCTTACATGGGATCTCATATCGATGCCATTAGCCT
1 AGATATGGTCTTACACAAAATCTCATAACGACG-CA-TAGCCT
*
19872277 A-ACTATGGTCTTACACAAAATCTCATAACGACGCATATCCT
1 AGA-TATGGTCTTACACAAAATCTCATAACGACGCATAGCCT
19872318 AGATATGGTCTTACAC
1 AGATATGGTCTTACAC
19872334 GTAATCCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
41 19 0.40
42 4 0.08
43 25 0.52
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
AGATATGGTCTTACACAAAATCTCATAACGACGCATAGCCT
Found at i:19876513 original size:28 final size:29
Alignment explanation
Indices: 19876424--19876525 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
19876414 TCAGGCTAGC
19876424 TGGGCCATATGAATGTGATTTGGGCCTAA
1 TGGGCCATATGAATGTGATTTGGGCCTAA
*
19876453 TGGGCCATATAAATGTGATTTGGGCCTAA
1 TGGGCCATATGAATGTGATTTGGGCCTAA
* * *
19876482 TGGGCCATTTGAATGAGA-TTGGGCCTAG
1 TGGGCCATATGAATGTGATTTGGGCCTAA
*
19876510 TGGGCCATATGCATGT
1 TGGGCCATATGAATGT
19876526 ATGTAGACTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 22 0.34
29 43 0.66
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (29 bp):
TGGGCCATATGAATGTGATTTGGGCCTAA
Found at i:19876879 original size:27 final size:27
Alignment explanation
Indices: 19876848--19876914 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
19876838 CTAATTTGTG
19876848 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
* * * *
19876875 CAATTACCGAAATACCTTCAACTTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
19876902 AAATTACTGAAAT
1 AAATTACTGAAAT
19876915 GCCCCTAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAACCTGTA
Found at i:19881239 original size:202 final size:202
Alignment explanation
Indices: 19880893--19881289 Score: 713
Period size: 202 Copynumber: 2.0 Consensus size: 202
19880883 TAACATAATG
* *
19880893 TTGCCACAATGACACAATCTAGCAAGGCATCAAATGGTAGCAACAAAACTAACTTACACAACTTC
1 TTGCCACAATGACACAATCTAACAAGGCATCAAATGGTAGCAACAAAACTAACTTACACAACTTA
* * *
19880958 TACATACCAATCATCAACTAAACATTCAATTAAATACCATTACAAGTGCACCTATACATGCCATT
66 TACATACCAATCATCAACAAAACATTCAATTAAATACCAGTACAAGTCCACCTATACATGCCATT
19881023 ATAACCTTGGCCAAAACATTCAAAAACTACTGATATATATGTTGGATAGTGTGATAGATCTCCGA
131 ATAACCTTGGCCAAAACATTCAAAAACTACTGATATATATGTTGGATAGTGTGATAGATCTCCGA
19881088 GAGGTTA
196 GAGGTTA
*
19881095 TTGCCACAATGACACAATCTAACAAGGCATCAAATGGTAGCAACAAAATTAACTTACACAACTTA
1 TTGCCACAATGACACAATCTAACAAGGCATCAAATGGTAGCAACAAAACTAACTTACACAACTTA
* *
19881160 TACATACCAATCATCAACAAAACATTCAATTAAATACCAGTACGAGTCCACCTATATATGCCATT
66 TACATACCAATCATCAACAAAACATTCAATTAAATACCAGTACAAGTCCACCTATACATGCCATT
*
19881225 ATAACCTTGGCCAAAACATTCAAAAACTATTGATATATATGTTGGATAGTGTGATAGATCTCCGA
131 ATAACCTTGGCCAAAACATTCAAAAACTACTGATATATATGTTGGATAGTGTGATAGATCTCCGA
19881290 TTAGCTTCCA
Statistics
Matches: 186, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
202 186 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (202 bp):
TTGCCACAATGACACAATCTAACAAGGCATCAAATGGTAGCAACAAAACTAACTTACACAACTTA
TACATACCAATCATCAACAAAACATTCAATTAAATACCAGTACAAGTCCACCTATACATGCCATT
ATAACCTTGGCCAAAACATTCAAAAACTACTGATATATATGTTGGATAGTGTGATAGATCTCCGA
GAGGTTA
Found at i:19883941 original size:40 final size:40
Alignment explanation
Indices: 19883886--19883962 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
19883876 TGTTCCTTGA
*
19883886 TTTGCTTATGGATGTTTGAAAATCTAGAA-GTGTATTTCAT
1 TTTGCCTATGGATGTTTGAAAATCTA-AATGTGTATTTCAT
19883926 TTTGCCTATGGATGTTTGAAAATCTAAATGTGTATTT
1 TTTGCCTATGGATGTTTGAAAATCTAAATGTGTATTT
19883963 TATGTTATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (40 bp):
TTTGCCTATGGATGTTTGAAAATCTAAATGTGTATTTCAT
Found at i:19887349 original size:23 final size:22
Alignment explanation
Indices: 19887314--19887358 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
19887304 TTGGAATGGC
19887314 CCAAAAACATGGGATATCACGAT
1 CCAAAAACATGGG-TATCACGAT
** *
19887337 CCAAAAATTTGGGTATCGCGAT
1 CCAAAAACATGGGTATCACGAT
19887359 ACCCAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
CCAAAAACATGGGTATCACGAT
Found at i:19896994 original size:45 final size:45
Alignment explanation
Indices: 19896934--19897049 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
19896924 CATAACATTT
* * * *
19896934 TTTCAGCTATGGTCTTACTCGTTTCCGGTAT-GATGCCATAGTTTC
1 TTTCAACTATGGTCTTATTAGTTTCCGGTATAG-TGCCATAGTGTC
*
19896979 TTTCAACTATGGTCTTATTTAG-TTCTGGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTA-TTAGTTTCCGGTATAGTGCCATAGTGTC
*
19897024 TTTCAACTATGGTCTTATTTGTTTCC
1 TTTCAACTATGGTCTTATTAGTTTCC
19897050 TTCAAGCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
44 3 0.05
45 55 0.90
46 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.18, T:0.46
Consensus pattern (45 bp):
TTTCAACTATGGTCTTATTAGTTTCCGGTATAGTGCCATAGTGTC
Found at i:19900646 original size:42 final size:42
Alignment explanation
Indices: 19900566--19900648 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
19900556 AGATGCAGAA
*
19900566 TTCACACGGCCAAGACACACGCCTGTGTGTTGCGCTGTGTAT
1 TTCACACGGCCAAGACACACGCCTGTCTGTTGCGCTGTGTAT
*
19900608 TTCACACGGCTAAGACACACGCCCATGTCT-TTGC-CTGTGTA
1 TTCACACGGCCAAGACACACG-CC-TGTCTGTTGCGCTGTGTA
19900649 ACCAATTCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 27 0.73
43 6 0.16
44 4 0.11
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (42 bp):
TTCACACGGCCAAGACACACGCCTGTCTGTTGCGCTGTGTAT
Found at i:19902380 original size:49 final size:49
Alignment explanation
Indices: 19902308--19902406 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
19902298 TTAATCTATC
19902308 TATTTCGGGGATTAATTTGAAAAGTTATCAAAGTATCAAAGTTTTTCCA
1 TATTTCGGGGATTAATTTGAAAAGTTATCAAAGTATCAAAGTTTTTCCA
19902357 TATTTCGGGGATTAATTTGAAAAGTTATCAAAGTATCAAAGTTTTTCCA
1 TATTTCGGGGATTAATTTGAAAAGTTATCAAAGTATCAAAGTTTTTCCA
19902406 T
1 T
19902407 GGATGAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (49 bp):
TATTTCGGGGATTAATTTGAAAAGTTATCAAAGTATCAAAGTTTTTCCA
Found at i:19912395 original size:24 final size:24
Alignment explanation
Indices: 19912336--19912397 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
19912326 TCAAAGAAGT
* * *
19912336 TGATAGTAATAATGTGAGCTATGA
1 TGATAGTAATAGTGTAAACTATGA
19912360 TGATAGTAATAGTGTAAACTATGA
1 TGATAGTAATAGTGTAAACTATGA
*
19912384 TGATAGTGATAGTG
1 TGATAGTAATAGTG
19912398 AACTTTGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (24 bp):
TGATAGTAATAGTGTAAACTATGA
Found at i:19913535 original size:16 final size:16
Alignment explanation
Indices: 19913514--19913544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19913504 TTTAATTTTT
*
19913514 TTATTTTTGTTTATTA
1 TTATTTTTATTTATTA
19913530 TTATTTTTATTTATT
1 TTATTTTTATTTATT
19913545 CTTTTTCAAA
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:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTATTA
Found at i:19914660 original size:17 final size:15
Alignment explanation
Indices: 19914630--19914667 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
19914620 AAATATATAC
19914630 AAAAATTTTAAAATA
1 AAAAATTTTAAAATA
19914645 ATAAAATTTTATAAATA
1 A-AAAATTTTA-AAATA
19914662 AAAAAT
1 AAAAAT
19914668 AAAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATTTTAAAATA
Found at i:19914869 original size:30 final size:30
Alignment explanation
Indices: 19914812--19914869 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19914802 CCCTTTTCCA
**
19914812 TTACAAACGTAACGAAGCTACTGTTTTCTG
1 TTACAAACGTAACGAAGCTACCATTTTCTG
* *
19914842 TTACAAACTTAACGGAGCTACCATTTTC
1 TTACAAACGTAACGAAGCTACCATTTTC
19914870 CATCCTCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (30 bp):
TTACAAACGTAACGAAGCTACCATTTTCTG
Found at i:19916772 original size:18 final size:18
Alignment explanation
Indices: 19916749--19916793 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
19916739 GTTTATGTAT
19916749 GTGATTTTAGTTTTACAA
1 GTGATTTTAGTTTTACAA
19916767 GTGATTTTAGTTTTACAA
1 GTGATTTTAGTTTTACAA
19916785 GTGATTTTA
1 GTGATTTTA
19916794 AGGATGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (18 bp):
GTGATTTTAGTTTTACAA
Found at i:19919677 original size:13 final size:15
Alignment explanation
Indices: 19919659--19919691 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19919649 TTTTACATAA
*
19919659 TTTTTTA-ATAATGT
1 TTTTTTATATAATAT
19919673 TTTTTTATATAATAT
1 TTTTTTATATAATAT
19919688 TTTT
1 TTTT
19919692 AATTTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTTATATAATAT
Found at i:19922510 original size:31 final size:31
Alignment explanation
Indices: 19922475--19922536 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19922465 ATAAAATAAG
19922475 ATTTCATCTCAATAAAAAGGATTCTTTCTAT
1 ATTTCATCTCAATAAAAAGGATTCTTTCTAT
19922506 ATTTCATCTCAATAAAAAGGATTCTTTCTAT
1 ATTTCATCTCAATAAAAAGGATTCTTTCTAT
19922537 CATCTAAGAT
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:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (31 bp):
ATTTCATCTCAATAAAAAGGATTCTTTCTAT
Found at i:19924564 original size:37 final size:37
Alignment explanation
Indices: 19924516--19924590 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
19924506 TTAACTCTAT
19924516 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
19924553 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
19924590 C
1 C
19924591 TAACTCAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.55, G:0.00, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:19924592 original size:18 final size:18
Alignment explanation
Indices: 19924532--19924602 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
19924522 ACTAAACCAT
19924532 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
19924550 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
19924569 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* *
19924587 CCACTAACTCAATCAC
1 CCACTACCTCCATCAC
19924603 TCTACTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.10
18 21 0.52
19 7 0.17
20 4 0.10
21 2 0.05
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:19925011 original size:19 final size:18
Alignment explanation
Indices: 19924987--19925023 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
19924977 TTATGTTTCA
19924987 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
19925006 TATTATTATATATTTATT
1 TATTATTATATATTTATT
19925024 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:19925035 original size:17 final size:14
Alignment explanation
Indices: 19924995--19925025 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19924985 CATATTATTA
*
19924995 TATTATTTATTTAT
1 TATTATATATTTAT
19925009 TATTATATATTTAT
1 TATTATATATTTAT
19925023 TAT
1 TAT
19925026 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:19925349 original size:12 final size:12
Alignment explanation
Indices: 19925332--19925357 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19925322 AAAATAGGGC
19925332 TTTAGCGGCGTT
1 TTTAGCGGCGTT
19925344 TTTAGCGGCGTT
1 TTTAGCGGCGTT
19925356 TT
1 TT
19925358 ATCAGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:19925490 original size:40 final size:41
Alignment explanation
Indices: 19925402--19925496 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
19925392 GCAATAGCGG
* * * * *
19925402 AAACGCCGCTAAAAACTGAGCAATAGCTACGTTTTTTGTTA
1 AAACGCCGCTAAAAACAGAGAAATAGCGACGTCTTTTGGTA
*
19925443 AAACGCCGCTAAAAACAGAGAAATAGCGGCG-CTTTTGGTA
1 AAACGCCGCTAAAAACAGAGAAATAGCGACGTCTTTTGGTA
19925483 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
19925497 GACAAAGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 21 0.44
41 27 0.56
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACAGAGAAATAGCGACGTCTTTTGGTA
Found at i:19925608 original size:18 final size:17
Alignment explanation
Indices: 19925589--19925632 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
19925579 AATAGTAAAC
*
19925589 CCCTAAATCCTAACAAA
1 CCCTAAATACTAACAAA
19925606 CCCTAAATACTAAACTATAA
1 CCCTAAATACT-AAC-A-AA
19925626 CCCTAAA
1 CCCTAAA
19925633 ACCCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 1 0.04
20 9 0.39
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (17 bp):
CCCTAAATACTAACAAA
Found at i:19926152 original size:24 final size:24
Alignment explanation
Indices: 19926120--19926173 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
19926110 TAACTCGTAT
*
19926120 ATTAA-TTAAAAGTTTATATAAAA
1 ATTAATTTAAAAGTCTATATAAAA
19926143 ATTAATTTAAAAGTCTATATAAAA
1 ATTAATTTAAAAGTCTATATAAAA
*
19926167 CTTAATT
1 ATTAATT
19926174 GTTATTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTAATTTAAAAGTCTATATAAAA
Found at i:19926490 original size:22 final size:21
Alignment explanation
Indices: 19926465--19926515 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
19926455 CTATTTTAAG
19926465 GTTTATGGATTATGGATTATGA
1 GTTTATGGATTATGGATTAT-A
*
19926487 GTTTATGGATTATGGTTTATA
1 GTTTATGGATTATGGATTATA
19926508 GTTTATGG
1 GTTTATGG
19926516 TTTAAGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
GTTTATGGATTATGGATTATA
Found at i:19926531 original size:28 final size:29
Alignment explanation
Indices: 19926500--19926558 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
19926490 TATGGATTAT
19926500 GGTTTATA-GTTTATGGT-TTAAGGGTT-GG
1 GGTTTA-AGGTTTA-GGTGTTAAGGGTTAGG
*
19926528 GGTTTAAGGTTTAGGTGTTAGGGGTTAGG
1 GGTTTAAGGTTTAGGTGTTAAGGGTTAGG
19926557 GG
1 GG
19926559 ATAGGGGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.15
28 19 0.70
29 4 0.15
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.41
Consensus pattern (29 bp):
GGTTTAAGGTTTAGGTGTTAAGGGTTAGG
Found at i:19926532 original size:21 final size:21
Alignment explanation
Indices: 19926510--19926590 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
19926500 GGTTTATAGT
19926510 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
*
19926530 TTTAAGGTTT-AGGTGTTAGGGG
1 -TTATGGTTTAAGG-GTTAGGGG
* ** *
19926552 TTAGGGGATAGGGGTTAGGGG
1 TTATGGTTTAAGGGTTAGGGG
19926573 TTATGGGTTTAAGGGTTA
1 TTAT-GGTTTAAGGGTTA
19926591 TGTTATATGA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.06
21 28 0.60
22 16 0.34
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:19926538 original size:7 final size:7
Alignment explanation
Indices: 19926459--19926519 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
19926449 GAGTTACTAT
*
19926459 TTTAAGG
1 TTTATGG
19926466 TTTATGG
1 TTTATGG
*
19926473 ATTATGG
1 TTTATGG
*
19926480 ATTATGAG
1 TTTATG-G
19926488 TTTATGG
1 TTTATGG
*
19926495 ATTATGG
1 TTTATGG
*
19926502 TTTATAG
1 TTTATGG
19926509 TTTATGG
1 TTTATGG
19926516 TTTA
1 TTTA
19926520 AGGGTTGGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:19926548 original size:7 final size:7
Alignment explanation
Indices: 19926538--19926581 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
19926528 GGTTTAAGGT
*
19926538 TTAGGTG
1 TTAGGGG
19926545 TTAGGGG
1 TTAGGGG
19926552 TTAGGGG
1 TTAGGGG
*
19926559 ATAGGGG
1 TTAGGGG
19926566 TTAGGGG
1 TTAGGGG
*
19926573 TTATGGG
1 TTAGGGG
19926580 TT
1 TT
19926582 TAAGGGTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:19926994 original size:22 final size:20
Alignment explanation
Indices: 19926941--19926997 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
19926931 AATTTTTTAA
19926941 AAAAATTATTTAAAATTAATAT
1 AAAAATTA--TAAAATTAATAT
19926963 AAAAGA-TATAATAATTCAATAT
1 AAAA-ATTATAA-AATT-AATAT
19926985 AAAAATTATAAAA
1 AAAAATTATAAAA
19926998 AAGTCAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 20 0.65
23 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAATTAATAT
Found at i:19927206 original size:20 final size:18
Alignment explanation
Indices: 19927191--19927226 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19927181 TATTTCTCTC
*
19927191 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
19927209 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
19927227 TCTCAGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:19927218 original size:62 final size:59
Alignment explanation
Indices: 19927122--19927235 Score: 158
Period size: 62 Copynumber: 1.9 Consensus size: 59
19927112 GACGCTGTTT
*
19927122 TATTTCTCCCCCCAATTCCCTTCTTTCCCGATTCCAC-TTTCATTCTCAGCCTGTACTTC
1 TATTTCTCCCCCCAATTCCCTTCTTTCCCAATTCC-CTTTTCATTCTCAGCCTGTACTTC
* *
19927181 TATTTCTCTCCCCCGATTCCCTTTTCTTTCCCAATTCCCTTTTCTTTCTCAGCCT
1 TATTTCTC-CCCCCAATTCCC--TTCTTTCCCAATTCCCTTTTCATTCTCAGCCT
19927236 TTCTCAGCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 8 0.17
60 11 0.23
61 1 0.02
62 28 0.58
ACGTcount: A:0.11, C:0.40, G:0.04, T:0.44
Consensus pattern (59 bp):
TATTTCTCCCCCCAATTCCCTTCTTTCCCAATTCCCTTTTCATTCTCAGCCTGTACTTC
Found at i:19929233 original size:25 final size:25
Alignment explanation
Indices: 19929203--19929268 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
19929193 TGCATCGTCG
*
19929203 TCGGCAGCCCTCTGCTACATCTCCA
1 TCGGCATCCCTCTGCTACATCTCCA
* * * *
19929228 TTGGCATCCCTCTTCTACATCTTCG
1 TCGGCATCCCTCTGCTACATCTCCA
19929253 TCGGCATCCCTCTGCT
1 TCGGCATCCCTCTGCT
19929269 GCTTCTCTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.12, C:0.41, G:0.15, T:0.32
Consensus pattern (25 bp):
TCGGCATCCCTCTGCTACATCTCCA
Found at i:19932026 original size:33 final size:33
Alignment explanation
Indices: 19931975--19932041 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
19931965 ATCCTTTGGA
*
19931975 TCTCTTTGCTACTAGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
*
19932008 TCTCATTGCTACTGGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
19932041 T
1 T
19932042 AACTATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
Found at i:19932486 original size:239 final size:240
Alignment explanation
Indices: 19932066--19932739 Score: 1174
Period size: 241 Copynumber: 2.8 Consensus size: 240
19932056 ATGAATTAAT
*
19932066 TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC-T
*
19932131 TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGAAAACCTGACGGGTTGCCTTATATCGA
65 TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
*
19932196 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
130 GCTGTAAGATATAATGTATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
19932261 CAAAAAGACTTGAAAAAAGTTCTA-GAGCTCATTTACTATTGAATA
195 CAAAAAGACTTGAAAAAAGTTCTACGAGCTCATTTACTATTGAATA
* * *
19932306 TTTATTACCATGTAGCTTGCTTGTCCATTAAATTTACAAAAATAGCTGACCTTCTCTCCAGCCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* * *
19932371 TTTTTAAATGTTTTAAAGATTCAAAATATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
19932436 CTGTAAGATATAATGTATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGTATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
19932501 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTA-CGAGCTCATTTACTATTGAATA
*
19932547 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAATCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
19932612 TTTTTAAATATTTTAAAGATTCAAAGTATATA-ACTTAGAAACCTGACGGGTTGCCTTATATCGA
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGC-TGGAAACCTGACGGGTTGCCTTATATCGA
*
19932676 GCTGTAAGATATAATGGT-TCCTCCCTAGGTGTAACAACGCCACGTATGATGAATATTAAAAAAT
130 GCTGTAAGATATAAT-GTATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
19932740 AACTTACATA
Statistics
Matches: 411, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
239 150 0.36
240 60 0.15
241 199 0.48
242 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (240 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGTATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTACGAGCTCATTTACTATTGAATA
Found at i:19932752 original size:9 final size:9
Alignment explanation
Indices: 19932738--19932796 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
19932728 ATATTAAAAA
19932738 ATAACTTAC
1 ATAACTTAC
*
19932747 ATAACTCAC
1 ATAACTTAC
19932756 ATAACTTAC
1 ATAACTTAC
*
19932765 ATAATTTAC
1 ATAACTTAC
*
19932774 ATAACTCAC
1 ATAACTTAC
*
19932783 ATAACGTAC
1 ATAACTTAC
19932792 ATAAC
1 ATAAC
19932797 AACTTACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19932776 original size:27 final size:27
Alignment explanation
Indices: 19932738--19932796 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
19932728 ATATTAAAAA
*
19932738 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
19932765 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
19932792 ATAAC
1 ATAAC
19932797 AACTTACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:19937176 original size:32 final size:32
Alignment explanation
Indices: 19937140--19937223 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 32
19937130 AGAATTAATA
*
19937140 TTTTTGGTTGTATTTTTATGCTAAATTTGTTG
1 TTTTTGGTTGTATTTTTATGCTAAATTTATTG
* *
19937172 TTTTTGGCTGTATTTTATAT--TATATTTATTG
1 TTTTTGGTTGTATTTT-TATGCTAAATTTATTG
* * *
19937203 TATTTGGTTGGATTTTAATGC
1 TTTTTGGTTGTATTTTTATGC
19937224 AGGAAGGGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.05
31 22 0.52
32 15 0.36
33 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.61
Consensus pattern (32 bp):
TTTTTGGTTGTATTTTTATGCTAAATTTATTG
Done.