Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 80 of 204
Found at i:24792794 original size:23 final size:25
Alignment explanation
Indices: 24792768--24792846 Score: 72
Period size: 26 Copynumber: 3.2 Consensus size: 25
24792758 ATATATTGGA
* *
24792768 AAGCTCAAGTGAGCCA-T-ATCGGG
1 AAGCTCAAGAGAGCCATTAATCAGG
**
24792791 AAGCTTTAGAGAGCCATTAATCAGG
1 AAGCTCAAGAGAGCCATTAATCAGG
* * *
24792816 AAGCTCACAAAGAGCCTTTAATCGGG
1 AAGCTCA-AGAGAGCCATTAATCAGG
24792842 AAGCT
1 AAGCT
24792847 TACGAAGAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 13 0.30
24 1 0.02
25 10 0.23
26 20 0.45
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGCTCAAGAGAGCCATTAATCAGG
Found at i:24792865 original size:26 final size:27
Alignment explanation
Indices: 24792785--24792868 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 27
24792775 AGTGAGCCAT
24792785 ATCGGGAAGCTTTA-G-AGAGCCAT-TA
1 ATCGGGAAGC-TTACGAAGAGCCATATA
* * * *
24792810 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTTACGAAGAGCCATATA
24792836 ATCGGGAAGCTTACGAAGAGCCATAT-
1 ATCGGGAAGCTTACGAAGAGCCATATA
24792862 ATCGGGA
1 ATCGGGA
24792869 TGCTCATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 10 0.21
26 34 0.71
27 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTTACGAAGAGCCATATA
Found at i:24793306 original size:5 final size:5
Alignment explanation
Indices: 24793277--24793315 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
24793267 GAATTTAATA
* *
24793277 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
24793316 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:24794787 original size:45 final size:44
Alignment explanation
Indices: 24794732--24794818 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
24794722 TTAAAACTGT
* *
24794732 AATTTAAAATGTTCAAATTTATTAATAAACAATATCATGTTTTA
1 AATTTAAAATGTTAAAAATTATTAATAAACAATATCATGTTTTA
24794776 AATTATAAAATGTTAAAAATTATTAATAAACAATATCATGTTT
1 AATT-TAAAATGTTAAAAATTATTAATAAACAATATCATGTTT
24794819 AGGAGCATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.10
45 36 0.90
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (44 bp):
AATTTAAAATGTTAAAAATTATTAATAAACAATATCATGTTTTA
Found at i:24805651 original size:17 final size:17
Alignment explanation
Indices: 24805629--24805662 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24805619 AGTAACTCTC
24805629 TTATATACACAATCTAG
1 TTATATACACAATCTAG
24805646 TTATATACACAATCTAG
1 TTATATACACAATCTAG
24805663 ACAGACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATATACACAATCTAG
Found at i:24812332 original size:39 final size:41
Alignment explanation
Indices: 24812261--24812338 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 41
24812251 AAAAATAAAA
***
24812261 ATAAAAGTATCAAAAATTATTTTTTTTCAAATT-AAAAATC
1 ATAAAAGTATCAAAAATTATTTTTTAAAAAATTGAAAAATC
24812301 ATAAAAGT-TCAAAAA-TATATTTTTAAAAAATTGAAAAA
1 ATAAAAGTATCAAAAATTAT-TTTTTAAAAAATTGAAAAA
24812339 AATAAGAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.09
39 17 0.52
40 13 0.39
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (41 bp):
ATAAAAGTATCAAAAATTATTTTTTAAAAAATTGAAAAATC
Found at i:24816990 original size:29 final size:28
Alignment explanation
Indices: 24816911--24817015 Score: 96
Period size: 25 Copynumber: 3.9 Consensus size: 28
24816901 TTTAGGTATC
24816911 AAATTAGATAAAAAAATTTAAA-A-ACT
1 AAATTAGATAAAAAAATTTAAATATACT
**
24816937 AAATTA-ATAAAAAAAAGTACCAATATACT
1 AAATTAGATAAAAAAATTTA--AATATACT
*
24816966 AAATTAGACTAAAAATATTTAAATAT-C-
1 AAATTAGA-TAAAAAAATTTAAATATACT
* *
24816993 AAATTA-AGAAAAAAATTGAAATA
1 AAATTAGATAAAAAAATTTAAATA
24817016 CCAAAAATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
25 24 0.37
26 7 0.11
27 8 0.12
28 2 0.03
29 14 0.22
30 1 0.02
31 9 0.14
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.27
Consensus pattern (28 bp):
AAATTAGATAAAAAAATTTAAATATACT
Found at i:24818855 original size:15 final size:15
Alignment explanation
Indices: 24818835--24818865 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24818825 TCATTGATAA
24818835 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
24818850 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
24818865 T
1 T
24818866 AGCATACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTCTTCTTCTT
Found at i:24824016 original size:12 final size:11
Alignment explanation
Indices: 24823997--24824030 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24823987 TCAATTATTT
24823997 TCTCAATTTCC
1 TCTCAATTTCC
* *
24824008 TCTCAAATTGC
1 TCTCAATTTCC
24824019 TCTCAATTTCC
1 TCTCAATTTCC
24824030 T
1 T
24824031 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:24824046 original size:22 final size:22
Alignment explanation
Indices: 24823997--24824038 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
24823987 TCAATTATTT
24823997 TCTCAATTTCCTCTCAAATTGC
1 TCTCAATTTCCTCTCAAATTGC
24824019 TCTCAATTTCCT-TCCAAATT
1 TCTCAATTTCCTCT-CAAATT
24824039 TCTTTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAAATTGC
Found at i:24825266 original size:7 final size:7
Alignment explanation
Indices: 24825256--24825280 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24825246 TTGGTATTTA
24825256 GTATTAT
1 GTATTAT
24825263 GTATTAT
1 GTATTAT
24825270 GTATTAT
1 GTATTAT
24825277 GTAT
1 GTAT
24825281 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:24825929 original size:18 final size:18
Alignment explanation
Indices: 24825906--24825943 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24825896 TGTGAGGTGC
* *
24825906 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
24825924 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
24825942 GT
1 GT
24825944 GTCTTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:24826463 original size:7 final size:7
Alignment explanation
Indices: 24826443--24826482 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
24826433 ATTTATTAAA
24826443 AATTTAT
1 AATTTAT
24826450 AAATTTAT
1 -AATTTAT
24826458 AATTTAT
1 AATTTAT
24826465 AA-TTA-
1 AATTTAT
24826470 AATTTAT
1 AATTTAT
24826477 AATTTA
1 AATTTA
24826483 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:24826537 original size:20 final size:21
Alignment explanation
Indices: 24826499--24826537 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24826489 AAACCCTAAC
*
24826499 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCATAACTT
*
24826520 AAAAATCCTAA-CCATAAC
1 AAAAACCCTAACCCATAAC
24826538 CCTAACCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAACCCTAACCCATAACTT
Found at i:24826539 original size:33 final size:32
Alignment explanation
Indices: 24826502--24826859 Score: 217
Period size: 27 Copynumber: 11.4 Consensus size: 32
24826492 CCCTAACAAA
*
24826502 AACCCTAACCCTTAACTTAAAAATCCTAACCAT
1 AACCCTAACCCTTAACTTAAAAACCCTAACC-T
24826535 AACCCTAACCCTTAACTTAAAAACCCTAACCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCT
*
24826567 -----TAACCCTTAACTTAAAAACACCAAAATCCT
1 AACCCTAACCCTTAACTTAAAAAC-CC-TAA-CCT
*** * *
24826597 AACAAAAATCC-TAAC--AAAAACCCTAACCCA
1 AACCCTAACCCTTAACTTAAAAACCCTAA-CCT
*
24826627 AACCCTAACCCTAAACATTAACTTAAAAACCCTAATCAT
1 AACCCTAA-CC----C-TTAACTTAAAAACCCTAA-CCT
24826666 AACCCTAACCCTTAACTTAAAAA--C---CCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCT
*
24826693 AACCCTAACCATTAACTTAAAAA-CC----CT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCT
*
24826720 AACCCTAACCATTAACTTAAAAA-CC----CT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCT
* * *
24826747 AACCCTAACCATTAACTTAAAAATCCTTAACTT
1 AACCCTAACCCTTAACTTAAAAA-CCCTAACCT
* * * *
24826780 AAAAACATCAAAACCTTAAC--AAAAACCCTAGCCCT
1 ---AAC-CCTAACCCTTAACTTAAAAACCCTA-ACCT
24826815 AACCCTAACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCTAA-CCT
24826848 AACCCTAACCCT
1 AACCCTAACCCT
24826860 AACCCTTAAC
Statistics
Matches: 264, Mismatches: 29, Indels: 64
0.74 0.08 0.18
Matches are distributed among these distances:
27 95 0.36
28 3 0.01
29 3 0.01
30 12 0.05
31 14 0.05
32 10 0.04
33 68 0.26
34 9 0.03
35 12 0.05
36 3 0.01
37 13 0.05
38 2 0.01
39 20 0.08
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (32 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCT
Found at i:24826540 original size:27 final size:27
Alignment explanation
Indices: 24826502--24826769 Score: 225
Period size: 27 Copynumber: 9.9 Consensus size: 27
24826492 CCCTAACAAA
24826502 AACCCTAACCCTTAACTTAAAAATCCTAACCAT
1 AACCCTAACCCTTAACTTAAAAA--C---CC-T
24826535 AACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*
24826562 AACCTTAACCCTTAACTTAAAAACACC-
1 AACCCTAACCCTTAACTTAAAAAC-CCT
* *
24826589 AA----AATCC-TAAC--AAAAATCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*** **
24826609 AACAAAAACCC-TAAC--CCAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
* *
24826633 AACCCTAAACATTAACTTAAAAACCCTAATCAT
1 AACCCTAACCCTTAACTTAAAAA-CC----C-T
24826666 AACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*
24826693 AACCCTAACCATTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*
24826720 AACCCTAACCATTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*
24826747 AACCCTAACCATTAACTTAAAAA
1 AACCCTAACCCTTAACTTAAAAA
24826770 TCCTTAACTT
Statistics
Matches: 203, Mismatches: 17, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.01
20 7 0.03
22 4 0.02
23 4 0.02
24 20 0.10
25 4 0.02
27 106 0.52
28 7 0.03
31 1 0.00
32 3 0.01
33 45 0.22
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (27 bp):
AACCCTAACCCTTAACTTAAAAACCCT
Found at i:24826561 original size:15 final size:15
Alignment explanation
Indices: 24826541--24826585 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
24826531 CCATAACCCT
24826541 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
24826556 AACCC-TAACCTT---
1 AACCCTTAA-CTTAAA
24826568 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
24826583 AAC
1 AAC
24826586 ACCAAAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 3 0.12
15 11 0.44
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:24826606 original size:12 final size:12
Alignment explanation
Indices: 24826589--24826623 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
24826579 TAAAAACACC
24826589 AAAATCCTAACA
1 AAAATCCTAACA
24826601 AAAATCCTAACA
1 AAAATCCTAACA
*
24826613 AAAACCCTAAC
1 AAAATCCTAAC
24826624 CCAAACCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATCCTAACA
Found at i:24826629 original size:12 final size:13
Alignment explanation
Indices: 24826614--24826642 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24826604 ATCCTAACAA
24826614 AAACCCTAACCC-
1 AAACCCTAACCCT
24826626 AAACCCTAACCCT
1 AAACCCTAACCCT
24826639 AAAC
1 AAAC
24826643 ATTAACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.10
Consensus pattern (13 bp):
AAACCCTAACCCT
Found at i:24826656 original size:39 final size:38
Alignment explanation
Indices: 24826612--24826685 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
24826602 AAATCCTAAC
24826612 AAAAACCCTAACCCA-AACCCTAACCCTAAACATTAACTT
1 AAAAACCCTAA-CCATAACCCTAACCCTAAAC-TTAACTT
* *
24826651 AAAAACCCTAATCATAACCCTAACCCTTAACTTAA
1 AAAAACCCTAACCATAACCCTAACCCTAAACTTAA
24826686 AAACCCTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 6 0.19
39 26 0.81
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (38 bp):
AAAAACCCTAACCATAACCCTAACCCTAAACTTAACTT
Found at i:24826820 original size:6 final size:6
Alignment explanation
Indices: 24826803--24826865 Score: 65
Period size: 6 Copynumber: 10.0 Consensus size: 6
24826793 CCTTAACAAA
* *
24826803 AACCCT AGCCCT AACCCT AACCCTT AA-CTT AAAAACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCC-T AACCCT ---AACCCT AACCCT AACCCT
24826854 AACCCT AACCCT
1 AACCCT AACCCT
24826866 TAACTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 1 0.02
6 40 0.83
7 3 0.06
8 2 0.04
9 2 0.04
ACGTcount: A:0.35, C:0.44, G:0.02, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:24826841 original size:21 final size:21
Alignment explanation
Indices: 24826815--24826903 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
24826805 CCCTAGCCCT
24826815 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
24826836 AACCCTAACCC-TAACCCT---
1 AACCCTAACCCTTAA-CTTAAA
24826854 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
24826875 AACCTTAATCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
24826896 AACACTAA
1 AACCCTAA
24826904 AACCCTAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
18 13 0.23
19 3 0.05
20 3 0.05
21 38 0.67
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:24826846 original size:39 final size:39
Alignment explanation
Indices: 24826803--24826878 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
24826793 CCTTAACAAA
*
24826803 AACCCTAGCCCTAACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
24826842 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACC
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACC
24826879 TTAATCCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (39 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCT
Found at i:24826935 original size:18 final size:18
Alignment explanation
Indices: 24826902--24826936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24826892 TAAAAACACT
**
24826902 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
24826920 AAAACCCTAACCCTAAC
1 AAAACCCTAACCCTAAC
24826937 CCTAATCTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:24826995 original size:35 final size:36
Alignment explanation
Indices: 24826956--24827118 Score: 98
Period size: 35 Copynumber: 4.4 Consensus size: 36
24826946 ATATAATTTC
24826956 ATAATTTTACTAACAATTAATACAATTA-ACAATGA
1 ATAATTTTACTAACAATTAATACAATTACACAATGA
* * ** * * * *
24826991 ATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAAC-AATTAATACA-ATTACACAATG-A
* * ** * * * *
24827030 TTGACTGGTACTAACAATTAATA-ATTTGATATAATTTA
1 AT-AATTTTACTAACAATTAATACAATT-ACACAA-TGA
*
24827068 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACACAATGA
24827103 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
24827119 AATGTTAGAT
Statistics
Matches: 94, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
35 32 0.34
36 9 0.10
37 24 0.26
38 14 0.15
39 7 0.07
40 8 0.09
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATACAATTACACAATGA
Found at i:24827089 original size:19 final size:19
Alignment explanation
Indices: 24827038--24827118 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
24827028 TTTTGACTGG
24827038 TACTAACAATTAATAATTT
1 TACTAACAATTAATAATTT
* *
24827057 GA-TATA-ATTTAATAATTT
1 TACTA-ACAATTAATAATTT
24827075 TACTAACAATTAATACA---
1 TACTAACAATTAATA-ATTT
*
24827092 -ATTAACAATTAATAATTT
1 TACTAACAATTAATAATTT
24827110 TACTAACAA
1 TACTAACAA
24827119 AATGTTAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
15 1 0.02
16 13 0.27
18 15 0.31
19 18 0.38
20 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (19 bp):
TACTAACAATTAATAATTT
Found at i:24827141 original size:112 final size:111
Alignment explanation
Indices: 24826939--24827183 Score: 391
Period size: 112 Copynumber: 2.2 Consensus size: 111
24826929 ACCCTAACCC
* *
24826939 TAATCTGATATAATTTCATAATTTTACTAACAATTAATACAATTAACAATGAATAATTTGACTAA
1 TAATTTGATATAATTTAATAATTTTACTAACAATTAATACAATTAACAATGAATAATTTGACTAA
* * *
24827004 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACAAAAAAAT-A
* *
24827051 TAATTTGATATAATTTAATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTAATAATTTTACTAACAATTAATACAATTAACAATGAATAATTTGACTAA
*
24827116 CAAAATGTTAGATTTTACAAAATGTTTTGATTGGTACAAAAAAATA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACAAAAAAATA
*
24827162 TAATTTGATAAAATTTTAATAA
1 TAATTTGATATAA-TTTAATAA
24827184 CAATTAGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
111 13 0.11
112 110 0.89
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (111 bp):
TAATTTGATATAATTTAATAATTTTACTAACAATTAATACAATTAACAATGAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACAAAAAAATA
Found at i:24827198 original size:22 final size:23
Alignment explanation
Indices: 24827155--24827219 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
24827145 ATTGGTACAA
24827155 AAAAATATAATTTGATAAAATTTTAAT
1 AAAAATATAATTT--T--AATTTTAAT
* *
24827182 AACAAT-TAGTTTTAATTTTAAT
1 AAAAATATAATTTTAATTTTAAT
24827204 AAAAATATAATTTTAA
1 AAAAATATAATTTTAA
24827220 ATACCCAGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 14 0.42
23 8 0.24
24 1 0.03
26 5 0.15
27 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
AAAAATATAATTTTAATTTTAAT
Found at i:24827685 original size:36 final size:36
Alignment explanation
Indices: 24827645--24827713 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
24827635 AAATAAATAC
*
24827645 ATATTCTTTATTTTTTAATTTTAAAAT-ATTTTTAAA
1 ATATTCTTTATTTTTT-ATTTAAAAATAATTTTTAAA
*
24827681 ATATTTTTTATTTTTTATTTAAAAATAATTTTT
1 ATATTCTTTATTTTTTATTTAAAAATAATTTTT
24827714 CTTGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (36 bp):
ATATTCTTTATTTTTTATTTAAAAATAATTTTTAAA
Found at i:24827690 original size:12 final size:11
Alignment explanation
Indices: 24827663--24827688 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24827653 TATTTTTTAA
24827663 TTTTAAAATAT
1 TTTTAAAATAT
24827674 TTTTAAAATAT
1 TTTTAAAATAT
24827685 TTTT
1 TTTT
24827689 TATTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24827727 original size:25 final size:24
Alignment explanation
Indices: 24827678--24827731 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
24827668 AAATATTTTT
*
24827678 AAAATATTTTTTATTTTTTATTTA
1 AAAATAATTTTTATTTTTTATTTA
* *
24827702 AAAATAATTTTTCTTGTGTTTATTAA
1 AAAATAATTTTTATT-T-TTTATTTA
24827728 AAAA
1 AAAA
24827732 GGGGTCGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.52
25 1 0.04
26 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
AAAATAATTTTTATTTTTTATTTA
Found at i:24834057 original size:55 final size:53
Alignment explanation
Indices: 24833968--24834077 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 53
24833958 ACTTCACCTG
* *
24833968 AAGAAGGAGAAGGGACCAACGTGAAAACCCGCAAAGGGCGCTTTGAGTTTCAAAA
1 AAGAAGAAGAAGGGACCAACGTGAAAACCCGCAAAGAGCGCTTTGAG--TCAAAA
* * * * *
24834023 AAGAAGAAGAGGGGATCAAGGTGAAAACCTGCAAATAGCGCTTTGAGTCAAAA
1 AAGAAGAAGAAGGGACCAACGTGAAAACCCGCAAAGAGCGCTTTGAGTCAAAA
24834076 AA
1 AA
24834078 ATGATGAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 8 0.17
55 40 0.83
ACGTcount: A:0.43, C:0.15, G:0.28, T:0.14
Consensus pattern (53 bp):
AAGAAGAAGAAGGGACCAACGTGAAAACCCGCAAAGAGCGCTTTGAGTCAAAA
Found at i:24835426 original size:44 final size:43
Alignment explanation
Indices: 24835377--24835520 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 43
24835367 GATAGCAGAT
*
24835377 CTTGCCTTCCTGCATCGACAGAGAAGCAGATTGAAGACACCAGC
1 CTTGCCTTCCT-CATCGACAGTGAAGCAGATTGAAGACACCAGC
* * * * * * * * * *
24835421 CTTGCCTCCCTCGGTTG-CAGTGGATCCGGTTGAAGATAGCAGAT
1 CTTGCCTTCCTC-ATCGACAGTGAAGCAGATTGAAGACACCAG-C
* *
24835465 CTTGCCTTCCTACACCGACAGTGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCT-CATCGACAGTGAAGCAGATTGAAGACACCAGC
24835509 CTTGCCTTCCTC
1 CTTGCCTTCCTC
24835521 GGTTACAGTG
Statistics
Matches: 73, Mismatches: 23, Indels: 9
0.70 0.22 0.09
Matches are distributed among these distances:
43 20 0.27
44 34 0.47
45 19 0.26
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (43 bp):
CTTGCCTTCCTCATCGACAGTGAAGCAGATTGAAGACACCAGC
Found at i:24835512 original size:88 final size:88
Alignment explanation
Indices: 24835363--24835609 Score: 343
Period size: 88 Copynumber: 2.8 Consensus size: 88
24835353 AACAGATCAG
* *
24835363 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGAGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGAGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
24835428 CCCTCGGTTGCAGTGGATCCGGT
66 CCCTCGGTTACAGTGGAACAGGT
* * *
24835451 TGAAGATAGCAGATCTTGCCTTCCTACACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGAGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
24835516 TCCTCGGTTACAGTGGAACATGT
66 CCCTCGGTTACAGTGGAACAGGT
* * *
24835539 TGAAGATAGCAGATCTTGCCCCTTCTTGCAATGACA-ACGAAGCAGATCGAAGATACCAGCCTTG
1 TGAAGATAGCAGATCTTG--CCTTCCTGCAACGACAGA-GAAGCAGATCGAAGACACCAGCCTTG
24835603 CCTCCCT
63 CCTCCCT
24835610 GACCAGCAGT
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
88 97 0.69
90 43 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGAGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTACAGTGGAACAGGT
Found at i:24835557 original size:44 final size:43
Alignment explanation
Indices: 24835363--24835558 Score: 114
Period size: 44 Copynumber: 4.5 Consensus size: 43
24835353 AACAGATCAG
* * *
24835363 TGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAG-AGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTCG-GT-TACAGTGGAA-CAG-T
* * * * * * *
24835408 TGAAGACACCAG-CCTTGCCTCCCTCGGTTGCAGTGGATCCGGT
1 TGAAGATAGCAGATCTTGCCTTCCTCGGTTACAGTGGA-ACAGT
****
24835451 TGAAGATAGCAGATCTTGCCTTCCTACACCGACAGT-GAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCT-CGGTTACAGTGGAA-CAG-T
* * * *
24835496 CGAAGACACCAG-CCTTGCCTTCCTCGGTTACAGTGGAACATGT
1 TGAAGATAGCAGATCTTGCCTTCCTCGGTTACAGTGGAACA-GT
24835539 TGAAGATAGCAGATCTTGCC
1 TGAAGATAGCAGATCTTGCC
24835559 CCTTCTTGCA
Statistics
Matches: 108, Mismatches: 33, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
43 32 0.30
44 50 0.46
45 26 0.24
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (43 bp):
TGAAGATAGCAGATCTTGCCTTCCTCGGTTACAGTGGAACAGT
Found at i:24835653 original size:44 final size:44
Alignment explanation
Indices: 24835604--24836067 Score: 617
Period size: 44 Copynumber: 10.6 Consensus size: 44
24835594 CCAGCCTTGC
* *
24835604 CTCCCTGACCAGCAGTGGAATAGGCTGAAGATTGTAAGTCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * *
24835648 CTCCCTGACCAGTAGTGGAATAGGCTGAAGATTGTAAGTCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * *
24835692 CTCCCTGACCAGCAGTGAAATAGGTTGAAGATTGCAAGTCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * *
24835736 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGCCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * * *
24835780 CTTCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGTCTTAG
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * * *
24835824 CTCCCTGAACAACAGTGGAATAGGTCGAAGATGGTAAGCCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * *
24835868 CTCCCT-AACAGCAGTGGAATAGATCGAAGATTGTAAGTCCTAA
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* *
24835911 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATGGTAAGCCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* *
24835955 CTCCCTGAACAACAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
* * *
24835999 CTCCCTGACCAGCAGTGGAATAGTTTGAAGATTGT-AGACCTTAT
1 CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC-TAT
* * *
24836043 CTCCCTGAGCAGTAGTGGAGTAGGT
1 CTCCCTGAACAGCAGTGGAATAGGT
24836068 CAAAAATTAC
Statistics
Matches: 375, Mismatches: 43, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
43 42 0.11
44 333 0.89
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
CTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
Found at i:24836090 original size:219 final size:220
Alignment explanation
Indices: 24835643--24836117 Score: 596
Period size: 219 Copynumber: 2.2 Consensus size: 220
24835633 GATTGTAAGT
* * * * *
24835643 CCTATCTCCCTGACCAGTAGTGGAATAG-GCTGAAGATTGTAAGTCCTATCTCCCTGACCAGCAG
1 CCTATCTCCCTAAACAGTAGTGGAATAGATC-GAAGATTGTAAGTCCTAACTCCCTGAACAGCAG
* * * * *
24835707 TGAAATAGGTTGAAGATTGCAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCA
65 TGAAATAGGTTGAAGATGGCAAGCCCTATCTCCCTGAACAACAGTGGAATAGGTCGAAGATTGCA
* *
24835772 AGCCCTATCTTCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGTCTTAGCTCCCTGAACAAC
130 AGCCCTATCTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGCCTTAGCTCCCTGAACAAC
* * ** *
24835837 AGTGGAATAGGTCGAAGATGGTAAGC
195 AGTGGAATAGGTCAAAAATGACAAAC
*
24835863 CCTATCTCCCT-AACAGCAGTGGAATAGATCGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGT
1 CCTATCTCCCTAAACAGTAGTGGAATAGATCGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGT
* * *
24835927 GGAATAGGTTGAAGATGGTAAGCCCTATCTCCCTGAACAACAGTGGAATAGGTCGAAGATTGTAA
66 GAAATAGGTTGAAGATGGCAAGCCCTATCTCCCTGAACAACAGTGGAATAGGTCGAAGATTGCAA
* * * * * * **
24835992 GTCCTATCTCCCTGACCAGCAGTGGAATAGTTTGAAGATTGT-AGACCTTATCTCCCTGAGCAGT
131 GCCCTATCTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAG-CCTTAGCTCCCTGAACAAC
* * *
24836056 AGTGGAGTAGGTCAAAAATTACAAAT
195 AGTGGAATAGGTCAAAAATGACAAAC
* **
24836082 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
1 CCTATCTCCCTAAACAGTAGTGGAATAGATCGAAGA
24836118 CAGCGAATCT
Statistics
Matches: 217, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
218 2 0.01
219 182 0.84
220 33 0.15
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (220 bp):
CCTATCTCCCTAAACAGTAGTGGAATAGATCGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGT
GAAATAGGTTGAAGATGGCAAGCCCTATCTCCCTGAACAACAGTGGAATAGGTCGAAGATTGCAA
GCCCTATCTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGCCTTAGCTCCCTGAACAACA
GTGGAATAGGTCAAAAATGACAAAC
Found at i:24836117 original size:263 final size:264
Alignment explanation
Indices: 24835604--24836117 Score: 701
Period size: 263 Copynumber: 2.0 Consensus size: 264
24835594 CCAGCCTTGC
* * * *
24835604 CTCCCTGACCAGCAGTGGAATAGGCTGAAGATTGTAAGTCCTATCTCCCTGACCAGTAGTGGAAT
1 CTCCCTGAACAGCAGTGGAATAGGCTGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGTGGAAT
* * * * *
24835669 AGGCTGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTGCAAGTCCT
66 AGGCTGAAGATGGTAAGCCCTATCTCCCTGAACAACAGTGAAATAGGTCGAAGATTGCAAGTCCT
*
24835734 ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGCCCTATCTTCCTGAACAGCAGTGGA
131 ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGCCCTATCTCCCTGAACAGCAGTGGA
* * ** * * * *
24835799 ATAGGTCGAAGATTGTAAGTCTTAGCTCCCTGAACAACAGTGGAATAGGTCGAAGATGGTAAGCC
196 ATAGGTCAAAAATTACAAATCTTAGCTCCCTAAACAACAGTGGAACAGATCGAAGATGGTAAGCC
24835864 CTAT
261 CTAT
*
24835868 CTCCCT-AACAGCAGTGGAATA-GATCGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGTGGAA
1 CTCCCTGAACAGCAGTGGAATAGGCT-GAAGATTGTAAGTCCTAACTCCCTGAACAGCAGTGGAA
* * *
24835931 TAGGTTGAAGATGGTAAGCCCTATCTCCCTGAACAACAGTGGAATAGGTCGAAGATTGTAAGTCC
65 TAGGCTGAAGATGGTAAGCCCTATCTCCCTGAACAACAGTGAAATAGGTCGAAGATTGCAAGTCC
* * * * *
24835996 TATCTCCCTGACCAGCAGTGGAATAGTTTGAAGATTG-TAGACCTTATCTCCCTGAGCAGTAGTG
130 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAG-CCCTATCTCCCTGAACAGCAGTG
* * ** *
24836060 GAGTAGGTCAAAAATTACAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
194 GAATAGGTCAAAAATTACAAATCTTAGCTCCCTAAACAACAGTGGAACAGATCGAAGA
24836118 CAGCGAATCT
Statistics
Matches: 216, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
262 4 0.02
263 206 0.95
264 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (264 bp):
CTCCCTGAACAGCAGTGGAATAGGCTGAAGATTGTAAGTCCTAACTCCCTGAACAGCAGTGGAAT
AGGCTGAAGATGGTAAGCCCTATCTCCCTGAACAACAGTGAAATAGGTCGAAGATTGCAAGTCCT
ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGCCCTATCTCCCTGAACAGCAGTGGA
ATAGGTCAAAAATTACAAATCTTAGCTCCCTAAACAACAGTGGAACAGATCGAAGATGGTAAGCC
CTAT
Found at i:24847618 original size:16 final size:18
Alignment explanation
Indices: 24847583--24847620 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24847573 ATCCTTATTT
*
24847583 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
24847601 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
24847617 AAAT
1 AAAT
24847621 CTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:24848048 original size:15 final size:17
Alignment explanation
Indices: 24848028--24848059 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24848018 CAAAGGAAAA
24848028 AAAAT-ATT-TTTTTAT
1 AAAATAATTGTTTTTAT
24848043 AAAATAATTGTTTTTAT
1 AAAATAATTGTTTTTAT
24848060 TAATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AAAATAATTGTTTTTAT
Found at i:24848470 original size:3 final size:3
Alignment explanation
Indices: 24848462--24848495 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24848452 AGCCACGTAT
24848462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24848496 AATTGATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24852799 original size:20 final size:20
Alignment explanation
Indices: 24852761--24852799 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24852751 TAACATTATA
* *
24852761 AAAATAAATGATATCAAATT
1 AAAATAAAAGAAATCAAATT
*
24852781 AAAATAAAAGAAATTAAAT
1 AAAATAAAAGAAATCAAAT
24852800 ATCAAATTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAATAAAAGAAATCAAATT
Found at i:24859003 original size:3 final size:3
Alignment explanation
Indices: 24858995--24859020 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24858985 AGAACCATGA
24858995 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
24859021 ATGATGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:24859028 original size:9 final size:9
Alignment explanation
Indices: 24858992--24859034 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
24858982 ACCAGAACCA
24858992 TGATGGTGG
1 TGATGGTGG
*
24859001 TGGTGGTGG
1 TGATGGTGG
*
24859010 TGGTGGTGG
1 TGATGGTGG
*
24859019 TGATGATGG
1 TGATGGTGG
*
24859028 TCATGGT
1 TGATGGT
24859035 CATGGTCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.09, C:0.02, G:0.53, T:0.35
Consensus pattern (9 bp):
TGATGGTGG
Found at i:24859632 original size:6 final size:6
Alignment explanation
Indices: 24859621--24859687 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 6
24859611 TATTTCTCCC
* * *
24859621 TATTTT TATTTT TATTTT CATTTT CATTTAT ATAAATTCT TATTTT TATTATT
1 TATTTT TATTTT TATTTT TATTTT TATTT-T -T--ATTTT TATTTT TATT-TT
24859674 TATTATT TATTTT T
1 TATT-TT TATTTT T
24859688 GTAAAATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
6 33 0.63
7 14 0.27
8 1 0.02
9 1 0.02
10 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:24860855 original size:15 final size:15
Alignment explanation
Indices: 24860835--24860866 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24860825 CATTTCACTA
*
24860835 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
24860850 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
24860865 TT
1 TT
24860867 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:24862999 original size:23 final size:23
Alignment explanation
Indices: 24862972--24863070 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
24862962 AGTGTTATTG
*
24862972 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24862995 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24863018 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24863041 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24863064 ATCAGTG
1 ATCAGTG
24863071 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24870401 original size:23 final size:23
Alignment explanation
Indices: 24870374--24870472 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
24870364 AGTGTTATTG
*
24870374 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24870397 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24870420 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24870443 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24870466 ATCAGTG
1 ATCAGTG
24870473 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24872811 original size:12 final size:12
Alignment explanation
Indices: 24872783--24872815 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24872773 AGCTCATCAA
24872783 ATATACA-ATAG
1 ATATACATATAG
*
24872794 ATATACATATAT
1 ATATACATATAG
24872806 ATATACATAT
1 ATATACATAT
24872816 TCTAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:24872844 original size:114 final size:116
Alignment explanation
Indices: 24872715--24872996 Score: 473
Period size: 114 Copynumber: 2.4 Consensus size: 116
24872705 AACCTCACAC
24872715 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
*
24872780 CAAATATACAATAGATATAC-ATATATATAT-ACATATTCTAACTTCATTT
66 CAAATATACAATAGATATACAATATATATATAACATATTCGAACTTCATTT
* *
24872829 ATGTGTATATATATAACATTTATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
24872894 CAAATATACAATAGATATACATATATATATATACACATATTCGAACTTCATTT
66 CAAATATACAATAGATATACA-ATATATATATA-ACATATTCGAACTTCATTT
* *
24872947 A--TGCATATATATATCATTCATACTTAACTAATTTCAATTCGTATACTTTT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTT
24872997 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
114 83 0.53
116 55 0.35
118 19 0.12
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (116 bp):
ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
CAAATATACAATAGATATACAATATATATATAACATATTCGAACTTCATTT
Found at i:24874795 original size:15 final size:15
Alignment explanation
Indices: 24874771--24874800 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24874761 ATTAATTTTG
24874771 ATCAAGTAAAATTAA
1 ATCAAGTAAAATTAA
*
24874786 ATCAATTAAAATTAA
1 ATCAAGTAAAATTAA
24874801 TATGATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
ATCAAGTAAAATTAA
Found at i:24875315 original size:51 final size:48
Alignment explanation
Indices: 24875203--24875315 Score: 106
Period size: 48 Copynumber: 2.3 Consensus size: 48
24875193 CAGATTAATT
* * * *
24875203 ATATCAAAATTAATATTATTTTAATAGTTTAATATTAAATTTAGTTTA
1 ATATTAAATTTAATAATATTTTAATAATTTAATATTAAATTTAGTTTA
*
24875251 ATACTT--ATCTTAATAATATTTTATTAATTTAATATTAAAGTGATTA-TCTTA
1 ATA-TTAAAT-TTAATAATATTTTAATAATTTAATATTAAA-T--TTAGT-TTA
24875302 ATATTAAATTTAAT
1 ATATTAAATTTAAT
24875316 TTAATGTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
47 1 0.02
48 30 0.58
49 2 0.04
50 3 0.06
51 14 0.27
52 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (48 bp):
ATATTAAATTTAATAATATTTTAATAATTTAATATTAAATTTAGTTTA
Found at i:24882572 original size:17 final size:17
Alignment explanation
Indices: 24882545--24882667 Score: 68
Period size: 17 Copynumber: 6.7 Consensus size: 17
24882535 CCGATATAAT
* *
24882545 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
*
24882562 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
24882579 AAATATTTTTAAAATACTTTTT
1 AAATATTTTT---A-A-TTTTA
* *
24882601 TATTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
24882619 AAATATTTTTAAAATATTT-
1 AAATATTTTT--AAT-TTTA
***
24882638 TTTTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
24882656 AAATATTTTTAA
1 AAATATTTTTAA
24882668 AATACTTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
17 38 0.48
18 12 0.15
19 6 0.08
20 10 0.13
21 1 0.01
22 7 0.09
23 5 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:24882588 original size:11 final size:11
Alignment explanation
Indices: 24882574--24882639 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
24882564 ATTTTTTTAA
24882574 TTTTAAAATAT
1 TTTTAAAATAT
24882585 TTTTAAAATACT
1 TTTTAAAATA-T
* *
24882597 TTTT-TATTAT
1 TTTTAAAATAT
*
24882607 TTTT----TAA
1 TTTTAAAATAT
24882614 TTTTAAAATAT
1 TTTTAAAATAT
24882625 TTTTAAAATAT
1 TTTTAAAATAT
24882636 TTTT
1 TTTT
24882640 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
7 6 0.13
10 5 0.11
11 30 0.65
12 5 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24882617 original size:29 final size:29
Alignment explanation
Indices: 24882585--24882646 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
24882575 TTTAAAATAT
* *
24882585 TTTTAAAATACTTTTT-TATTATTTTTTAA
1 TTTTAAAATA-TTTTTAAAATATTTTTTAA
*
24882614 TTTTAAAATATTTTTAAAATATTTTTTTA
1 TTTTAAAATATTTTTAAAATATTTTTTAA
24882643 TTTT
1 TTTT
24882647 TTAATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAAATATTTTTTAA
Found at i:24882653 original size:37 final size:38
Alignment explanation
Indices: 24882566--24882688 Score: 212
Period size: 37 Copynumber: 3.2 Consensus size: 38
24882556 TTTTTAAAAT
24882566 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATTA
1 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTT-TTA
24882606 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
24882643 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
24882681 ATTTTTAA
1 TTTTTTAA
24882689 AATAAAATTT
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
37 32 0.40
38 20 0.25
40 29 0.36
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:24882699 original size:21 final size:21
Alignment explanation
Indices: 24882660--24882699 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24882650 ATTTTAAAAT
***
24882660 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
24882681 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
24882700 AGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:24887268 original size:28 final size:29
Alignment explanation
Indices: 24887201--24887269 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
24887191 ATTTAAATCA
** * **
24887201 GCCTATTTCCCTAATTAATTTTAAAATTG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
**
24887230 GCCTAAAGGCCTAATTAA-TTAAAAAAAG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
24887258 GCCTATTGGCCT
1 GCCTATTGGCCT
24887270 TATTTTGCCA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (29 bp):
GCCTATTGGCCTAATTAATTTAAAAAAAG
Found at i:24890630 original size:27 final size:27
Alignment explanation
Indices: 24890600--24890763 Score: 213
Period size: 27 Copynumber: 6.1 Consensus size: 27
24890590 AGGCTATCCC
* * *
24890600 TTCATATTTCACCATAAAGGTTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* *
24890627 TTCATATTTCGCCAGAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
24890654 TTCATGA-TTCGCCACAAAGGCTTTTCT
1 TTCAT-ATTTCGCCACAAAGGCTTTTCT
*
24890681 TTCATGTTTCGCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* * *
24890708 TTTATATTTCGCCAGAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
**
24890735 TTCATATTTTTCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
24890762 TT
1 TT
24890764 TATGACATGT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
27 118 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (27 bp):
TTCATATTTCGCCACAAAGGCTTTTCT
Found at i:24890757 original size:81 final size:81
Alignment explanation
Indices: 24890600--24890763 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
24890590 AGGCTATCCC
* *
24890600 TTCATATTTCACCATAAAGGTTTTTCTTTCATATTTCGCCAGAAAGACTTTTCTTTCATGATTCG
1 TTCATATTTCACCACAAAGGCTTTTCTTTCATATTTCGCCAGAAAGACTTTTCTTTCATGATTCG
24890665 CCACAAAGGCTTTTCT
66 CCACAAAGGCTTTTCT
* * * *
24890681 TTCATGTTTCGCCACAAAGGCTTTTCTTTTATATTTCGCCAGAAAGACTTTTCTTTCAT-ATTTT
1 TTCATATTTCACCACAAAGGCTTTTCTTTCATATTTCGCCAGAAAGACTTTTCTTTCATGA-TTC
*
24890745 TCCACAAAGGCTTTTCT
65 GCCACAAAGGCTTTTCT
24890762 TT
1 TT
24890764 TATGACATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 74 0.99
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (81 bp):
TTCATATTTCACCACAAAGGCTTTTCTTTCATATTTCGCCAGAAAGACTTTTCTTTCATGATTCG
CCACAAAGGCTTTTCT
Found at i:24893034 original size:41 final size:41
Alignment explanation
Indices: 24892989--24893108 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 41
24892979 AATTGAGTTG
* * *
24892989 TTATGGCGGTGTATTGTATTGGGCCTTGGGCCTAGCAGGCT
1 TTATGGCGGTGTATTATATCGGGCCTTGAGCCTAGCAGGCT
** * *
24893030 TTATGTTGGTGTATTATATCGGGCCTTGAGCCTAGCAAGCC
1 TTATGGCGGTGTATTATATCGGGCCTTGAGCCTAGCAGGCT
** * * *
24893071 TCGTGTCGGTG-ACT-TATCGGGCTTTGAGCCTAGCAGGC
1 TTATGGCGGTGTATTATATCGGGCCTTGAGCCTAGCAGGC
24893109 CTCGGCCGGT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 22 0.33
40 2 0.03
41 42 0.64
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (41 bp):
TTATGGCGGTGTATTATATCGGGCCTTGAGCCTAGCAGGCT
Found at i:24893142 original size:37 final size:38
Alignment explanation
Indices: 24893046--24893154 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 38
24893036 TGGTGTATTA
* *
24893046 TATCGGGCCTTGAGCCTAGCAAGCCTCGTGTCGGTGACT
1 TATCGGG-CTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
*
24893085 TATCGGGCTTTGAGCCTAGCAGGCCTCG-GCCGGTG-TT
1 TATCGGGC-TTGAGCCTAGCAGGCCTCGTGCCGGTGACT
* *
24893122 TATCGGGCTTGATGCTTAGCAGGCTTCGTGCCG
1 TATCGGGCTTGA-GCCTAGCAGGCCTCGTGCCG
24893155 CTTTAACAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.06
37 22 0.35
38 11 0.18
39 25 0.40
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.28
Consensus pattern (38 bp):
TATCGGGCTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
Found at i:24893848 original size:54 final size:54
Alignment explanation
Indices: 24893749--24893852 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
24893739 ATTAAGTTGA
* * **
24893749 ACACGGTCTAGCACACGGCCTACGATACGACCGTGTGAGGGTATTTTGAATGTT
1 ACACGGGCTAGCACACGGCCTACGATACGACCATGTGAAAGTATTTTGAATGTT
* ** * *
24893803 ACACGGGCTAGCACACGGTCTGTGATACGATCATGTGAAATTATTTTGAA
1 ACACGGGCTAGCACACGGCCTACGATACGACCATGTGAAAGTATTTTGAA
24893853 GGGTACATGG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (54 bp):
ACACGGGCTAGCACACGGCCTACGATACGACCATGTGAAAGTATTTTGAATGTT
Found at i:24912765 original size:54 final size:54
Alignment explanation
Indices: 24912706--24912828 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
24912696 TGCCTTCACC
****
24912706 CGTGTAACTCACTGAGTAGGGTCACACGACCGTGTAG-CAGGACT-TGTGCCAGGT
1 CGTGTAACTCACTGAGTAGCCAAACACGACCGTGT-GCCAGG-CTGTGTGCCAGGT
* * * *
24912760 TGTGTAACTCTCTGAGTTGCCAAACACGACCGTGTGCCAGGCTGTGTGCTAGGT
1 CGTGTAACTCACTGAGTAGCCAAACACGACCGTGTGCCAGGCTGTGTGCCAGGT
24912814 CGTGTAACTCACTGA
1 CGTGTAACTCACTGA
24912829 CTTGAAACAC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 3 0.05
54 54 0.95
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (54 bp):
CGTGTAACTCACTGAGTAGCCAAACACGACCGTGTGCCAGGCTGTGTGCCAGGT
Found at i:24916425 original size:36 final size:32
Alignment explanation
Indices: 24916358--24916422 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
24916348 ATATATTAAG
24916358 CCATCAACGAAGTAGAATTAATTACTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
*
24916390 CCATCAACGAAGTAGAATTAATTATTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
24916422 C
1 C
24916423 TTTTTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (32 bp):
CCATCAACGAAGTAGAATTAATTACTCTCTTT
Found at i:24921469 original size:29 final size:29
Alignment explanation
Indices: 24921427--24921484 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24921417 CACTTATCTA
24921427 ATCTTATAGTTACAATTAAACTAATTTAG
1 ATCTTATAGTTACAATTAAACTAATTTAG
24921456 ATCTTATAGTTACAATTAAACTAATTTAG
1 ATCTTATAGTTACAATTAAACTAATTTAG
24921485 GTGAACCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (29 bp):
ATCTTATAGTTACAATTAAACTAATTTAG
Found at i:24923397 original size:68 final size:66
Alignment explanation
Indices: 24923268--24923406 Score: 199
Period size: 68 Copynumber: 2.1 Consensus size: 66
24923258 GGCGCTATCC
* * * *
24923268 AAAAAGCGCTGCTAATGCTTGACTTTTGCGGCATTTCTAGAAAGCTCCACTAATGTCTCTAAAGC
1 AAAAAGCACCGCTAATACTTGACTTTTGCGGCATTTCTAAAAAGCTCCACTAATGTCTCTAAAGC
24923333 T
66 T
*
24923334 CAAAAGCACCGCTAATACTTGACTTTTTGCGGCATTTTCTAAAAAG-TGCCACTAATGTCTCTAA
1 AAAAAGCACCGCTAATACTTGAC-TTTTGCGGCA-TTTCTAAAAAGCT-CCACTAATGTCTCTAA
24923398 AGCT
63 AGCT
24923402 AAAAA
1 AAAAA
24923407 CAAACCGAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
66 19 0.30
67 11 0.17
68 34 0.53
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (66 bp):
AAAAAGCACCGCTAATACTTGACTTTTGCGGCATTTCTAAAAAGCTCCACTAATGTCTCTAAAGC
T
Found at i:24924014 original size:13 final size:13
Alignment explanation
Indices: 24923996--24924028 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
24923986 TTCTTCATTA
24923996 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
24924009 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
24924022 CTTTTGA
1 CTTTTGA
24924029 AAAATTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:24929332 original size:63 final size:63
Alignment explanation
Indices: 24929258--24929384 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
24929248 AAACCATATA
*
24929258 TATATTTAATAAGTAATTGAAATTAAAAAATTTTAAGCATAGTATTAATTAATAAATTGAAAT
1 TATATTTAATAAGTAATTGAAATTAAAAAATTTTAAGCATAGTATTAATTAATAAATAGAAAT
24929321 TATATTTAATAAGTAATTGAAATTAAAAAATTTTAAGCATAGTATTAATTAATAAATAGAAAT
1 TATATTTAATAAGTAATTGAAATTAAAAAATTTTAAGCATAGTATTAATTAATAAATAGAAAT
24929384 T
1 T
24929385 CTTTTATTAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (63 bp):
TATATTTAATAAGTAATTGAAATTAAAAAATTTTAAGCATAGTATTAATTAATAAATAGAAAT
Found at i:24932707 original size:13 final size:12
Alignment explanation
Indices: 24932691--24932753 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
24932681 TTTAAATCAA
24932691 ACTTTTCAAAATC
1 ACTTTTCAAAA-C
24932704 ACTTCTT-AAAAGC
1 ACTT-TTCAAAA-C
*
24932717 ACTTTTCCACAAC
1 ACTTTT-CAAAAC
*
24932730 ACTTTTCCACAAC
1 ACTTTT-CAAAAC
24932743 ACTTTTCAAAA
1 ACTTTTCAAAA
24932754 GTAATGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.14
13 33 0.75
14 5 0.11
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.33
Consensus pattern (12 bp):
ACTTTTCAAAAC
Found at i:24937326 original size:51 final size:51
Alignment explanation
Indices: 24937248--24937415 Score: 273
Period size: 51 Copynumber: 3.3 Consensus size: 51
24937238 ACTTCTGATC
* *
24937248 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
24937299 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCGGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* **
24937350 AGTGACAAGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAGAAACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
24937401 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
24937416 ATGTGATCCG
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:24940367 original size:16 final size:17
Alignment explanation
Indices: 24940338--24940372 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24940328 AGCATATTTG
24940338 ATAAAAATAATTTAATC
1 ATAAAAATAATTTAATC
*
24940355 ATAAAAA-ATTTTAATC
1 ATAAAAATAATTTAATC
24940371 AT
1 AT
24940373 CCAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAAATAATTTAATC
Found at i:24949486 original size:25 final size:25
Alignment explanation
Indices: 24949452--24949502 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24949442 TAGGAACATC
24949452 ACTCAAAGTAAAGAGCATCGTCCTA
1 ACTCAAAGTAAAGAGCATCGTCCTA
24949477 ACTCAAAGTAAAGAGCATCGTCCTA
1 ACTCAAAGTAAAGAGCATCGTCCTA
24949502 A
1 A
24949503 GGTGATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (25 bp):
ACTCAAAGTAAAGAGCATCGTCCTA
Found at i:24952863 original size:3 final size:3
Alignment explanation
Indices: 24952771--24952847 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
24952761 ATTGATATCT
24952771 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24952819 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24952848 CAGAGACTGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24954667 original size:15 final size:16
Alignment explanation
Indices: 24954647--24954677 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24954637 ACAAAAAGAA
24954647 ATAGAAA-GAAACAGG
1 ATAGAAACGAAACAGG
24954662 ATAGAAACGAAACAGG
1 ATAGAAACGAAACAGG
24954678 GAGAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.10, G:0.26, T:0.06
Consensus pattern (16 bp):
ATAGAAACGAAACAGG
Found at i:24954710 original size:13 final size:15
Alignment explanation
Indices: 24954682--24954722 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
24954672 AACAGGGAGA
*
24954682 AAAAGAAAGA-AAAG
1 AAAAGAAGGAGAAAG
24954696 AAAA-AAGG-GAAAG
1 AAAAGAAGGAGAAAG
24954709 AAAAGAAGGAGAAA
1 AAAAGAAGGAGAAA
24954723 TTAGGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 11 0.48
14 8 0.35
15 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAGAAGGAGAAAG
Found at i:24956139 original size:19 final size:19
Alignment explanation
Indices: 24956117--24956158 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
24956107 AAAAAGTTAT
*
24956117 TAAATATATAGATAAATAA
1 TAAATATATAGATAAAAAA
*
24956136 TAAATATATATATAAAAAA
1 TAAATATATAGATAAAAAA
24956155 TAAA
1 TAAA
24956159 ATCGAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAATATATAGATAAAAAA
Found at i:24956250 original size:14 final size:14
Alignment explanation
Indices: 24956231--24956272 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24956221 CCTACCATTA
24956231 TTATATTAAATATG
1 TTATATTAAATATG
*
24956245 TTATATTTATATAT-
1 TTATA-TTAAATATG
*
24956259 TTATATTAAGTATG
1 TTATATTAAATATG
24956273 GCATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATATTAAATATG
Found at i:24956687 original size:11 final size:11
Alignment explanation
Indices: 24956673--24956737 Score: 73
Period size: 11 Copynumber: 6.2 Consensus size: 11
24956663 TATTTTCTTT
24956673 ATATATTATT-
1 ATATATTATTA
*
24956683 A-ATATTATTT
1 ATATATTATTA
24956693 ATATATTATTA
1 ATATATTATTA
* *
24956704 AAATATTATTT
1 ATATATTATTA
24956715 ATATATTATTA
1 ATATATTATTA
*
24956726 ATAGATT-TTA
1 ATATATTATTA
24956736 AT
1 AT
24956738 TTATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 8 0.17
10 7 0.15
11 32 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
ATATATTATTA
Found at i:24956713 original size:25 final size:22
Alignment explanation
Indices: 24956670--24956763 Score: 104
Period size: 22 Copynumber: 4.2 Consensus size: 22
24956660 GCATATTTTC
24956670 TTTATATATTATT--AATATTA
1 TTTATATATTATTAAAATATTA
24956690 TTTATATATTATTAAAATATTA
1 TTTATATATTATTAAAATATTA
*
24956712 TTTATATATTATTAATAGATTTTAA
1 TTTATATATTATTAA-A-ATATT-A
*
24956737 TTTATATA-TATTTAAATTATATA
1 TTTATATATTA-TTAAAATAT-TA
24956760 TTTA
1 TTTA
24956764 AATGATAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
20 13 0.20
22 22 0.34
23 8 0.12
24 8 0.12
25 13 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TTTATATATTATTAAAATATTA
Found at i:24956759 original size:13 final size:13
Alignment explanation
Indices: 24956741--24956766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24956731 TTTTAATTTA
24956741 TATATATTTAAAT
1 TATATATTTAAAT
24956754 TATATATTTAAAT
1 TATATATTTAAAT
24956767 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:24958350 original size:40 final size:40
Alignment explanation
Indices: 24958301--24958408 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
24958291 GGTGTTACAA
* * *
24958301 TATAACTATTTCCATATAACAGATTCATATAACCATTCTG
1 TATATCTATTTCCATATAACTGATTCATATAACCATTCCG
* *
24958341 TATATCTATTTACTTATAACTGATTCATATAACCATTCCG
1 TATATCTATTTCCATATAACTGATTCATATAACCATTCCG
*
24958381 TATATCTATTTCCATATAGCTGATTCAT
1 TATATCTATTTCCATATAACTGATTCAT
24958409 TTATTCATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (40 bp):
TATATCTATTTCCATATAACTGATTCATATAACCATTCCG
Found at i:24961010 original size:12 final size:11
Alignment explanation
Indices: 24960993--24961023 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
24960983 TTTTATTTTT
24960993 TATTTTTAAAA
1 TATTTTTAAAA
24961004 TATTTTTAAAA
1 TATTTTTAAAA
24961015 TATTCTTTA
1 TATT-TTTA
24961024 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:24961025 original size:36 final size:37
Alignment explanation
Indices: 24960978--24961047 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
24960968 TAATAAATTT
*
24960978 ATATTTTTTATTTTTTATTTTTAAAATA-TTTTTAAA
1 ATATTCTTTATTTTTTATTTTTAAAATACTTTTTAAA
24961014 ATATTCTTTATTTTTTATTTTTAAAATACTTTTT
1 ATATTCTTTATTTTTTATTTTTAAAATACTTTTT
24961048 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (37 bp):
ATATTCTTTATTTTTTATTTTTAAAATACTTTTTAAA
Found at i:24961045 original size:23 final size:24
Alignment explanation
Indices: 24961004--24961053 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
24960994 ATTTTTAAAA
24961004 TATTTTTAAAATATTCTTTATTTTT
1 TATTTTTAAAATA-TCTTTATTTTT
*
24961029 TATTTTTAAAATA-CTTTTTTTTT
1 TATTTTTAAAATATCTTTATTTTT
24961052 TA
1 TA
24961054 AAAAATTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
25 13 0.54
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTTTAAAATATCTTTATTTTT
Found at i:24961658 original size:2 final size:2
Alignment explanation
Indices: 24961653--24961679 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24961643 ATTTTTTTGT
24961653 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
24961680 CACTACACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24962080 original size:40 final size:41
Alignment explanation
Indices: 24961913--24962207 Score: 217
Period size: 41 Copynumber: 7.2 Consensus size: 41
24961903 TTTACATAAT
* * * * *
24961913 CGCCGCTAATGCTGCGGTCTTTCGCGGCG-TTTTCAAATATG
1 CGCCGCTAATGCTACGGTCTTTAGCAGCGTTTTTTAAA-AAG
* * * * * *
24961954 CACCGCTAATGCTGA-GGTCTTTAGCGGCGATTCTGACAAAG
1 CGCCGCTAATGCT-ACGGTCTTTAGCAGCGTTTTTTAAAAAG
* * * * * * * *
24961995 TGCCGCGAAGGATACAGTCTTTAGCGGCATTTTTTACTAAA-
1 CGCCGCTAATGCTACGGTCTTTAGCAGCGTTTTTTA-AAAAG
* *
24962036 CGCCGCTAATGCT-CAGGTC-TTAGCAGCGATTGTTAAAAAG
1 CGCCGCTAATGCTAC-GGTCTTTAGCAGCGTTTTTTAAAAAG
**
24962076 CGCCGCTAATGCTACGGTCTTTAGCAGCGTTTTTTATGAAG
1 CGCCGCTAATGCTACGGTCTTTAGCAGCGTTTTTTAAAAAG
* **
24962117 CGTCG-TAAATGCTACGGTCTTTAGCAGCGTTTTTTACGAAG
1 CGCCGCT-AATGCTACGGTCTTTAGCAGCGTTTTTTAAAAAG
* * * *
24962158 TGCCGCTAATGCT-CAGGTATTTAGCGGCGTTTCTTAAAAAG
1 CGCCGCTAATGCTAC-GGTCTTTAGCAGCGTTTTTTAAAAAG
24962199 CGCCGCTAA
1 CGCCGCTAA
24962208 AAACAGCAGC
Statistics
Matches: 201, Mismatches: 42, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
39 3 0.01
40 33 0.16
41 156 0.78
42 9 0.04
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (41 bp):
CGCCGCTAATGCTACGGTCTTTAGCAGCGTTTTTTAAAAAG
Found at i:24962340 original size:33 final size:32
Alignment explanation
Indices: 24962297--24962368 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 32
24962287 TCATTCTTTG
*
24962297 ATATATTATAAGTTGAAAATTTTGTATTTATT
1 ATATATTATAAGTTGAAAAGTTTGTATTTATT
24962329 ATTATATTATAAGTTGAAAAGTTTGTATTTATT
1 A-TATATTATAAGTTGAAAAGTTTGTATTTATT
24962362 ATATATT
1 ATATATT
24962369 GGTAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 7 0.18
33 31 0.82
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATATATTATAAGTTGAAAAGTTTGTATTTATT
Found at i:24966419 original size:15 final size:15
Alignment explanation
Indices: 24966399--24966434 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
24966389 ACCACCAATT
*
24966399 TGTTTTCATTTGTAC
1 TGTTTTCATTTCTAC
24966414 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
24966429 T-TTTTC
1 TGTTTTC
24966435 CTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:24967104 original size:43 final size:42
Alignment explanation
Indices: 24967051--24967295 Score: 161
Period size: 43 Copynumber: 5.4 Consensus size: 42
24967041 ACATAATACG
* *
24967051 ACATAACTTATTAATATATTTATGGATAAATGATGCATAACTT
1 ACATAACTTATTAATATATTTAT-AATAAATGATACATAACTT
* * * *
24967094 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAA-TACG
1 ACATAACTTATTAAT--AT---ATTTATAATAAATGA--TACATAACT--T
** **
24967144 ACATAACTTATTAATATATACATTTTAAAATGATACATAACTT
1 ACATAACTTATTAATATATTTATAAT-AAATGATACATAACTT
* * *
24967187 ACATAACTTATTAATACATAACTTATATAATACATAACTTACATAA-TACG
1 ACATAACTTATTAAT--AT-A-TT-TATAATAAATGA--TACATAACT--T
*
24967237 ACATAACTTATTAATATATTTATGGATAAATGATACATAACTT
1 ACATAACTTATTAATATATTTAT-AATAAATGATACATAACTT
24967280 ACATAACTTATTAATA
1 ACATAACTTATTAATA
24967296 CATAACATTT
Statistics
Matches: 155, Mismatches: 25, Indels: 44
0.69 0.11 0.20
Matches are distributed among these distances:
43 46 0.30
44 14 0.09
45 13 0.08
46 13 0.08
47 12 0.08
48 14 0.09
49 13 0.08
50 30 0.19
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.38
Consensus pattern (42 bp):
ACATAACTTATTAATATATTTATAATAAATGATACATAACTT
Found at i:24967150 original size:93 final size:93
Alignment explanation
Indices: 24967040--24967335 Score: 506
Period size: 93 Copynumber: 3.2 Consensus size: 93
24967030 CCATTTATAA
*
24967040 TACATAATACGACATAACTTATTAATATATTTATGGATAAATGATGCATAACTTACATAACTTAT
1 TACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTAT
24967105 TAATACATAACATTTTTAATACATAACT
66 TAATACATAACATTTTTAATACATAACT
** **
24967133 TACATAATACGACATAACTTATTAATATATACAT-TTTAAAATGATACATAACTTACATAACTTA
1 TACATAATACGACATAACTTATTAATATATTTATGGAT-AAATGATACATAACTTACATAACTTA
*
24967197 TTAATACATAAC-TTATATAATACATAACT
65 TTAATACATAACATT-TTTAATACATAACT
24967226 TACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTAT
1 TACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTAT
24967291 TAATACATAACATTTTTAATACATAACT
66 TAATACATAACATTTTTAATACATAACT
24967319 TACATAATACGACATAA
1 TACATAATACGACATAA
24967336 TAACATAAAT
Statistics
Matches: 188, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
92 3 0.02
93 182 0.97
94 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (93 bp):
TACATAATACGACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATAACTTAT
TAATACATAACATTTTTAATACATAACT
Found at i:24967191 original size:9 final size:9
Alignment explanation
Indices: 24967177--24967232 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
24967167 TTTAAAATGA
24967177 TACATAACT
1 TACATAACT
24967186 TACATAACT
1 TACATAACT
*
24967195 TA-TTAA--
1 TACATAACT
24967201 TACATAACT
1 TACATAACT
*
24967210 TATATAA--
1 TACATAACT
24967217 TACATAACT
1 TACATAACT
24967226 TACATAA
1 TACATAA
24967233 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:24967191 original size:53 final size:50
Alignment explanation
Indices: 24967094--24967335 Score: 241
Period size: 50 Copynumber: 5.1 Consensus size: 50
24967084 TGCATAACTT
24967094 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
* * *
24967144 ACATAACTTATTAATATAT-ACA-TTTTAA-A-ATGA--TACAT-A-ACTT
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATAC-G
*
24967187 ACATAACTTATTAATACATAAC-TTATATAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATT-TTTAATACATAACTTACATAATACG
** * * *
24967237 ACATAACTTATTAAT--AT---ATTTATGGATAAATGA--TACAT-A-ACTT
1 ACATAACTTATTAATACATAACATTT-TTAATACATAACTTACATAATAC-G
24967280 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
24967330 ACATAA
1 ACATAA
24967336 TAACATAAAT
Statistics
Matches: 152, Mismatches: 18, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
42 4 0.03
43 35 0.23
44 13 0.09
45 7 0.05
46 12 0.08
47 11 0.07
48 12 0.08
49 13 0.09
50 41 0.27
51 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (50 bp):
ACATAACTTATTAATACATAACATTTTTAATACATAACTTACATAATACG
Found at i:24967222 original size:40 final size:43
Alignment explanation
Indices: 24967086--24967232 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 43
24967076 ATAAATGATG
*
24967086 CATAACTTACATAACTTATTAATACATAACATTTTTAATACATAACTTA
1 CATAACTTACATAACTTATTAATACAT-ACA-TCTTAA-A-ATAA--TA
* * * *
24967135 CATAA-TACGACATAACTTATTAATATATACATTTTAAAATGATA
1 CATAACT--TACATAACTTATTAATACATACATCTTAAAATAATA
*
24967179 CATAACTTACATAACTTATTAATACATA-A-CTT-ATATAATA
1 CATAACTTACATAACTTATTAATACATACATCTTAAAATAATA
24967219 CATAACTTACATAA
1 CATAACTTACATAA
24967233 TACGACATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
40 20 0.23
41 2 0.02
42 1 0.01
43 19 0.22
44 7 0.08
45 1 0.01
46 3 0.03
47 1 0.01
48 7 0.08
49 8 0.09
50 18 0.21
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (43 bp):
CATAACTTACATAACTTATTAATACATACATCTTAAAATAATA
Found at i:24967328 original size:16 final size:15
Alignment explanation
Indices: 24967093--24967320 Score: 104
Period size: 16 Copynumber: 14.7 Consensus size: 15
24967083 ATGCATAACT
24967093 TACATAACTTATTAA
1 TACATAACTTATTAA
*
24967108 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
*
24967124 TACATAACTTACATAA
1 TACATAACTTA-TTAA
24967140 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
*
24967158 TATAT-ACATT-TTAA
1 TACATAAC-TTATTAA
24967172 -A-ATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
24967184 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
24967201 TACATAACTTATATAA
1 TACATAACTTAT-TAA
*
24967217 TACATAACTTACATAA
1 TACATAACTTA-TTAA
24967233 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* **
24967251 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
24967263 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
24967277 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
24967294 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
24967310 TACATAACTTA
1 TACATAACTTA
24967321 CATAATACGA
Statistics
Matches: 164, Mismatches: 16, Indels: 66
0.67 0.07 0.27
Matches are distributed among these distances:
12 12 0.07
13 3 0.02
14 13 0.08
15 43 0.26
16 58 0.35
17 7 0.04
18 8 0.05
19 20 0.12
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (15 bp):
TACATAACTTATTAA
Found at i:24972918 original size:21 final size:21
Alignment explanation
Indices: 24972892--24972942 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24972882 CTACAACTTA
* *
24972892 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
24972913 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
24972934 AAGCTGAGG
1 AAGCAGAGG
24972943 TTCAACGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:24972937 original size:87 final size:86
Alignment explanation
Indices: 24972826--24973023 Score: 274
Period size: 87 Copynumber: 2.3 Consensus size: 86
24972816 ACACAACTTA
* * *
24972826 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCGAA-AAAGATATGAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTC-AACAAAG-TATGAAGAACTCCAGC-AGCAAC
*
24972889 TTAAAGCAGATGCGGCAGCGAGAG
63 TTAAAGCAAATGCGGCAGCGAGAG
*
24972913 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAC-AAAGTATGAAGAACTCCAGCAGCAACTT
*
24972978 AAAGCAAATGCTGCAGCGAGAG
65 AAAGCAAATGCGGCAGCGAGAG
* *
24973000 AAGCAGAGGCTGCAGCGAGGGAAG
1 AAGCAGAGGCAGCAGCGAGAGAAG
24973024 TAGAGGCTGT
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
86 3 0.03
87 93 0.93
88 4 0.04
ACGTcount: A:0.38, C:0.19, G:0.32, T:0.11
Consensus pattern (86 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAGTATGAAGAACTCCAGCAGCAACTTA
AAGCAAATGCGGCAGCGAGAG
Found at i:24973004 original size:21 final size:21
Alignment explanation
Indices: 24972979--24973048 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
24972969 CAGCAGCTTA
* *
24972979 AAGCAAATGCTGCAGCGAGAG
1 AAGCAAAGGCTGCAGCGAGGG
*
24973000 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAAAGGCTGCAGCGAGGG
* * *
24973021 AAGTAGAGGCTGTAGCGAGGG
1 AAGCAAAGGCTGCAGCGAGGG
24973042 AAGCAAA
1 AAGCAAA
24973049 ACAGCTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.16, G:0.40, T:0.09
Consensus pattern (21 bp):
AAGCAAAGGCTGCAGCGAGGG
Found at i:24973411 original size:43 final size:43
Alignment explanation
Indices: 24973350--24973699 Score: 495
Period size: 43 Copynumber: 8.1 Consensus size: 43
24973340 CAAAATTAGC
* *
24973350 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTTTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
24973393 GGCGTTTTTCGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*** *
24973436 GGCGTTTTTCAACTAGGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
24973479 GGCGTTTTTTGGCTAGGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
24973522 GGCGTTTTTTGGCTAAGTGCTGTTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
24973565 GGCGTTTGTTGGCTAAGCGCTGCTAAAGACCATGGTCTATAGC
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
** * * *
24973608 GATGTTTGTTGGGTAAGCGCCGCTAAAGACCATGGTCTATAGC
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
24973651 GGCGTTTTTTGTG-TAAGCGCCGCTAAAGACCATGGTCTACAGC
1 GGCGTTTTTTG-GCTAAGCGCCGCTAAAGACCATGGTCTATAGT
24973694 GGCGTT
1 GGCGTT
24973700 GTAAAGAAAA
Statistics
Matches: 281, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 280 1.00
44 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:24973755 original size:129 final size:127
Alignment explanation
Indices: 24973346--24973764 Score: 457
Period size: 129 Copynumber: 3.2 Consensus size: 127
24973336 CTGCCAAAAT
* *
24973346 TAGCGGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTTTATAGTGGCGTTTTTCGGCTAAGC
1 TAGCGGCGTTTTTT-GATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGC
* * * *
24973411 GCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCAACTAGGCGCCGCTAAAGACCATGGTCTA
65 GCCGCTAAAGACCATGGTCTATAGTGGCGTTTGT-AAGTAAGCGCAGCTAAAGACCATGGTCTA
* * * *
24973475 TAGTGGCGTTTTTTGGCTAGGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGT
1 TAGCGGCGTTTTTT-GATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGC
* * ** *
24973540 GCTGTTAAAGACCATGGTCTATAGTGGCGTTTGTTGGCTAAGCGCTGCTAAAGACCATGGTCTA
65 GCCGCTAAAGACCATGGTCTATAGTGGCGTTTGTAAG-TAAGCGCAGCTAAAGACCATGGTCTA
** * * *
24973604 TAGCGATGTTTGTTGGGTAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTTTGTG-TAAG
1 TAGCGGCGTTT-TTTGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTG-GCTAAG
* * * * * **
24973668 CGCCGCTAAAGACCATGGTCTACAGCGGCG-TTGTAAAGAAAACGCAGCTAAAGGTCC-TAATCT
64 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTGT-AAGTAAGCGCAGCTAAA-GACCATGGTCT
*
24973731 T
127 A
* *
24973732 TAGCGGCGTTTATTATAAAAAGCGCCGCTAAAG
1 TAGCGGCGTTT-TT-TGATAAGCGCCGCTAAAG
24973765 TTACCGACAC
Statistics
Matches: 242, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
128 30 0.12
129 209 0.86
130 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (127 bp):
TAGCGGCGTTTTTTGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCG
CCGCTAAAGACCATGGTCTATAGTGGCGTTTGTAAGTAAGCGCAGCTAAAGACCATGGTCTA
Found at i:24977106 original size:19 final size:20
Alignment explanation
Indices: 24977084--24977121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24977074 AATTAACTTT
24977084 TTTAATT-ATTTTTAAAGAG
1 TTTAATTGATTTTTAAAGAG
*
24977103 TTTACTTGATTTTTAAAGA
1 TTTAATTGATTTTTAAAGA
24977122 TTATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTAATTGATTTTTAAAGAG
Found at i:24978677 original size:87 final size:87
Alignment explanation
Indices: 24978489--24978861 Score: 541
Period size: 87 Copynumber: 4.3 Consensus size: 87
24978479 AGATCAGTGA
* * *
24978489 AAATCGAAAACAAAGCCTTGCCTCCATAGGTTACAGTGGAGCTGGTTAAAGA-AGCAGATATTGC
1 AAATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
24978553 CTTCCTGCGTTAACAACGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
24978575 AGATCGAAAACAAAGCGTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AAATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
24978640 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * * * *
24978662 AAATCGAAAATAAAGCCTTGCCTCCATCAGTTGTACTGGAGTTGGTTAAAGATAGCAAATCTTGC
1 AAATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
24978727 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
24978749 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AAATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
24978814 CTTCCTGCATTGACAGTGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
24978836 AGATCGAAGACACAAGCCTTGCCTCC
1 AAATCGAAAACA-AAGCCTTGCCTCC
24978862 CTAAGCGGTA
Statistics
Matches: 258, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 48 0.19
87 197 0.76
88 13 0.05
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AAATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:24978771 original size:43 final size:43
Alignment explanation
Indices: 24978549--24978771 Score: 104
Period size: 43 Copynumber: 5.1 Consensus size: 43
24978539 GAAGCAGATA
* * *
24978549 TTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCG
1 TTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCC
* * * * * * * *
24978592 TTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGT-TAAAGATAGCAGATC
1 TTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCGAAA-ATA-AAG-CC
*
24978636 TTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAATAAAGCC
1 TTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCC
* * ** * * **
24978679 TTGCC-TCCAT-CAGTTGTACTG-G-AGTTGGT-TAAAGATAGCAAATC
1 TTGCCTTCC-TGC-GTT-AACAGCGAAGCAGATCGAAA-ATA--AAGCC
24978723 TTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCC
1 TTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCC
24978766 TTGCCT
1 TTGCCT
24978772 CCATCGGTTG
Statistics
Matches: 123, Mismatches: 37, Indels: 40
0.62 0.19 0.20
Matches are distributed among these distances:
41 6 0.05
42 24 0.20
43 34 0.28
44 27 0.22
45 26 0.21
46 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
TTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCC
Found at i:24979193 original size:98 final size:99
Alignment explanation
Indices: 24979070--24979407 Score: 439
Period size: 99 Copynumber: 3.4 Consensus size: 99
24979060 CTAAAACCAC
*
24979070 GAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACTA-CAGCGAATCTTATCTCTC
1 GAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTAC-AGCAGCGAATCTTATCTCCC
* *
24979134 AGGCAGTGCAGT-AATAGATTAAAGCCACAACGGT
65 AGGCGGTGCAGTGAAAAGATTAAAGCCACAACGGT
* *
24979168 GAATCTTGCCTCTCTGACATCGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATTTTATCTCCCA
1 GAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTATCTCCCA
* *
24979233 GGCGGTGCAGTAAAAAGATTAAAGCCACGACGGT
66 GGCGGTGCAGTGAAAAGATTAAAGCCACAACGGT
* * * *
24979267 GAATCTTGCCTCCCTGACATTGCGATTAAAAAAATTAAAGCTACAGCAGCGAATCTTACCTCCCA
1 GAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTATCTCCCA
* * * * *
24979332 GGTGGTGCAGTGGAACAGATTAAAGCCATATCGAT
66 GGCGGTGCAGT-GAAAAGATTAAAGCCACAACGGT
* * * * *
24979367 GCATCTTGCTTCCCCT-ACATTGCAGTTGAAAAGATTAAAGC
1 GAATCTTGCCT-CTCTGACATTGCGGTTAAAAAGATTAAAGC
24979408 CACATCGGTG
Statistics
Matches: 211, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
97 1 0.00
98 70 0.33
99 89 0.42
100 47 0.22
101 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (99 bp):
GAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTATCTCCCA
GGCGGTGCAGTGAAAAGATTAAAGCCACAACGGT
Found at i:24979329 original size:50 final size:50
Alignment explanation
Indices: 24979069--24979330 Score: 201
Period size: 50 Copynumber: 5.3 Consensus size: 50
24979059 ACTAAAACCA
* * *
24979069 CGAATCTTGCCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACTA-CAG
1 CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTAC-AGCAG
* * * * * * * * * *
24979119 CGAATCTTATCTCTCAGGCAGTGC-AGT-AATAGATTAAAGCCACAACGG
1 CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTACAGCAG
* * * * *
24979167 TGAATCTTGCCTCTCTGACATCGCGGTTAAAAAGATTAAAGCTACAGCAG
1 CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTACAGCAG
* * * * ** * * *
24979217 CGAATTTTATCTCCCAGGCGGTGC-AGTAAAAAGATTAAAGCCAC-GACGG
1 CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTACAG-CAG
* * *
24979266 TGAATCTTGCCTCCCTGACATTGCGATTAAAAAAATTAAAGCTACAGCAG
1 CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTACAGCAG
24979316 CGAATCTTACCTCCC
1 CGAATCTTACCTCCC
24979331 AGGTGGTGCA
Statistics
Matches: 155, Mismatches: 51, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
47 1 0.01
48 34 0.22
49 37 0.24
50 82 0.53
51 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (50 bp):
CGAATCTTACCTCCCTGACATTGCGATTAAAAAGATTAAAGCTACAGCAG
Found at i:24979354 original size:50 final size:49
Alignment explanation
Indices: 24979096--24979357 Score: 181
Period size: 50 Copynumber: 5.3 Consensus size: 49
24979086 ACATTGCGGT
* * *
24979096 TAAAAAGATTAAAGCTACTA-CAGCGAATCTTATCTCTCAGGCAGTGCAG
1 TAAAAAGATTAAAGCTAC-AGCAGCGAATCTTACCTCCCAGGCGGTGCAG
* * * * * * * * * * *
24979145 T-AATAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGAC-ATCGCGG
1 TAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGT-GCAG
* *
24979193 TTAAAAAGATTAAAGCTACAGCAGCGAATTTTATCTCCCAGGCGGTGCAG
1 -TAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAG
* * * * * * ** *
24979243 TAAAAAGATTAAAGCCAC-GACGGTGAATCTTGCCTCCCTGACATTGCGAT
1 TAAAAAGATTAAAGCTACAG-CAGCGAATCTTACCTCCCAGGCGGTGC-AG
* *
24979293 TAAAAAAATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGTGGTGCAG
1 TAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAG
* *
24979342 TGGAACAGATTAAAGC
1 T-AAAAAGATTAAAGC
24979358 CATATCGATG
Statistics
Matches: 156, Mismatches: 48, Indels: 17
0.71 0.22 0.08
Matches are distributed among these distances:
47 2 0.01
48 34 0.22
49 39 0.25
50 79 0.51
51 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (49 bp):
TAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAG
Found at i:24979427 original size:25 final size:25
Alignment explanation
Indices: 24979399--24979448 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24979389 CAGTTGAAAA
* *
24979399 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
*
24979424 GATTAAAGCTACAACGGCGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
24979449 ACTTCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACGGCGAATCTT
Found at i:24979524 original size:125 final size:126
Alignment explanation
Indices: 24979300--24979537 Score: 334
Period size: 125 Copynumber: 1.9 Consensus size: 126
24979290 GATTAAAAAA
* * * * *
24979300 ATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGTGGTGCAGTGGAACAGATTAAAGCCATATCG
1 ATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCAAATCG
* * *
24979365 ATGCATCTTGCTTCCCCTACATTGCAGTTGAAAAGATT-AAAGCCACATCGGTGAATCTTG
66 ATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAAGCCACATCGGTGAATCTTG
* * * *
24979425 ATTAAAGCTACAACGGCGAATCTTACTTCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTG
1 ATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCAAATCG
* * *
24979490 GTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAAGCCACA
66 ATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAAGCCACA
24979538 ATGGCGAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
125 88 0.91
126 9 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (126 bp):
ATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCAAATCG
ATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAAGCCACATCGGTGAATCTTG
Found at i:24979680 original size:41 final size:41
Alignment explanation
Indices: 24979618--24980004 Score: 171
Period size: 44 Copynumber: 8.9 Consensus size: 41
24979608 TAAATTAAAG
* * *
24979618 GGTCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATCA
** *
24979659 GGTCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATTTCA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATC---GAA--TCA
* * ** * * *
24979705 GATCTTATCTTCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAA-TCA
* * * *
24979747 GAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTA
1 G-G-TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATC-A
* * * * ** * ** *
24979791 GTAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAA
1 G--GTCTTATCTCCCTGAGGTTACAGCAGAGTAGA-TCGAAT-CA
* * * * *
24979836 TGTCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTATCA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATCA
* ** * *
24979877 GGTCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAGAATGTAA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATC---GAA--TCA
* ** * * *
24979923 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAA-TCA
* * *
24979965 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA
1 G-G-TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAA
24980005 GACACTATCC
Statistics
Matches: 264, Mismatches: 64, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
41 58 0.22
42 9 0.03
43 33 0.12
44 96 0.36
45 5 0.02
46 63 0.24
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (41 bp):
GGTCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATCA
Found at i:24979764 original size:44 final size:44
Alignment explanation
Indices: 24979704--24980044 Score: 239
Period size: 44 Copynumber: 7.8 Consensus size: 44
24979694 GAAGAATTTC
*
24979704 AGATCTTATCTTCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
24979748 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * ** *** *
24979792 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** * * * * *
24979835 ATG-TCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTA-TCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * ** *
24979878 -G-TCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAG-AATG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
24979920 TAAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 --AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
24979966 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
** * * * *
24980009 CTATCCTATCTCCCTGAAGTTATAGTGGAGCGGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT
24980045 AAAACTGATT
Statistics
Matches: 235, Mismatches: 51, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
41 30 0.13
42 2 0.01
43 59 0.25
44 107 0.46
45 2 0.01
46 34 0.14
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:24979950 original size:46 final size:45
Alignment explanation
Indices: 24979661--24980006 Score: 232
Period size: 44 Copynumber: 7.8 Consensus size: 45
24979651 TCGCATCAGG
* * * *
24979661 TCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATGT-AGA
* * * *
24979707 TCTTATCTTCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G-AGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATGTAGA
* * * *
24979751 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAG-CTAGTA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-GTAGA
* * * * * **
24979795 TCCTATCTCTCTGAAGTTACAGTGGAGTGGAT-TAA-AATAAATG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATGTA-GA
* * ** * * * *
24979838 TCTTATCTCTCTGAAGTTACAGCAGAGTAAATC---GTAT-CAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATGTAGA
* *
24979879 TCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAGAATGTAAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATGT-AGA
* * *
24979925 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G-AGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATGTAGA
* * *
24979969 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGA
24980007 CACTATCCTA
Statistics
Matches: 235, Mismatches: 49, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.00
41 27 0.11
42 3 0.01
43 30 0.13
44 104 0.44
45 1 0.00
46 67 0.29
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATGTAGA
Found at i:24979955 original size:218 final size:218
Alignment explanation
Indices: 24979576--24980048 Score: 761
Period size: 218 Copynumber: 2.2 Consensus size: 218
24979566 GAGTTACAAG
* *
24979576 TCCTATCTCCCTTAAGTTACAGTGGAGCGGATTAAATTAAAGGGTCTTATCTCTCTGAAGTTACA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGGTCTTATCTCTCTGAAGTTACA
* * *
24979641 GCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATTTCAG
66 GCAGAGTAAATCGCATCAGGTCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATGTAAG
*
24979706 ATCTTATCTTCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
131 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
* * *
24979771 AGCGGAGTAGATTGAAG-CTAGTAA
196 AGCGGAGCAGATCGAAGAC-ACT-A
* * *
24979795 TCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAA-TGTCTTATCTCTCTGAAGTTACA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGGTCTTATCTCTCTGAAGTTACA
* ** *
24979859 GCAGAGTAAATCGTATCAGGTCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAGAATGTAAG
66 GCAGAGTAAATCGCATCAGGTCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATGTAAG
24979924 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
131 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
24979989 AGCGGAGCAGATCGAAGACACTA
196 AGCGGAGCAGATCGAAGACACTA
*
24980012 TCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
24980049 CTGATTTTAT
Statistics
Matches: 234, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
217 35 0.15
218 161 0.69
219 38 0.16
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (218 bp):
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGGTCTTATCTCTCTGAAGTTACA
GCAGAGTAAATCGCATCAGGTCTTATCTCCCTGAGGTTACAATAGAGTAGACCGAAGAATGTAAG
ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
AGCGGAGCAGATCGAAGACACTA
Found at i:24980099 original size:40 final size:42
Alignment explanation
Indices: 24980055--24980249 Score: 184
Period size: 44 Copynumber: 4.6 Consensus size: 42
24980045 AAAACTGATT
* *
24980055 TTATCTCCCTAAGCAGTAATGGAGCAAACCG-CACCA-AG-TC
1 TTATCTCCCTAAGCAGTAGTGGAGCAAA-CGAAACCACAGATC
*
24980095 TTATCTCCCTAAGCAGTAGCGGAGCAAACGAAACCACAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAAACGAAACCACAGATC
* **
24980137 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATC
1 TTATCTCCCTAAGCAGTAGTGGAGCA-AACGAA-ACCACAG-ATC
* * *** *
24980181 TTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TC
1 TTATCTCCCTAAGCAGTAGTGGAGCA-AACGAAACCA-CAGATC
*
24980224 CTATCTCCCTAAGCAGTAGTGGAGCA
1 TTATCTCCCTAAGCAGTAGTGGAGCA
24980250 GGTCGAGGAT
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 30 0.23
41 2 0.02
42 27 0.21
43 32 0.25
44 36 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAAACGAAACCACAGATC
Found at i:24980197 original size:44 final size:45
Alignment explanation
Indices: 24980093--24980521 Score: 398
Period size: 44 Copynumber: 9.8 Consensus size: 45
24980083 CCGCACCAAG
* * **
24980093 TCTTATCTCCCTAAGCAGTAGCGGAGCA-AACGAA-ACCAC-AGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
*
24980135 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-A
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * ** ** *
24980179 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAG-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * * *
24980222 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAGGATGG-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * * * *
24980266 TCATATCTCCCTAAGCAGTAGTGGAGTAGGTCGAGGATGG-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * * *
24980310 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* *
24980354 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGGACGGCGA-A
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * * * ** ** *
24980398 TCTTATCTTCCTAAGTAATAGTGAAGCAGATTTAAG-CCACCAG-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* * *
24980441 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG-TAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
* *
24980485 TCCTATCTCACTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
24980522 TGGCGGATTT
Statistics
Matches: 319, Mismatches: 58, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
42 27 0.08
43 72 0.23
44 218 0.68
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (45 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCTAGA
Found at i:24980337 original size:88 final size:88
Alignment explanation
Indices: 24980132--24980524 Score: 389
Period size: 87 Copynumber: 4.5 Consensus size: 88
24980122 ACGAAACCAC
* * * * *
24980132 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAGCA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCATATCTCCCTAAGCA
* * ** * *****
24980196 GTAGTGAAGCAGATTTAAGCCACC
65 GTAGTGGAGCAGGTCGAGGATGGT
* *
24980220 AG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAGGATGGTAGATCATATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCATATCTCCCTAAGCAG
*
24980284 TAGTGGAGTAGGTCGAGGATGGT
66 TAGTGGAGCAGGTCGAGGATGGT
* * *
24980307 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCATATCTCCCTAAGCAG
* *
24980372 TAGTGGAGCAGATCGAGGACGG-
66 TAGTGGAGCAGGTCGAGGATGGT
* * * * * * ** ***** *
24980394 CGAATCTTATCTTCCTAAGTAATAGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCA
1 AG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCATATCTCCCTAAGCA
*
24980458 GTAGTGGAGCAGGTCGAAGATGGT
65 GTAGTGGAGCAGGTCGAGGATGGT
*
24980482 AGATCCTATCTCACTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
24980525 CGGATTTTAC
Statistics
Matches: 246, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
87 133 0.54
88 113 0.46
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (88 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCATATCTCCCTAAGCAG
TAGTGGAGCAGGTCGAGGATGGT
Found at i:24980359 original size:175 final size:175
Alignment explanation
Indices: 24980132--24980524 Score: 466
Period size: 175 Copynumber: 2.2 Consensus size: 175
24980122 ACGAAACCAC
* * * *
24980132 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAGAATCTTATCTCCCTAAGCAG
** * * * * * **
24980197 TAGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAGGATG
66 TAGTGAAGCAGATCGAAGACCACCAATCCTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACA
** * *
24980261 GTAGATCATATCTCCCTAAGCAGTAGTGGAGTAGGTCGAGGATGGT
131 CCAG-TCATATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
* *
24980307 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAG-ATCTTATCTCCCTAAGCA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AGAATCTTATCTCCCTAAGCA
* * ** * * * * ** *
24980371 GTAGTGGAGCAGATCGAGGACGGCGAATCTTATCTTCCTAAGTAATAGTGAAGCAGATTTAAGCC
65 GTAGTGAAGCAGATCGAAGACCACCAATCCTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGAC
*
24980436 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
130 ACCAGTCATATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
*
24980482 AGATCCTATCTCACTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
24980525 CGGATTTTAC
Statistics
Matches: 182, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
175 149 0.82
176 33 0.18
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (175 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAGAATCTTATCTCCCTAAGCAG
TAGTGAAGCAGATCGAAGACCACCAATCCTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACA
CCAGTCATATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
Found at i:24981994 original size:3 final size:3
Alignment explanation
Indices: 24981986--24982050 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
24981976 TAATGTGTGC
24981986 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24982034 TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT -TAT T
24982051 CTTGTTACAC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24983874 original size:40 final size:38
Alignment explanation
Indices: 24983790--24983878 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
24983780 ATTTTTTGAA
24983790 ATTTTTCTA-GATTTTTATAACATTTAATAATATTTAT
1 ATTTTTCTATGATTTTTATAACATTTAATAATATTTAT
*
24983827 ATTTTTTCATATGATTTTTA-AATATCTT-ATAATATTTTAAT
1 A-TTTTTC-TATGATTTTTATAACAT-TTAATAATA-TTT-AT
24983868 ATTTTTCTATG
1 ATTTTTCTATG
24983879 TCAAATGCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
37 1 0.02
38 6 0.13
39 16 0.36
40 19 0.42
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (38 bp):
ATTTTTCTATGATTTTTATAACATTTAATAATATTTAT
Found at i:24988637 original size:20 final size:20
Alignment explanation
Indices: 24988612--24988651 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24988602 TTTGTGTAGG
24988612 GCTATAGTTCCTTTTCACAT
1 GCTATAGTTCCTTTTCACAT
24988632 GCTATAGTTCCTTTTCACAT
1 GCTATAGTTCCTTTTCACAT
24988652 TGATTAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (20 bp):
GCTATAGTTCCTTTTCACAT
Found at i:24989153 original size:13 final size:13
Alignment explanation
Indices: 24989135--24989159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24989125 TCTTTCAAAT
24989135 TAAAATTGAATAG
1 TAAAATTGAATAG
24989148 TAAAATTGAATA
1 TAAAATTGAATA
24989160 AAAACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
TAAAATTGAATAG
Done.