Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 28 of 54
Found at i:11756419 original size:4 final size:4
Alignment explanation
Indices: 11756392--11756443 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
11756382 ATATATACAT
* *
11756392 ATAC ATAT ATAA ATAC ATAC --AC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11756436 ATA- ATAC A
1 ATAC ATAC A
11756444 GTATTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
2 4 0.10
3 3 0.08
4 33 0.82
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11756455 original size:2 final size:2
Alignment explanation
Indices: 11756448--11756494 Score: 76
Period size: 2 Copynumber: 22.5 Consensus size: 2
11756438 AATACAGTAT
11756448 TA TA TA TA TA TA TA TA TA TA GTA TA TA CTA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
11756492 TA T
1 TA T
11756495 CTTTCGTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 39 0.91
3 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11756486 original size:26 final size:24
Alignment explanation
Indices: 11756443--11756493 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 24
11756433 TACATAATAC
11756443 AGTATTATATATATATATATATAT
1 AGTATTATATATATATATATATAT
11756467 AGTATATACTATATATATATATATAT
1 AGTAT-TA-TATATATATATATATAT
11756493 A
1 A
11756494 TCTTTCGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.20
25 2 0.08
26 18 0.72
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
AGTATTATATATATATATATATAT
Found at i:11763841 original size:6 final size:6
Alignment explanation
Indices: 11763830--11763855 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11763820 CAATAAACAG
11763830 AGAAGC AGAAGC AGAAGC AGAAGC AG
1 AGAAGC AGAAGC AGAAGC AGAAGC AG
11763856 CAGTAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAAGC
Found at i:11766997 original size:115 final size:114
Alignment explanation
Indices: 11766789--11766997 Score: 312
Period size: 115 Copynumber: 1.8 Consensus size: 114
11766779 AACCAAGTTT
* ** *
11766789 AGAAGAATCAACATCTGGTAGGCAAGAATTGATTCTCAAACAAGAAGAATCGACACCTTAGGAAT
1 AGAAGAATCAACATCTGGAAGGCAAGAATCAATTCTCAAACAAGAAAAATCGACACCTTAGGAAT
*
11766854 GAAGAATCGATTCTCAAAAAATAGAAAACTCCAGACTTTAAGTGAGACA
66 GAAGAATCGATTCTCAAAAAACAGAAAACTCCAGACTTTAAGTGAGACA
* *
11766903 AGAAGAATCAACATCTGGAAAGGCAAGAATCAATTTTTAAACAAGAAAAATCGACACCTTAGGAA
1 AGAAGAATCAACATCTGG-AAGGCAAGAATCAATTCTCAAACAAGAAAAATCGACACCTTAGGAA
* *
11766968 TGAAGAATTGATTCTTAGAAAAACA-AAAAC
65 TGAAGAATCGATTCTCA-AAAAACAGAAAAC
11766998 CTTCAGACCA
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
114 18 0.21
115 60 0.71
116 6 0.07
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (114 bp):
AGAAGAATCAACATCTGGAAGGCAAGAATCAATTCTCAAACAAGAAAAATCGACACCTTAGGAAT
GAAGAATCGATTCTCAAAAAACAGAAAACTCCAGACTTTAAGTGAGACA
Found at i:11769214 original size:28 final size:28
Alignment explanation
Indices: 11769157--11769216 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
11769147 AAAGGTAGTG
*
11769157 AAGGCTGAGGTTATGCTTGATCCGTGAA
1 AAGGCTGAGGTTATGCTTGATCAGTGAA
*
11769185 AAGGCATG-GGTTATGCTTGCTCTAGT-AA
1 AAGGC-TGAGGTTATGCTTGATC-AGTGAA
11769213 AAGG
1 AAGG
11769217 TAGTGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (28 bp):
AAGGCTGAGGTTATGCTTGATCAGTGAA
Found at i:11769219 original size:65 final size:64
Alignment explanation
Indices: 11769092--11769241 Score: 198
Period size: 65 Copynumber: 2.3 Consensus size: 64
11769082 TATCCTTGAA
* * *
11769092 AAGGTTGAGGCTATGGTTGATCCGCAAAAGGCATGGGTTGTGCTTGCTCTAGTAAAAAGGTAGTG
1 AAGG-TGAGGTTATGCTTGATCCGCAAAAGGCATGGGTTATGCTTGCTCTAGTAAAAAGGTAGTG
*
11769157 AAGGCTGAGGTTATGCTTGATCCGTGAAAAGGCATGGGTTATGCTTGCTCTAGT-AAAAGGTAGT
1 AAGG-TGAGGTTATGCTTGATCCG-CAAAAGGCATGGGTTATGCTTGCTCTAGTAAAAAGGTAGT
11769221 G
64 G
* *
11769222 --TGTAAGGTTATGCTTGATCC
1 AAGGTGAGGTTATGCTTGATCC
11769242 TCTCGAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
62 17 0.22
63 1 0.01
65 32 0.42
66 27 0.35
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (64 bp):
AAGGTGAGGTTATGCTTGATCCGCAAAAGGCATGGGTTATGCTTGCTCTAGTAAAAAGGTAGTG
Found at i:11769236 original size:34 final size:35
Alignment explanation
Indices: 11769193--11769275 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 35
11769183 AAAAGGCATG
*
11769193 GGTTATGCTTG-CTCTAGTAAAAGGTAGTGTGT-AA
1 GGTTATGCTTGACTCTAG-AAAAAGTAGTGTGTAAA
*
11769227 GGTTATGCTTGATCCTCTCGAAAAAGTAGTGTGTAAA
1 GGTTATGCTTGA--CTCTAGAAAAAGTAGTGTGTAAA
11769264 GGTTATGCTTGA
1 GGTTATGCTTGA
11769276 ACCTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
34 11 0.26
36 13 0.30
37 19 0.44
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.35
Consensus pattern (35 bp):
GGTTATGCTTGACTCTAGAAAAAGTAGTGTGTAAA
Found at i:11770223 original size:29 final size:29
Alignment explanation
Indices: 11770181--11770238 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11770171 CTCTTAGATG
*
11770181 CAAAATCATACTTAGAGCATCCATGTTTT
1 CAAAATCATACTTAAAGCATCCATGTTTT
11770210 CAAAATCATACTTAAAGCATCCATGTTTT
1 CAAAATCATACTTAAAGCATCCATGTTTT
11770239 TCTGTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (29 bp):
CAAAATCATACTTAAAGCATCCATGTTTT
Found at i:11772625 original size:19 final size:19
Alignment explanation
Indices: 11772601--11772649 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
11772591 AATAATATTA
*
11772601 ACCATTGCTAACTAATAGT
1 ACCATTGCCAACTAATAGT
11772620 ACCATTGCCAACTAATAGT
1 ACCATTGCCAACTAATAGT
* *
11772639 GCCATTACCAA
1 ACCATTGCCAA
11772650 TCAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (19 bp):
ACCATTGCCAACTAATAGT
Found at i:11776046 original size:48 final size:48
Alignment explanation
Indices: 11775979--11776078 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
11775969 ACTCACATAA
11775979 AGTAAGGATGAAAGATTTATGGGTTCCTAAGCTTTATTTATGTTAAGT
1 AGTAAGGATGAAAGATTTATGGGTTCCTAAGCTTTATTTATGTTAAGT
11776027 AGTAAGGATGAAAGATTTATGGGTTCCTAAGCTTTATTTATGTTAAGT
1 AGTAAGGATGAAAGATTTATGGGTTCCTAAGCTTTATTTATGTTAAGT
11776075 AGTA
1 AGTA
11776079 GTAAGTTCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (48 bp):
AGTAAGGATGAAAGATTTATGGGTTCCTAAGCTTTATTTATGTTAAGT
Found at i:11776747 original size:80 final size:80
Alignment explanation
Indices: 11776641--11776805 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 80
11776631 CATAAGTTCC
* ** *
11776641 ATTTATGAGATTATGACATGTGTGCCATGAGATGTATGTGTTGAGAATA-TCATGTACACTATGG
1 ATTTATGAGATTATGAAATGCATGCCATGAGATGTATGTGTTGAG-ATAGTCATATACACTATGG
11776705 GCTAAGCATG-TGAGTG
65 GCTAAGCATGATGA-TG
*
11776721 ATTTATGAGGTTATGAAATGCATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTATGGG
1 ATTTATGAGATTATGAAATGCATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTATGGG
11776786 CTAAGCATGATGATG
66 CTAAGCATGATGATG
11776801 ATTTA
1 ATTTA
11776806 CGAAAATGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
79 3 0.04
80 72 0.92
81 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (80 bp):
ATTTATGAGATTATGAAATGCATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTATGGG
CTAAGCATGATGATG
Found at i:11780319 original size:15 final size:14
Alignment explanation
Indices: 11780288--11780335 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
11780278 CTTTTTCTTC
11780288 CTTTCT-CTCTTTTT
1 CTTTCTCCT-TTTTT
11780302 CTTTCTCCTTTCTTT
1 CTTTCTCCTTT-TTT
11780317 CTTTCCTCTCTTTTTT
1 CTTT-CTC-CTTTTTT
11780333 CTT
1 CTT
11780336 CTAACTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.27
15 9 0.30
16 9 0.30
17 4 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTCTCCTTTTTT
Found at i:11780465 original size:19 final size:19
Alignment explanation
Indices: 11780423--11780465 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11780413 TGGTGGCAAG
*
11780423 ATGAAAATGGCATGGATGC
1 ATGAAAATGGCATGGAAGC
* *
11780442 TTGAAAATGGCGTGGAAGC
1 ATGAAAATGGCATGGAAGC
11780461 ATGAA
1 ATGAA
11780466 GGTGAAGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (19 bp):
ATGAAAATGGCATGGAAGC
Found at i:11783105 original size:39 final size:37
Alignment explanation
Indices: 11783043--11783157 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
11783033 GTGATAATAT
11783043 TGGAGTGTGCGAGTAGGGAGTGCACACATGATGATGA
1 TGGAGTGTGCGAGTAGGGAGTGCACACATGATGATGA
* * *
11783080 TTGAGTGTGTGAGTAGGGAGTGTGCACACATGACGATGA
1 TGGAGTGTGCGAGTAGGGA--GTGCACACATGATGATGA
11783119 TGGAGTGTGCGAGTAGGGAGTGCACACATGATGATGA
1 TGGAGTGTGCGAGTAGGGAGTGCACACATGATGATGA
11783156 TG
1 TG
11783158 TATGTATATG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
37 36 0.51
39 34 0.49
ACGTcount: A:0.26, C:0.10, G:0.40, T:0.23
Consensus pattern (37 bp):
TGGAGTGTGCGAGTAGGGAGTGCACACATGATGATGA
Found at i:11791442 original size:16 final size:16
Alignment explanation
Indices: 11791421--11791455 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11791411 ACTCCAATTA
11791421 TATATACATATATAAT
1 TATATACATATATAAT
*
11791437 TATATATATATATAAT
1 TATATACATATATAAT
11791453 TAT
1 TAT
11791456 CCCAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATACATATATAAT
Found at i:11795446 original size:55 final size:54
Alignment explanation
Indices: 11795354--11795570 Score: 326
Period size: 55 Copynumber: 4.0 Consensus size: 54
11795344 CATGTATACA
* * *
11795354 ACCACCGGTCATCAACTCATGTGCACTCCCATACCGCACAGAGTTGGAATCATC
1 ACCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCATC
* * * *
11795408 ATCCTCCGATCATCAGTTCATGTGCACTCCCACACCGCACATAGCTGGAATCATC
1 A-CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCATC
* *
11795463 ACACACCGGTCTTCAGCTCATGTGCACTCCCACACCGTACATAGTTGGAATCATC
1 AC-CACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCATC
11795518 ACCCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCA
1 A-CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCA
11795571 CCCGTCATCA
Statistics
Matches: 145, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
54 2 0.01
55 142 0.98
56 1 0.01
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (54 bp):
ACCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCATC
Found at i:11796810 original size:19 final size:19
Alignment explanation
Indices: 11796786--11796827 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11796776 GTGGTAAGGG
11796786 TGAAAATGGCGCGGGAGCA
1 TGAAAATGGCGCGGGAGCA
* *
11796805 TGAAAATGGTGTGGGAGCA
1 TGAAAATGGCGCGGGAGCA
11796824 TGAA
1 TGAA
11796828 GGAGAAGAAG
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:0.33, C:0.10, G:0.40, T:0.17
Consensus pattern (19 bp):
TGAAAATGGCGCGGGAGCA
Found at i:11811854 original size:35 final size:35
Alignment explanation
Indices: 11811748--11811855 Score: 89
Period size: 35 Copynumber: 3.2 Consensus size: 35
11811738 TTACAATTGC
* * * * * *
11811748 TTTTCACAAGCTCAGCCACAATCTTTAACAATGGT
1 TTTTCATAGGCTCAACCACAACCTTCAACAATGAT
* * *
11811783 TTTTCAT-GAGATCAACCAAAACC--CAA-AATGAC
1 TTTTCATAG-GCTCAACCACAACCTTCAACAATGAT
*
11811815 TTTTCATAGGCTCAACCACAACCTTGAACAATGAT
1 TTTTCATAGGCTCAACCACAACCTTCAACAATGAT
11811850 TTTTCA
1 TTTTCA
11811856 CAAAATCAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
32 23 0.42
33 3 0.05
34 2 0.04
35 27 0.49
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
TTTTCATAGGCTCAACCACAACCTTCAACAATGAT
Found at i:11811855 original size:67 final size:68
Alignment explanation
Indices: 11811747--11811887 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 68
11811737 TTTACAATTG
* * * * ** * *
11811747 CTTTTCACAAGCTCAGCCACAATCTTTAACAATGGTTTTTCATGAGATCAACCAAAACCCAAAA-
1 CTTTTCACAAGCTCAACCACAACCTTGAACAATGATTTTTCACAAAATCAACAAAAACCCAAAAC
*
11811811 TGA
66 TAA
* *
11811814 CTTTTCATAGGCTCAACCACAACCTTGAACAATGATTTTTCACAAAATCAACAAAAACCCAAAAC
1 CTTTTCACAAGCTCAACCACAACCTTGAACAATGATTTTTCACAAAATCAACAAAAACCCAAAAC
11811879 TAA
66 TAA
11811882 CTTTTC
1 CTTTTC
11811888 TAAGGCTAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
67 54 0.87
68 8 0.13
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (68 bp):
CTTTTCACAAGCTCAACCACAACCTTGAACAATGATTTTTCACAAAATCAACAAAAACCCAAAAC
TAA
Found at i:11820544 original size:30 final size:30
Alignment explanation
Indices: 11820510--11820567 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11820500 AATCATAAAA
*
11820510 GCTTGTTTGATGTAAAATAAAAATATAAGG
1 GCTTGTTGGATGTAAAATAAAAATATAAGG
* *
11820540 GCTTGTTGGGTTTAAAATAAAAATATAA
1 GCTTGTTGGATGTAAAATAAAAATATAA
11820568 AAACTTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.34
Consensus pattern (30 bp):
GCTTGTTGGATGTAAAATAAAAATATAAGG
Found at i:11830997 original size:293 final size:293
Alignment explanation
Indices: 11830470--11831035 Score: 814
Period size: 293 Copynumber: 1.9 Consensus size: 293
11830460 ATTGTCTTTA
* * * * * *
11830470 AGGATAATTTTCACCCTTTCACAATATGAAACTCGATGCAAAAATGATTGTAGCAGTTATCTCTC
1 AGGATAAGTTTCACCCTTTCACAATATGAAACTCAATGCAAAAAGGATTGTAGCAGTCATATCCC
** * *
11830535 AGGATTCAACAAACTCTTCTTGATTAGTTTGCACAAACTATCATGGATACAAAAATAGCAAAAAA
66 AAAATTCAACAAACTCTTCTTGATTAGTTTGCACAAACTAGCATAGATACAAAAATAGCAAAAAA
* *
11830600 ATTAAAAACAAGAAAGAACTTAGCAAAATAGAGAAATGAAGGAAGTAGAGAAGAGGAAGACAGGA
131 ATTAAAAACAAGAAAAAACTTAGCAAAATAGAGAAATGAAGGAAGTAGAGAAGAGGAAGACAAGA
* * *
11830665 AAGGTAAGAAGAGATGATGTGAGAAATGAGGTGTGTTGGGAACATAGGTAGAGGTTGATATTTAT
196 AAGGTAAGAAGAAATGATGTGAGAAATAAGGTGTGTTGGGAACATAGGTAGAGGCTGATATTTAT
11830730 AGACTGAGGATAAAAGAGAATCAAGAATAACGT
261 AGACTGAGGATAAAAGAGAATCAAGAATAACGT
* * * *
11830763 AGGATAAGTTTCGCCCTTAT-AGAATATGAAACTTAATG-TAAAAGGATTGTAGCAGTCATATCC
1 AGGATAAGTTTCACCCTT-TCACAATATGAAACTCAATGCAAAAAGGATTGTAGCAGTCATATCC
* * * * *
11830826 CAAAATTCAATAAATTCTTCTTGATTAGTTTGCATAAACTAGCATAGATACAAAAAATAGTAGAA
65 CAAAATTCAACAAACTCTTCTTGATTAGTTTGCACAAACTAGCATAGATAC-AAAAATAGCAAAA
* **
11830891 AAATTAAAAACAAGAAAAAACCTT-GCAAAATAGGGAAATGAAGGAAGTAGAGAAGTTGAAGACA
129 AAATTAAAAACAAGAAAAAA-CTTAGCAAAATAGAGAAATGAAGGAAGTAGAGAAGAGGAAGACA
* * *
11830955 AGAAAGGTAAGAAGAAATGATGTGAGAAATAAGGTGTGTTGGGAACTTAGGTAGATGCTGGTATT
193 AGAAAGGTAAGAAGAAATGATGTGAGAAATAAGGTGTGTTGGGAACATAGGTAGAGGCTGATATT
11831020 TATAGACTGAGGATAA
258 TATAGACTGAGGATAA
11831036 TGAAGAATTA
Statistics
Matches: 240, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
292 64 0.27
293 172 0.72
294 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (293 bp):
AGGATAAGTTTCACCCTTTCACAATATGAAACTCAATGCAAAAAGGATTGTAGCAGTCATATCCC
AAAATTCAACAAACTCTTCTTGATTAGTTTGCACAAACTAGCATAGATACAAAAATAGCAAAAAA
ATTAAAAACAAGAAAAAACTTAGCAAAATAGAGAAATGAAGGAAGTAGAGAAGAGGAAGACAAGA
AAGGTAAGAAGAAATGATGTGAGAAATAAGGTGTGTTGGGAACATAGGTAGAGGCTGATATTTAT
AGACTGAGGATAAAAGAGAATCAAGAATAACGT
Found at i:11832009 original size:18 final size:19
Alignment explanation
Indices: 11831986--11832028 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11831976 TATTCATGAG
*
11831986 TCAACAAT-AACAAAATCA
1 TCAACAATAAACAAAAACA
11832004 TCAAC-ATAAACAAAAACA
1 TCAACAATAAACAAAAACA
*
11832022 ACAACAA
1 TCAACAA
11832029 AATCACCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (19 bp):
TCAACAATAAACAAAAACA
Found at i:11832458 original size:11 final size:11
Alignment explanation
Indices: 11832442--11832471 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
11832432 ATCATGTCAG
11832442 ACACGTTTAAA
1 ACACGTTTAAA
11832453 ACACGTTT-AA
1 ACACGTTTAAA
11832463 ACACGTTTA
1 ACACGTTTA
11832472 CTTAAACGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (11 bp):
ACACGTTTAAA
Found at i:11832501 original size:18 final size:18
Alignment explanation
Indices: 11832473--11832518 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
11832463 ACACGTTTAC
*
11832473 TTAAACGTGTTATCGTGT
1 TTAAACATGTTATCGTGT
*
11832491 TTAATCATGTTATCGTGT
1 TTAAACATGTTATCGTGT
11832509 TTAAACATGT
1 TTAAACATGT
11832519 ATATGTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (18 bp):
TTAAACATGTTATCGTGT
Found at i:11832804 original size:18 final size:17
Alignment explanation
Indices: 11832781--11832837 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
11832771 ATATTTTTAT
11832781 TTAATCGTGCTAAACGTG
1 TTAATCGTG-TAAACGTG
* *
11832799 TTAATCGTGTCAAACATA
1 TTAATCGTGT-AAACGTG
11832817 TTAATCGTGTTAAACGTG
1 TTAATCGTG-TAAACGTG
11832835 TTA
1 TTA
11832838 TTAATCGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (17 bp):
TTAATCGTGTAAACGTG
Found at i:11832807 original size:9 final size:9
Alignment explanation
Indices: 11832781--11832837 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
11832771 ATATTTTTAT
*
11832781 TTAATCGTG
1 TTAAACGTG
*
11832790 CTAAACGTG
1 TTAAACGTG
*
11832799 TTAATCGTG
1 TTAAACGTG
* * *
11832808 TCAAACATA
1 TTAAACGTG
*
11832817 TTAATCGTG
1 TTAAACGTG
11832826 TTAAACGTG
1 TTAAACGTG
11832835 TTA
1 TTA
11832838 TTAATCGTGT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (9 bp):
TTAAACGTG
Found at i:11835055 original size:2 final size:2
Alignment explanation
Indices: 11835048--11835099 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
11835038 GTGTTGGCAG
11835048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11835090 T- TA TA TA TA T
1 TA TA TA TA TA T
11835100 CATTTTAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11843718 original size:93 final size:93
Alignment explanation
Indices: 11843551--11843731 Score: 335
Period size: 93 Copynumber: 1.9 Consensus size: 93
11843541 GCAGTCTGCT
11843551 ATTACAGTTGGCTATCAGCCTTGAAACACCACTATTTCTCTACTCTATGGAAAGCTGTTAGCACA
1 ATTACAGTTGGCTATCAGCCTTGAAACACCACTATTTCTCTACTCTATGGAAAGCTGTTAGCACA
11843616 AATAATACAGCTACCCTCCTTGTCCGCC
66 AATAATACAGCTACCCTCCTTGTCCGCC
11843644 ATTACAGTTGGCTATCAGCCTTGAAACACCACTATTTCTCTACTCTATGGAAAGCTGTTAGCACA
1 ATTACAGTTGGCTATCAGCCTTGAAACACCACTATTTCTCTACTCTATGGAAAGCTGTTAGCACA
* **
11843709 ATTGGTACAGCTACCCTCCTTGT
66 AATAATACAGCTACCCTCCTTGT
11843732 GCGTACTTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (93 bp):
ATTACAGTTGGCTATCAGCCTTGAAACACCACTATTTCTCTACTCTATGGAAAGCTGTTAGCACA
AATAATACAGCTACCCTCCTTGTCCGCC
Found at i:11844401 original size:24 final size:25
Alignment explanation
Indices: 11844369--11844421 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
11844359 GCACACGGGC
*
11844369 CTCTTTCTA-CTTTATTTTTTCTTT
1 CTCTTTCTACCCTTATTTTTTCTTT
* *
11844393 CTCTTTCTACCCTTCTTTTTTTTTT
1 CTCTTTCTACCCTTATTTTTTCTTT
11844418 CTCT
1 CTCT
11844422 CTTTATTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (25 bp):
CTCTTTCTACCCTTATTTTTTCTTT
Found at i:11847675 original size:17 final size:17
Alignment explanation
Indices: 11847653--11847692 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
11847643 GGTTGAGCTT
11847653 GATTGTACTGTGCCTTC
1 GATTGTACTGTGCCTTC
11847670 GATTGTACTGTGCCTTC
1 GATTGTACTGTGCCTTC
11847687 GATTGT
1 GATTGT
11847693 CAAGGTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.42
Consensus pattern (17 bp):
GATTGTACTGTGCCTTC
Found at i:11852701 original size:16 final size:17
Alignment explanation
Indices: 11852680--11852713 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11852670 TATGAAATTC
*
11852680 ATATTG-TTTTTGCAAA
1 ATATTGATTATTGCAAA
11852696 ATATTGATTATTGCAAA
1 ATATTGATTATTGCAAA
11852713 A
1 A
11852714 AATCTTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (17 bp):
ATATTGATTATTGCAAA
Found at i:11856690 original size:31 final size:31
Alignment explanation
Indices: 11856652--11856734 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 31
11856642 ACAATTTAAA
*
11856652 ATAAAAAAGTTTAA-ATTTTTAA-TTATAAATT
1 ATAAAAAA--TTAATATTTTAAATTTATAAATT
11856683 ATAAAAAATTAATATTTTAAATTTATAAATT
1 ATAAAAAATTAATATTTTAAATTTATAAATT
* **
11856714 ATTAATATTTTAATATTTTAA
1 A-TAAAAAATTAATATTTTAA
11856735 TCATAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 4 0.09
30 7 0.16
31 18 0.40
32 16 0.36
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
ATAAAAAATTAATATTTTAAATTTATAAATT
Found at i:11856708 original size:24 final size:24
Alignment explanation
Indices: 11856677--11856731 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
11856667 TTTTTAATTA
11856677 TAAA-TTATAAAAAATTAATATTT
1 TAAATTTATAAAAAATTAATATTT
**
11856700 TAAATTTATAAATTATTAATATTT
1 TAAATTTATAAAAAATTAATATTT
11856724 TAATATTT
1 TAA-ATTT
11856732 TAATCATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 4 0.14
24 20 0.71
25 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATTTATAAAAAATTAATATTT
Found at i:11856726 original size:8 final size:8
Alignment explanation
Indices: 11856691--11856735 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
11856681 TTATAAAAAA
11856691 TTAATATT
1 TTAATATT
11856699 TTAA-ATT
1 TTAATATT
11856706 TATAA-ATT
1 T-TAATATT
11856714 ATTAATATT
1 -TTAATATT
11856723 TTAATATT
1 TTAATATT
11856731 TTAAT
1 TTAAT
11856736 CATAATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.12
8 26 0.76
9 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTAATATT
Found at i:11856750 original size:40 final size:39
Alignment explanation
Indices: 11856706--11856819 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 39
11856696 ATTTTAAATT
**
11856706 TATAAATTATTAATATTTTAATATTTTAATCATAATAATG
1 TATAAATTATTAA-ATTTTAATATTTTAAAAATAATAATG
* *
11856746 TATAAATTATAAATAAAATATTAATATTTTAAAAATATTAATG
1 TATAAATTAT---T-AAATTTTAATATTTTAAAAATAATAATG
* *
11856789 TTTAAATTATTAAATTATTAAAATTTTAAAA
1 TATAAATTATTAAATT-TTAATATTTTAAAA
11856820 TTTTAATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
39 4 0.06
40 24 0.39
43 32 0.52
44 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (39 bp):
TATAAATTATTAAATTTTAATATTTTAAAAATAATAATG
Found at i:11856782 original size:17 final size:16
Alignment explanation
Indices: 11856759--11856825 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
11856749 AAATTATAAA
11856759 TAAAATATTAATATTT
1 TAAAATATTAATATTT
*
11856775 TAAAAATATTAAT-GTT
1 T-AAAATATTAATATTT
*
11856791 TAAATTATTAA-ATTAT
1 TAAAATATTAATATT-T
* *
11856807 TAAAATTTTAAAATTT
1 TAAAATATTAATATTT
11856823 TAA
1 TAA
11856826 TAAAATATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 10 0.24
16 18 0.43
17 14 0.33
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:11856792 original size:16 final size:17
Alignment explanation
Indices: 11856760--11856794 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11856750 AATTATAAAT
*
11856760 AAAATATTAATATTTTA
1 AAAATATTAATAGTTTA
11856777 AAAATATTAAT-GTTTA
1 AAAATATTAATAGTTTA
11856793 AA
1 AA
11856795 TTATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAAATATTAATAGTTTA
Found at i:11859462 original size:40 final size:40
Alignment explanation
Indices: 11859387--11859465 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
11859377 GACTTTTTTT
* * **
11859387 TTCACCTTAGTGGGGTTTTCAACTTTTCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTCCAACCTCGCCAAGATTGGTGA
*
11859427 TTCACCTTAGTGGGGTTTCCAACCTCGCCATGATTGGTG
1 TTCACCTTAGTGGGGTTTCCAACCTCGCCAAGATTGGTG
11859466 TCTTTCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTCCAACCTCGCCAAGATTGGTGA
Found at i:11861429 original size:110 final size:109
Alignment explanation
Indices: 11861196--11861396 Score: 321
Period size: 110 Copynumber: 1.8 Consensus size: 109
11861186 AAATAAAAAG
**
11861196 TAAATATATTTATATTTAAAGTACATACACACACACACACACACACACATACATAAAAAATATTT
1 TAAATATAACTATATTTAAAGTACATACACACACACACACACACACACATACATAAAAAATATTT
* * *
11861261 CAATATATAAAATAGTAATTATATTCCNAACACAAAATAGAAAT
66 CAATATATAAAATAGTAATTATATTCCTAACACAAAACACAAAT
***
11861305 TAAATATGTTTATATTTAAAGTACATACACACACACACACACACAACACATACATAAAAAATATT
1 TAAATATAACTATATTTAAAGTACATACACACACACACACACAC-ACACATACATAAAAAATATT
11861370 TCAATATATAAAATAGTAATTATATTC
65 TCAATATATAAAATAGTAATTATATTC
11861397 TTTATAAATT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 43 0.48
110 47 0.52
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.29
Consensus pattern (109 bp):
TAAATATAACTATATTTAAAGTACATACACACACACACACACACACACATACATAAAAAATATTT
CAATATATAAAATAGTAATTATATTCCTAACACAAAACACAAAT
Found at i:11861829 original size:21 final size:22
Alignment explanation
Indices: 11861787--11861829 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
11861777 ATTTTTTAAT
* * *
11861787 TTAATATATTAATGTCATCATA
1 TTAATATATTAAAGTAACCATA
11861809 TTAATA-ATTAAAGTAACCATA
1 TTAATATATTAAAGTAACCATA
11861830 CTTTTCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAATATATTAAAGTAACCATA
Found at i:11865389 original size:2 final size:2
Alignment explanation
Indices: 11865382--11865413 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11865372 TTAGGCAAAC
*
11865382 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11865414 TCTAGTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11866868 original size:34 final size:33
Alignment explanation
Indices: 11866829--11866945 Score: 103
Period size: 34 Copynumber: 3.4 Consensus size: 33
11866819 TAGTTGTATT
11866829 GCCTTGAGTGGGGTGGAAATACCACCACCATATA
1 GCCTTGAGTGGGG-GGAAATACCACCACCATATA
***
11866863 GCCTTGAGTTGGGGCGGATGGACCAATCTC-CCA-ATA
1 GCCTTGAG-TGGGG-GGAAATACC-A-C-CACCATATA
* * *
11866899 GCCTTGAGTGGGGCGAAATACCACTACTATATA
1 GCCTTGAGTGGGGGGAAATACCACCACCATATA
11866932 GCCTTGAGGTGGGG
1 GCCTTGA-GTGGGG
11866946 CGGACGTACC
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
32 3 0.05
33 11 0.17
34 19 0.29
35 16 0.24
36 12 0.18
37 4 0.06
38 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (33 bp):
GCCTTGAGTGGGGGGAAATACCACCACCATATA
Found at i:11866904 original size:36 final size:35
Alignment explanation
Indices: 11866856--11866964 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
11866846 AATACCACCA
11866856 CCATATAGCCTTGAGTTGGGGCGGATGGACCAATCTC
1 CCATATAGCCTTGAG-TGGGGCGGAT-GACCAATCTC
* *
11866893 CCA-ATAGCCTTGAGTGGGGCGAAAT-ACC-A-CTA
1 CCATATAGCCTTGAGTGGGGCG-GATGACCAATCTC
* *
11866925 CTATATAGCCTTGAGGTGGGGCGGACGTACCAATCTC
1 CCATATAGCCTTGA-GTGGGGCGGATG-ACCAATCTC
11866962 CCA
1 CCA
11866965 CGTGTAGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
32 4 0.07
33 12 0.21
34 11 0.19
35 10 0.17
36 14 0.24
37 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (35 bp):
CCATATAGCCTTGAGTGGGGCGGATGACCAATCTC
Found at i:11866921 original size:69 final size:70
Alignment explanation
Indices: 11866829--11866964 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 70
11866819 TAGTTGTATT
* * *
11866829 GCCTTGAGTGGGGTGGAAATACCACCACCATATAGCCTTGAGTTGGGGCGGATGGACCAATCTCC
1 GCCTTGAGTGGGGTCGAAATACCACCACCATATAGCCTTGAGGTGGGGCGGACGGACCAATCTCC
11866894 CAATA
66 CAATA
* * *
11866899 GCCTTGAGTGGGG-CGAAATACCACTACTATATAGCCTTGAGGTGGGGCGGACGTACCAATCTCC
1 GCCTTGAGTGGGGTCGAAATACCACCACCATATAGCCTTGAGGTGGGGCGGACGGACCAATCTCC
11866963 CA
66 CA
11866965 CGTGTAGTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 47 0.78
70 13 0.22
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (70 bp):
GCCTTGAGTGGGGTCGAAATACCACCACCATATAGCCTTGAGGTGGGGCGGACGGACCAATCTCC
CAATA
Found at i:11868492 original size:23 final size:23
Alignment explanation
Indices: 11868435--11868498 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
11868425 AGAAAAAAAG
*
11868435 TTTAAAATT-TT-A-ATTATAAA
1 TTTAAAATTATTAATATTTTAAA
11868455 TTATAAAA--ATTAATATTTTAAA
1 TT-TAAAATTATTAATATTTTAAA
11868477 TTTAAAATTATTAATATTTTAA
1 TTTAAAATTATTAATATTTTAA
11868499 TCATAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 9 0.24
23 13 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAAAATTATTAATATTTTAAA
Found at i:11868511 original size:23 final size:21
Alignment explanation
Indices: 11868456--11868554 Score: 96
Period size: 23 Copynumber: 4.5 Consensus size: 21
11868446 AATTATAAAT
11868456 TATAAAA-ATTAATATTTTAAA
1 TATAAAATATTAATATTTT-AA
*
11868477 TTTAAAATTATTAATATTTTAA
1 TATAAAA-TATTAATATTTTAA
*
11868499 TCATAATAATATTTAA-ATTATAA
1 T-ATAA-AATA-TTAATATTTTAA
11868522 -ATAAAATATTAATATTTTAA
1 TATAAAATATTAATATTTTAA
11868542 TCATAATAATATT
1 T-ATAA-AATATT
11868555 TAATTATAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 10 0.15
22 7 0.11
23 28 0.43
24 6 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAAAATATTAATATTTTAA
Found at i:11868531 original size:20 final size:21
Alignment explanation
Indices: 11868501--11868563 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
11868491 TATTTTAATC
11868501 ATAATAATATTTAAATTATAA
1 ATAATAATATTTAAATTATAA
*
11868522 ATAA-AATA-TTAATATTTTAA
1 ATAATAATATTTAA-ATTATAA
11868542 TCATAATAATATTT-AATTATAA
1 --ATAATAATATTTAAATTATAA
11868564 TAAATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 10 0.29
21 4 0.11
22 10 0.29
23 5 0.14
24 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATAATATTTAAATTATAA
Found at i:11868532 original size:43 final size:41
Alignment explanation
Indices: 11868479--11868575 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 41
11868469 ATTTTAAATT
11868479 TAAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAA
1 TAAAA-TATTAATATTTTAATCATAATAATATTT-AATTAT-AA
11868523 TAAAATATTAATATTTTAATCATAATAATATTTAATTATAA
1 TAAAATATTAATATTTTAATCATAATAATATTTAATTATAA
11868564 T-AAATATTAATA
1 TAAAATATTAATA
11868576 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
40 11 0.21
41 3 0.06
42 6 0.11
43 28 0.53
44 5 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (41 bp):
TAAAATATTAATATTTTAATCATAATAATATTTAATTATAA
Found at i:11868574 original size:16 final size:16
Alignment explanation
Indices: 11868488--11868571 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 16
11868478 TTAAAATTAT
11868488 TAATATTTTAATCATAA
1 TAATA-TTTAATCATAA
*
11868505 TAATATTTAA--ATTA
1 TAATATTTAATCATAA
* *
11868519 TAA-A--TAA-AATAT
1 TAATATTTAATCATAA
11868531 TAATATTTTAATCATAA
1 TAATA-TTTAATCATAA
*
11868548 TAATATTTAATTATAA
1 TAATATTTAATCATAA
11868564 TAAATATT
1 T-AATATT
11868572 AATANNNNNN
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
11 3 0.06
12 5 0.09
13 2 0.04
14 6 0.11
16 19 0.35
17 19 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATTTAATCATAA
Found at i:11876500 original size:2 final size:2
Alignment explanation
Indices: 11876456--11876481 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11876446 ACTTATAAAC
11876456 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11876482 GTAAATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11884067 original size:15 final size:16
Alignment explanation
Indices: 11884021--11884069 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
11884011 CTTAAAACAA
*
11884021 CTTTAAAACTAAAAAT
1 CTTTAAAACTCAAAAT
* *
11884037 -TTTAAAATTC-ATAT
1 CTTTAAAACTCAAAAT
11884051 CTTTAAAA-TCAAAAT
1 CTTTAAAACTCAAAAT
11884066 CTTT
1 CTTT
11884070 GATCTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CTTTAAAACTCAAAAT
Found at i:11902763 original size:33 final size:31
Alignment explanation
Indices: 11902722--11902784 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
11902712 CTCACTCAAC
*
11902722 TTTAATTTTTTTAATTTATATTATTATTTGTA
1 TTTAATTTTTTTAATTTATATT-CTATTTGTA
* *
11902754 TTTATATTTTTTTTATTTTTATTCTATTTGT
1 TTTA-ATTTTTTTAATTTATATTCTATTTGT
11902785 TCATATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (31 bp):
TTTAATTTTTTTAATTTATATTCTATTTGTA
Found at i:11906901 original size:2 final size:2
Alignment explanation
Indices: 11906894--11906922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11906884 AAAGTAAAGA
11906894 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11906923 AAGGATGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11908206 original size:22 final size:22
Alignment explanation
Indices: 11908181--11908222 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11908171 AAATGGCACT
* *
11908181 CAACACCTGCGACGGTGGCGGG
1 CAACAACTGCAACGGTGGCGGG
11908203 CAACAACTGCAACGGTGGCG
1 CAACAACTGCAACGGTGGCG
11908223 ACAGCGACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.31, G:0.36, T:0.10
Consensus pattern (22 bp):
CAACAACTGCAACGGTGGCGGG
Found at i:11908550 original size:15 final size:15
Alignment explanation
Indices: 11908525--11908648 Score: 55
Period size: 15 Copynumber: 8.3 Consensus size: 15
11908515 TATTTGCAAA
*
11908525 ATTTAAAATATTAAT
1 ATTTAATATATTAAT
*
11908540 ATTTTATATA-TAAT
1 ATTTAATATATTAAT
* *
11908554 -TTAAAAATTATTAAT
1 ATTTAATA-TATTAAT
11908569 A-TTAATATGATTGAA-
1 ATTTAATAT-ATT-AAT
*
11908584 ATATTAAAATATTAAT
1 AT-TTAATATATTAAT
*
11908600 ATTTTGAA-CTATTAAT
1 A-TTT-AATATATTAAT
* * *
11908616 GTTTTATTTATTAAT
1 ATTTAATATATTAAT
11908631 -TATTAATATATTAA-
1 AT-TTAATATATTAAT
11908645 ATTT
1 ATTT
11908649 TTAATGAGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
13 4 0.05
14 11 0.13
15 43 0.52
16 15 0.18
17 9 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTAATATATTAAT
Found at i:11908606 original size:24 final size:25
Alignment explanation
Indices: 11908530--11908614 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 25
11908520 GCAAAATTTA
* * * *
11908530 AAATATTAATATTTTATATATAATTT
1 AAATATTAAAATATTA-ATATGATTG
* *
11908556 AAAAATTATTAATATTAATATGATTG
1 AAATATTA-AAATATTAATATGATTG
*
11908582 AAATATTAAAATATTAATAT-TTTG
1 AAATATTAAAATATTAATATGATTG
*
11908606 AACTATTAA
1 AAATATTAA
11908615 TGTTTTATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
24 11 0.23
25 11 0.23
26 21 0.44
27 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (25 bp):
AAATATTAAAATATTAATATGATTG
Found at i:11908696 original size:22 final size:23
Alignment explanation
Indices: 11908667--11908728 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
11908657 TATAAATAAA
11908667 AAATAAAA-ATTATTAATATT-T
1 AAATAAAATATTATTAATATTAT
* *
11908688 TAATCAAAATAATATTAA-ATTAT
1 AAAT-AAAATATTATTAATATTAT
11908711 AAATAAAATATTATTAAT
1 AAATAAAATATTATTAAT
11908729 TAAAATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATAAAATATTATTAATATTAT
Found at i:11908723 original size:14 final size:15
Alignment explanation
Indices: 11908706--11908738 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11908696 ATAATATTAA
11908706 ATTA-TAAATAAAAT
1 ATTATTAAATAAAAT
*
11908720 ATTATTAATTAAAAT
1 ATTATTAAATAAAAT
11908735 ATTA
1 ATTA
11908739 ATAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTATTAAATAAAAT
Found at i:11908734 original size:15 final size:15
Alignment explanation
Indices: 11908714--11908812 Score: 54
Period size: 15 Copynumber: 7.0 Consensus size: 15
11908704 AAATTATAAA
11908714 TAAAATATTATTAAT
1 TAAAATATTATTAAT
*
11908729 TAAAATATTAATAA-
1 TAAAATATTATTAAT
11908743 T--AAT-TT-TT-AT
1 TAAAATATTATTAAT
*
11908753 TAAAATATTGA-TATT
1 TAAAATATT-ATTAAT
*
11908768 TAAATTATTAATT-AT
1 TAAAATATT-ATTAAT
* *
11908783 TAATATTTTAATTAAT
1 TAAAATATT-ATTAAT
*
11908799 TATAA-ATTATTAAT
1 TAAAATATTATTAAT
11908813 ATTTAAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
9 1 0.02
10 2 0.03
11 2 0.03
12 6 0.10
13 2 0.03
14 8 0.13
15 36 0.57
16 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TAAAATATTATTAAT
Found at i:11908754 original size:24 final size:25
Alignment explanation
Indices: 11908675--11908761 Score: 76
Period size: 26 Copynumber: 3.6 Consensus size: 25
11908665 AAAAATAAAA
* *
11908675 ATTATTAATATTTTAATCAAAATA--
1 ATTATTAAAATATTAAT-AAAATATT
* *
11908699 A-TATTAAATTATAAATAAAATATT
1 ATTATTAAAATATTAATAAAATATT
11908723 ATTAATTAAAATATTAATAATAAT-TT
1 ATT-ATTAAAATATTAATAA-AATATT
11908749 -TTATTAAAATATT
1 ATTATTAAAATATT
11908762 GATATTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.12
23 11 0.21
24 13 0.25
25 3 0.06
26 16 0.31
27 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTATTAAAATATTAATAAAATATT
Found at i:11908771 original size:39 final size:42
Alignment explanation
Indices: 11908714--11908797 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 42
11908704 AAATTATAAA
11908714 TAAAATATTATTAATTAAAATATTAA-TAATAAT-TTTT-AT
1 TAAAATATTATTAATTAAAATATTAATTAATAATATTTTAAT
* * *
11908753 TAAAATATTGA-TATTTAAATTATTAATTATTAATATTTTAAT
1 TAAAATATT-ATTAATTAAAATATTAATTAATAATATTTTAAT
11908795 TAA
1 TAA
11908798 TTATAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 22 0.58
40 7 0.18
41 4 0.11
42 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (42 bp):
TAAAATATTATTAATTAAAATATTAATTAATAATATTTTAAT
Found at i:11911426 original size:101 final size:101
Alignment explanation
Indices: 11911228--11911424 Score: 310
Period size: 101 Copynumber: 2.0 Consensus size: 101
11911218 TAATCTCTTG
* ** *
11911228 GTGAGCTTTTAACATATATTTTTTAACTAAAATTTTCAAATTTATTCTTTCGAAAACTTAGATTT
1 GTGAGCTTTTAACATATAATTTCCAACTAAAATTTTCAAATTTATTCTTTCGAAAACTCAGATTT
*
11911293 TATAATTGTTTGGTTCAATTGAAAAAGAAAAAGGGT
66 TATAATTATTTGGTTCAATTGAAAAAGAAAAAGGGT
11911329 GTGAGCTTTTAACATATAATTTCCAA-TCAAAATTTTCAAATTTATTCTTTCGAAAA-TCAGCAT
1 GTGAGCTTTTAACATATAATTTCCAACT-AAAATTTTCAAATTTATTCTTTCGAAAACTCAG-AT
11911392 TTTATAATTATTTGGTTCAATTG-AAAAGAAAAA
64 TTTATAATTATTTGGTTCAATTGAAAAAGAAAAA
11911425 AGAGAGAGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
100 14 0.16
101 75 0.84
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (101 bp):
GTGAGCTTTTAACATATAATTTCCAACTAAAATTTTCAAATTTATTCTTTCGAAAACTCAGATTT
TATAATTATTTGGTTCAATTGAAAAAGAAAAAGGGT
Found at i:11914090 original size:13 final size:13
Alignment explanation
Indices: 11914072--11914096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11914062 TTTCAGAAAG
11914072 TTTATAAAATCAT
1 TTTATAAAATCAT
11914085 TTTATAAAATCA
1 TTTATAAAATCA
11914097 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11919096 original size:15 final size:15
Alignment explanation
Indices: 11919046--11919096 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
11919036 TTCTTAAAAC
*
11919046 AACTTTAAAACCAAA
1 AACTTTAAAATCAAA
* *
11919061 AAATTTAAAATCCAA
1 AACTTTAAAATCAAA
*
11919076 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
11919091 ATCTTT
1 AACTTT
11919097 TATCTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:11920317 original size:13 final size:13
Alignment explanation
Indices: 11920299--11920323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11920289 TTTCAGAAAG
11920299 TTTATAAAATCAT
1 TTTATAAAATCAT
11920312 TTTATAAAATCA
1 TTTATAAAATCA
11920324 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11928987 original size:13 final size:13
Alignment explanation
Indices: 11928969--11928993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11928959 TTTCAAAAAA
11928969 TTTATAAAATCAT
1 TTTATAAAATCAT
11928982 TTTATAAAATCA
1 TTTATAAAATCA
11928994 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11935255 original size:13 final size:13
Alignment explanation
Indices: 11935237--11935261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11935227 TTCCAGAAAA
11935237 TTTATAAAATCAT
1 TTTATAAAATCAT
11935250 TTTATAAAATCA
1 TTTATAAAATCA
11935262 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11939763 original size:31 final size:30
Alignment explanation
Indices: 11939706--11939769 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
11939696 TTAAATTTTG
**
11939706 TTTGTTATATTTGATGTTATTGTTATTTTAT
1 TTTGTTATATTTGATGTTATAATTA-TTTAT
* *
11939737 TTTGTTATATTTGTTTTTATAATTATTTAT
1 TTTGTTATATTTGATGTTATAATTATTTAT
11939767 TTT
1 TTT
11939770 AAATTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (30 bp):
TTTGTTATATTTGATGTTATAATTATTTAT
Found at i:11942074 original size:25 final size:22
Alignment explanation
Indices: 11942039--11942089 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
11942029 AAATAAATTT
* *
11942039 TTATAATTAATGAATA-ATTAA
1 TTATTATTAATTAATATATTAA
*
11942060 TTATTATTAATTAATATATTAT
1 TTATTATTAATTAATATATTAA
11942082 TTATTATT
1 TTATTATT
11942090 TAATATCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTATTAATTAATATATTAA
Found at i:11942087 original size:19 final size:18
Alignment explanation
Indices: 11942059--11942095 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11942049 TGAATAATTA
11942059 ATTATTATTAATTAATAT
1 ATTATTATTAATTAATAT
*
11942077 ATTATTTATTATTTAATAT
1 ATTA-TTATTAATTAATAT
11942096 CACATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTATTAATTAATAT
Found at i:11944488 original size:27 final size:27
Alignment explanation
Indices: 11944458--11944514 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
11944448 TCGGAGTAAA
*
11944458 AGGGCAAAAT-AGTAATTTTTTCACCCC
1 AGGGC-AAATCAGTAAATTTTTCACCCC
*
11944485 AGGGGCAAATCGGTAAATTTTTCACCCC
1 A-GGGCAAATCAGTAAATTTTTCACCCC
11944513 AG
1 AG
11944515 CACTTGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (27 bp):
AGGGCAAATCAGTAAATTTTTCACCCC
Found at i:11945794 original size:42 final size:42
Alignment explanation
Indices: 11945735--11945857 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
11945725 GTTGATTTGA
11945735 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
11945777 ACCCGACTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
11945819 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
11945858 TTGCCTCCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:11946153 original size:26 final size:26
Alignment explanation
Indices: 11946092--11946153 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
11946082 TTGCATATGA
*
11946092 GATGATGATAATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
11946118 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
11946144 GTTGATGATG
1 GATGATGATG
11946154 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:11948889 original size:15 final size:15
Alignment explanation
Indices: 11948871--11948900 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11948861 ATAAAATTTG
*
11948871 ATAAACAATTTGAAT
1 ATAAACAAATTGAAT
11948886 ATAAACAAATTGAAT
1 ATAAACAAATTGAAT
11948901 CAACAGAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAAACAAATTGAAT
Found at i:11949366 original size:32 final size:31
Alignment explanation
Indices: 11949297--11949366 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
11949287 TATTTTGATG
*
11949297 ATGTGGCACCCACACGATAACATGACATGCC
1 ATGTGGCACCAACACGATAACATGACATGCC
* ** *
11949328 ACGTGGCACCAACTTGATAACATGGCTATGCC
1 ATGTGGCACCAACACGATAACATGAC-ATGCC
11949360 ATGTGGC
1 ATGTGGC
11949367 CCTAATATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (31 bp):
ATGTGGCACCAACACGATAACATGACATGCC
Found at i:11960896 original size:15 final size:15
Alignment explanation
Indices: 11960873--11960912 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11960863 TAATTATAAA
11960873 TAATGTGATTG-AATG
1 TAATGTGATTGCAA-G
*
11960888 TAATATGATTGCAAG
1 TAATGTGATTGCAAG
11960903 TAATGTGATT
1 TAATGTGATT
11960913 ACAGGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (15 bp):
TAATGTGATTGCAAG
Found at i:11965585 original size:5 final size:5
Alignment explanation
Indices: 11965575--11965599 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11965565 CTTGATATTG
11965575 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
11965600 GCATTGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:11968134 original size:13 final size:13
Alignment explanation
Indices: 11968116--11968140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11968106 TGAATAAATG
11968116 TGATTTTATAAAA
1 TGATTTTATAAAA
11968129 TGATTTTATAAA
1 TGATTTTATAAA
11968141 TTTTTAGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11970492 original size:27 final size:27
Alignment explanation
Indices: 11970462--11970513 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
11970452 CGGAGTATAG
11970462 GGGCAAAATC-GT-AATTTTTTCACCCGA
1 GGGC-AAATCGGTAAATTTTTT-ACCCGA
11970489 GGGCAAATCGGTAAATTTTTTACCC
1 GGGCAAATCGGTAAATTTTTTACCC
11970514 CAGCACTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.22
27 10 0.43
28 8 0.35
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGGCAAATCGGTAAATTTTTTACCCGA
Found at i:11971767 original size:42 final size:42
Alignment explanation
Indices: 11971720--11971928 Score: 292
Period size: 42 Copynumber: 5.0 Consensus size: 42
11971710 TGTTGATGTG
** * *
11971720 GACCCGGCTATGTATGAGTAGGAGTGCATATAAGCCATTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
11971762 GACCCGGCTATGTGCGAGTAGGAGTGCACATATGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * *
11971804 AACCCTGCTATGTGCGAGTGGGAGTGCACATATGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
11971846 GACCCGCCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
11971888 GACCCGGCTATGTGCGAGTGGGAGTACGCATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
11971929 ATATGAGATG
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 150 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:11971943 original size:3 final size:3
Alignment explanation
Indices: 11971931--11971978 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
11971921 GCCGTTGCAT
*
11971931 ATG A-G ATG ATG ATG ATG -GG ATG ATG -TG CATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG ATG
11971974 A-G ATG
1 ATG ATG
11971979 GTGTGCATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.76
4 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.38, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:11971971 original size:26 final size:26
Alignment explanation
Indices: 11971935--11971996 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
11971925 TTGCATATGA
*
11971935 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGAGATGATGTGCAT
*
11971961 GATGATGATGATGAGATGGTGTGCAT
1 GATGATGATGATGAGATGATGTGCAT
* *
11971987 GTTTATGATG
1 GATGATGATG
11971997 GGTATATGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (26 bp):
GATGATGATGATGAGATGATGTGCAT
Found at i:11973180 original size:26 final size:26
Alignment explanation
Indices: 11973150--11973200 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
11973140 AGGTTATTGT
11973150 GAAAAGTGTGGTTATTACTTGATTTC
1 GAAAAGTGTGGTTATTACTTGATTTC
11973176 GAAAAGTGTGGTTATTACTTGATTT
1 GAAAAGTGTGGTTATTACTTGATTT
11973201 TGTAATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (26 bp):
GAAAAGTGTGGTTATTACTTGATTTC
Found at i:11974759 original size:218 final size:218
Alignment explanation
Indices: 11974350--11974740 Score: 655
Period size: 218 Copynumber: 1.8 Consensus size: 218
11974340 ATAAAAATAT
*
11974350 AATGTTATAATGTTTTATATCAAAGTTTGTGTAAATAATAACTAATTATAAACAATATGTTATAA
1 AATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAA
* *
11974415 AAACTAAATTGATAACTAATAATGTTATTAAGTGTAATCATATAAATAAAGTTTATCATAAGTTA
66 AAACTAAATTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTAT-ATAAGTTA
* *
11974480 TAGTAATGTTTATGTATAAATTAAATATATGTATATATAATATATTACTTTATTATATATATGAA
130 TAGTAATGCTTATGTATAAATTAAATATATGTATATATAATATATTACATTATTATATATATGAA
11974545 ATTAATGACACAGCTTATATGTTA
195 ATTAATGACACAGCTTATATGTTA
*
11974569 AATGTTTTAAT-TTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAA
1 AATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAA
* *
11974633 AAACTAAGA-TGATAACTAATAAAGTTATTAAATGTAATCATATAAATGAAGTTTAT-TATG-TA
66 AAACTAA-ATTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATATAAGTTA
*
11974695 TTGTAATGCTTATGTATAAATTAAATATATGTATATATAATATATT
130 TAGTAATGCTTATGTATAAATTAAATATATGTATATATAATATATT
11974741 GATACAATTA
Statistics
Matches: 163, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
215 46 0.28
216 3 0.02
218 103 0.63
219 11 0.07
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (218 bp):
AATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAA
AAACTAAATTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATATAAGTTAT
AGTAATGCTTATGTATAAATTAAATATATGTATATATAATATATTACATTATTATATATATGAAA
TTAATGACACAGCTTATATGTTA
Found at i:12000887 original size:31 final size:31
Alignment explanation
Indices: 12000839--12000925 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
12000829 TTTTACACCA
*
12000839 GTTTTTCATGGGCTCAACCAAAACCCAAAATG
1 GTTTTTCA-AGGCTCAACCAAAACCCAAAATG
12000871 GTTTTTCAAGGCTCAACCAAAACCCAAAATG
1 GTTTTTCAAGGCTCAACCAAAACCCAAAATG
* *
12000902 GTTTTCCAAGGCTCAACCACAACC
1 GTTTTTCAAGGCTCAACCAAAACC
12000926 TATAACAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 44 0.85
32 8 0.15
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (31 bp):
GTTTTTCAAGGCTCAACCAAAACCCAAAATG
Found at i:12002895 original size:2 final size:2
Alignment explanation
Indices: 12002888--12002913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12002878 TGAAATCATG
12002888 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12002914 GAATGGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12003109 original size:2 final size:2
Alignment explanation
Indices: 12003102--12003127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12003092 TAAATACATG
12003102 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12003128 GAATGGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12003125 original size:214 final size:212
Alignment explanation
Indices: 12002880--12003300 Score: 824
Period size: 214 Copynumber: 2.0 Consensus size: 212
12002870 TTAGAGCTTG
12002880 AAATCATGATATATATATATATATATATATATATGAATGGATAAATTTTATATGTATTTAAGTAA
1 AAATCATGATATATATATATATATATATATATATGAATGGATAAATTTTATATGTATTTAAGTAA
12002945 ATAATTTTCTCATTTGAAATAATTAGGTTGTTTTATAACTGTTAAAGTTGTAAATATTAGATTTT
66 ATAATTTTCTCATTTGAAATAATTAGGTTGTTTTATAACTGTTAAAGTTGTAAATATTAGATTTT
12003010 AGTCATTTACTTAAAAAAGCTTGGAAAGAATTGAAATTGCAAATTAAATCAACCTAAATTATTTC
131 AGTCATTTACTTAAAAAAGCTTGGAAAGAATTGAAATTGCAAATTAAATCAACCTAAATTATTTC
12003075 ATTTCAAACTTTNTTAGT
196 ATTTCAAACTTT-TTAGT
12003093 AAATACATGATATATATATATATATATATATATATGAATGGATAAATTTTATATGTATTTAAGTA
1 AAAT-CATGATATATATATATATATATATATATATGAATGGATAAATTTTATATGTATTTAAGTA
12003158 AATAATTTTCTCATTTGAAATAATTAGGTTGTTTTATAACTGTTAAAGTTGTAAATATTAGATTT
65 AATAATTTTCTCATTTGAAATAATTAGGTTGTTTTATAACTGTTAAAGTTGTAAATATTAGATTT
12003223 TAGTCATTTACTTAAAAAAGCTTGGAAAGAATTGAAATTGCAAATTAAATCAACCTAAATTATTT
130 TAGTCATTTACTTAAAAAAGCTTGGAAAGAATTGAAATTGCAAATTAAATCAACCTAAATTATTT
12003288 CATTTCAAACTTT
195 CATTTCAAACTTT
12003301 ACATAATTAT
Statistics
Matches: 207, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 4 0.02
214 203 0.98
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (212 bp):
AAATCATGATATATATATATATATATATATATATGAATGGATAAATTTTATATGTATTTAAGTAA
ATAATTTTCTCATTTGAAATAATTAGGTTGTTTTATAACTGTTAAAGTTGTAAATATTAGATTTT
AGTCATTTACTTAAAAAAGCTTGGAAAGAATTGAAATTGCAAATTAAATCAACCTAAATTATTTC
ATTTCAAACTTTTTAGT
Found at i:12005009 original size:19 final size:19
Alignment explanation
Indices: 12004987--12005023 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12004977 CTTTCTTAGC
*
12004987 CATTTGTGTTACTTTAAGA
1 CATTTGTGTTACCTTAAGA
*
12005006 CATTTGTTTTACCTTAAG
1 CATTTGTGTTACCTTAAG
12005024 TGTTTATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (19 bp):
CATTTGTGTTACCTTAAGA
Found at i:12013450 original size:29 final size:29
Alignment explanation
Indices: 12013416--12013485 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
12013406 AAGGTGCATC
12013416 TTATGTGCATTTTGTTGAATTTGCACATT
1 TTATGTGCATTTTGTTGAATTTGCACATT
* * * **
12013445 TTATGTACAATTTGTTTAATTTGTGCATT
1 TTATGTGCATTTTGTTGAATTTGCACATT
* *
12013474 TTAAGTGAATTT
1 TTATGTGCATTT
12013486 GGCTTAATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (29 bp):
TTATGTGCATTTTGTTGAATTTGCACATT
Found at i:12015161 original size:13 final size:13
Alignment explanation
Indices: 12015143--12015167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12015133 TTTCAGAAAA
12015143 TTTATAAAATCAT
1 TTTATAAAATCAT
12015156 TTTATAAAATCA
1 TTTATAAAATCA
12015168 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12022245 original size:14 final size:14
Alignment explanation
Indices: 12022226--12022266 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
12022216 TAAAACAACC
12022226 TTAAAATCAAAACT
1 TTAAAATCAAAACT
*
12022240 TTAAAATCCAAAGCT
1 TTAAAAT-CAAAACT
12022255 TTAAAATCAAAA
1 TTAAAATCAAAA
12022267 TATCTGATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (14 bp):
TTAAAATCAAAACT
Found at i:12024828 original size:28 final size:27
Alignment explanation
Indices: 12024782--12024835 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
12024772 ATGTCCTGGT
** *
12024782 GGTGGAAAATTACTGTTTTGCCCCTAG
1 GGTGGAAAATTACCATTTTACCCCTAG
12024809 GGTGGTAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACCATTTTACCCCTA
12024836 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTACCCCTAG
Found at i:12027088 original size:20 final size:20
Alignment explanation
Indices: 12027063--12027109 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
12027053 TTTTTGACCC
12027063 AATTTGACTTATTGGAGCAT
1 AATTTGACTTATTGGAGCAT
*
12027083 AATTTGACTTATTGGAGTAT
1 AATTTGACTTATTGGAGCAT
*
12027103 GATTTGA
1 AATTTGA
12027110 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (20 bp):
AATTTGACTTATTGGAGCAT
Found at i:12049863 original size:2 final size:2
Alignment explanation
Indices: 12049856--12049921 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
12049846 ACATACATAC
* * *
12049856 AT AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12049898 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
12049922 TGCATGTTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12049867 original size:18 final size:18
Alignment explanation
Indices: 12049844--12049918 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
12049834 TAGGGAAATC
12049844 ATACATACATACATATAT
1 ATACATACATACATATAT
12049862 ATACATACATACATATAT
1 ATACATACATACATATAT
* * *
12049880 ATATATATATATATATAT
1 ATACATACATACATATAT
* * *
12049898 ATATATATATATATATAT
1 ATACATACATACATATAT
12049916 ATA
1 ATA
12049919 TATTGCATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
ATACATACATACATATAT
Found at i:12056616 original size:6 final size:6
Alignment explanation
Indices: 12056599--12056648 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
12056589 CAATAACATT
* *
12056599 TAAAAA TCAAAAA TAAAAA TAAAAA TAAGAA TAAGAA TAAAAA TTAAAAA
1 TAAAAA T-AAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA
12056649 AATTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
6 28 0.70
7 12 0.30
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:12056905 original size:57 final size:58
Alignment explanation
Indices: 12056757--12056919 Score: 195
Period size: 57 Copynumber: 2.8 Consensus size: 58
12056747 ATGGAAGTTA
* * * * *
12056757 CTAGACTTAATCTAGGCTTGACCTATCTTAAAGTAGATTCAATTTAAATTTGAATTTC
1 CTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAACTTGAATTTC
* * * * * **
12056815 TTAAACTTAATCT-AGGTTCAATCTATCTCAAAATAGTTTTGATTTAAACTTGAA-TTC
1 CTAGACTTAATCTAAGCTT-AATCTATCTTAAAATAGATTCAATTTAAACTTGAATTTC
12056872 CTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAA
1 CTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAA
12056920 GTTCCTCAAC
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
57 42 0.50
58 42 0.50
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (58 bp):
CTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAACTTGAATTTC
Found at i:12056948 original size:52 final size:52
Alignment explanation
Indices: 12056869--12057027 Score: 147
Period size: 52 Copynumber: 3.0 Consensus size: 52
12056859 TAAACTTGAA
* * * * * * * *
12056869 TTCCTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAAG
1 TTCCTAAACTTAATTTAGGTTTGATCTATCTCAAAACAAATTCAATTTAAAG
* **
12056921 TTCCTCAACTTAATTTAGGTTTGATCTATCTCAAAACAAATTTGATTTAAAG
1 TTCCTAAACTTAATTTAGGTTTGATCTATCTCAAAACAAATTCAATTTAAAG
* ** ** * *
12056973 TTCCTAAACTTAATTTTGGTTCAATCTAGATCAGAACATATTCAATTTAAGAG
1 TTCCTAAACTTAATTTAGGTTTGATCTATCTCAAAACAAATTCAATTTAA-AG
12057026 TT
1 TT
12057028 TGAAGTTCTT
Statistics
Matches: 85, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
52 81 0.95
53 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (52 bp):
TTCCTAAACTTAATTTAGGTTTGATCTATCTCAAAACAAATTCAATTTAAAG
Found at i:12057234 original size:58 final size:58
Alignment explanation
Indices: 12056757--12057318 Score: 318
Period size: 58 Copynumber: 9.8 Consensus size: 58
12056747 ATGGAAGTTA
* *
12056757 CTAGACTTAATCTAGGCTTGACCTATCTTAAAGTAGATTCAATTTAAATTTGAATTTC
1 CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
* * * * * ** *
12056815 TTAAACTTAATCTAGG-TTCAATCTATCTCAAAATAGTTTTGATTTAAACTTGAA-TTC
1 CTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
* * * *
12056872 CTAGACTTAATCTAAGCTTAATCTATCTTAAAATAGATTCAATTTAAA---G---TTC
1 CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
* * * * * * *
12056924 CTCA-ACTTAATTTAGGTTTGATCTATCTC-AAA-ACA---AATTT-GATTTAAAGTTC
1 CT-AGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
* * * * * ** * * * *
12056976 CTAAACTTAATTTTGG-TTCAATCTAGATCAGAACATATTCAATTTAAGAGTTTGAAGTTC
1 CTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGATTCAATTTAA-A-TTTGAATTTC
* * * * * * *
12057036 TTAGACTTAATCTAGGTTTGACCTACCT-AAAATAGGTTCAGTTTAAAACTTGAAATTC
1 CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTT-AAATTTGAATTTC
* * * * *** * *
12057094 CTAAACTTAATCTAGACTCGACCAATCTCAAAATAGATTTGGTTAAAACTTGAAATTT-
1 CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTG-AATTTC
* * * ** * *
12057152 CTAAACTTAATTTAGACTCAACCTATCTCAAAATAGATTCTATTTAAATTTCAATTTC
1 CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
* * * * * *
12057210 CTAGACTTAATCTAGGCTTGACCTACCTTC-AAATAAATTCAATCTAAGAGTTAAAATTC
1 CTAGACTTAATCTAGGCTTGACCTATC-TCAAAATAGATTCAATTTAA-ATTTGAATTTC
* *
12057269 CTAGACTTAATATAGG-TTCGACCTATCTCAAAATAGGTTCAATTTGAAAT
1 CTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGATTCAATTT-AAAT
12057319 AGGTTTGATT
Statistics
Matches: 388, Mismatches: 87, Indels: 57
0.73 0.16 0.11
Matches are distributed among these distances:
46 1 0.00
47 5 0.01
50 2 0.01
51 6 0.02
52 48 0.12
53 3 0.01
54 3 0.01
57 53 0.14
58 161 0.41
59 74 0.19
60 30 0.08
61 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (58 bp):
CTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGATTCAATTTAAATTTGAATTTC
Found at i:12059094 original size:55 final size:55
Alignment explanation
Indices: 12059027--12059235 Score: 267
Period size: 55 Copynumber: 3.8 Consensus size: 55
12059017 TGATGACAGG
* **
12059027 TGATTCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACCGGTGGATGA
1 TGATTCTAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACAAGTGGATGA
* *
12059082 TGATTCTAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGACAAGTGGATGA
1 TGATTCTAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACAAGTGGATGA
* * * * * * * * *
12059137 TAATTCTAGCTATGTGCAGTGTAGGAGTACACATAAGTTGATGGCTAGTGGATGA
1 TGATTCTAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACAAGTGGATGA
*
12059192 TGATTCTAGCTATGTGAGG-AGTGGGAGTGCACATGAGCTGATGA
1 TGATTCTAGCTATGTGCGGTA-TGGGAGTGCACATGAGCTGATGA
12059236 GCCAATGGTT
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 130 1.00
ACGTcount: A:0.25, C:0.12, G:0.34, T:0.28
Consensus pattern (55 bp):
TGATTCTAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACAAGTGGATGA
Found at i:12059188 original size:110 final size:110
Alignment explanation
Indices: 12059029--12059235 Score: 306
Period size: 110 Copynumber: 1.9 Consensus size: 110
12059019 ATGACAGGTG
* * * * *
12059029 ATTCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGACCGGTGGATGATGATTCTAGCTA
1 ATTCCAGCTATGTGCAGTATAGGAGTACACATAAGCTGATGACCAGTGGATGATGATTCTAGCTA
* *
12059094 TGTGTGGTGTGGGAGTGCACATGAGCTGATGACAAGTGGATGATA
66 TGTGAGGAGTGGGAGTGCACATGAGCTGATGACAAGTGGATGATA
* * * * *
12059139 ATTCTAGCTATGTGCAGTGTAGGAGTACACATAAGTTGATGGCTAGTGGATGATGATTCTAGCTA
1 ATTCCAGCTATGTGCAGTATAGGAGTACACATAAGCTGATGACCAGTGGATGATGATTCTAGCTA
12059204 TGTGAGGAGTGGGAGTGCACATGAGCTGATGA
66 TGTGAGGAGTGGGAGTGCACATGAGCTGATGA
12059236 GCCAATGGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 85 1.00
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (110 bp):
ATTCCAGCTATGTGCAGTATAGGAGTACACATAAGCTGATGACCAGTGGATGATGATTCTAGCTA
TGTGAGGAGTGGGAGTGCACATGAGCTGATGACAAGTGGATGATA
Found at i:12061874 original size:42 final size:42
Alignment explanation
Indices: 12061811--12061952 Score: 212
Period size: 42 Copynumber: 3.4 Consensus size: 42
12061801 TGTTGATTTG
12061811 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
12061853 GACCCGGCTATGTGCGCGTAGGAGTGCACATAAGCCATTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * * *
12061895 GACCTGACTTTGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
12061937 GACCCGGCTATATGCG
1 GACCCGGCTATGTGCG
12061953 CATAAGCCGT
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:12069323 original size:21 final size:20
Alignment explanation
Indices: 12069274--12069328 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
12069264 CTTTGGGTGT
*
12069274 AATTGGA-GTATTGGAAGTG
1 AATTGGATGTTTTGGAAGTG
* * *
12069293 AAATGAATGTTTTTGAAGTTG
1 AATTGGATGTTTTGGAAG-TG
12069314 AATTGGATGTTTTGG
1 AATTGGATGTTTTGG
12069329 TTGATTTAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 5 0.19
20 8 0.30
21 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (20 bp):
AATTGGATGTTTTGGAAGTG
Found at i:12078068 original size:35 final size:34
Alignment explanation
Indices: 12078022--12078178 Score: 96
Period size: 35 Copynumber: 4.7 Consensus size: 34
12078012 CCCAAGGTGG
* * * *
12078022 TTTTCCAAGGCTCAACCACAACCTTTTACACTAGT
1 TTTTCAAAGGCTCAACCAAAACCTTTCACAAT-GT
** * *
12078057 TTTTCCCAGGCTAAACTAAAACC---CA-AAGTGGT
1 TTTTCAAAGGCTCAACCAAAACCTTTCACAA-T-GT
*
12078089 TTTTCAAAGGCTCAACCACAACCTTTCACAATGAT
1 TTTTCAAAGGCTCAACCAAAACCTTTCACAATG-T
* *
12078124 TTTTCACAGGCTCAACCAAAACC---CA-AAGTGA
1 TTTTCAAAGGCTCAACCAAAACCTTTCACAA-TGT
* *
12078155 TTTTCCAAGGCTCAACCACAACCT
1 TTTTCAAAGGCTCAACCAAAACCT
12078179 ATAACAATCA
Statistics
Matches: 96, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
31 23 0.24
32 26 0.27
34 1 0.01
35 44 0.46
36 2 0.02
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (34 bp):
TTTTCAAAGGCTCAACCAAAACCTTTCACAATGT
Found at i:12078093 original size:67 final size:66
Alignment explanation
Indices: 12077975--12078178 Score: 270
Period size: 67 Copynumber: 3.1 Consensus size: 66
12077965 TCAGCCAAAG
* *
12077975 AACC-TTTACACTAATTTTTCAC-GAGCTCAACTAAAACCCCAAGGTGGTTTTCCAAGGCTCAAC
1 AACCTTTTACACTAGTTTTTCACAG-GCTCAACTAAAA-CCCAAAGTGGTTTTCCAAGGCTCAAC
12078038 CAC
64 CAC
* * *
12078041 AACCTTTTACACTAGTTTTTCCCAGGCTAAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTTACACTAGTTTTTCACAGGCTCAACTAAAACCCAAAGTGG-TTTTCCAAGGCTCAACC
12078106 AC
65 AC
* * * *
12078108 AACCTTTCACAAT-GATTTTTCACAGGCTCAACCAAAACCCAAAGTGATTTTCCAAGGCTCAACC
1 AACCTTTTACACTAG-TTTTTCACAGGCTCAACTAAAACCCAAAGTGGTTTTCCAAGGCTCAACC
12078172 AC
65 AC
12078174 AACCT
1 AACCT
12078179 ATAACAATCA
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
66 37 0.30
67 84 0.69
68 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.26
Consensus pattern (66 bp):
AACCTTTTACACTAGTTTTTCACAGGCTCAACTAAAACCCAAAGTGGTTTTCCAAGGCTCAACCA
C
Found at i:12078100 original size:32 final size:32
Alignment explanation
Indices: 12078055--12078177 Score: 106
Period size: 35 Copynumber: 3.8 Consensus size: 32
12078045 TTTTACACTA
** * *
12078055 GTTTTTCCCAGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
*
12078087 GTTTTTCAAAGGCTCAACCACAACCTTTCACAA-TG
1 GTTTTTCAAAGGCTCAACCAAAACC---CA-AAGTG
* *
12078122 ATTTTTCACAGGCTCAACCAAAACCCAAAGT-
1 GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
* * *
12078153 GATTTTCCAAGGCTCAACCACAACC
1 GTTTTTCAAAGGCTCAACCAAAACC
12078178 TATAACAATC
Statistics
Matches: 73, Mismatches: 13, Indels: 11
0.75 0.13 0.11
Matches are distributed among these distances:
31 22 0.30
32 23 0.32
35 26 0.36
36 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (32 bp):
GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
Found at i:12085229 original size:3 final size:3
Alignment explanation
Indices: 12085217--12085279 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
12085207 TCCAAATATC
* * * *
12085217 TAT T-T TAT TAT TAT CTAT TAT T-T AAT T-T CAT TAT TTT TAT CTTT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
12085261 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
12085280 TATCAAAAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
2 4 0.09
3 38 0.81
4 5 0.11
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12085281 original size:26 final size:28
Alignment explanation
Indices: 12085217--12085283 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 28
12085207 TCCAAATATC
12085217 TATT-TTATTA-TTATCTATTATTTAAT
1 TATTATTATTATTTATCTATTATTTAAT
* *
12085243 T-TCATTATT-TTTATCTTTTA-TT-AT
1 TATTATTATTATTTATCTATTATTTAAT
12085267 TATTATTATTATTTATC
1 TATTATTATTATTTATC
12085284 AAAAGACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 21 0.62
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTATTATTATTTATCTATTATTTAAT
Found at i:12086694 original size:20 final size:20
Alignment explanation
Indices: 12086657--12086694 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12086647 TTATGAAAAA
*
12086657 TTATTTATTTTATCTTTTGT
1 TTATTTATTTGATCTTTTGT
12086677 TTATTTATATTGAT-TTTT
1 TTATTTAT-TTGATCTTTT
12086695 TTCACCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (20 bp):
TTATTTATTTGATCTTTTGT
Found at i:12086812 original size:14 final size:14
Alignment explanation
Indices: 12086792--12086834 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
12086782 ATTTATTGAA
12086792 ATTAAAATAATTTG
1 ATTAAAATAATTTG
* * *
12086806 GTTAAAATTATTTTT
1 ATTAAAA-TAATTTG
12086821 ATTAAAATAATTTG
1 ATTAAAATAATTTG
12086835 TTAGTTGATT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (14 bp):
ATTAAAATAATTTG
Found at i:12086874 original size:23 final size:25
Alignment explanation
Indices: 12086824--12086890 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
12086814 TATTTTTATT
* *
12086824 AAAATAATT-TGTTAGTTGATTAAC
1 AAAATAATTATTTTAGTTGATAAAC
*
12086848 -AAATAATTATTTTAGTTGA-AAAT
1 AAAATAATTATTTTAGTTGATAAAC
12086871 AAATATAATTATTTTTAGTT
1 AAA-ATAATTA-TTTTAGTT
12086891 TAAGGCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 10 0.28
24 11 0.31
25 7 0.19
26 8 0.22
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.46
Consensus pattern (25 bp):
AAAATAATTATTTTAGTTGATAAAC
Found at i:12093383 original size:28 final size:28
Alignment explanation
Indices: 12093351--12093409 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
12093341 GTAATAATAT
12093351 TGAAAAGATCAAGAAACATAATTAAAAA
1 TGAAAAGATCAAGAAACATAATTAAAAA
*
12093379 TGAAAAGATCAAGAAACATATTTAAAAA
1 TGAAAAGATCAAGAAACATAATTAAAAA
12093407 TGA
1 TGA
12093410 GTCATTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.20
Consensus pattern (28 bp):
TGAAAAGATCAAGAAACATAATTAAAAA
Found at i:12108375 original size:53 final size:53
Alignment explanation
Indices: 12108297--12108401 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
12108287 AAATTGCCTA
12108297 CCTATTTAAGCTATTGTACAATACTATTACCTACTGTTATATCTACTATTATG
1 CCTATTTAAGCTATTGTACAATACTATTACCTACTGTTATATCTACTATTATG
12108350 CCTATTTAAGCTATTGTACAATACTATTACCTACTGTTATATCTACTATTAT
1 CCTATTTAAGCTATTGTACAATACTATTACCTACTGTTATATCTACTATTAT
12108402 ATCACAGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (53 bp):
CCTATTTAAGCTATTGTACAATACTATTACCTACTGTTATATCTACTATTATG
Found at i:12111540 original size:41 final size:41
Alignment explanation
Indices: 12111495--12111572 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
12111485 TTTTTTGGAA
*
12111495 TGAAAAAAAGTATCTTCTTAGCCATATTTTAATTTTAAAAT
1 TGAAAAAAACTATCTTCTTAGCCATATTTTAATTTTAAAAT
* * *
12111536 TGAAAAAACCTATTTTCTTAGTCATATTTTAATTTTA
1 TGAAAAAAACTATCTTCTTAGCCATATTTTAATTTTA
12111573 TTGAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (41 bp):
TGAAAAAAACTATCTTCTTAGCCATATTTTAATTTTAAAAT
Found at i:12112168 original size:18 final size:18
Alignment explanation
Indices: 12112142--12112176 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12112132 TAAACTTAAC
*
12112142 AATAATTTAAATTAAAAT
1 AATAATTTAAAATAAAAT
*
12112160 AATACTTTAAAATAAAA
1 AATAATTTAAAATAAAA
12112177 ATTATGAAAA
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAATTTAAAATAAAAT
Found at i:12112742 original size:20 final size:21
Alignment explanation
Indices: 12112703--12112743 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
12112693 TTAATCATTA
12112703 AATTAAATATTTGATTACATAT
1 AATTAAATATTT-ATTACATAT
*
12112725 AATTGAATATTT-TTACATA
1 AATTAAATATTTATTACATA
12112744 ATTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
AATTAAATATTTATTACATAT
Found at i:12113262 original size:2 final size:2
Alignment explanation
Indices: 12113255--12113296 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12113245 TACATTGATA
12113255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12113297 TCTATTTGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12116893 original size:21 final size:21
Alignment explanation
Indices: 12116825--12116893 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
12116815 TTTATTAATT
*
12116825 AAAAATGATAAACAAAAAATGA
1 AAAAATGATAAA-AAAAAAAGA
* *
12116847 ATGAAAATGATAAAAAAATAATA
1 A--AAAATGATAAAAAAAAAAGA
12116870 AAAAATGA-AAAAAAGAAAAGA
1 AAAAATGATAAAAAA-AAAAGA
12116891 AAA
1 AAA
12116894 GAGAGGTACG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.15
21 14 0.36
22 1 0.03
23 7 0.18
24 11 0.28
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.13
Consensus pattern (21 bp):
AAAAATGATAAAAAAAAAAGA
Done.