Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 67 of 240
Found at i:21786717 original size:7 final size:7
Alignment explanation
Indices: 21786692--21786730 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
21786682 TTTGCAACCC
21786692 AAGGGG-
1 AAGGGGA
21786698 AAGGGGA
1 AAGGGGA
21786705 AA--GGA
1 AAGGGGA
21786710 AAGGGGA
1 AAGGGGA
21786717 AAGGGGA
1 AAGGGGA
21786724 AAGGGGA
1 AAGGGGA
21786731 GAAGAAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 6 0.20
7 19 0.63
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (7 bp):
AAGGGGA
Found at i:21786722 original size:19 final size:18
Alignment explanation
Indices: 21786692--21786727 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
21786682 TTTGCAACCC
21786692 AAGGGGAAGGGGAAAGGA
1 AAGGGGAAGGGGAAAGGA
21786710 AAGGGGAAAGGGGAAAGG
1 AAGGGG-AAGGGGAAAGG
21786728 GGAGAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGA
Found at i:21788439 original size:11 final size:11
Alignment explanation
Indices: 21788415--21788480 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 11
21788405 TTTCTCATAT
21788415 TTCCTCTC-AA
1 TTCCTCTCAAA
21788425 TTCCTCTCAAA
1 TTCCTCTCAAA
21788436 TTCCT-TCCAAAA
1 TTCCTCT-C-AAA
*
21788448 TT-CTCTCAAT
1 TTCCTCTCAAA
21788458 TTCCT-TCCAAAA
1 TTCCTCT-C-AAA
21788470 TT-CTCTCAAA
1 TTCCTCTCAAA
21788480 T
1 T
21788481 CTATATTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
10 18 0.39
11 17 0.37
12 11 0.24
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCCTCTCAAA
Found at i:21788453 original size:22 final size:22
Alignment explanation
Indices: 21788423--21788480 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
21788413 ATTTCCTCTC
21788423 AATTCCTCTCAAATTCCTTCCAA
1 AATT-CTCTCAAATTCCTTCCAA
*
21788446 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAAATTCCTTCCAA
21788468 AATTCTCTCAAAT
1 AATTCTCTCAAAT
21788481 CTATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTCTCTCAAATTCCTTCCAA
Found at i:21788508 original size:51 final size:51
Alignment explanation
Indices: 21788450--21788565 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
21788440 TTCCAAAATT
* *
21788450 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
21788501 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
*
21788552 TTCTCAATTTCCTT
1 CTCTCAATTTCCTT
21788566 TTTTAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:21789720 original size:7 final size:7
Alignment explanation
Indices: 21789710--21789734 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21789700 ATTCGACTGA
21789710 TATTTAG
1 TATTTAG
21789717 TATTTAG
1 TATTTAG
21789724 TATTTAG
1 TATTTAG
21789731 TATT
1 TATT
21789735 ATGTATGTAT
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:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:21791012 original size:29 final size:29
Alignment explanation
Indices: 21790977--21791127 Score: 111
Period size: 29 Copynumber: 5.7 Consensus size: 29
21790967 CCCTAAACCC
21790977 TTAATTAAAAACCCTAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAACCCTAGCCTAAT
*
21791006 TTAATTAAAAGCCCTAA----A-CC--A-
1 TTAATTAAAAACCCTAACCCTAGCCTAAT
*
21791027 TTAAATAAAAACCCTAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAACCCTAGCCTAAT
*
21791056 TTAATTAAAAGCCCTAAACCCT----T-A-
1 TTAATTAAAAACCCT-AACCCTAGCCTAAT
* *
21791080 --AA-TAAAAACCCTAATCGTAGCCTAAT
1 TTAATTAAAAACCCTAACCCTAGCCTAAT
*
21791106 TTAATTAAAAGCCCTAATCCCT
1 TTAATTAAAAACCCTAA-CCCT
21791128 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 37
0.66 0.08 0.26
Matches are distributed among these distances:
20 4 0.04
21 24 0.26
22 3 0.03
24 3 0.03
25 4 0.04
26 3 0.03
28 3 0.03
29 40 0.43
30 8 0.09
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (29 bp):
TTAATTAAAAACCCTAACCCTAGCCTAAT
Found at i:21791021 original size:50 final size:50
Alignment explanation
Indices: 21790931--21791456 Score: 555
Period size: 50 Copynumber: 10.4 Consensus size: 50
21790921 TATGACATTT
* * * *
21790931 AATAAAAACCCT-AGCCTAACCTAATTCATTTAAAAACCCTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* * *
21790980 ATTAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCATTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
*
21791030 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* * * *
21791080 AATAAAAACCCTAATCGTAGCCTAATTTAATTAAAAGCCCTAATCCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* * * *
21791130 AATAAAAACCCTAACCCTAACCTAATTCAGTTAAAAACCTTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* *** * *
21791180 ATTAAAAACCCTAA-CCTAATTTAATTCATTTAAAAACCCTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
*
21791229 ATTAAAAACCCT-A----A-CCTAATTTAATTAAAAACCCTAACACTAACCTAATTCA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAA-AC---CC---TT-A
* * *
21791281 ATTAAAACCCTAAACCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTA
1 AATAAAA------ACCCT-AACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* *
21791338 AATAAAAACCCTAACCATAGCCTAATTTAATTAAAAATCCTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
* * * *
21791388 AATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCTAAACCCTTA
1 AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
*
21791438 ATTAAAAACCCTAAACCCT
1 AATAAAAACCCT-AACCCT
21791457 TAAATAAAAA
Statistics
Matches: 411, Mismatches: 43, Indels: 44
0.83 0.09 0.09
Matches are distributed among these distances:
44 19 0.05
45 3 0.01
48 3 0.01
49 54 0.13
50 271 0.66
51 12 0.03
52 8 0.02
57 7 0.02
58 6 0.01
60 1 0.00
61 2 0.00
64 3 0.01
65 22 0.05
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (50 bp):
AATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTA
Found at i:21791256 original size:23 final size:23
Alignment explanation
Indices: 21791142--21791271 Score: 101
Period size: 23 Copynumber: 5.6 Consensus size: 23
21791132 TAAAAACCCT
* *
21791142 AACCCTAACCTAATTCAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
21791165 AACCTTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
21791186 AACCCTAACCTAATTTAATTCATTTAAA
1 AACCCTAACCTAATTT-A---A-TTAAA
*
21791214 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
21791235 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
21791258 AACCCTAACACTAA
1 AACCCTAAC-CTAA
21791272 CCTAATTCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.09
21 23 0.27
22 1 0.01
23 25 0.29
24 9 0.11
25 1 0.01
26 2 0.02
27 1 0.01
28 11 0.13
29 4 0.05
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:21791272 original size:29 final size:28
Alignment explanation
Indices: 21791239--21791293 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
21791229 ATTAAAAACC
*
21791239 CTAACCTAATTTAATTAAAAACCCTAACA
1 CTAACCTAATTCAATT-AAAACCCTAACA
21791268 CTAACCTAATTCAATTAAAACCCTAA
1 CTAACCTAATTCAATTAAAACCCTAA
21791294 ACCTTAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAATTCAATTAAAACCCTAACA
Found at i:21791277 original size:24 final size:23
Alignment explanation
Indices: 21791227--21791278 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
21791217 CCTAAACCCT
**
21791227 TAATTAAAAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACC
21791250 TAATTAAAAACCCTAACACTAACC
1 TAATTAAAAACCCTAAC-CTAACC
21791274 TAATT
1 TAATT
21791279 CAATTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
TAATTAAAAACCCTAACCTAACC
Found at i:21791297 original size:23 final size:24
Alignment explanation
Indices: 21790948--21791297 Score: 103
Period size: 21 Copynumber: 14.2 Consensus size: 24
21790938 ACCCTAGCCT
*
21790948 AACCTAATTCATTTAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
*
21790972 AACC--CTT-AATTAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
* *
21790993 ACCCTAGCCTAATTTAATTAAAAGCCCTA
1 A----A-CCTAATTCAATTAAAAACCCTA
*
21791022 AACC--ATT-AAATAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
* *
21791043 ACCCTAGCCTAATTTAATTAAAAGCCCTA
1 A----A-CCTAATTCAATTAAAAACCCTA
* *
21791072 AACC--CTT-AAATAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
* *
21791093 ATCGTAGCCTAATTTAATTAAAAGCCCTA
1 A----A-CCTAATTCAATTAAAAACCCTA
* * *
21791122 ATCC--CTT-AAATAAAAACCCTAA
1 AACCTAATTCAATTAAAAACCCT-A
* *
21791144 CCCTAACCTAATTCAGTTAAAAACCTTA
1 ----AACCTAATTCAATTAAAAACCCTA
*
21791172 AACC--CTT-AATTAAAAACCCT-
1 AACCTAATTCAATTAAAAACCCTA
*
21791192 AACCTAATTTAATTCATTTAAAAACCCTA
1 AACC-----TAATTCAATTAAAAACCCTA
*
21791221 AACC--CTT-AATTAAAAACCCT-
1 AACCTAATTCAATTAAAAACCCTA
*
21791241 AACCTAATTTAATTAAAAACCCTAACA
1 AACCTAATTCAATTAAAAACCCT---A
21791268 CTAACCTAATTCAATT-AAAACCCTA
1 --AACCTAATTCAATTAAAAACCCTA
21791293 AACCT
1 AACCT
21791298 TAAACCCTAG
Statistics
Matches: 244, Mismatches: 32, Indels: 101
0.65 0.08 0.27
Matches are distributed among these distances:
20 8 0.03
21 74 0.30
22 16 0.07
23 18 0.07
24 14 0.06
25 6 0.02
26 9 0.04
27 2 0.01
28 30 0.12
29 67 0.27
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (24 bp):
AACCTAATTCAATTAAAAACCCTA
Found at i:21791364 original size:208 final size:209
Alignment explanation
Indices: 21791097--21791510 Score: 615
Period size: 208 Copynumber: 2.0 Consensus size: 209
21791087 ACCCTAATCG
* * *
21791097 TAGCCTAATTTAATTAAAAGCCCTAATCCCTTAAATAAAAACCCTAACCCTAACCTAATTCAGTT
1 TAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCATAACCTAATTCAATT
* * **
21791162 AAAAA-CCTTAAACCCTTAATTAAAAACCCTAA-CCTAA-TTTAATTCATTTAAAAACCCTAAAC
66 AAAAATCC-TAAACCCTTAAATAAAAACCCTAACCCTAACCTT-ATTCAACTAAAAACCCTAAAC
* *
21791224 CCTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAACACTAACCTAATTCAATTAAAA
129 CCTTAATTAAAAACCCTAAACC---CTTAAATAAAAACCCTAACACTAACCTAATTCAATTAAAA
21791288 -CCCTAAA-CCTTAAACCC
191 GCCCTAAACCCTTAAACCC
* *
21791305 TAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCATAGCCTAATTTAATT
1 TAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCATAACCTAATTCAATT
21791370 AAAAATCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCTAAACCC
66 AAAAATCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCTAAACCC
* * *
21791435 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCT
131 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACACTAACCTAATTCAATTAAAAGCCCT
21791500 AAACCCTTAAA
196 AAACCCTTAAA
21791511 TAAAAACCCT
Statistics
Matches: 186, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
207 35 0.19
208 95 0.51
209 50 0.27
210 6 0.03
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (209 bp):
TAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCATAACCTAATTCAATT
AAAAATCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCTAAACCC
TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACACTAACCTAATTCAATTAAAAGCCCT
AAACCCTTAAACCC
Found at i:21791393 original size:21 final size:20
Alignment explanation
Indices: 21791364--21791476 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 20
21791354 ATAGCCTAAT
* *
21791364 TTAATTAAAAATCCTAAACCC
1 TTAAATAAAAACCCT-AACCC
21791385 TTAAATAAAAACCCTAACCCTAACC
1 TTAAATAAAAACCCTAA--C---CC
21791410 TTATTCAACTAAAAACCCTAAACCC
1 TTA---AA-TAAAAACCCT-AACCC
*
21791435 TTAATTAAAAACCCTAAACCC
1 TTAAATAAAAACCCT-AACCC
21791456 TTAAATAAAAACCCTAACCC
1 TTAAATAAAAACCCTAACCC
21791476 T
1 T
21791477 AGCCTAATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 21
0.76 0.04 0.20
Matches are distributed among these distances:
20 8 0.10
21 43 0.55
22 2 0.03
25 10 0.13
28 3 0.04
29 10 0.13
30 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
TTAAATAAAAACCCTAACCC
Found at i:21791439 original size:71 final size:71
Alignment explanation
Indices: 21791364--21791522 Score: 255
Period size: 71 Copynumber: 2.2 Consensus size: 71
21791354 ATAGCCTAAT
* *
21791364 TTAATTAAAAATCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
21791429 AAACCC
66 AAACCC
* * * *
21791435 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
21791500 AAACCC
66 AAACCC
*
21791506 TTAAATAAAAACCCTAA
1 TTAATTAAAAACCCTAA
21791523 CCTAATTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 81 1.00
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (71 bp):
TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
AAACCC
Found at i:21791521 original size:44 final size:46
Alignment explanation
Indices: 21791435--21791534 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 46
21791425 CCCTAAACCC
*
21791435 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAAACCCTTAAAT-AAAA--C-AACCCTAACCTAAT
*
21791485 TTAATTAAAAGCCCTAAACCCTTAAAT-AAA-AACCCTAACCTAAT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAACAACCCTAACCTAAT
21791529 TTAATT
1 TTAATT
21791535 CATTTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 19 0.40
48 3 0.06
50 26 0.54
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (46 bp):
TTAATTAAAAACCCTAAACCCTTAAATAAAACAACCCTAACCTAAT
Found at i:21791791 original size:30 final size:30
Alignment explanation
Indices: 21791749--21791841 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
21791739 ATATATTTAT
* *
21791749 TTTTTTAA-TTTAAAATATTTTTTACATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
21791778 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
*
21791808 TTTTTTAAATTTTTTAAA-A-TTTTAAAATA-
1 TTTTTT-AA-TTTTAAAATATTTTTAAAATAC
21791837 TTTTT
1 TTTTT
21791842 AAAATATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
29 13 0.22
30 35 0.60
31 3 0.05
32 7 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:21791800 original size:11 final size:11
Alignment explanation
Indices: 21791786--21791889 Score: 114
Period size: 11 Copynumber: 9.9 Consensus size: 11
21791776 ACTTTTTTAA
21791786 TTTTAAAATAT
1 TTTTAAAATAT
21791797 TTTTAAAATACT
1 TTTTAAAATA-T
*
21791809 TTTTTAAAT-T
1 TTTTAAAATAT
21791819 TTTT-AAA-A-
1 TTTTAAAATAT
21791827 TTTTAAAATAT
1 TTTTAAAATAT
21791838 TTTTAAAATAT
1 TTTTAAAATAT
21791849 TTTTAAAATACT
1 TTTTAAAATA-T
**
21791861 TTTTTTAAT-T
1 TTTTAAAATAT
21791871 TTTT-AAA-AT
1 TTTTAAAATAT
21791880 TTTTAAAATA
1 TTTTAAAATA
21791890 AAAATGGGTC
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
8 4 0.05
9 13 0.16
10 14 0.17
11 32 0.40
12 17 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21791842 original size:52 final size:53
Alignment explanation
Indices: 21791786--21791889 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 53
21791776 ACTTTTTTAA
21791786 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAA-TTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATAT
*
21791838 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATA
21791890 AAAATGGGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 40 0.80
53 10 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATAT
Found at i:21791852 original size:30 final size:30
Alignment explanation
Indices: 21791797--21791857 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
21791787 TTTAAAATAT
*
21791797 TTTTAAAATACTTTTTTAAATTTTTTAAAA
1 TTTTAAAATACTTTTTAAAATTTTTTAAAA
21791827 TTTTAAAATA-TTTTTAAAATATTTTTAAAA
1 TTTTAAAATACTTTTTAAAAT-TTTTTAAAA
21791857 T
1 T
21791858 ACTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATTTTTTAAAA
Found at i:21791887 original size:9 final size:9
Alignment explanation
Indices: 21791809--21791888 Score: 61
Period size: 9 Copynumber: 8.1 Consensus size: 9
21791799 TTAAAATACT
*
21791809 TTTTTAAAT
1 TTTTTAAAA
21791818 TTTTTAAAA
1 TTTTTAAAA
*
21791827 TTTTAAAATA
1 TTTTTAAA-A
21791837 TTTTTAAAATA
1 TTTTT-AAA-A
21791848 TTTTTAAAATA
1 TTTTT-AAA-A
* *
21791859 CTTTTTTTAAT
1 --TTTTTAAAA
21791870 TTTTTAAAA
1 TTTTTAAAA
21791879 TTTTTAAAA
1 TTTTTAAAA
21791888 T
1 T
21791889 AAAAATGGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 32 0.53
10 5 0.08
11 16 0.27
12 2 0.03
13 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:21792266 original size:116 final size:116
Alignment explanation
Indices: 21792062--21792279 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
21792052 AACCTTAACG
* *
21792062 TAATGTTAGATTTGGAAAAATATTTTGACTGGTATTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
21792127 ATTTTACTAACCATTAGTACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* *
21792178 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
21792243 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
21792280 CAATTTATCA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:21792296 original size:17 final size:18
Alignment explanation
Indices: 21792255--21792296 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
21792245 TTTACTAACC
* *
21792255 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
21792273 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
21792290 ATTAATA
1 ATTAATA
21792297 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:21796831 original size:20 final size:20
Alignment explanation
Indices: 21796806--21796916 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
21796796 TTTAAGAATT
21796806 TTTTATTAAATTATATATTA
1 TTTTATTAAATTATATATTA
*
21796826 TTTTA-TAGTATTATATATTA
1 TTTTATTA-AATTATATATTA
*
21796846 TGATTT-TTTAATTA-ATA-TA
1 T--TTTATTAAATTATATATTA
* * * *
21796865 -ATAATTATATTA-AGA--A
1 TTTTATTAAATTATATATTA
21796881 TTTTATTAAATTATATATTA
1 TTTTATTAAATTATATATTA
21796901 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
21796917 TTAATAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
16 2 0.03
17 17 0.24
18 2 0.03
19 4 0.06
20 37 0.53
21 4 0.06
22 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTAAATTATATATTA
Found at i:21796962 original size:57 final size:57
Alignment explanation
Indices: 21796862--21796995 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
21796852 TTTAATTAAT
* *
21796862 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * * * *
21796920 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTTTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
*
21796977 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
21796996 TTAATAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
57 52 0.78
58 15 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:21797192 original size:16 final size:16
Alignment explanation
Indices: 21797173--21797231 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
21797163 TTACAGCTTC
*
21797173 ATTCCATTACAACTCT
1 ATTCAATTACAACTCT
21797189 ATTCAATTACAAC-CTT
1 ATTCAATTACAACTC-T
21797205 ATTCAATTACAA-TCCT
1 ATTCAATTACAACT-CT
*
21797221 ATTCCATTACA
1 ATTCAATTACA
21797232 GTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.03
16 36 0.95
17 1 0.03
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTCAATTACAACTCT
Found at i:21797198 original size:32 final size:31
Alignment explanation
Indices: 21797162--21797232 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
21797152 TGAATTACTG
*
21797162 ATTACAGCTTCATTCCATTACAA-CTCTATTCA
1 ATTACAGCTT-ATTCAATTACAATC-CTATTCA
* *
21797194 ATTACAACCTTATTCAATTACAATCCTATTCC
1 ATTAC-AGCTTATTCAATTACAATCCTATTCA
21797226 ATTACAG
1 ATTACAG
21797233 TTAACCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
31 1 0.03
32 27 0.82
33 5 0.15
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (31 bp):
ATTACAGCTTATTCAATTACAATCCTATTCA
Found at i:21798514 original size:3 final size:3
Alignment explanation
Indices: 21798508--21798549 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
21798498 CGATGACGAC
21798508 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21798550 ACCTGAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21799826 original size:30 final size:29
Alignment explanation
Indices: 21799786--21799848 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
21799776 TAAAAATATA
21799786 TAATAATAAATTTAAAAT-TTATATTAAAAT
1 TAATAATAAA--TAAAATATTATATTAAAAT
* *
21799816 TAATATTAAATAAAATAATTATATTAATAT
1 TAATAATAAATAAAAT-ATTATATTAAAAT
21799846 TAA
1 TAA
21799849 AAAAAGCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
30 23 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATAATAAATAAAATATTATATTAAAAT
Found at i:21800014 original size:29 final size:29
Alignment explanation
Indices: 21799982--21800059 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
21799972 ATATTAATAT
*
21799982 AAAATTTAAATTTATTATTATACT-TTTTG
1 AAAATTTATATTTATTATTATA-TATTTTG
* *
21800011 AAAATGTT-TATTTATTTTTATATATTTTT
1 AAAAT-TTATATTTATTATTATATATTTTG
*
21800040 AAATTTTATATATTATTATT
1 AAAATTTATAT-TTATTATT
21800060 TATTGTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.08
29 28 0.70
30 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (29 bp):
AAAATTTATATTTATTATTATATATTTTG
Found at i:21800058 original size:27 final size:27
Alignment explanation
Indices: 21799994--21800078 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
21799984 AATTTAAATT
* *
21799994 TATTATTATACT-TTTTGAAAATGTTTATT
1 TATTATTATA-TATTTT-TAAAT-TTTATA
*
21800023 TATTTTTATATATTTTTAAATTTTATA
1 TATTATTATATATTTTTAAATTTTATA
* *
21800050 TATTATTATTTATTGTTT-ATTTTTATA
1 TATTATTATATATT-TTTAAATTTTATA
21800077 TA
1 TA
21800079 ATTTTTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 27 0.56
28 8 0.17
29 13 0.27
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTATTATATATTTTTAAATTTTATA
Found at i:21800059 original size:37 final size:36
Alignment explanation
Indices: 21800018--21800104 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 36
21800008 TTGAAAATGT
* *
21800018 TTATTTATTTTTATATATTT-T-TAAATTTTATATATTA
1 TTATTTATTTTTAT-T-TTTATATAATTTTTAAAT-TTA
21800055 TTATTTATTGTTTATTTTTATATAATTTTTAAATTTA
1 TTATTTATT-TTTATTTTTATATAATTTTTAAATTTA
21800092 TTATTATATTTTT
1 TTATT-TATTTTT
21800105 TAGAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
36 3 0.07
37 22 0.50
38 19 0.43
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (36 bp):
TTATTTATTTTTATTTTTATATAATTTTTAAATTTA
Found at i:21800073 original size:44 final size:42
Alignment explanation
Indices: 21800021--21800102 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 42
21800011 AAAATGTTTA
21800021 TTTATTTTTATAT-ATTTTTAAATTTTATATATTATTATTTATTG
1 TTTATTTTTATATAATTTTTAAA-TTTAT-TATTA-TATTTATTG
21800065 TTTATTTTTATATAATTTTTAAATTTATTATTATATTT
1 TTTATTTTTATATAATTTTTAAATTTATTATTATATTT
21800103 TTTAGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
42 5 0.14
43 5 0.14
44 18 0.49
45 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (42 bp):
TTTATTTTTATATAATTTTTAAATTTATTATTATATTTATTG
Found at i:21800116 original size:45 final size:44
Alignment explanation
Indices: 21800023--21800127 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
21800013 AATGTTTATT
**
21800023 TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGTT
1 TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGAA
*
21800067 TATTTTTATATAATTTTTAAA-TTTAT-TATTA-TATTTTTTAGAA
1 TATTTTTATAT-ATTTTTAAATTTTATATATTATTATTTATT-GAA
* * *
21800110 AATATTTATCTATTTTTA
1 TATTTTTATATATTTTTA
21800128 TATGTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 14 0.26
43 14 0.26
44 16 0.30
45 9 0.17
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (44 bp):
TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGAA
Found at i:21801308 original size:53 final size:54
Alignment explanation
Indices: 21801232--21801337 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 54
21801222 TCTTTTTCAA
*
21801232 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATTGTTTAA-TTATTTTTTG
1 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTTG
* * * * *
21801285 TTTGTAATATACAATGTTTTCGGTTTTGAACAAAATCGTTTAACTTTTTTTTT
1 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTT
21801338 AGTATTGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 38 0.83
54 8 0.17
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.49
Consensus pattern (54 bp):
TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTTG
Found at i:21812398 original size:21 final size:19
Alignment explanation
Indices: 21812374--21812412 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
21812364 TAGACTATCG
*
21812374 AGAAAATATAAGTTACAACAA
1 AGAAAACAT-AGTTA-AACAA
21812395 AGAAAACATAGTTAAACA
1 AGAAAACATAGTTAAACA
21812413 GAGATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAACATAGTTAAACAA
Found at i:21813884 original size:19 final size:19
Alignment explanation
Indices: 21813862--21813920 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
21813852 ACATTTAATT
*
21813862 AATTTTTTTAAATTTTAAA
1 AATTATTTTAAATTTTAAA
**
21813881 AATTATTTTAAAAATTAAA
1 AATTATTTTAAATTTTAAA
*
21813900 AA-TAATTTAAATTATTAAA
1 AATTATTTTAAATT-TTAAA
21813919 AA
1 AA
21813921 GTATAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATTTTAAATTTTAAA
Found at i:21813890 original size:12 final size:12
Alignment explanation
Indices: 21813873--21813897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21813863 ATTTTTTTAA
21813873 ATTTTAAAAATT
1 ATTTTAAAAATT
21813885 ATTTTAAAAATT
1 ATTTTAAAAATT
21813897 A
1 A
21813898 AAAATAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:21814419 original size:11 final size:11
Alignment explanation
Indices: 21814403--21814428 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21814393 TTATTTTTAA
21814403 TTTTAAAATAC
1 TTTTAAAATAC
21814414 TTTTAAAATAC
1 TTTTAAAATAC
21814425 TTTT
1 TTTT
21814429 TTTAATTTTA
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:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:21814453 original size:30 final size:31
Alignment explanation
Indices: 21814396--21814460 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
21814386 TATTTTTTTA
21814396 TTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTAAAATACTTTTAAAATACTT
* *
21814427 TTTTTAATTTTAAAAT-TTTTTTAAATACTT
1 TTTTTAATTTTAAAATACTTTTAAAATACTT
21814457 TTTT
1 TTTT
21814461 ACTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTAATTTTAAAATACTTTTAAAATACTT
Found at i:21814480 original size:40 final size:41
Alignment explanation
Indices: 21814403--21814526 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
21814393 TTATTTTTAA
** *
21814403 TTTTAAAATACTTTTAAAATACTTTTTTTAATTTTAAAAT-T
1 TTTTAAAATACTTTTTTAAT-TTTTTTTTAATTTTAAAATAT
* *
21814444 TTTTTAAATACTTTTTTACTTTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTTTAATTTTAAAATAT
21814485 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAATTTTT-TTTTAA-TTTTAAAATA
21814527 AATTTTTGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 18 0.25
41 39 0.53
42 6 0.08
43 10 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAATTTTTTTTTAATTTTAAAATAT
Found at i:21816969 original size:20 final size:20
Alignment explanation
Indices: 21816941--21816978 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21816931 TATTTTCCAA
*
21816941 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
21816961 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
21816979 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:21816983 original size:34 final size:35
Alignment explanation
Indices: 21816927--21816993 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
21816917 CAAACACCAG
* *
21816927 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
*
21816962 AAAACATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAA
21816994 TATTTTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
Found at i:21822037 original size:23 final size:23
Alignment explanation
Indices: 21822011--21822060 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
21822001 ACTTTTATCT
21822011 ATGTAAACCAACGAATATTTAAC
1 ATGTAAACCAACGAATATTTAAC
*** * *
21822034 ATGTGGTCCAATGAATATTTAAG
1 ATGTAAACCAACGAATATTTAAC
21822057 ATGT
1 ATGT
21822061 GATGCCATCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (23 bp):
ATGTAAACCAACGAATATTTAAC
Found at i:21822061 original size:23 final size:23
Alignment explanation
Indices: 21822018--21822061 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21822008 TCTATGTAAA
21822018 CCAACGAATATTTAACATGTGGT
1 CCAACGAATATTTAACATGTGGT
* *
21822041 CCAATGAATATTTAAGATGTG
1 CCAACGAATATTTAACATGTG
21822062 ATGCCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (23 bp):
CCAACGAATATTTAACATGTGGT
Found at i:21822556 original size:24 final size:24
Alignment explanation
Indices: 21822529--21822577 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
21822519 AATTTAATTG
*
21822529 ATTTTGATTTTTATA-ATTTTTAAT
1 ATTTTAATTTTT-TAGATTTTTAAT
21822553 ATTTTAATTTTTTAGATTTTTAAT
1 ATTTTAATTTTTTAGATTTTTAAT
21822577 A
1 A
21822578 AATTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAATTTTTTAGATTTTTAAT
Found at i:21822560 original size:34 final size:32
Alignment explanation
Indices: 21822514--21822584 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 32
21822504 AACAAAAACC
*
21822514 TTTTAAATTTAATTGATTTT-GATTTTT-ATAAT
1 TTTTAAATTTAATT--TTTTAGATTTTTAATAAA
21822546 TTTTAATATTTTAATTTTTTAGATTTTTAATAAA
1 TTTTAA-A-TTTAATTTTTTAGATTTTTAATAAA
21822580 TTTTA
1 TTTTA
21822585 GATAGTGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 10 0.29
33 8 0.24
34 16 0.47
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (32 bp):
TTTTAAATTTAATTTTTTAGATTTTTAATAAA
Found at i:21822575 original size:16 final size:16
Alignment explanation
Indices: 21822530--21822576 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
21822520 ATTTAATTGA
*
21822530 TTTT-GATTTTTATAAT
1 TTTTAGATTTTTA-ATT
21822546 TTTTA-ATATTTTAATT
1 TTTTAGAT-TTTTAATT
21822562 TTTTAGATTTTTAAT
1 TTTTAGATTTTTAAT
21822577 AAATTTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTTAGATTTTTAATT
Found at i:21822771 original size:2 final size:2
Alignment explanation
Indices: 21822764--21822788 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21822754 GATGCGAAAC
21822764 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21822789 AAAGGATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21832152 original size:21 final size:21
Alignment explanation
Indices: 21832126--21832176 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
21832116 CAACGGTGGA
21832126 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTGGATACTGTAGC
21832147 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTGGATACTGTAGC
*
21832168 AGTGAGATT
1 GGTGAGATT
21832177 AGAAACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.37, T:0.29
Consensus pattern (21 bp):
GGTGAGATTGGATACTGTAGC
Found at i:21837352 original size:16 final size:17
Alignment explanation
Indices: 21837326--21837362 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
21837316 GTTTTTTCCG
21837326 GGAGAAGTGGGAAAGAA
1 GGAGAAGTGGGAAAGAA
*
21837343 GGAG-AGTGGGAAAGCA
1 GGAGAAGTGGGAAAGAA
21837359 GGAG
1 GGAG
21837363 TTGACAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.41, C:0.03, G:0.51, T:0.05
Consensus pattern (17 bp):
GGAGAAGTGGGAAAGAA
Found at i:21840839 original size:42 final size:42
Alignment explanation
Indices: 21840788--21840917 Score: 178
Period size: 42 Copynumber: 3.1 Consensus size: 42
21840778 TAATAAATAT
* *
21840788 ATTTATTTTTTAAATTTTAAAATATTTTTTACATACTTTTTTA
1 ATTTATTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTA
21840831 A-TT-TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-
1 ATTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
21840870 -TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTT-A-TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTA
21840914 ATTT
1 ATTT
21840918 TTTAAAATTT
Statistics
Matches: 78, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
39 2 0.03
40 28 0.36
41 6 0.08
42 32 0.41
43 7 0.09
45 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (42 bp):
ATTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:21840846 original size:40 final size:41
Alignment explanation
Indices: 21840793--21840935 Score: 209
Period size: 40 Copynumber: 3.5 Consensus size: 41
21840783 AATATATTTA
* *
21840793 TTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
21840833 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATAC--TTTTTTTAAT
21840876 TTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
21840916 TTTTTAAAATTTTTAAAATA
1 TTTTTTAAA-TTTTAAAATA
21840936 AAAATGGGCC
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
40 43 0.46
41 2 0.02
42 34 0.36
43 15 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:21840910 original size:31 final size:31
Alignment explanation
Indices: 21840875--21840935 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
21840865 TTTTTTTTAA
21840875 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
21840906 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
21840936 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:21843825 original size:26 final size:25
Alignment explanation
Indices: 21843778--21843829 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
21843768 CAAACAGGAC
*
21843778 ATAAGAAATTAACATCAGAATATAAA
1 ATAAGAAATTAACATCAAAATA-AAA
* *
21843804 ATAAGAACTTAACATTAAAATAAAA
1 ATAAGAAATTAACATCAAAATAAAA
21843829 A
1 A
21843830 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (25 bp):
ATAAGAAATTAACATCAAAATAAAA
Found at i:21846198 original size:25 final size:25
Alignment explanation
Indices: 21846170--21846220 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
21846160 TGCAAAATCA
*
21846170 ACATCGAGTCTAGTGGAATTAAAGT
1 ACATCGAGTCGAGTGGAATTAAAGT
21846195 ACATCGAGTCGAGTGGAATTAAAGT
1 ACATCGAGTCGAGTGGAATTAAAGT
21846220 A
1 A
21846221 TCTCGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (25 bp):
ACATCGAGTCGAGTGGAATTAAAGT
Found at i:21847261 original size:16 final size:14
Alignment explanation
Indices: 21847229--21847258 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
21847219 TGTAAGATTT
21847229 ATTAAAAAAATATA
1 ATTAAAAAAATATA
21847243 ATTAGAAAAAATATA
1 ATTA-AAAAAATATA
21847258 A
1 A
21847259 ATTTACCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
ATTAAAAAAATATA
Found at i:21850922 original size:24 final size:26
Alignment explanation
Indices: 21850862--21850922 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
21850852 CAATACTCAA
* **
21850862 CTCGTATGACCTTACCGATTTTTTAG
1 CTCGTATGAGCTTACCGATTTTACAG
* *
21850888 CTCGGAGGAGCTTACC-A-TTTACAG
1 CTCGTATGAGCTTACCGATTTTACAG
21850912 CTCGTATGAGC
1 CTCGTATGAGC
21850923 ATACATGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 14 0.50
25 1 0.04
26 13 0.46
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (26 bp):
CTCGTATGAGCTTACCGATTTTACAG
Found at i:21871182 original size:3 final size:3
Alignment explanation
Indices: 21871174--21871202 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21871164 CTACTTCTTG
21871174 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21871203 ACTCTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21879948 original size:3 final size:3
Alignment explanation
Indices: 21879942--21879982 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
21879932 TAACATGTAA
21879942 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
21879983 ATTATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21883373 original size:23 final size:23
Alignment explanation
Indices: 21883327--21883374 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
21883317 TAGTACTTTT
* *
21883327 GTACTTATGTTATTAGAACTTTG
1 GTACTTATGTTACTAGAACATTG
* *
21883350 GTACTTCTGTTACTAGCACATTG
1 GTACTTATGTTACTAGAACATTG
21883373 GT
1 GT
21883375 GCTTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (23 bp):
GTACTTATGTTACTAGAACATTG
Found at i:21893158 original size:43 final size:43
Alignment explanation
Indices: 21893093--21893208 Score: 196
Period size: 43 Copynumber: 2.7 Consensus size: 43
21893083 TGTGATTTCG
* *
21893093 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATAACG
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
* *
21893136 TTTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGATAACC
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
21893179 TGTAAGACCATGTCTGGAACATTGGCATCG
1 TGTAAGACCATGTCTGGAACATTGGCATCG
21893209 TATATGAGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
Found at i:21893267 original size:84 final size:85
Alignment explanation
Indices: 21893093--21893279 Score: 227
Period size: 84 Copynumber: 2.2 Consensus size: 85
21893083 TGTGATTTCG
* *
21893093 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATAACGTTTAAGACCATGTCTGGGACAT
1 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGAT-ACGTATAAGACCATGTCTGGGACAG
* * *
21893158 TGGCATCGAAGTGAGATAACC
65 CGGCATCGAAATGAGATAACA
* * *
21893179 TGTAAGACCATGTCTGGAACATTGGCATCGTATA-TGAG-T-CGTATAAGACCCTGTCTGGGATA
1 TGTAAGACCATATCTGGAACATTGGCATCG-A-AGTGAGATACGTATAAGACCATGTCTGGGACA
* * *
21893241 GCGGCATCGAAATGTGTTGACA
64 GCGGCATCGAAATGAGATAACA
21893263 TGTAAGACCATATCTGG
1 TGTAAGACCATATCTGG
21893280 GATATGGCAT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 51 0.59
86 30 0.34
87 5 0.06
88 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (85 bp):
TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATACGTATAAGACCATGTCTGGGACAGC
GGCATCGAAATGAGATAACA
Found at i:21897677 original size:41 final size:41
Alignment explanation
Indices: 21897627--21897905 Score: 348
Period size: 41 Copynumber: 6.8 Consensus size: 41
21897617 TTAATTTAAA
* *
21897627 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
21897669 CAGATCACCGACACTTAGCCTACTAGGCTTATAA-CCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * *
21897710 TAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
21897751 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
21897792 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * *
21897833 CAGATCATCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAGCCTGATT
** *
21897875 CAGGA-CACCGGCTTTTAGCCTGCTAGACTTA
1 CA-GATCACCGGCACTTAGCCTGCTAGGCTTA
21897906 TAGTCCGAAA
Statistics
Matches: 208, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
40 1 0.00
41 169 0.81
42 36 0.17
43 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:21897769 original size:82 final size:82
Alignment explanation
Indices: 21897627--21897908 Score: 386
Period size: 82 Copynumber: 3.4 Consensus size: 82
21897617 TTAATTTAAA
* * * *
21897627 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTAC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGC
21897692 TAGGCTTATAACCTGATT
65 TAGGCTTATAACCTGATT
* *
21897710 TAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
*
21897775 AGGCTTATAGCCTGATT
66 AGGCTTATAACCTGATT
* * * *
21897792 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCATCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
* *
21897857 AGGTTTTAAAACCTGATT
66 AGG-CTTATAACCTGATT
** *
21897875 CAGGA-CACCGGCTTTTAGCCTGCTAGACTTATAG
1 CA-GATCACCGGCACTTAGCCTGCTAGGCTTATAG
21897909 TCCGAAATGT
Statistics
Matches: 177, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
82 134 0.76
83 41 0.23
84 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
AGGCTTATAACCTGATT
Found at i:21897936 original size:124 final size:122
Alignment explanation
Indices: 21897639--21897941 Score: 317
Period size: 123 Copynumber: 2.5 Consensus size: 122
21897629 GATTCACCAG
* * * * * * *
21897639 CACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTACTAGGCTTATAAC
1 CACTTAGCCTGCTAGACTTATAGCCTGAAT-AGATCACCGGCACTAAGCCTGCTAGGCTTATAAC
* * * *
21897704 CTGATTTAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGA
65 CTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAAAACCTGATTCAGATCACCGA
* * *
21897762 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAAC
1 CACTTAGCCTGCTAGACTTATAGCCTGAAT-AGATCACCGGCACTAAGCCTGCTAGGCTTATAAC
* * * *
21897827 CTGGTTCAGATCATCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATTCAGGA-CACCGG
65 CTGATTCAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAACCTGATTCA-GATCACCGA
** *
21897886 CTTTTAGCCTGCTAGACTTATAGTCC-GAA-ATGTTCCACCGGCA-TCAAGCCTGCTAG
1 CACTTAGCCTGCTAGACTTATAG-CCTGAATA-GAT-CACCGGCACT-AAGCCTGCTAG
21897942 ACATAAAGTC
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
122 1 0.01
123 93 0.60
124 58 0.37
125 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (122 bp):
CACTTAGCCTGCTAGACTTATAGCCTGAATAGATCACCGGCACTAAGCCTGCTAGGCTTATAACC
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAAAACCTGATTCAGATCACCGA
Found at i:21898381 original size:78 final size:77
Alignment explanation
Indices: 21898226--21898435 Score: 214
Period size: 78 Copynumber: 2.8 Consensus size: 77
21898216 AACTTATAAC
* * **
21898226 ATACTATGTACAT-T-TA-ACATTCGAATCTTACATATACCTATATAATTTCATAC-CCCATTTC
1 ATAC-ATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTC
21898287 AATACAAAAACTT
65 AATACAAAAACTT
*
21898300 ATACATGTACATATATACACATTCGAATCTAACATATATACATATATAATTTTATACTTACATTT
1 ATACATGTACATATATACACATTCGAATCTAAC--ATATACATATATAATTTCATACTTACATTT
* **
21898365 GAA-ACAAGTACTT
64 CAATACAAAAACTT
* * * * ** * *
21898378 ATACTTGTATACACATACATTTTCGAATTTAACATATACATATATAGTTTCATACTTA
1 ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTA
21898436 TACTCAATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
73 8 0.07
74 5 0.04
75 2 0.02
76 37 0.33
78 54 0.48
79 7 0.06
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (77 bp):
ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTCA
ATACAAAAACTT
Found at i:21898742 original size:19 final size:21
Alignment explanation
Indices: 21898718--21898768 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
21898708 ATGTATATAC
*
21898718 ATATATATATCCGAATTTTAT
1 ATATATATATCCGAATCTTAT
21898739 ATATATAAATATCCGAA-CTT-T
1 ATATAT--ATATCCGAATCTTAT
21898760 ATATATATA
1 ATATATATA
21898769 AATATAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.11
21 13 0.48
22 2 0.07
23 9 0.33
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATATATCCGAATCTTAT
Found at i:21898744 original size:23 final size:23
Alignment explanation
Indices: 21898713--21898773 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
21898703 TATTCATGTA
* * *
21898713 TATACATATATATATCCGAATTT
1 TATATATATAAATATCCGAACTT
21898736 TATATATATAAATATCCGAACTT
1 TATATATATAAATATCCGAACTT
21898759 TATATATATAAATAT
1 TATATATATAAATAT
21898774 AACATACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (23 bp):
TATATATATAAATATCCGAACTT
Found at i:21898771 original size:78 final size:74
Alignment explanation
Indices: 21898607--21898750 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 74
21898597 ACATTCAACA
*
21898607 TTAACTAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
1 TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT-
21898672 ACATACATACTT
65 AC--ACATACTT
* * * *
21898684 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATATCCGAATTTTATATATATAAAT
1 TTAAATAAATTCAA-AACTTATTCATGTATATAC--ACATATATCCGAACTTTATATATATAAAT
21898749 AT
63 AT
21898751 CCGAACTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 14 0.23
78 18 0.30
80 29 0.48
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.40
Consensus pattern (74 bp):
TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
CACATACTT
Found at i:21898825 original size:80 final size:78
Alignment explanation
Indices: 21898736--21898986 Score: 430
Period size: 78 Copynumber: 3.2 Consensus size: 78
21898726 ATCCGAATTT
* *
21898736 TATATATATAAATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
21898801 GAATTTATTCATG
66 GAATTTATTCATG
* *
21898814 TATATACATATATATCCGAATTTTATATATATAAATATAACATGCATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
21898879 GAATTTATTCATG
66 GAATTTATTCATG
21898892 TATATACATATATATCCGAACTTTATATATATATATATATAACATACATACTTTTAACTAAATTC
1 TATATACATATATATCCGAACTTTATATATATA-A-ATATAACATACATACTTTTAACTAAATTC
* *
21898957 AAGAACTTATACATG
64 AAGAATTTATTCATG
21898972 TATATACATATATAT
1 TATATACATATATAT
21898987 AACATACATA
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
78 106 0.65
79 1 0.01
80 56 0.34
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (78 bp):
TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
GAATTTATTCATG
Found at i:21898874 original size:103 final size:102
Alignment explanation
Indices: 21898644--21898851 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 102
21898634 ATATACACAT
21898644 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
21898709 TGTATATACATATATATATCCGAATTTTATATATATAA
66 TGTATATACA-ATATATATCCGAATTTTATATATATAA
21898747 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
21898812 TGTATATAC-ATATATATCCGAATTTTATATATATAA
66 TGTATATACAATATATATCCGAATTTTATATATATAA
21898848 ATAT
1 ATAT
21898852 AACATGCATA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 31 0.30
103 74 0.70
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (102 bp):
ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
TGTATATACAATATATATCCGAATTTTATATATATAA
Found at i:21899049 original size:63 final size:62
Alignment explanation
Indices: 21898915--21899105 Score: 307
Period size: 63 Copynumber: 3.1 Consensus size: 62
21898905 ATCCGAACTT
*
21898915 TATATATATATATATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATAC-
1 TATA-ATATATA-ACAT-ACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
21898979 -AT-ATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATAATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
*
21899039 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATGTACA
1 TATA-ATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
21899102 TATA
1 TATA
21899106 TTATCCACTA
Statistics
Matches: 121, Mismatches: 2, Indels: 9
0.92 0.02 0.07
Matches are distributed among these distances:
59 46 0.38
60 3 0.02
61 9 0.07
63 63 0.52
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.37
Consensus pattern (62 bp):
TATAATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
Found at i:21901438 original size:3 final size:3
Alignment explanation
Indices: 21901430--21901617 Score: 172
Period size: 3 Copynumber: 61.7 Consensus size: 3
21901420 AAAAAGAGGA
21901430 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
21901478 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT GTAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
* * * * * *
21901524 GTAT ATTT AA- ACT -AT CAT -AT AAT AAT -AT GAT AAGT AAC AAT AAT
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* *
21901568 -AT AAGT AAC AAT AAT AAT AGT AAT AAT AAAT AAT AAAT AAT AAAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT -AAT AAT
21901616 AA
1 AA
21901618 AAGATGATAA
Statistics
Matches: 158, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
2 10 0.06
3 123 0.78
4 25 0.16
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21901556 original size:8 final size:8
Alignment explanation
Indices: 21901540--21901616 Score: 61
Period size: 7 Copynumber: 9.4 Consensus size: 8
21901530 TTAAACTATC
21901540 ATATAATA
1 ATATAATA
*
21901548 ATATGATA
1 ATATAATA
*
21901556 AGTAACAATA
1 A-T-ATAATA
21901566 ATATAAGTA
1 ATATAA-TA
*
21901575 ACAATAATA
1 A-TATAATA
21901584 ATAGTAATA
1 ATA-TAATA
21901593 ATA-AATA
1 ATATAATA
21901600 ATA-AATA
1 ATATAATA
21901607 ATA-AATA
1 ATATAATA
21901614 ATA
1 ATA
21901617 AAAGATGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
7 21 0.36
8 12 0.21
9 16 0.28
10 9 0.16
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (8 bp):
ATATAATA
Found at i:21901693 original size:29 final size:31
Alignment explanation
Indices: 21901655--21901718 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
21901645 GAAAATAATA
* *
21901655 AAAATGCT-AAATA-GGGGACTAAATCGAAGT
1 AAAATGCTAAAATACGGGG-CGAAATCGAAAT
21901685 AAAA-GCTAAAATACGGGGCGAAATCGAAAT
1 AAAATGCTAAAATACGGGGCGAAATCGAAAT
21901715 AAAA
1 AAAA
21901719 AAGGGACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.10
30 23 0.77
31 4 0.13
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.16
Consensus pattern (31 bp):
AAAATGCTAAAATACGGGGCGAAATCGAAAT
Found at i:21903348 original size:44 final size:43
Alignment explanation
Indices: 21903276--21903527 Score: 174
Period size: 44 Copynumber: 5.8 Consensus size: 43
21903266 ACCTGATACG
* * * *
21903276 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTATTTCA
* * * *
21903320 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-TTTCA
* * * * * *
21903364 ATCTGCTCCGCTGTAATCTTAGGGAGATAAGA-CCTGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
* * * *
21903405 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-TTTATTTCA
* * * * * *
21903449 ACCCGCTCCATTGTAATTTCAGGGAGATAGGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTAT-TTCA
21903493 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
21903528 AAAATTCTTC
Statistics
Matches: 154, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
40 1 0.01
41 27 0.18
42 3 0.02
43 8 0.05
44 113 0.73
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
Found at i:21903444 original size:129 final size:129
Alignment explanation
Indices: 21903211--21903524 Score: 493
Period size: 129 Copynumber: 2.4 Consensus size: 129
21903201 ACTGCTGCCT
* * * * * * * *
21903211 AGGGAGATAGAATTGCTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
*
21903276 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
* *
21903340 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
* * *
21903405 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAACCCGCTCCATTGTAATTTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
*
21903469 AGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
21903525 TCTAAAATTC
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 168 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (129 bp):
AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
Found at i:21913585 original size:46 final size:45
Alignment explanation
Indices: 21913518--21914089 Score: 581
Period size: 46 Copynumber: 13.6 Consensus size: 45
21913508 TTTGAGTACT
* *
21913518 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21913564 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
21913600 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
21913646 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
21913692 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21913738 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
21913774 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
21913810 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21913856 TCTGATCAAGTGAAAAAGTGATAA---GTA--TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
21913892 TCTAATCAAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21913928 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
21913974 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
21914020 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21914065 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
21914090 ATCATACGTA
Statistics
Matches: 464, Mismatches: 25, Indels: 77
0.82 0.04 0.14
Matches are distributed among these distances:
33 1 0.00
34 2 0.00
35 1 0.00
36 141 0.30
37 4 0.01
38 4 0.01
40 7 0.02
42 8 0.02
43 18 0.04
44 3 0.01
45 23 0.05
46 252 0.54
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:21913595 original size:36 final size:36
Alignment explanation
Indices: 21913554--21913954 Score: 298
Period size: 36 Copynumber: 10.0 Consensus size: 36
21913544 GGTAGCTTTA
21913554 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21913590 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
* *
21913629 AGCTTTAACTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 -G------CTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
21913681 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
21913727 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
21913764 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
21913800 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
21913845 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
** * *
21913882 ATTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
21913918 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
21913954 G
1 G
21913955 TTAGCCTTAG
Statistics
Matches: 316, Mismatches: 20, Indels: 58
0.80 0.05 0.15
Matches are distributed among these distances:
36 160 0.51
37 3 0.01
39 2 0.01
40 5 0.02
42 2 0.01
45 3 0.01
46 135 0.43
47 1 0.00
49 1 0.00
52 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:21913655 original size:82 final size:81
Alignment explanation
Indices: 21913518--21914089 Score: 518
Period size: 82 Copynumber: 6.9 Consensus size: 81
21913508 TTTGAGTACT
* *
21913518 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
21913583 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* * * *
21913600 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
21913665 GATAAGTGGTAGCTTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
21913692 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
21913757 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * * *
21913774 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAATTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
21913830 ATAAGTGGTAGCTTTAGCTACACTTA
66 AT-A-----AG---T-GCTACACTTA
* *
21913856 TCTGATCAAGTGAAAAAGTGATAA---GTA--TTA--T--ACTTATCTAATCAAGTGAAAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
* *
21913912 ATAAGTGATATACTTA
66 ATAAGTGCTACACTTA
* *
21913928 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
21913993 GATAAGTGGTAGCCTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
* * *
21914020 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
21914083 ATAAGTG
66 ATAAGTG
21914090 ATCATACGTA
Statistics
Matches: 414, Mismatches: 31, Indels: 93
0.77 0.06 0.17
Matches are distributed among these distances:
72 60 0.14
73 3 0.01
75 2 0.00
76 4 0.01
78 5 0.01
79 1 0.00
80 2 0.00
81 3 0.01
82 173 0.42
83 6 0.01
84 1 0.00
85 2 0.00
86 2 0.00
88 5 0.01
89 8 0.02
90 2 0.00
91 23 0.06
92 112 0.27
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:21913890 original size:118 final size:118
Alignment explanation
Indices: 21913682--21913999 Score: 546
Period size: 118 Copynumber: 2.7 Consensus size: 118
21913672 GGTAGCTTTA
21913682 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
* *
21913747 GTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* *
21913800 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
21913865 GTGAAAAAGTGATAAGTATTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* * * *
21913918 GATATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
21913983 GTGAGAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
21914000 GGTAGCCTTA
Statistics
Matches: 188, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 188 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
Found at i:21914744 original size:76 final size:76
Alignment explanation
Indices: 21914609--21914766 Score: 271
Period size: 76 Copynumber: 2.1 Consensus size: 76
21914599 TTATAACTCG
* * *
21914609 GTTAAATACGTTTACAAGTGCATGTCTTTTGGTAATGTCTCGTACCCTATTCCTGTATTGAATAC
1 GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
21914674 GGGTAAGGGGT
66 GGGTAAGGGGT
* *
21914685 GTTACATATGTTTACAAGTGCATGTGTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
1 GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
21914750 GGGTAAGGGGT
66 GGGTAAGGGGT
21914761 GTTACA
1 GTTACA
21914767 CCAAATCTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (76 bp):
GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
GGGTAAGGGGT
Found at i:21917808 original size:316 final size:316
Alignment explanation
Indices: 21917234--21918181 Score: 1826
Period size: 316 Copynumber: 3.0 Consensus size: 316
21917224 ATGCTTTGGG
21917234 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTTCTTTACATCAGGATG
1 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCC-TTTTTCTTTACATCAGGATG
21917299 TACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTC
65 TACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTC
21917364 GGGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCA
130 GGGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCA
*
21917429 CCAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTC
195 CCAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTC
*
21917494 CTCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGGAACAACTGTAGGTAGGAT
260 CTCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
21917551 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
1 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
21917616 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
66 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
21917681 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
131 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
21917746 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
196 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
21917811 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
261 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
* *
21917867 GAAAACCACTAGTCCGTAGATACCTTAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
1 GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
*
21917932 ACTAG-ACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCG
66 ACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
*
21917996 GGCAGCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
131 GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
21918061 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
196 CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
21918126 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
261 TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
21918182 TCCAAAATTG
Statistics
Matches: 625, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
315 243 0.39
316 338 0.54
317 44 0.07
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (316 bp):
GAAGACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGT
ACTAGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCG
GGCAGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCAC
CAGCAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCC
TCCACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
Found at i:21919984 original size:11 final size:11
Alignment explanation
Indices: 21919968--21920009 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21919958 AGCAAATACG
*
21919968 TATAAATATTA
1 TATAAAAATTA
*
21919979 TATAAAAAATA
1 TATAAAAATTA
21919990 TA-AAAAATATA
1 TATAAAAAT-TA
21920001 TATAAAAAT
1 TATAAAAAT
21920010 GTACATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 15 0.58
12 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAAAAATTA
Found at i:21920060 original size:37 final size:37
Alignment explanation
Indices: 21920019--21920092 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
21920009 TGTACATGTG
* *
21920019 AGATATAAAA-AAAGCAATATAAGATAAATATATATAT
1 AGATATAAAAGAAA-CAATATAAAATAAATATAAATAT
* *
21920056 AGATATAAAAGAAACTATATAAAATATATATAAATAT
1 AGATATAAAAGAAACAATATAAAATAAATATAAATAT
21920093 GTATACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 29 0.91
38 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (37 bp):
AGATATAAAAGAAACAATATAAAATAAATATAAATAT
Found at i:21920239 original size:3 final size:3
Alignment explanation
Indices: 21920231--21920302 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
21920221 AAACTATCAT
* * *
21920231 ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATA AGTA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
*
21920276 ATA GTA ATA ATAA ATA ATAA ATA ATA A
1 ATA ATA ATA AT-A ATA AT-A ATA ATA A
21920303 AAGATGATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.07
3 40 0.71
4 12 0.21
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:21920281 original size:18 final size:18
Alignment explanation
Indices: 21920231--21920295 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 18
21920221 AAACTATCAT
21920231 ATAATAATATGATAAGTAACA
1 ATAATAATA--AT-AGTAACA
21920252 ATAAT-AT-A-AGTAACA
1 ATAATAATAATAGTAACA
*
21920267 ATAATAATAATAGTAATA
1 ATAATAATAATAGTAACA
21920285 ATAAATAATAA
1 AT-AATAATAA
21920296 ATAATAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 12 0.31
16 2 0.05
17 2 0.05
18 8 0.21
19 8 0.21
20 2 0.05
21 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
ATAATAATAATAGTAACA
Found at i:21920293 original size:7 final size:7
Alignment explanation
Indices: 21920266--21920303 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
21920256 TATAAGTAAC
21920266 AATAAT-
1 AATAATA
21920272 AATAATA
1 AATAATA
21920279 GTAATAATA
1 --AATAATA
21920288 AATAATA
1 AATAATA
21920295 AATAATA
1 AATAATA
21920302 AA
1 AA
21920304 AGATGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
9 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:21927596 original size:38 final size:38
Alignment explanation
Indices: 21927545--21927619 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
21927535 GATAACTCCA
* *
21927545 CAATCCCATATTTTCCTTCTAAAGTCACTCCAACACTT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
*
21927583 CAATCCCATATTTTCCTCCTAAAATCACTCTAACACT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACT
21927620 CCCCCACCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.35, G:0.01, T:0.33
Consensus pattern (38 bp):
CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
Found at i:21929212 original size:19 final size:20
Alignment explanation
Indices: 21929188--21929228 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21929178 ATCAAGAAAA
21929188 TTATATAACATT-AAAAATT
1 TTATATAACATTCAAAAATT
* *
21929207 TTATATAATATTCTAAAATT
1 TTATATAACATTCAAAAATT
21929227 TT
1 TT
21929229 CAATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATATAACATTCAAAAATT
Found at i:21929241 original size:22 final size:20
Alignment explanation
Indices: 21929188--21929241 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
21929178 ATCAAGAAAA
* *
21929188 TTATATAACATT-AAAAATT
1 TTATATAAAATTCTAAAATT
*
21929207 TTATATAATATTCTAAAATT
1 TTATATAAAATTCTAAAATT
21929227 TTCAATATAAAATTC
1 TT--ATATAAAATTC
21929242 CATAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 8 0.28
22 10 0.34
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATATAAAATTCTAAAATT
Found at i:21933708 original size:17 final size:18
Alignment explanation
Indices: 21933686--21933719 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21933676 TTTATATTAT
*
21933686 TTTTAT-TTTTTTTTAAA
1 TTTTATATTATTTTTAAA
21933703 TTTTATATTATTTTTAA
1 TTTTATATTATTTTTAA
21933720 TTAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATTATTTTTAAA
Found at i:21937381 original size:18 final size:18
Alignment explanation
Indices: 21937360--21937513 Score: 85
Period size: 18 Copynumber: 8.9 Consensus size: 18
21937350 ATATTAAGAA
21937360 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
21937378 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
21937393 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* *
21937408 TTTAAATTATATTATATAT
1 TTT-TATTAAATTATATAT
* * *
21937427 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
21937442 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
21937461 GAATATTTAATATTA-AAAA
1 TTTTA-TTAA-ATTATATAT
21937480 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
21937498 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
21937514 TTAATAATAA
Statistics
Matches: 101, Mismatches: 21, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 12 0.12
20 5 0.05
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:21937431 original size:120 final size:120
Alignment explanation
Indices: 21937295--21937775 Score: 791
Period size: 120 Copynumber: 4.0 Consensus size: 120
21937285 ATTATTAATC
*
21937295 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
21937360 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* * *
21937415 TATATTATATATTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAAAA
1 TATATTATATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
21937480 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* *
21937535 TATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
21937600 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAA
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* * * * * * * *
21937655 TATATTTTATAGTATCATATATTATTATTTTAGTAAATTCAGATAAAAATATTGATTATTGAGAA
1 TATATTATATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* *
21937720 TTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATG-TTAAAT
21937776 ATGATTAAAT
Statistics
Matches: 340, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
120 335 0.99
121 5 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:21937747 original size:18 final size:17
Alignment explanation
Indices: 21937719--21937753 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21937709 ATTATTGAGA
*
21937719 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21937736 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21937754 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21938008 original size:16 final size:16
Alignment explanation
Indices: 21937989--21938040 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
21937979 GATTTGTTAT
* *
21937989 TACACTTCTATTCCAT
1 TACACTTCTAATCCAA
21938005 TACA-TCTCTAATCCAA
1 TACACT-TCTAATCCAA
*
21938021 TACACCTCTAATCCAA
1 TACACTTCTAATCCAA
21938037 TACA
1 TACA
21938041 GCAAACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACTTCTAATCCAA
Found at i:21948364 original size:34 final size:35
Alignment explanation
Indices: 21948299--21948364 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
21948289 GGCCTCACGA
** * *
21948299 TACATCAATATTCAGTTACGAAATACCTCATCATT
1 TACATCAATATTCAGCCACAAAATACATCATCATT
*
21948334 TACA-CAATATTCAGCCACAAAATTCATCATC
1 TACATCAATATTCAGCCACAAAATACATCATC
21948365 TTAGGACAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 22 0.85
35 4 0.15
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (35 bp):
TACATCAATATTCAGCCACAAAATACATCATCATT
Found at i:21957791 original size:33 final size:33
Alignment explanation
Indices: 21957718--21957797 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
21957708 CATCTCCCAC
* * * *
21957718 GTCCACAACTCGCCATCCCCATATTCGCTTGAT
1 GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
* *
21957751 GTCCACAGCTTGCCATCCCCCTGTCCGCCTGAT
1 GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
21957784 GTCCACAGCTTGCC
1 GTCCACAGCTTGCC
21957798 TTCTCTTGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.25
Consensus pattern (33 bp):
GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
Found at i:21967926 original size:21 final size:21
Alignment explanation
Indices: 21967868--21967926 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
21967858 GCTTCAGTTT
* *
21967868 AACCCCTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCATTC
* ** * *
21967889 AGCTTTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCATTC
21967910 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
21967927 GTTTAGCACT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:21967926 original size:42 final size:42
Alignment explanation
Indices: 21967844--21967929 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
21967834 TAGGTTTCAA
*
21967844 TTCAGCTCTTTTGAGCTTCAGTTTAACCCCTATGGGTTTCCG
1 TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
*
21967886 TTCAGCT-TTTATGAGCTTCCA-TTCAACCCTTATGGGTTTCCG
1 TTCAGCTCTTT-TGAGCTT-CAGTTCAACCCCTATGGGTTTCCG
21967928 TT
1 TT
21967930 TAGCACTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 3 0.08
42 35 0.88
43 2 0.05
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (42 bp):
TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
Found at i:21970089 original size:36 final size:36
Alignment explanation
Indices: 21970049--21970138 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
21970039 ATAGGTATTT
* *
21970049 AAAACGGCGTCGTTTTGGGCATGCCTCTCAGGCACC
1 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
21970085 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
1 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
*
21970121 AAAATGACGCCGTTTTGG
1 AAAACGACGCCGTTTTGG
21970139 CTTTAAACCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (36 bp):
AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
Found at i:21970478 original size:15 final size:15
Alignment explanation
Indices: 21970470--21970515 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
21970460 ATTATTTTGT
21970470 TCATTATTATTATTA
1 TCATTATTATTATTA
21970485 TCATTATTATTATTA
1 TCATTATTATTATTA
* * *
21970500 TTATTTTTATTTTTA
1 TCATTATTATTATTA
21970515 T
1 T
21970516 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TCATTATTATTATTA
Found at i:21970483 original size:6 final size:6
Alignment explanation
Indices: 21970458--21970536 Score: 79
Period size: 6 Copynumber: 13.2 Consensus size: 6
21970448 TGTAGCATTT
* * *
21970458 TTATTA TT-TTG TTCATTA TTATTA TTATCA TTATTA TTATTA TTATTT
1 TTATTA TTATTA TT-ATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
21970506 TTATTT TTATTT TTATTT TTATTT TTATTA T
1 TTATTA TTATTA TTATTA TTATTA TTATTA T
21970537 CATCGTATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 4 0.06
6 57 0.88
7 4 0.06
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (6 bp):
TTATTA
Found at i:21970510 original size:12 final size:12
Alignment explanation
Indices: 21970454--21970536 Score: 96
Period size: 12 Copynumber: 6.9 Consensus size: 12
21970444 CCTTTGTAGC
21970454 ATTTTTATTATT
1 ATTTTTATTATT
*
21970466 -TTGTTCATTATT
1 ATT-TTTATTATT
* *
21970478 ATTATTATCATT
1 ATTTTTATTATT
*
21970490 ATTATTATTATT
1 ATTTTTATTATT
*
21970502 ATTTTTATTTTT
1 ATTTTTATTATT
*
21970514 ATTTTTATTTTT
1 ATTTTTATTATT
21970526 ATTTTTATTAT
1 ATTTTTATTAT
21970537 CATCGTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
11 2 0.03
12 57 0.93
13 2 0.03
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:21971472 original size:109 final size:110
Alignment explanation
Indices: 21971266--21971565 Score: 523
Period size: 110 Copynumber: 2.7 Consensus size: 110
21971256 TCAAAAAAGG
21971266 AAAATATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAA-GTGCT
1 AAAAT-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
21971330 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTT-
65 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
21971375 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
21971440 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTA
66 GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
*** * *
21971485 AAAAAAATCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGTCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
21971550 GGTGTCGATTTTTCTC
66 GGTGTCGATTTTTCTC
21971566 ATTTAAACAA
Statistics
Matches: 183, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
108 53 0.29
109 54 0.30
110 76 0.42
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
Found at i:21972927 original size:61 final size:61
Alignment explanation
Indices: 21972803--21973075 Score: 271
Period size: 61 Copynumber: 4.5 Consensus size: 61
21972793 TTGTCATAAG
* * * * * *
21972803 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGC-ATCCCTTACATCCAGTACTCGCCACAGA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * *
21972863 GGCTTTCCTGTCTAGAG-TAGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
1 GGCTTTCCTGTCTAGAGATA-TGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * *
21972924 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * * * * * *
21972985 GGCTATCCTATCTCGAGTTATGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * *
21973046 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGATATGCCACAAAG
21973076 ACGTCCTTTA
Statistics
Matches: 175, Mismatches: 35, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
59 1 0.01
60 26 0.15
61 146 0.83
62 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (61 bp):
GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
Found at i:21972951 original size:29 final size:30
Alignment explanation
Indices: 21972850--21972954 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 30
21972840 TTACATCCAG
*
21972850 TACTCGCCACAGAGGCTTTCCTGTCTAGAG-
1 TACT-GCCACAAAGGCTTTCCTGTCTAGAGA
* * * * **
21972880 TAGTGCCACAATGGCTGTCCTTTACATCCA-A
1 TACTGCCACAAAGGCTTTCCTGT-C-TAGAGA
*
21972911 TACTCGTCACAAAGGCTTTCCTGTCTAGAGA
1 TACT-GCCACAAAGGCTTTCCTGTCTAGAGA
21972942 TA-TGCCACAAAGG
1 TACTGCCACAAAGG
21972955 TTATCCTTTA
Statistics
Matches: 55, Mismatches: 15, Indels: 11
0.68 0.19 0.14
Matches are distributed among these distances:
29 24 0.44
30 7 0.13
31 9 0.16
32 15 0.27
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (30 bp):
TACTGCCACAAAGGCTTTCCTGTCTAGAGA
Found at i:21973026 original size:122 final size:121
Alignment explanation
Indices: 21972803--21973075 Score: 314
Period size: 122 Copynumber: 2.2 Consensus size: 121
21972793 TTGTCATAAG
* * * * * *
21972803 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGCATCCCTTACATCCAGTACTCGCCACAGAGGCTT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCCAGTACTCACCACAAAGGCTA
* * * *
21972868 TCCTGTCTAGAGTAGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
66 TCCTATCTAGAGTAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * * *
21972924 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAAGGCT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGG-CATCCCTTACATCCAGTACTCACCACAAAGGCT
* * * *
21972989 ATCCTATCTCGAGTTA-TGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
65 ATCCTATCTAGAG-TAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * *
21973046 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAG
21973076 ACGTCCTTTA
Statistics
Matches: 126, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
121 27 0.21
122 97 0.77
123 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (121 bp):
GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCCAGTACTCACCACAAAGGCTA
TCCTATCTAGAGTAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
Found at i:21973349 original size:53 final size:53
Alignment explanation
Indices: 21973200--21973352 Score: 225
Period size: 53 Copynumber: 2.9 Consensus size: 53
21973190 TTGTTATTTT
*
21973200 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATAGTCTTATTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* * * * *
21973253 CCACATGATGCCATAACCCACCAGTTACGATCTTACACTATATGGTCTTCTTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* * *
21973306 CCATATGAAGTCATGACCCACCAGTTACGGTCTTACACGATATGGTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTC
21973353 ATTTAATGCC
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (53 bp):
CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
Found at i:21978940 original size:8 final size:9
Alignment explanation
Indices: 21978927--21979042 Score: 67
Period size: 10 Copynumber: 12.1 Consensus size: 9
21978917 AAATATTTTT
21978927 ATTTTTTAA
1 ATTTTTTAA
21978936 ATTTTTTAA
1 ATTTTTTAA
*
21978945 ATTTTTTTTA
1 A-TTTTTTAA
*
21978955 A-TTTTAAA
1 ATTTTTTAA
*
21978963 ATACTTTTAAAA
1 AT--TTTT-TAA
21978975 TACTTTTTTTAA
1 -A--TTTTTTAA
21978987 A-TTTTTAA
1 ATTTTTTAA
21978995 ATTTTTTAAA
1 ATTTTTT-AA
*
21979005 ATACTTTTAA
1 AT-TTTTTAA
*
21979015 ATTTTTTTA
1 ATTTTTTAA
*
21979024 A-TTTTAAA
1 ATTTTTTAA
21979032 ATATTTTTAA
1 AT-TTTTTAA
21979042 A
1 A
21979043 ATATTTTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
8 20 0.24
9 21 0.25
10 23 0.27
11 9 0.11
12 5 0.06
13 5 0.06
15 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:21979031 original size:69 final size:66
Alignment explanation
Indices: 21978927--21979059 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 66
21978917 AAATATTTTT
*
21978927 ATTTTTTAAATTTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAATTTT
1 ATTTTTTAAATCTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATA-TTTTTTT-AATTTT
21978992 TAA
64 TAA
*
21978995 ATTTTTTAAAATACTTTTAAA-TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAATTTT
1 ATTTTTT-AAAT-CTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTAATTTT
21979059 T
64 T
21979060 GTTTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
67 7 0.11
68 14 0.23
69 33 0.54
70 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (66 bp):
ATTTTTTAAATCTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTAATTTTTA
A
Found at i:21979054 original size:13 final size:11
Alignment explanation
Indices: 21978956--21979050 Score: 73
Period size: 11 Copynumber: 9.4 Consensus size: 11
21978946 TTTTTTTTAA
*
21978956 TTTTAAAATAC
1 TTTTAAAATAT
21978967 TTTTAAAATACT
1 TTTTAAAATA-T
**
21978979 TTTTTTAA-AT
1 TTTTAAAATAT
21978989 TTTT-AAAT-T
1 TTTTAAAATAT
*
21978998 TTTTAAAATAC
1 TTTTAAAATAT
21979009 TTTT-AAAT-T
1 TTTTAAAATAT
*
21979018 TTTT----TAA
1 TTTTAAAATAT
21979025 TTTTAAAATAT
1 TTTTAAAATAT
21979036 TTTTAAAATAT
1 TTTTAAAATAT
21979047 TTTT
1 TTTT
21979051 TTAATTTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
9 11 0.16
10 13 0.19
11 32 0.48
12 6 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21979511 original size:24 final size:24
Alignment explanation
Indices: 21979465--21979520 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
21979455 CCAAATTTAA
*
21979465 ATTAAAA-TTTTAAAAATATATTT
1 ATTAAAATTTTTAAAAATAAATTT
* **
21979488 TTTAAAATTTTTAATTATAAATTT
1 ATTAAAATTTTTAAAAATAAATTT
*
21979512 ATGAAAATT
1 ATTAAAATT
21979521 AATATAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAAAATTTTTAAAAATAAATTT
Found at i:21979614 original size:25 final size:25
Alignment explanation
Indices: 21979567--21979613 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21979557 AAATATATAA
*
21979567 ATATTTTTATTATTTTAATAAAATT
1 ATATATTTATTATTTTAATAAAATT
21979592 ATATATTTATTATTTT-ATAAAA
1 ATATATTTATTATTTTAATAAAA
21979614 AATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATATTTATTATTTTAATAAAATT
Found at i:21982300 original size:9 final size:9
Alignment explanation
Indices: 21982282--21982318 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21982272 TATAGTTTGA
21982282 TATTCGAAT
1 TATTCGAAT
*
21982291 TATTCAAAT
1 TATTCGAAT
*
21982300 TATTCGAGT
1 TATTCGAAT
21982309 TATTCGAAT
1 TATTCGAAT
21982318 T
1 T
21982319 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21987010 original size:13 final size:13
Alignment explanation
Indices: 21986992--21987039 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
21986982 TTTTTATTGT
21986992 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
*
21987005 TTTTGAAAAGTGC
1 TTTTGAGAAGTGC
*
21987018 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
21987031 TTTTGAGAA
1 TTTTGAGAA
21987040 ATTTGTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:21987696 original size:12 final size:12
Alignment explanation
Indices: 21987658--21987690 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
21987648 TTGATTCAGT
21987658 GTCATCATCACC
1 GTCATCATCACC
21987670 GTCATCATCACC
1 GTCATCATCACC
21987682 GTCATCATC
1 GTCATCATC
21987691 GTCGTCGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.09, T:0.27
Consensus pattern (12 bp):
GTCATCATCACC
Found at i:21989195 original size:72 final size:72
Alignment explanation
Indices: 21989069--21989306 Score: 354
Period size: 72 Copynumber: 3.3 Consensus size: 72
21989059 AAATCATATT
* ** * *
21989069 TAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAAATCAATATCCAAAG
1 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAG
21989132 ACCAAACA
65 ACCAAACA
*
21989140 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAATATAAATTCAATATCCAAAGA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
21989205 CCAAACA
66 CCAAACA
* *
21989212 TAAACAACTATTAATAAAACTAGATTACACTTAAATAAATAGAACATAAATTCAATATCCAAAAA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
21989277 CCAAACA
66 CCAAACA
* * *
21989284 TAAATAAATATTGATAAAACTAG
1 TAAACAACTATTAATAAAACTAG
21989307 TTTAACGTTG
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
71 24 0.16
72 129 0.84
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.24
Consensus pattern (72 bp):
TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
CCAAACA
Found at i:21990498 original size:20 final size:20
Alignment explanation
Indices: 21990473--21990516 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
21990463 GTTTACATGT
21990473 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
21990493 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
21990513 ATAT
1 ATAT
21990517 TAATTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATGAAAATACATATTCTA
Done.