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 153 of 240
Found at i:48281019 original size:3 final size:3
Alignment explanation
Indices: 48281013--48281037 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48281003 AGTTATAAGA
48281013 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
48281038 CCTAGAGGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48281641 original size:125 final size:124
Alignment explanation
Indices: 48281419--48281795 Score: 560
Period size: 125 Copynumber: 3.0 Consensus size: 124
48281409 TTAGGGTTTT
* *
48281419 TAGGTCTTGGAAGAAATAATTTCGAGTTGATGTTTCTGAGTAAATAGTATAAAATCGCTTTTAGC
1 TAGGTCAT-GAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTTTAGC
*
48281484 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAG
* *
48281544 TAGGTCCTAGAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATCACTTTTAGC
1 TAGGTCAT-GAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTTTAGC
* * *
48281609 AAGATGCTATTTGAGAAGAATTTCTGAAATCGCGGCCTCGTGGACACGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAG
*** * * * *
48281669 TAGGTCATGTAAGAAATAATTT-TTTTTTACT-TTTCCGACCAAATAGTATAAAATCGCTTCTAG
1 TAGGTCATG-AAGAAATAATTTCGAGTTGA-TGTTTCTGAGCAAATAGTATAAAATCGCTTTTAG
*
48281732 CAGGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGTGGGCGCGCTTTTGCTACAG
64 CAGGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAG
48281793 TAG
1 TAG
48281796 CATGTTTGGG
Statistics
Matches: 230, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 92 0.40
125 138 0.60
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (124 bp):
TAGGTCATGAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCA
GGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAG
Found at i:48284873 original size:37 final size:37
Alignment explanation
Indices: 48284832--48285131 Score: 537
Period size: 37 Copynumber: 8.1 Consensus size: 37
48284822 TTGTATTAAC
* *
48284832 TCAAATTATATAAAATTACTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
48284869 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
*
48284906 TCAAATTATATAAAATTATTAATGGTTAGTTAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
48284943 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
*
48284980 TGAAATTATATAAAATTATTAATGGTTAGTGAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
* *
48285017 TCAAATTATATAAAATTATTAATGGTTACTAAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
48285054 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
*
48285091 TGAAATTATATAAAATTATTAATGGTTAGTGAAATTA
1 TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
48285128 TCAA
1 TCAA
48285132 TTGAGTTAGG
Statistics
Matches: 251, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 251 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (37 bp):
TCAAATTATATAAAATTATTAATGGTTAGTGAAATTA
Found at i:48285147 original size:6 final size:6
Alignment explanation
Indices: 48285136--48285162 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48285126 TATCAATTGA
48285136 GTTAGG GTTAGG GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG GTTAGG GTT
48285163 TTTAATTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (6 bp):
GTTAGG
Found at i:48285189 original size:29 final size:29
Alignment explanation
Indices: 48285142--48285852 Score: 960
Period size: 29 Copynumber: 24.6 Consensus size: 29
48285132 TTGAGTTAGG
48285142 GTTAGGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTA-GGTTAGGGTTAGGGTTTTTAATTAA
*
48285172 GTTTGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285201 ATTAGGTTAGGGTTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGG-TTAGGGTTTTTAATTAA
48285231 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* **
48285260 ATTAGGTTAATGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285289 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
48285318 GTTTGATTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285347 GTTTGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
48285376 GTTAGGTTAGGGTTAGGGTTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGG-TTTTTAATTAA
*
48285406 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* * * * *
48285435 ATTAGGTT---TTTA----ATTAAATTAG
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
48285457 GTTAGG-----GTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285481 GTTAGGTTAGGGTTAGGGTTTTTAGTTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285510 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
48285539 GTTTGGTTAGGGGTGGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
48285568 ATTAGGTTAGGGTTTAAGGTTTTTAATTAA
1 GTTAGGTTAGGG-TTAGGGTTTTTAATTAA
48285598 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285627 GTTAGGTTAGGGTTAGAGTTAGGGTTTTTAATTGA
1 GTTAGGTTA--G---G-GTTAGGGTTTTTAATTAA
* * *
48285662 GTTTGGTTAGGGTTAGCGTTTTTAATAAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
48285691 GTTTGGTTAGGGTTAGGGTTTTTAATTGA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285720 GTTAGATTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
48285749 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285778 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285807 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAA
*
48285836 GTTTGGTTAGGGTTAGG
1 GTTAGGTTAGGGTTAGG
48285853 AATAAACTTC
Statistics
Matches: 610, Mismatches: 53, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
20 3 0.00
22 12 0.02
24 13 0.02
26 3 0.00
29 466 0.76
30 85 0.14
31 1 0.00
33 1 0.00
34 1 0.00
35 25 0.04
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
GTTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:48285445 original size:18 final size:17
Alignment explanation
Indices: 48285422--48285459 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
48285412 TTAGGGTTAG
48285422 GGTTTTTAATTAAATTA
1 GGTTTTTAATTAAATTA
48285439 GGTTTTTAATTAAATTA
1 GGTTTTTAATTAAATTA
48285456 GGTT
1 GGTT
48285460 AGGGTTAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
GGTTTTTAATTAAATTA
Found at i:48285450 original size:46 final size:46
Alignment explanation
Indices: 48285395--48285488 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
48285385 GGGTTAGGGT
48285395 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
*
48285441 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
48285487 TT
1 TT
48285489 AGGGTTAGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (46 bp):
TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
Found at i:48287060 original size:7 final size:7
Alignment explanation
Indices: 48287048--48287073 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48287038 TATACATAAT
48287048 AATACTA
1 AATACTA
48287055 AATACTA
1 AATACTA
48287062 AATACTA
1 AATACTA
48287069 AATAC
1 AATAC
48287074 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:48288271 original size:51 final size:51
Alignment explanation
Indices: 48288211--48288333 Score: 187
Period size: 51 Copynumber: 2.4 Consensus size: 51
48288201 TATTTTAAAA
48288211 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGAATTGAA-AGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGG-ATTGAAGAGAATTTTGG
* * *
48288262 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTGAAGAGAATTTTGG
*
48288313 AAAGAAATTGAGAGG-AATTGA
1 AAGGAAATTGAGAGGAAATTGA
48288334 GAGGAAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 11 0.17
51 55 0.83
ACGTcount: A:0.48, C:0.01, G:0.25, T:0.26
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTGAAGAGAATTTTGG
Found at i:48288348 original size:12 final size:11
Alignment explanation
Indices: 48288316--48288348 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
48288306 ATTTTGGAAA
48288316 GAAATTGAGAG
1 GAAATTGAGAG
48288327 G-AATTGAGAG
1 GAAATTGAGAG
48288337 GAAATATGAGAG
1 GAAAT-TGAGAG
48288349 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:48292789 original size:13 final size:13
Alignment explanation
Indices: 48292773--48292800 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48292763 TAAAAAGATT
48292773 TTCAAAAAAATAA
1 TTCAAAAAAATAA
48292786 TTCAAAAAAATAA
1 TTCAAAAAAATAA
48292799 TT
1 TT
48292801 AAGTCCCCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
TTCAAAAAAATAA
Found at i:48292949 original size:19 final size:21
Alignment explanation
Indices: 48292919--48292974 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
48292909 AATAAAAGTT
*
48292919 ATAAAAATAATT-ATATTTTA
1 ATAAAAATAATTAAAATTTTA
48292939 ATAAAAA-AATTAAAATTTTA
1 ATAAAAATAATTAAAATTTTA
* *
48292959 TTAAAAATTA-TAAAAT
1 ATAAAAATAATTAAAAT
48292975 ATATAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 26 0.84
21 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATAATTAAAATTTTA
Found at i:48293209 original size:9 final size:9
Alignment explanation
Indices: 48293197--48293335 Score: 76
Period size: 9 Copynumber: 15.4 Consensus size: 9
48293187 ATTTGATGCA
48293197 TTTTATAATTT
1 TTTTATAA--T
*
48293208 TTTTATGAT
1 TTTTATAAT
*
48293217 TTTTTTAAAT
1 TTTTAT-AAT
48293227 TTTTA-AAT
1 TTTTATAAT
48293235 TTTTATAAT
1 TTTTATAAT
*
48293244 TCTTT-TACT
1 T-TTTATAAT
48293253 TTTT-T-AT
1 TTTTATAAT
48293260 TTTTATAAT
1 TTTTATAAT
48293269 TTTTA-ATAT
1 TTTTATA-AT
* *
48293278 TTTAATACT
1 TTTTATAAT
*
48293287 TTTTATTAAAA
1 TTTTA-T-AAT
** *
48293298 TTCAATAAC
1 TTTTATAAT
*
48293307 TTTTATAAC
1 TTTTATAAT
48293316 TTTTAT--T
1 TTTTATAAT
48293323 TTTTATAAT
1 TTTTATAAT
48293332 TTTT
1 TTTT
48293336 TTGCCACATA
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
7 11 0.11
8 14 0.14
9 52 0.52
10 12 0.12
11 11 0.11
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:48293213 original size:11 final size:11
Alignment explanation
Indices: 48293197--48293230 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
48293187 ATTTGATGCA
48293197 TTTTATAATTT
1 TTTTATAATTT
*
48293208 TTTTATGATTT
1 TTTTATAATTT
48293219 TTTTA-AATTT
1 TTTTATAATTT
48293229 TT
1 TT
48293231 AAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:48293287 original size:34 final size:33
Alignment explanation
Indices: 48293225--48293290 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
48293215 ATTTTTTTAA
*
48293225 ATTTTTAAATTTTTATAATTCTTTTACTTTTTT
1 ATTTTTAAATTTTTATAATTCTTATACTTTTTT
48293258 ATTTTTATAATTTTTA-ATATT-TTAATACTTTTT
1 ATTTTTA-AATTTTTATA-ATTCTT-ATACTTTTT
48293291 ATTAAAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (33 bp):
ATTTTTAAATTTTTATAATTCTTATACTTTTTT
Found at i:48293593 original size:83 final size:82
Alignment explanation
Indices: 48293440--48293593 Score: 186
Period size: 83 Copynumber: 1.9 Consensus size: 82
48293430 GGTCAAATAA
* * * *
48293440 CCTTTTTGATGCATTTGATAGTTTAAGTACCCAATTGAGTGTAAAAAAAAAGGACTTAATTGTTT
1 CCTTTTTGATGAATTTGAAAGTTCAAGTACCCAATTGAGTGTAAAAAAAAAGGACTTAATTGTTC
*
48293505 TTTTTTAATTTTGAGAG
66 CTTTTTAATTTTGAGAG
* * * *
48293522 CCTTTTTGATGAATTTTGAAAGTTCAAGTACCTAATTTAGTG-AAAAAATACAGGGGCTTAATT-
1 CCTTTTTGATGAA-TTTGAAAGTTCAAGTACCCAATTGAGTGTAAAAAA-A-AAGGACTTAATTG
48293585 TTCCTTTTT
63 TTCCTTTTT
48293594 TAAATTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
82 18 0.30
83 32 0.53
84 10 0.17
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (82 bp):
CCTTTTTGATGAATTTGAAAGTTCAAGTACCCAATTGAGTGTAAAAAAAAAGGACTTAATTGTTC
CTTTTTAATTTTGAGAG
Found at i:48294816 original size:18 final size:19
Alignment explanation
Indices: 48294793--48294836 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
48294783 AAGAGTTGTG
48294793 ATAATTATAA-TTACAAGT
1 ATAATTATAATTTACAAGT
*
48294811 ATAATT-TAATTTACAATT
1 ATAATTATAATTTACAAGT
48294829 ATTAATTA
1 A-TAATTA
48294837 AAATAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATTATAATTTACAAGT
Found at i:48295307 original size:27 final size:24
Alignment explanation
Indices: 48295253--48295310 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 24
48295243 AATTTTTTAT
*
48295253 TTAAAAAATAATTTATAAAAATTA
1 TTAAAAAATAATTTATAAAAATCA
*
48295277 TTAAAAAATAAGATTTGTAAAAAATCA
1 TTAAAAAAT-A-ATTTAT-AAAAATCA
48295304 TTAAAAA
1 TTAAAAA
48295311 GCACAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.31
25 1 0.03
26 5 0.17
27 14 0.48
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (24 bp):
TTAAAAAATAATTTATAAAAATCA
Found at i:48295333 original size:13 final size:13
Alignment explanation
Indices: 48295315--48295349 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
48295305 TAAAAAGCAC
*
48295315 AAAAAATCTTTTA
1 AAAAAATATTTTA
48295328 AAAAAATTATTTTA
1 AAAAAA-TATTTTA
48295342 AAAAAATA
1 AAAAAATA
48295350 AAATTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:48305682 original size:30 final size:29
Alignment explanation
Indices: 48305641--48305753 Score: 145
Period size: 30 Copynumber: 3.8 Consensus size: 29
48305631 ATTTTACATC
*
48305641 CTATTATAATGTTAGCTTGTGTGAGCAAT
1 CTATTATAATGTCAGCTTGTGTGAGCAAT
* * *
48305670 CTTATTGTAATGTCAACTTGTGTGAGCAAAA
1 C-TATTATAATGTCAGCTTGTGTGAGC-AAT
*
48305701 CTATTATAATGTCAGCTTATGTGAGCAAT
1 CTATTATAATGTCAGCTTGTGTGAGCAAT
*
48305730 CCTATTATAATGTCAGCCTGTGTG
1 -CTATTATAATGTCAGCTTGTGTG
48305754 TTCGAGTTCG
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
29 3 0.04
30 65 0.92
31 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (29 bp):
CTATTATAATGTCAGCTTGTGTGAGCAAT
Found at i:48305741 original size:60 final size:60
Alignment explanation
Indices: 48305641--48305753 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
48305631 ATTTTACATC
* * * * *
48305641 CTATTATAATGTTAGCTTGTGTGAGCAATCTTATTGTAATGTCAACTTGTGTGAGCAAAA
1 CTATTATAATGTCAGCTTATGTGAGCAATCCTATTATAATGTCAACCTGTGTGAGCAAAA
*
48305701 CTATTATAATGTCAGCTTATGTGAGCAATCCTATTATAATGTCAGCCTGTGTG
1 CTATTATAATGTCAGCTTATGTGAGCAATCCTATTATAATGTCAACCTGTGTG
48305754 TTCGAGTTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (60 bp):
CTATTATAATGTCAGCTTATGTGAGCAATCCTATTATAATGTCAACCTGTGTGAGCAAAA
Found at i:48307072 original size:9 final size:9
Alignment explanation
Indices: 48307060--48307090 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
48307050 TTTTTTTCAT
48307060 TTTTCAAAA
1 TTTTCAAAA
48307069 TTTTCAAAA
1 TTTTCAAAA
48307078 TTTTCAAAA
1 TTTTCAAAA
48307087 TTTT
1 TTTT
48307091 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTTCAAAA
Found at i:48307106 original size:16 final size:16
Alignment explanation
Indices: 48307060--48307097 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
48307050 TTTTTTTCAT
48307060 TTTTCAAAATTTTCAAAA
1 TTTTCAAAATTTT--AAA
48307078 TTTTCAAAATTTTAAA
1 TTTTCAAAATTTTAAA
48307094 TTTT
1 TTTT
48307098 TATAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCAAAATTTTAAA
Found at i:48307744 original size:17 final size:17
Alignment explanation
Indices: 48307705--48307751 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
48307695 TTTTTATTTT
*
48307705 TTTAAAAAT-AAAATTA
1 TTTAAAAATAAAAACTA
**
48307721 TGGAAAAATAAAAACTA
1 TTTAAAAATAAAAACTA
*
48307738 TTTAAAATTAAAAA
1 TTTAAAAATAAAAA
48307752 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
TTTAAAAATAAAAACTA
Found at i:48307777 original size:22 final size:21
Alignment explanation
Indices: 48307745--48307785 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
48307735 CTATTTAAAA
48307745 TTAAAAAATAAAAAAAAATAT
1 TTAAAAAATAAAAAAAAATAT
*
48307766 TTAAAAATATAAACAAAAAT
1 TTAAAAA-ATAAAAAAAAAT
48307786 TTCAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
TTAAAAAATAAAAAAAAATAT
Found at i:48307784 original size:27 final size:28
Alignment explanation
Indices: 48307724--48307785 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
48307714 AAAATTATGG
*
48307724 AAAAATAAAAACTATTTAAAATTAAAAA
1 AAAAATAAAAACTATTTAAAAATAAAAA
*
48307752 ATAAAA-AAAAA-TATTTAAAAATATAAAC
1 A-AAAATAAAAACTATTTAAAAATA-AAAA
48307780 AAAAAT
1 AAAAAT
48307786 TTCAAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 15 0.52
28 10 0.34
29 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAAATAAAAACTATTTAAAAATAAAAA
Found at i:48307787 original size:20 final size:19
Alignment explanation
Indices: 48307741--48307793 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
48307731 AAAACTATTT
*
48307741 AAAATTAAAAAATAAAAAA
1 AAAATTTAAAAATAAAAAA
*
48307760 AAATATTTAAAAATATAAACA
1 AAA-ATTTAAAAATA-AAAAA
*
48307781 AAAATTTCAAAAT
1 AAAATTTAAAAAT
48307794 TCAATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 19 0.66
21 7 0.24
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTTAAAAATAAAAAA
Found at i:48308242 original size:14 final size:15
Alignment explanation
Indices: 48308211--48308239 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48308201 TTTCTAATTA
48308211 AAAAAATTATTTTTT
1 AAAAAATTATTTTTT
48308226 AAAAAATTATTTTT
1 AAAAAATTATTTTT
48308240 AAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAAAAATTATTTTTT
Found at i:48310546 original size:22 final size:22
Alignment explanation
Indices: 48310521--48310562 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48310511 CCTTATTAGG
*
48310521 CACCACACGTGTTTTTAGTGGT
1 CACCACACGCGTTTTTAGTGGT
*
48310543 CACCACCCGCGTTTTTAGTG
1 CACCACACGCGTTTTTAGTG
48310563 TCGCTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (22 bp):
CACCACACGCGTTTTTAGTGGT
Found at i:48311614 original size:22 final size:22
Alignment explanation
Indices: 48311589--48311957 Score: 187
Period size: 22 Copynumber: 16.4 Consensus size: 22
48311579 GCTAAAAAAT
48311589 GAACAACATTTAACCAACATTC
1 GAACAACATTTAACCAACATTC
* *
48311611 GAACAAAATTTAACCGACATTC
1 GAACAACATTTAACCAACATTC
* *
48311633 GGACAACATTTAAACAACATTC
1 GAACAACATTTAACCAACATTC
* * * *
48311655 -AGACAACATTAGTATGCTAAAAAAT-
1 GA-ACAACATT--TA-AC-CAACATTC
*
48311680 GAACAGCATTTAACCAACATTC
1 GAACAACATTTAACCAACATTC
* *
48311702 -AGGCAGCATTTAACCAACATTC
1 GA-ACAACATTTAACCAACATTC
* *
48311724 -AGACATCATTTAAACAACATTC
1 GA-ACAACATTTAACCAACATTC
* * * * * *
48311746 GGACAGCATTAGTATGCTAAAAAAT-
1 GAACAACATT--TA-AC-CAACATTC
*
48311771 GAACAGCATTTAACCAACATTC
1 GAACAACATTTAACCAACATTC
*
48311793 -AGACAGCATTTAACCAACATTC
1 GA-ACAACATTTAACCAACATTC
*
48311815 -AGACAACATTTAAACAACATTC
1 GA-ACAACATTTAACCAACATTC
* *
48311837 GGACAACATTTAAACAACATTC
1 GAACAACATTTAACCAACATTC
* * * * *
48311859 GGACAACATTAGTATGCTAAAAAATC
1 GAACAACATT--TA-AC-CAACATTC
*
48311885 -AACAACAATTAACCAACATTC
1 GAACAACATTTAACCAACATTC
* * * *
48311906 GGATAGCATTTGACCAACATTC
1 GAACAACATTTAACCAACATTC
* * *
48311928 GGACAACATTTAAACAACATTT
1 GAACAACATTTAACCAACATTC
*
48311950 GGACAACA
1 GAACAACA
48311958 CCTTGTCATC
Statistics
Matches: 269, Mismatches: 57, Indels: 42
0.73 0.15 0.11
Matches are distributed among these distances:
21 15 0.06
22 205 0.76
23 6 0.02
24 6 0.02
25 23 0.09
26 14 0.05
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.23
Consensus pattern (22 bp):
GAACAACATTTAACCAACATTC
Found at i:48311677 original size:91 final size:91
Alignment explanation
Indices: 48311570--48311846 Score: 448
Period size: 91 Copynumber: 3.0 Consensus size: 91
48311560 ATTTGGATAG
* * ** * *
48311570 CATTAATATGCTAAAAAATGAACAACATTTAACCAACATTC-GAACAAAATTTAACCGACATTCG
1 CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAG-ACAGCATTTAACCAACATTCA
*
48311634 GACAACATTTAAACAACATTCAGACAA
65 GACAACATTTAAACAACATTCGGACAA
*
48311661 CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAGGCAGCATTTAACCAACATTCAG
1 CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAGACAGCATTTAACCAACATTCAG
* *
48311726 ACATCATTTAAACAACATTCGGACAG
66 ACAACATTTAAACAACATTCGGACAA
48311752 CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAGACAGCATTTAACCAACATTCAG
1 CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAGACAGCATTTAACCAACATTCAG
48311817 ACAACATTTAAACAACATTCGGACAA
66 ACAACATTTAAACAACATTCGGACAA
48311843 CATT
1 CATT
48311847 TAAACAACAT
Statistics
Matches: 172, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
91 171 0.99
92 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.24
Consensus pattern (91 bp):
CATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAGACAGCATTTAACCAACATTCAG
ACAACATTTAAACAACATTCGGACAA
Found at i:48311800 original size:113 final size:113
Alignment explanation
Indices: 48311682--48311957 Score: 410
Period size: 113 Copynumber: 2.4 Consensus size: 113
48311672 TAAAAAATGA
* * *
48311682 ACAGCATTTAACCAACATTCAGGCAGCATTTAACCAACATTCAGACATCATTTAAACAACATTCG
1 ACAGCATTTAACCAACATTCAGGCAACATTTAAACAACATTCAGACAACATTTAAACAACATTCG
* * * *
48311747 GACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCAG
66 GACAACATTAGTATGCTAAAAAATCAACAACAATTAACCAACATTCAG
* *
48311795 ACAGCATTTAACCAACATTCAGACAACATTTAAACAACATTCGGACAACATTTAAACAACATTCG
1 ACAGCATTTAACCAACATTCAGGCAACATTTAAACAACATTCAGACAACATTTAAACAACATTCG
*
48311860 GACAACATTAGTATGCTAAAAAATCAACAACAATTAACCAACATTCGG
66 GACAACATTAGTATGCTAAAAAATCAACAACAATTAACCAACATTCAG
* * **
48311908 ATAGCATTTGACCAACATTC-GGACAACATTTAAACAACATTTGGACAACA
1 ACAGCATTTAACCAACATTCAGG-CAACATTTAAACAACATTCAGACAACA
48311958 CCTTGTCATC
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
112 1 0.01
113 147 0.99
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (113 bp):
ACAGCATTTAACCAACATTCAGGCAACATTTAAACAACATTCAGACAACATTTAAACAACATTCG
GACAACATTAGTATGCTAAAAAATCAACAACAATTAACCAACATTCAG
Found at i:48311802 original size:11 final size:11
Alignment explanation
Indices: 48311785--48311868 Score: 80
Period size: 11 Copynumber: 7.6 Consensus size: 11
48311775 AGCATTTAAC
48311785 CAACATTCAGA
1 CAACATTCAGA
* *
48311796 CAGCATTTA-A
1 CAACATTCAGA
48311806 CCAACATTCAGA
1 -CAACATTCAGA
* *
48311818 CAACATTTAAA
1 CAACATTCAGA
*
48311829 CAACATTCGGA
1 CAACATTCAGA
* *
48311840 CAACATTTAAA
1 CAACATTCAGA
*
48311851 CAACATTCGGA
1 CAACATTCAGA
48311862 CAACATT
1 CAACATT
48311869 AGTATGCTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
10 1 0.02
11 54 0.96
12 1 0.02
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (11 bp):
CAACATTCAGA
Found at i:48312635 original size:43 final size:42
Alignment explanation
Indices: 48312559--48312673 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
48312549 GTACAATGTC
* ** *
48312559 ATATCCCAGATATGGTCTAACATGTTATAATATATCGATGCCA
1 ATATCCCAGATATGGTCTTACATGAAATCATATA-CGATGCCA
* * * *
48312602 CTATCCCATATAGGGTCTTACATGAAATCATATACGATTCCA
1 ATATCCCAGATATGGTCTTACATGAAATCATATACGATGCCA
* * *
48312644 ATGTCCCAGACATGGTCTTACACGAAATCA
1 ATATCCCAGATATGGTCTTACATGAAATCA
48312674 CACCTCAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 31 0.53
43 27 0.47
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACATGAAATCATATACGATGCCA
Found at i:48313801 original size:15 final size:15
Alignment explanation
Indices: 48313781--48313810 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48313771 AATTTTCACA
48313781 CATATCAAATAACAT
1 CATATCAAATAACAT
48313796 CATATCAAATAACAT
1 CATATCAAATAACAT
48313811 GTTGTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
CATATCAAATAACAT
Found at i:48319367 original size:11 final size:10
Alignment explanation
Indices: 48319349--48319412 Score: 56
Period size: 11 Copynumber: 5.9 Consensus size: 10
48319339 CTAAAAAGAG
48319349 AACAACATTT
1 AACAACATTT
*
48319359 AACCAACATTCG
1 AA-CAACATT-T
*
48319371 GACAACATTT
1 AACAACATTT
48319381 AAACAACATTT
1 -AACAACATTT
*
48319392 ATACAATATTT
1 A-ACAACATTT
48319403 AAACAACATT
1 -AACAACATT
48319413 CGGACAACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.07
11 38 0.88
12 2 0.05
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.28
Consensus pattern (10 bp):
AACAACATTT
Found at i:48319375 original size:22 final size:22
Alignment explanation
Indices: 48319350--48319534 Score: 140
Period size: 22 Copynumber: 8.3 Consensus size: 22
48319340 TAAAAAGAGA
48319350 ACAACATTTAACCAACATTCGG
1 ACAACATTTAACCAACATTCGG
* ***
48319372 ACAACATTTAAACAACATTTAT
1 ACAACATTTAACCAACATTCGG
* *
48319394 ACAATATTTAAACAACATTCGG
1 ACAACATTTAACCAACATTCGG
* * * *
48319416 ACAACATTAGTATGCTAAAAAATT--A
1 ACAACATT--TA-AC--CAACATTCGG
*
48319441 ACAGCATTTAACCAACATTCGG
1 ACAACATTTAACCAACATTCGG
* *
48319463 ATATCATTTAACCAACATTCGG
1 ACAACATTTAACCAACATTCGG
* *
48319485 ACAGCATTTAACCAACATTCAG
1 ACAACATTTAACCAACATTCGG
** * *
48319507 ACAGTATTTAAACAACATTCAG
1 ACAACATTTAACCAACATTCGG
48319529 ACAACA
1 ACAACA
48319535 CCTTGTCATC
Statistics
Matches: 128, Mismatches: 28, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
20 5 0.04
22 107 0.84
23 2 0.02
24 2 0.02
25 7 0.05
27 5 0.04
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (22 bp):
ACAACATTTAACCAACATTCGG
Found at i:48319494 original size:91 final size:91
Alignment explanation
Indices: 48319303--48319509 Score: 236
Period size: 91 Copynumber: 2.3 Consensus size: 91
48319293 CAAAAATGAT
* * * *
48319303 CAGCATTTAAGCACCAATTTGGACAGCATTAATATGCTAAAAAGAGAACAACATTTAACCAACAT
1 CAGCATTTAAACAAC-ATTCGGACAACATTAATATGCTAAAAAGAGAACAACATTTAACCAACAT
* *
48319368 TCGGACAACATTTAAACAACATTTATA
65 TCGGACAACATTTAAACAACATTCAGA
** * * *
48319395 CAATATTTAAACAACATTCGGACAACATTAGTATGCTAAAAA-ATTAACAGCATTTAACCAACAT
1 CAGCATTTAAACAACATTCGGACAACATTAATATGCTAAAAAGA-GAACAACATTTAACCAACAT
* * * *
48319459 TCGGATATCATTTAACCAACATTCGGA
65 TCGGACAACATTTAAACAACATTCAGA
* *
48319486 CAGCATTTAACCAACATTCAGACA
1 CAGCATTTAAACAACATTCGGACA
48319510 GTATTTAAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
90 1 0.01
91 83 0.87
92 11 0.12
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (91 bp):
CAGCATTTAAACAACATTCGGACAACATTAATATGCTAAAAAGAGAACAACATTTAACCAACATT
CGGACAACATTTAAACAACATTCAGA
Found at i:48321483 original size:12 final size:12
Alignment explanation
Indices: 48321461--48321513 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
48321451 CGTCATGAGA
48321461 ACTCATGTGTAGT
1 ACTC-TGTGTAGT
48321474 ACTCTGTGTAG-
1 ACTCTGTGTAGT
* *
48321485 GCTACTATG-AGT
1 ACT-CTGTGTAGT
48321497 ACTCTGTGTAGT
1 ACTCTGTGTAGT
48321509 ACTCT
1 ACTCT
48321514 ATTTTCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 8 0.24
12 21 0.64
13 4 0.12
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (12 bp):
ACTCTGTGTAGT
Found at i:48321515 original size:23 final size:23
Alignment explanation
Indices: 48321471--48321515 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48321461 ACTCATGTGT
*
48321471 AGTACTCTGTGTAGGCTACTATG
1 AGTACTCTGTGTAGACTACTATG
48321494 AGTACTCTGTGTAGTACT-CTAT
1 AGTACTCTGTGTAG-ACTACTAT
48321516 TTTCATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (23 bp):
AGTACTCTGTGTAGACTACTATG
Found at i:48323012 original size:50 final size:50
Alignment explanation
Indices: 48322936--48323032 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
48322926 TATATCTGCT
* *
48322936 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCGTCGATATGTGTG
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTGTG
*
48322986 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGT
48323033 AATTTCGAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTGTG
Found at i:48327321 original size:51 final size:51
Alignment explanation
Indices: 48327245--48327436 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 51
48327235 GAGAACTTAG
** *** *
48327245 GTGTAGTACTCTGTGCAGGCTACTATGAT-TATAAGATAGTTATGGTCACTT
1 GTGTAGTACTAAGTGCAGGCTACTATG-TGTACCGGATAGTTATGGTCACAT
* *
48327296 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGCTT-TGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAG-TTATGGTCACAT
* *
48327347 GTGTAGTACTCTA-TGCAGGCTACTACGTGTACCGGAT-GTTATTGGTCACAT
1 GTGTAGTACT-AAGTGCAGGCTACTATGTGTACCGGATAGTTA-TGGTCACAT
* **
48327398 GTGTAGTACTAAGTGTAGGCTACTATGTCAACCGGATAG
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAG
48327437 CATTGATCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 2 0.02
50 3 0.03
51 109 0.92
52 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGTTATGGTCACAT
Found at i:48327421 original size:102 final size:102
Alignment explanation
Indices: 48327245--48327445 Score: 280
Period size: 102 Copynumber: 2.0 Consensus size: 102
48327235 GAGAACTTAG
* * * *
48327245 GTGTAGTACTCTGTGCAGGCTACTATGATTATAAGATAGTTATGGTCACTTGTGTAGTACTAAGT
1 GTGTAGTACTCTATGCAGGCTACTACGATTACAAGATAGTTATGGTCACATGTGTAGTACTAAGT
** *
48327310 GCAGGCTACTATGTGTACCGGATAGCTTTGATCACGT
66 GCAGGCTACTATGTCAACCGGATAGCATTGATCACGT
**
48327347 GTGTAGTACTCTATGCAGGCTACTACG-TGTACCGGAT-GTTATTGGTCACATGTGTAGTACTAA
1 GTGTAGTACTCTATGCAGGCTACTACGAT-TACAAGATAGTTA-TGGTCACATGTGTAGTACTAA
*
48327410 GTGTAGGCTACTATGTCAACCGGATAGCATTGATCA
64 GTGCAGGCTACTATGTCAACCGGATAGCATTGATCA
48327446 TAAGGGTGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 5 0.06
102 82 0.94
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (102 bp):
GTGTAGTACTCTATGCAGGCTACTACGATTACAAGATAGTTATGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATGTCAACCGGATAGCATTGATCACGT
Found at i:48327466 original size:102 final size:101
Alignment explanation
Indices: 48327283--48327466 Score: 242
Period size: 102 Copynumber: 1.8 Consensus size: 101
48327273 TTATAAGATA
* ** * **
48327283 GTTATGGTCACTTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGCTTTGATCACGTG
1 GTTATGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTCAACCGGATAGCATTGATCACAAG
* *
48327348 TGTAGTACTCTATGCAGGCTACTACGTGTACCGGAT
66 GGTAGTACTATATGCAGGCTACTACGTGTACCGGAT
* *
48327384 GTTATTGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGTCAACCGGATAGCATTGATCATAA
1 GTTA-TGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTCAACCGGATAGCATTGATCACAA
* * *
48327449 GGGTGGTGCTATGTGCAG
65 GGGTAGTACTATATGCAG
48327467 AACCACCATG
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
101 4 0.06
102 65 0.94
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (101 bp):
GTTATGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTCAACCGGATAGCATTGATCACAAG
GGTAGTACTATATGCAGGCTACTACGTGTACCGGAT
Found at i:48333369 original size:17 final size:18
Alignment explanation
Indices: 48333332--48333372 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48333322 CATTCATTTC
48333332 AATATTGTACAACTACAA
1 AATATTGTACAACTACAA
* *
48333350 AATATT-TACCACTACCA
1 AATATTGTACAACTACAA
48333367 AATATT
1 AATATT
48333373 CATTTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (18 bp):
AATATTGTACAACTACAA
Found at i:48339886 original size:146 final size:135
Alignment explanation
Indices: 48339724--48340003 Score: 407
Period size: 146 Copynumber: 2.0 Consensus size: 135
48339714 GAAGAGAGGA
* *
48339724 AAAAAAAGAAAGAAGAGAGGGACAAGTGAGAGTAGTGAGAAATAAGAAAAATAATAATAATAAAA
1 AAAAAAAGAAAGAAGAGAGAGACAAGTGAGAGTAGTGAGAAACAAG----A-AA-AATAATAAAA
48339789 AGAAAAAGGACAAAAAGGAAAAAAAGTTGAAAAGGTTAAAAATTAAAAAAAATGTTTAAAATATG
60 A-AAAAAGG--AAAAAGGAAAAAAA-TTGAAAAGGTTAAAAATT-AAAAAAATGTTTAAAATATG
48339854 TGTCGATGACGTGGAG
120 TGTCGATGACGTGGAG
*
48339870 AAAAAAAGAAAGAAGAGAGAGACAAGTGAGAGTAGTGAGAAACAAGAAAAATAATAAGAAAAAAA
1 AAAAAAAGAAAGAAGAGAGAGACAAGTGAGAGTAGTGAGAAACAAGAAAAATAATAAAAAAAAAA
* * *
48339935 GGAAAAATGATAAAAATTGAAAAGGTTAAAAATTTAAAAAATGTTTAAAATATGTGTCGATGACG
66 GGAAAAAGGAAAAAAATTGAAAAGGTTAAAAATTAAAAAAATGTTTAAAATATGTGTCGATGACG
48340000 TGGA
131 TGGA
48340004 TGTCAACTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
135 34 0.27
136 18 0.14
137 12 0.09
139 7 0.05
140 10 0.08
141 2 0.02
142 1 0.01
146 44 0.34
ACGTcount: A:0.58, C:0.03, G:0.22, T:0.17
Consensus pattern (135 bp):
AAAAAAAGAAAGAAGAGAGAGACAAGTGAGAGTAGTGAGAAACAAGAAAAATAATAAAAAAAAAA
GGAAAAAGGAAAAAAATTGAAAAGGTTAAAAATTAAAAAAATGTTTAAAATATGTGTCGATGACG
TGGAG
Found at i:48341969 original size:40 final size:39
Alignment explanation
Indices: 48341872--48341957 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
48341862 GATGTCAGGG
* * * *
48341872 GACGTGTCAGCAAATCACGTCCACATCAGCGCGATTACT
1 GACGTGGCAACAAATCGCGTCCACATAAGCGCGATTACT
* * *
48341911 TACGTGGCAACAAATCGCGTCCACGTAAGCGCGATTTGCT
1 GACGTGGCAACAAATCGCGTCCACATAAGCGCGA-TTACT
48341951 GACGTGG
1 GACGTGG
48341958 AAGGAAATCG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 28 0.74
40 10 0.26
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (39 bp):
GACGTGGCAACAAATCGCGTCCACATAAGCGCGATTACT
Found at i:48343689 original size:47 final size:47
Alignment explanation
Indices: 48343620--48343715 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
48343610 TTTGGTCTTC
48343620 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
*
48343667 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
48343714 AA
1 AA
48343716 CGCTACAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (47 bp):
AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
Found at i:48343984 original size:24 final size:24
Alignment explanation
Indices: 48343955--48344003 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48343945 GTTGTAAAGA
48343955 TAGTTTTAATTTCTATTTTGTGCT
1 TAGTTTTAATTTCTATTTTGTGCT
48343979 TAGTTTTAATTTCTATTTTGTGCT
1 TAGTTTTAATTTCTATTTTGTGCT
48344003 T
1 T
48344004 TGTAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.12, T:0.63
Consensus pattern (24 bp):
TAGTTTTAATTTCTATTTTGTGCT
Found at i:48344351 original size:21 final size:21
Alignment explanation
Indices: 48344312--48344352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48344302 TAAAGTAGAT
*
48344312 TATATATTATTTTTATAGTAC
1 TATATATTATATTTATAGTAC
48344333 TATATATTATGATTT-TAGTA
1 TATATATTAT-ATTTATAGTA
48344353 AATTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
TATATATTATATTTATAGTAC
Found at i:48344392 original size:37 final size:37
Alignment explanation
Indices: 48344335--48344432 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
48344325 TATAGTACTA
* *
48344335 TATATTATG-ATTTTAGTAAATTCATA-TAAGAAAAAT
1 TATATTAAGAATTTTATTAAATT-ATATTAAGAAAAAT
* *
48344371 TATATTAAGAATTTTATTAAATTATATTTAATAATAAT
1 TATATTAAGAATTTTATTAAATTATA-TTAAGAAAAAT
* *
48344409 TATATTAA-AATATGATTAAATTAT
1 TATATTAAGAATTTTATTAAATTAT
48344433 TTATTATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
36 11 0.21
37 26 0.49
38 16 0.30
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATTAAGAATTTTATTAAATTATATTAAGAAAAAT
Found at i:48344398 original size:10 final size:10
Alignment explanation
Indices: 48344367--48344432 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
48344357 CATATAAGAA
48344367 AAATTATATT
1 AAATTATATT
*
48344377 AAGAATTTTATT
1 -A-AATTATATT
48344389 AAATTATATT
1 AAATTATATT
*
48344399 TAA-TA-A-T
1 AAATTATATT
48344406 -AATTATATT
1 AAATTATATT
*
48344415 AAAATATGATT
1 AAATTAT-ATT
48344426 AAATTAT
1 AAATTAT
48344433 TTATTATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.05
7 3 0.07
8 2 0.05
9 3 0.07
10 15 0.34
11 11 0.25
12 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
AAATTATATT
Found at i:48344650 original size:16 final size:16
Alignment explanation
Indices: 48344629--48344685 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
48344619 AATTGAATTA
*
48344629 CTATTACAGCTCTACT
1 CTATTACAGCTCTATT
* *
48344645 CTATTATAACTCTATT
1 CTATTACAGCTCTATT
*
48344661 CAATTACAGCTCTATT
1 CTATTACAGCTCTATT
*
48344677 CCATTACAG
1 CTATTACAG
48344686 TGAACTAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (16 bp):
CTATTACAGCTCTATT
Found at i:48347082 original size:16 final size:17
Alignment explanation
Indices: 48347063--48347095 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48347053 AAATTAATTT
48347063 TTTATTAAAATT-TTTA
1 TTTATTAAAATTGTTTA
*
48347079 TTTATTTAAATTGTTTA
1 TTTATTAAAATTGTTTA
48347096 GTTGATAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTATTAAAATTGTTTA
Found at i:48347378 original size:9 final size:9
Alignment explanation
Indices: 48347364--48347408 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
48347354 CCGTTAACCG
48347364 AACCGAATT
1 AACCGAATT
48347373 AACCGAATT
1 AACCGAATT
*
48347382 ACCCGAATT
1 AACCGAATT
48347391 AACCGAATT
1 AACCGAATT
48347400 AACCGAATT
1 AACCGAATT
48347409 GAATCACTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (9 bp):
AACCGAATT
Found at i:48347465 original size:6 final size:7
Alignment explanation
Indices: 48347432--48347478 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
48347422 ATTAAATTAT
48347432 TTTTAGA
1 TTTTAGA
48347439 CTTTTAGA
1 -TTTTAGA
48347447 TTTTAGA
1 TTTTAGA
48347454 TTTTAG-
1 TTTTAGA
48347460 TTTTAG-
1 TTTTAGA
48347466 TTTTAGAA
1 TTTTAG-A
48347474 TTTTA
1 TTTTA
48347479 TTTTTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.32
7 13 0.35
8 12 0.32
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTTAGA
Found at i:48347495 original size:20 final size:20
Alignment explanation
Indices: 48347440--48347484 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
48347430 ATTTTTAGAC
48347440 TTTTAGATTTTAG-ATTTTAG
1 TTTTAG-TTTTAGAATTTTAG
*
48347460 TTTTAGTTTTAGAATTTTAT
1 TTTTAGTTTTAGAATTTTAG
48347480 TTTTA
1 TTTTA
48347485 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (20 bp):
TTTTAGTTTTAGAATTTTAG
Found at i:48355040 original size:16 final size:16
Alignment explanation
Indices: 48355019--48355049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48355009 TATGTTAAAG
48355019 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
48355035 CATATATATTTGAAA
1 CATATAAATTTGAAA
48355050 ACTCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:48355252 original size:18 final size:19
Alignment explanation
Indices: 48355231--48355267 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
48355221 TTAAAAAATA
48355231 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
48355249 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
48355268 AAAAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:48355266 original size:19 final size:20
Alignment explanation
Indices: 48355236--48355304 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
48355226 AAATATATAA
48355236 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
48355256 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTATAAATT
*
48355275 AGTTTGAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
48355295 ATTTTGAATT
1 ATTTTGAATT
48355305 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 8 0.19
19 11 0.26
20 23 0.53
21 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:48363362 original size:17 final size:18
Alignment explanation
Indices: 48363342--48363381 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
48363332 TAATTACAAT
48363342 AAATA-TTAATTAATGAA
1 AAATATTTAATTAATGAA
*
48363359 AAATATTTTAATTAATGCA
1 AAATA-TTTAATTAATGAA
48363378 AAAT
1 AAAT
48363382 TGTGGTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
19 15 0.75
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATATTTAATTAATGAA
Found at i:48363499 original size:131 final size:130
Alignment explanation
Indices: 48363249--48363519 Score: 353
Period size: 131 Copynumber: 2.1 Consensus size: 130
48363239 CTTTTAATTC
* * * * * * *
48363249 AATTGTGGCGCATCAATAAATTGTATGGACAATGATAATAAAATGATAATAGTAATTGTGATGCA
1 AATTGTGGTGCATCAATAAATTGCATGGACAATGACAATAAAATCATAACAGTAATTATGATGAA
* *
48363314 TCAATTAAATCAAATGAGTAATTACAATAAATATTAATTAATGAAAAATATTTTAATTAATGCAA
66 TCAATTAAATCAAATGAGTAATTAAAATAAAAATTAATTAATGAAAAATATTTTAATTAATGCAA
** * *
48363379 AATTGTGGTGCATCAATTAAATTGCATGGGTAATTACAATAAAATCATAACAGTAATTATGGTGA
1 AATTGTGGTGCATCAA-TAAATTGCATGGACAATGACAATAAAATCATAACAGTAATTATGATGA
* *** * * *
48363444 ATTAATTAAATTGCATGAGTAATTAAAATAAAAATTAATTAATGGAAAATCTTTTAATTGATGCA
65 ATCAATTAAATCAAATGAGTAATTAAAATAAAAATTAATTAATGAAAAATATTTTAATTAATGCA
48363509 A
130 A
48363510 AATTGTGGTG
1 AATTGTGGTG
48363520 TAAAATCTTG
Statistics
Matches: 120, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
130 15 0.12
131 105 0.88
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.34
Consensus pattern (130 bp):
AATTGTGGTGCATCAATAAATTGCATGGACAATGACAATAAAATCATAACAGTAATTATGATGAA
TCAATTAAATCAAATGAGTAATTAAAATAAAAATTAATTAATGAAAAATATTTTAATTAATGCAA
Found at i:48370991 original size:10 final size:10
Alignment explanation
Indices: 48370956--48370993 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
48370946 CCTCGACAAA
48370956 TATTAAAAAT
1 TATTAAAAAT
* *
48370966 TCTTTAAAAT
1 TATTAAAAAT
48370976 TA-TAAAAAT
1 TATTAAAAAT
48370985 TATTAAAAA
1 TATTAAAAA
48370994 GGTGGTTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:48372497 original size:43 final size:41
Alignment explanation
Indices: 48372438--48372593 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 41
48372428 ATGTATTTTC
* *
48372438 GTGTAACACCACGTCTGGGACGTTGGCATTGAATTGTGTATAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTG-ATAT
* * * *
48372481 GTGTAAGACCATGTCTGGGGCATTGGCATCGTATT-TGATTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATAT
*
48372522 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGTGA-TAT
* *
48372565 ATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
48372594 TTTACGAGCC
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
40 2 0.02
41 30 0.33
42 6 0.07
43 53 0.58
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATAT
Found at i:48381782 original size:36 final size:36
Alignment explanation
Indices: 48381604--48381783 Score: 87
Period size: 40 Copynumber: 4.8 Consensus size: 36
48381594 TCTTGGTGAG
* * *
48381604 CAAATCTTTGTTAGTTTACCCT-ACTAGTGCTAGGCA
1 CAAATCTTCGTCAGTTTA-TCTGACTAGTGCTAGGCA
* * * *
48381640 CATCATTATATTCGTC-GATTTATCCGACTAGTGCTGGGCG
1 CA--A--ATCTTCGTCAG-TTTATCTGACTAGTGCTAGGCA
* * ** *
48381680 TAAATCTTCGTCAGCTTGCCTGACTAGTACTAGGCA
1 CAAATCTTCGTCAGTTTATCTGACTAGTGCTAGGCA
* * * **
48381716 CATCATTATATTCAAT-AGTTTCTCCAACTAGTGCTAGGCA
1 CA--A--ATCTTC-GTCAGTTTATCTGACTAGTGCTAGGCA
48381756 CAAATCTTCGTCAGTTTATCTGACTAGT
1 CAAATCTTCGTCAGTTTATCTGACTAGT
48381784 TTTGGGCACA
Statistics
Matches: 101, Mismatches: 30, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
35 1 0.01
36 44 0.44
37 1 0.01
38 4 0.04
39 2 0.02
40 48 0.48
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (36 bp):
CAAATCTTCGTCAGTTTATCTGACTAGTGCTAGGCA
Found at i:48381793 original size:76 final size:76
Alignment explanation
Indices: 48381604--48381783 Score: 202
Period size: 76 Copynumber: 2.4 Consensus size: 76
48381594 TCTTGGTGAG
* * * * * * *
48381604 CAAATCTTTGTTAGTTTACCCT-ACTAGTGCTAGGCACATCATTATATTCGTCGATTTATCCGAC
1 CAAATCTTCGTCAGCTTA-CCTGACTAGTACTAGGCACATCATTATATTCATAGATTTATCCAAC
* *
48381668 TAGTGCTGGGCG
65 TAGTGCTAGGCA
* * *
48381680 TAAATCTTCGTCAGCTTGCCTGACTAGTACTAGGCACATCATTATATTCAATAG-TTTCTCCAAC
1 CAAATCTTCGTCAGCTTACCTGACTAGTACTAGGCACATCATTATATTC-ATAGATTTATCCAAC
48381744 TAGTGCTAGGCA
65 TAGTGCTAGGCA
* *
48381756 CAAATCTTCGTCAGTTTATCTGACTAGT
1 CAAATCTTCGTCAGCTTACCTGACTAGT
48381784 TTTGGGCACA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
75 3 0.03
76 81 0.94
77 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (76 bp):
CAAATCTTCGTCAGCTTACCTGACTAGTACTAGGCACATCATTATATTCATAGATTTATCCAACT
AGTGCTAGGCA
Found at i:48388639 original size:40 final size:40
Alignment explanation
Indices: 48388579--48388697 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
48388569 TTAGCAAATC
* *
48388579 TTCGTTAGTTTACCTTACTAGTGTTGGGCACATCAATATA
1 TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
* *
48388619 TTCGTC-GATTTATCTAACTAGTGTT--G-A-GTGCAA-ATA
1 TTCGTCAG-TTTACCTAACTAGTGTTGGGCACAT-CAATATA
* *
48388655 TTCGTCAGTTTACCTAACTAGTGCTGGGCACATCATTATA
1 TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
48388695 TTC
1 TTC
48388698 ATTGGTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
36 25 0.40
37 5 0.08
38 2 0.03
39 4 0.06
40 27 0.43
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (40 bp):
TTCGTCAGTTTACCTAACTAGTGTTGGGCACATCAATATA
Found at i:48388672 original size:36 final size:39
Alignment explanation
Indices: 48388572--48388687 Score: 107
Period size: 36 Copynumber: 3.0 Consensus size: 39
48388562 TTTGTGGTTA
* * *
48388572 GCAAATCTTCGTTAGTTTACCTTACTAGTGTTGGGCACAT
1 GCAAATATTCGTCAGTTTACCTAACTAGTGTT-GGCACAT
* *
48388612 -CAATATATTCGTC-GATTTATCTAACTAGTGTT-G-A-GT
1 GCAA-ATATTCGTCAG-TTTACCTAACTAGTGTTGGCACAT
*
48388648 GCAAATATTCGTCAGTTTACCTAACTAGTGCTGGGCACAT
1 GCAAATATTCGTCAGTTTACCTAACTAGTG-TTGGCACAT
48388688 CATTATATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
36 24 0.40
37 6 0.10
38 2 0.03
39 5 0.08
40 23 0.38
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (39 bp):
GCAAATATTCGTCAGTTTACCTAACTAGTGTTGGCACAT
Found at i:48388715 original size:76 final size:76
Alignment explanation
Indices: 48388572--48388770 Score: 218
Period size: 76 Copynumber: 2.6 Consensus size: 76
48388562 TTTGTGGTTA
* * * * *
48388572 GCAAATCTTCGTTAGTTTACCTTACTAGTGTTGGGCACATCAATATATTCGTCGATTTATCTAAC
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
* * *
48388637 TAGTGTTGAGT
66 TAGAGCTGAGC
* * * * *
48388648 GCAAATATTCGTCAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATTGGTTTATCCGAC
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
*
48388713 TAGAGCTGGGC
66 TAGAGCTGAGC
* * * * * *
48388724 ACAAATCTTTGTTAGTTTAACTGACTAGTACTAGGCACATCATTATA
1 GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATA
48388771 ATTTTCAGTT
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 101 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (76 bp):
GCAAATCTTCGTTAGTTTACCTAACTAGTGCTGGGCACATCATTATATTCATCGATTTATCCAAC
TAGAGCTGAGC
Found at i:48388837 original size:76 final size:75
Alignment explanation
Indices: 48388671--48388838 Score: 187
Period size: 76 Copynumber: 2.2 Consensus size: 75
48388661 AGTTTACCTA
* * **
48388671 ACTAGTGCTGGGCACATCATTATATTCATTGGTTTATCCGACTAGAGCTGGGCACAAATCTTTGT
1 ACTAGTGCTGGGCACATCATTATATT-ATTAGTTTATCCAACTAGAGCTGGGCACAAATCTTCAT
* *
48388736 TAGTTTAACTG
65 CACTTTAACTG
* * *
48388747 ACTAGTACTAGGCACATCATTATAATT-TTCAGTTTCTCCAACTAGCA-CTGGGCACAAATCTTC
1 ACTAGTGCTGGGCACATCATTAT-ATTATT-AGTTTATCCAACTAG-AGCTGGGCACAAATCTTC
*
48388810 ATCACTTTATCTG
63 ATCACTTTAACTG
*
48388823 ACTAGTGTTGGGCACA
1 ACTAGTGCTGGGCACA
48388839 ACCTCTATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
75 2 0.03
76 70 0.92
77 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (75 bp):
ACTAGTGCTGGGCACATCATTATATTATTAGTTTATCCAACTAGAGCTGGGCACAAATCTTCATC
ACTTTAACTG
Found at i:48391247 original size:63 final size:62
Alignment explanation
Indices: 48391153--48391314 Score: 180
Period size: 63 Copynumber: 2.6 Consensus size: 62
48391143 CGTGTCTTTG
* * * * * *
48391153 GCCCATGTGTCTTTAATTCCAAAACAATGAGTTACACGGCCTGGACACAAGTCCATTTCTCTA
1 GCCCGTGT-TCTTTAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
*** *
48391216 GCCCGTGTTCTTATAATTCCAAAACAGTGAGTTACACGGCCTGAAAATTTGCCCGTGTCTCTA
1 GCCCGTGTTCTT-TAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
* * *
48391279 GCCCGTGTGCTTCTAATTTCAAAACAGTGTGTTACA
1 GCCCGTGTTCTT-TAATTCCAAAACAGTGAGTTACA
48391315 TGACCTGCCT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 4 0.05
63 80 0.95
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (62 bp):
GCCCGTGTTCTTTAATTCCAAAACAGTGAGTTACACGGCCTGAAAACAAGCCCATGTCTCTA
Found at i:48397535 original size:21 final size:21
Alignment explanation
Indices: 48397504--48397561 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
48397494 TTTAAATAAA
* *
48397504 AAAATAAAAAATTTAATATCT
1 AAAATATAAAATTTAATAACT
**
48397525 CAAAAT-TAAAATGAAATAACT
1 -AAAATATAAAATTTAATAACT
48397546 AAAATATAAAATTTAA
1 AAAATATAAAATTTAA
48397562 AAGAATACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 5 0.17
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATAAAATTTAATAACT
Found at i:48399656 original size:20 final size:20
Alignment explanation
Indices: 48399631--48399685 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
48399621 ATATATTTTA
*
48399631 AAAAAATTATAAAAAATTCT
1 AAAAAATTATAAAAAATTAT
*
48399651 AAAAAATTCTAAAAACA-TAT
1 AAAAAATTATAAAAA-ATTAT
48399671 AAAAAA--ATAAAAAAT
1 AAAAAATTATAAAAAAT
48399686 AAAATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.03
18 6 0.20
20 22 0.73
21 1 0.03
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATTATAAAAAATTAT
Found at i:48400796 original size:31 final size:31
Alignment explanation
Indices: 48400761--48400819 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
48400751 ACAAAGAATA
*
48400761 CTTTCAATACTCAATACATTTTCATTCTATT
1 CTTTCAATACTCAATACAATTTCATTCTATT
*
48400792 CTTTCAATACTCAGTACAATTTCATTCT
1 CTTTCAATACTCAATACAATTTCATTCT
48400820 TTCAATACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (31 bp):
CTTTCAATACTCAATACAATTTCATTCTATT
Found at i:48405867 original size:31 final size:31
Alignment explanation
Indices: 48405832--48405893 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
48405822 AATACAAAGA
* *
48405832 ATTCTTTCAATACTCAATACATTTTCATTCT
1 ATTCTTTCAATACCCAATACAGTTTCATTCT
* * *
48405863 ATTCTTTTAATACCCAGTATAGTTTCATTCT
1 ATTCTTTCAATACCCAATACAGTTTCATTCT
48405894 TTCAATACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTCTTTCAATACCCAATACAGTTTCATTCT
Found at i:48408799 original size:30 final size:30
Alignment explanation
Indices: 48408739--48408800 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
48408729 AAACCATGAA
* * *
48408739 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTTT
48408769 AATATTTACAAAAAGA-GCAACCAAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAAATTTT
48408799 AA
1 AA
48408801 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAAATTTT
Found at i:48417570 original size:54 final size:54
Alignment explanation
Indices: 48417507--48417611 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
48417497 TTCTAAATAA
** * * *
48417507 TAGTCTCCCCCTGAGCAGTAGCTTCCTCTTGAACAATGGTGTTTTTTGGAACAG
1 TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAACAG
*
48417561 TAGTCTCCCCCCAAATAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAA
1 TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAA
48417612 TAAGGTTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TAGTCTCCCCCCAAACAGTAGCATCCTCTTGAACAATGATGTTTTTTGGAACAG
Found at i:48431175 original size:19 final size:18
Alignment explanation
Indices: 48431151--48431188 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
48431141 ATTTGGACGG
48431151 TTTAGCCACTTTAATATAA
1 TTTAGCCACTTTAAT-TAA
48431170 TTTAGCCACTTTAATTAA
1 TTTAGCCACTTTAATTAA
48431188 T
1 T
48431189 CAATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TTTAGCCACTTTAATTAA
Found at i:48434190 original size:54 final size:54
Alignment explanation
Indices: 48434099--48434230 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
48434089 GGTCACACAA
* * ** * * *
48434099 CCATGTAACTCACTGTGA-CCGTGTAGCTTAGGGTCACACGGTCGTGTCGTCAGG
1 CCATGTAACTCTCTGT-ACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
48434153 CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
1 CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
* * *
48434207 CCATGTAACTTTCTCTACCTGTGT
1 CCATGTAACTCTCTGTACCCGTGT
48434231 GGACTGACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 66 0.99
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.27
Consensus pattern (54 bp):
CCATGTAACTCTCTGTACCCGTGTAGCTCAGCATCACACGGCCGTGTCGCCAAG
Found at i:48434516 original size:18 final size:18
Alignment explanation
Indices: 48434488--48434530 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
48434478 CCTCATTGAT
48434488 ACCACAATTCA-ATTACAAA
1 ACCA-AATTCATATT-CAAA
*
48434507 ACCAAATTCATATTCCAA
1 ACCAAATTCATATTCAAA
48434525 ACCAAA
1 ACCAAA
48434531 GTAATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (18 bp):
ACCAAATTCATATTCAAA
Found at i:48458878 original size:30 final size:30
Alignment explanation
Indices: 48458821--48458879 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48458811 TGCCTTTGAA
* *
48458821 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
*
48458851 AATATTTACATAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
48458880 GAAAAGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:48466313 original size:22 final size:22
Alignment explanation
Indices: 48466260--48466303 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48466250 GAATTTGTCG
*
48466260 AAAATAAATTAAAATTTAATAT
1 AAAATAAATTAAAATTTAACAT
48466282 AAAATAAATTAAAATTTAACAT
1 AAAATAAATTAAAATTTAACAT
48466304 GTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAAATTAAAATTTAACAT
Found at i:48468697 original size:54 final size:54
Alignment explanation
Indices: 48468629--48468739 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
48468619 ACAGGCTGTT
** *
48468629 ACACGGCCTTGTGACCCGATTTCGAATTGCACACAGTTTGTCACACGATCTATG
1 ACACGGCCTTGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
* * *
48468683 ACACGG-CTATGTGACCCTATTTCGAATCACACACGGTTTGGCACACGATCTGTG
1 ACACGGCCT-TGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
48468737 ACA
1 ACA
48468740 TTGCCATATG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (54 bp):
ACACGGCCTTGTGACCCGATTTCGAATCACACACAGTTTGGCACACGATCTATG
Found at i:48468752 original size:54 final size:54
Alignment explanation
Indices: 48468629--48468759 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
48468619 ACAGGCTGTT
* * * ** *
48468629 ACACGGCCTTGTGACCCGATTTCGAATTGCACACAGTTTGTCACACGATCTATG
1 ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
* * * *
48468683 ACACGGCTATGTGACCCTATTTCGAATCACACACGGTTTGGCACACGATCTGTG
1 ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
**
48468737 ACATTGCCATATGACCCTTATTT
1 ACACGGCCATATGACCC-TATTT
48468760 TTTGATTTTC
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 59 0.92
55 5 0.08
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (54 bp):
ACACGGCCATATGACCCTATTTCGAATCACACACAGTTTGGCACACGATCTATG
Found at i:48474390 original size:102 final size:102
Alignment explanation
Indices: 48474214--48474406 Score: 316
Period size: 102 Copynumber: 1.9 Consensus size: 102
48474204 CGATACAACA
* *
48474214 TCCCAAACTTGTATAAAACGAGTTTAAAACACTTAAAACATTTTAGATTGACTCAAAAATGTTTA
1 TCCCAAACTTGTATAAAACGAGTTTAAAACACTCAAAACATTTTAGATTGACTCAAAAATATTTA
48474279 GATAAATTAAAATACATTTAAAATATGTTATATAACT
66 GATAAATTAAAATACATTTAAAATATGTTATATAACT
* * * *
48474316 TCCCATACTTGTATAAAATGAGTTTAAAACAC-CAAAATCATTTTGGATTGGCTCAAAAATATTT
1 TCCCAAACTTGTATAAAACGAGTTTAAAACACTCAAAA-CATTTTAGATTGACTCAAAAATATTT
48474380 AGATAAATTAAAATACATTTAAAATAT
65 AGATAAATTAAAATACATTTAAAATAT
48474407 ATTTTTGAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 4 0.05
102 80 0.95
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (102 bp):
TCCCAAACTTGTATAAAACGAGTTTAAAACACTCAAAACATTTTAGATTGACTCAAAAATATTTA
GATAAATTAAAATACATTTAAAATATGTTATATAACT
Found at i:48475143 original size:23 final size:23
Alignment explanation
Indices: 48475079--48475142 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
48475069 AAGTAATATT
*
48475079 AAATATCAAATAATAAAAGCGTC
1 AAATATCAAATAATAAAATCGTC
*
48475102 AAAAATCAAATAATAAAATC-TC
1 AAATATCAAATAATAAAATCGTC
48475124 AACATATCAAATAAATAAA
1 AA-ATATCAAAT-AATAAA
48475143 TAAATTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 26 0.72
24 6 0.17
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (23 bp):
AAATATCAAATAATAAAATCGTC
Found at i:48497184 original size:20 final size:18
Alignment explanation
Indices: 48497136--48497184 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
48497126 TACAAAAAAT
*
48497136 AAAATAAAAATATATTTG
1 AAAATAAAAATAAATTTG
48497154 AAAATGCAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
48497176 AAAATAAAA
1 AAAATAAAA
48497185 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
22 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:48500824 original size:101 final size:100
Alignment explanation
Indices: 48500649--48500871 Score: 320
Period size: 101 Copynumber: 2.2 Consensus size: 100
48500639 AATTGACGGA
* * * * *
48500649 TAAGACCATGGTTGGACCATGGAAATGTTTATATGTAAGACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGGCCAT-GAAATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
*
48500714 TGAAAAGACCATAACTAGGTTATAGCACTTTGAACG
65 TGAAAAGACCATAACTAGGTTATAGCACTATGAACG
*
48500750 TAAGACCATGGTTGGGCCATGATAGTATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGGCCATGA-AATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAA
* * * *
48500815 TGATAAGACCATAACTGGGTTATGGCACTATGAATG
65 TGAAAAGACCATAACTAGGTTATAGCACTATGAACG
*
48500851 TAAGACCATGGTTGGGTCATG
1 TAAGACCATGGTTGGGCCATG
48500872 GCAATGCATG
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
100 2 0.02
101 107 0.98
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (100 bp):
TAAGACCATGGTTGGGCCATGAAATATTTATAAGTAAAACCATAGTTGGGCTATGGCATTCTAAT
GAAAAGACCATAACTAGGTTATAGCACTATGAACG
Found at i:48500867 original size:33 final size:33
Alignment explanation
Indices: 48500681--48500908 Score: 124
Period size: 33 Copynumber: 6.8 Consensus size: 33
48500671 AAATGTTTAT
* *
48500681 ATGTAAGACCATAGTTGGGCTATGGCA-TTTTA
1 ATGTAAGACCATAGTTGGGCTATGGCACTATGA
* ** * * * *
48500713 ATGAAAAGACCATAACTAGGTTATAGCACTTTGA
1 ATG-TAAGACCATAGTTGGGCTATGGCACTATGA
* * * ** * *
48500747 ACGTAAGACCATGGTTGGGCCATGATAGTATTTA
1 ATGTAAGACCATAGTTGGGCTATGGCACTA-TGA
* * * *
48500781 TAAGTAAAACCATAGTTGGGCTATGGCATTCT-A
1 -ATGTAAGACCATAGTTGGGCTATGGCACTATGA
** *
48500814 ATGATAAGACCATAACTGGGTTATGGCACTATGA
1 ATG-TAAGACCATAGTTGGGCTATGGCACTATGA
*
48500848 ATGTAAGACCATGGTTGGG-TCATGGCA--ATGCA
1 ATGTAAGACCATAGTTGGGCT-ATGGCACTATG-A
* *
48500880 TGTGTAAGACCATAGTTGGACTATGGCAC
1 -ATGTAAGACCATAGTTGGGCTATGGCAC
48500909 AAAGAAAATG
Statistics
Matches: 143, Mismatches: 42, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
31 3 0.02
32 7 0.05
33 97 0.68
34 14 0.10
35 22 0.15
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
ATGTAAGACCATAGTTGGGCTATGGCACTATGA
Found at i:48503004 original size:7 final size:7
Alignment explanation
Indices: 48502992--48503016 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48502982 TATTCGATGT
48502992 TAAACCC
1 TAAACCC
48502999 TAAACCC
1 TAAACCC
48503006 TAAACCC
1 TAAACCC
48503013 TAAA
1 TAAA
48503017 TCTAAAAAAT
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:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:48512448 original size:7 final size:7
Alignment explanation
Indices: 48512435--48512476 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
48512425 ACCAATGGTC
48512435 TAAATTT
1 TAAATTT
*
48512442 AAAATTT
1 TAAATTT
48512449 TAAATTT
1 TAAATTT
48512456 TAAATTT
1 TAAATTT
48512463 TAAATTT
1 TAAATTT
48512470 TAAATTT
1 TAAATTT
48512477 CATAACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TAAATTT
Found at i:48514605 original size:26 final size:24
Alignment explanation
Indices: 48514547--48514607 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
48514537 CTCTTTTATC
* * *
48514547 ATTATTTATTTTAAGTTTTTATAT
1 ATTATTTATTTTAACTTTTCACAT
48514571 ATTATTTATTTTAAACTGTTTCACAT
1 ATTATTTATTTT-AACT-TTTCACAT
48514597 ATTATTTATTT
1 ATTATTTATTT
48514608 AAATTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 12 0.38
25 3 0.09
26 17 0.53
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTATTTATTTTAACTTTTCACAT
Found at i:48514624 original size:26 final size:25
Alignment explanation
Indices: 48514532--48514681 Score: 98
Period size: 24 Copynumber: 6.0 Consensus size: 25
48514522 TTATTTAAAA
48514532 AAATTCTCTTT-TATCATTATTTATTT
1 AAATTCT-TTTATAT-ATTATTTATTT
* *
48514558 TAAGT-TTTTATATATTATTTATTTT
1 AAATTCTTTTATATATTATTTA-TTT
* * * *
48514583 AAACTGTTTCACATATTATTTATTT
1 AAATTCTTTTATATATTATTTATTT
*
48514608 AAATTTCTTTTATATATTATTTAATGT
1 AAA-TTCTTTTATATATTATTT-ATTT
**
48514635 AAA--CCATTATATA-TATATT-TTT
1 AAATTCTTTTATATATTAT-TTATTT
* *
48514657 AAATTGTTTTATATGTTATTT-TTT
1 AAATTCTTTTATATATTATTTATTT
48514681 A
1 A
48514682 TATTATTTAT
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
22 5 0.05
23 3 0.03
24 33 0.34
25 19 0.20
26 31 0.32
27 6 0.06
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (25 bp):
AAATTCTTTTATATATTATTTATTT
Found at i:48514683 original size:38 final size:37
Alignment explanation
Indices: 48514641--48514722 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 37
48514631 ATGTAAACCA
48514641 TTATA-TATATATTTTTAAATTGTTTTATATGTTATTTT
1 TTATATTATATA-TTTTAAATTGTTTTAT-TGTTATTTT
*
48514679 TTATATTATTTATTTTAAATTGTTTTATTGTTATTTT
1 TTATATTATATATTTTAAATTGTTTTATTGTTATTTT
48514716 TTATATT
1 TTATATT
48514723 CTGTTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 16 0.38
38 21 0.50
39 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (37 bp):
TTATATTATATATTTTAAATTGTTTTATTGTTATTTT
Found at i:48514752 original size:39 final size:38
Alignment explanation
Indices: 48514661--48514754 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 38
48514651 ATTTTTAAAT
* *
48514661 TGTTTTA-TATGTTATTTTTTATATTATTTATTTTAAAT
1 TGTTTTATTAT-TTATTTTTTATATTATTTATTTGAAAC
* *
48514699 TGTTTTATT-GTTATTTTTTATATTCTGTTTATTTGAAAC
1 TGTTTTATTATTTATTTTTTATA-T-TATTTATTTGAAAC
48514738 T-TTTTATTATTTATTTT
1 TGTTTTATTATTTATTTT
48514755 GAATTGTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 12 0.26
38 15 0.32
39 20 0.43
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (38 bp):
TGTTTTATTATTTATTTTTTATATTATTTATTTGAAAC
Found at i:48525194 original size:40 final size:40
Alignment explanation
Indices: 48525131--48525215 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
48525121 TAGCTTGAAT
* * **
48525131 ATCAACACTTCAATATTTAATATGTAAGGAATTGTCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
*
48525171 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
48525211 ATCAA
1 ATCAA
48525216 TCTTACAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:48525396 original size:86 final size:86
Alignment explanation
Indices: 48525236--48525568 Score: 386
Period size: 86 Copynumber: 3.9 Consensus size: 86
48525226 GTTTATGTGA
* ** ** * *
48525236 AACAAATTAGCAAAAATCAACT-ATTCATAGTTCATATATTTACCGGCAAT-AGGGCTAAATCTT
1 AACAAATTAGCAAAAATCAA-TGGTTCA-AGTTCATGCATTTACCAACAATCA-GACTAAATTTT
* *
48525299 CAAT-TTCTATAACGATTTATATGC
63 CAATATT-TATAACAACTTATATGC
* * * *
48525323 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACGAAAAATCAGACTAATTTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
48525388 TATTTATAACAACTTATATGC
66 TATTTATAACAACTTATATGC
* * *
48525409 AACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAATAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
* *
48525474 TTTTTATAACAACTTATGTGC
66 TATTTATAACAACTTATATGC
* ** * *
48525495 AACAAATTAGAAAAAATCAACAGTTCAAGTTCATGCATTCACCAACAATCAGACCAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
48525560 -ATTTCATAA
66 TATTT-ATAA
48525569 AGTAGAAGGA
Statistics
Matches: 214, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
85 3 0.01
86 184 0.86
87 27 0.13
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (86 bp):
AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGCATTTACCAACAATCAGACTAAATTTTCAA
TATTTATAACAACTTATATGC
Found at i:48527452 original size:15 final size:14
Alignment explanation
Indices: 48527426--48527463 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
48527416 AACCCTTAAA
48527426 CCATAAACCATAAT
1 CCATAAACCATAAT
*
48527440 CCCTAAACTCATAAT
1 CCATAAAC-CATAAT
48527455 CCATAAACC
1 CCATAAACC
48527464 TTAAGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:48527880 original size:41 final size:41
Alignment explanation
Indices: 48527835--48527912 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
48527825 CCGCTAAAGC
* *
48527835 ATTAGCGGCGGCTTTTC-AAAAACGCCACTAAATCCCCGAGT
1 ATTAGCGGC-ACTTTTCTAAAAACGCCACTAAAGCCCCGAGT
*
48527876 ATTAGCGGCACTTTTCTAAAAACGCCGCTAAAGCCCC
1 ATTAGCGGCACTTTTCTAAAAACGCCACTAAAGCCCC
48527913 AAAAGGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCACTTTTCTAAAAACGCCACTAAAGCCCCGAGT
Found at i:48528011 original size:39 final size:39
Alignment explanation
Indices: 48527956--48528066 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
48527946 AATTTTTTAG
48527956 AAAAAT-GCCGCTAATGCTC-ATTTTCAGCGGCGTGTTCC
1 AAAAATCGCCGCTAATGCTCGATTTT-AGCGGCGTGTTCC
* * *
48527994 AAAAATCGCCGCAAATGCTCGATCTTTAGCGACGTTTTCC
1 AAAAATCGCCGCTAATGCTCGAT-TTTAGCGGCGTGTTCC
* * * *
48528034 ATAAAGCGCCACTATTGCTCGATTTTTAGCGGC
1 AAAAATCGCCGCTAATGCTCGA-TTTTAGCGGC
48528067 ATTTTTTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
38 6 0.10
39 12 0.20
40 38 0.63
41 4 0.07
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
AAAAATCGCCGCTAATGCTCGATTTTAGCGGCGTGTTCC
Found at i:48528175 original size:15 final size:18
Alignment explanation
Indices: 48528145--48528182 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
48528135 ATAAGTGTTT
48528145 TTTTTCCATCAACATA-C
1 TTTTTCCATCAACATATC
48528162 TTTTT-CAT-AACATATC
1 TTTTTCCATCAACATATC
48528178 TTTTT
1 TTTTT
48528183 GAAGAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTCCATCAACATATC
Found at i:48532218 original size:38 final size:38
Alignment explanation
Indices: 48532175--48532250 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
48532165 AAAACGTATA
*
48532175 GTTAAATCGATTTGGTTCAGTTTAATTACTAGTTATGT
1 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
48532213 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
1 GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
48532251 ACTATGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (38 bp):
GTTAAATCGATTTGGTTAAGTTTAATTACTAGTTATGT
Found at i:48534114 original size:117 final size:117
Alignment explanation
Indices: 48533908--48534143 Score: 445
Period size: 117 Copynumber: 2.0 Consensus size: 117
48533898 TGACCTTGCG
* *
48533908 AACAATATCCTGCACTTGAACAATAGCATTTGGATGTACATGCTGATTTCGAGCATGCCAAATAT
1 AACAATATCCTGCACTTGAACAATAGCATTTGGATGTACAAGCTGATTCCGAGCATGCCAAATAT
*
48533973 ACCAAAGTGCACACACAATTTGCCTAAAAACAGTAGGCTTAGAGACAACCAA
66 ACCAAAGTGCACACACAATTTGCCTAAAAACAGTAGGCTTAGAAACAACCAA
48534025 AACAATATCCTGCACTTGAACAATAGCATTTGGATGTACAAGCTGATTCCGAGCATGCCAAATAT
1 AACAATATCCTGCACTTGAACAATAGCATTTGGATGTACAAGCTGATTCCGAGCATGCCAAATAT
48534090 ACCAAAGTGCACACACAATTTGCCTAAAAACAGTAGGCTTAGAAACAACCAA
66 ACCAAAGTGCACACACAATTTGCCTAAAAACAGTAGGCTTAGAAACAACCAA
48534142 AA
1 AA
48534144 GAAAAAAAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (117 bp):
AACAATATCCTGCACTTGAACAATAGCATTTGGATGTACAAGCTGATTCCGAGCATGCCAAATAT
ACCAAAGTGCACACACAATTTGCCTAAAAACAGTAGGCTTAGAAACAACCAA
Found at i:48536561 original size:72 final size:72
Alignment explanation
Indices: 48536467--48536615 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 72
48536457 TCAAATGTTT
* * *
48536467 TTTTTTCACATATATTTGGGTATGGTA-ACTTCTAATATTGA-AAAATCAAATAATCATTT-CAA
1 TTTTTTCACATACATTTGGGTATGGTAGA-TTCTAATA-TCATAAAATCAAATAATCATTTAAAA
48536529 ATATCATTA
64 ATATCATTA
* *
48536538 TTTTTTCACCTACATTGTGGGTATGGTAGATTCTAATATCATAAAATCAAATAATTATTTAAAAA
1 TTTTTTCACATACATT-TGGGTATGGTAGATTCTAATATCATAAAATCAAATAATCATTTAAAAA
48536603 TATCATTA
65 TATCATTA
48536611 TTTTT
1 TTTTT
48536616 ATATGTGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
71 16 0.23
72 36 0.52
73 17 0.25
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (72 bp):
TTTTTTCACATACATTTGGGTATGGTAGATTCTAATATCATAAAATCAAATAATCATTTAAAAAT
ATCATTA
Found at i:48538290 original size:4 final size:4
Alignment explanation
Indices: 48538281--48538331 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
48538271 TTCCATTTAT
48538281 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
48538329 ATA
1 ATA
48538332 TGTTTGTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:48544744 original size:21 final size:21
Alignment explanation
Indices: 48544718--48544758 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48544708 ATCTGCTCAA
* *
48544718 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
48544739 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
48544759 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:48550649 original size:4 final size:4
Alignment explanation
Indices: 48550640--48550665 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48550630 ATGAAGGAAT
48550640 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
48550666 AACCAAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:48551501 original size:127 final size:127
Alignment explanation
Indices: 48551190--48551887 Score: 1089
Period size: 127 Copynumber: 5.5 Consensus size: 127
48551180 ATAAAAATCA
* * * * * * *
48551190 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAGTTGCGCCCACGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
48551255 AGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTGAGCAAATAG--TATAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * *
48551315 AAGTAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
48551380 AGTTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * *
48551442 AAGTAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
48551507 AGGTTCTGGAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGTTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
*
48551569 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
48551634 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * *
48551696 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCCCTCTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
48551761 AGGTCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* *
48551821 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
48551886 AG
66 AG
48551888 CATGTTTGGA
Statistics
Matches: 526, Mismatches: 45, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 173 0.33
127 353 0.67
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (127 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
Found at i:48551855 original size:379 final size:378
Alignment explanation
Indices: 48551190--48551887 Score: 1128
Period size: 379 Copynumber: 1.8 Consensus size: 378
48551180 ATAAAAATCA
* * * * * *
48551190 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAGTTGCGCCCACGTGTACGCGTTTTTGCTACAGT
1 AAGCAAGATGCTTTATGAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
48551255 AGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGTA
66 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTAAAAAAATGCTTCAAGCA
* * * * *
48551320 AGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGTTC
131 AGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATAGACGCCCTCTTGCTACAATAGGTC
* *
48551385 CTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGTAGGA
196 CTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TTAAAAAAACGCTTCAAGCAGGA
* **
48551450 TACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTAGGTTCTG
260 TACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAGGTTCTG
48551515 GAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGTTTC
325 GAAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGTTTC
* *
48551569 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAAGATGCTTTATGAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
48551634 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTTCAAG
66 AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAG--TAAAAAAATGCTTCAAG
* *
48551699 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCCCTCTTGCTACAATAGG
129 CAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATAGACGCCCTCTTGCTACAATAGG
*
48551764 TCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAAACGCTTCAAGCAGG
194 TCCTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTCAAGCAGG
*
48551828 ATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAG
259 ATACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAG
48551888 CATGTTTGGA
Statistics
Matches: 291, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
379 176 0.60
381 115 0.40
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (378 bp):
AAGCAAGATGCTTTATGAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTAAAAAAATGCTTCAAGCA
AGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCATAGACGCCCTCTTGCTACAATAGGTC
CTGGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTCAAGCAGGAT
ACTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAGGTTCTGG
AAGAAATAATTTCGACTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGTTTC
Found at i:48555065 original size:28 final size:27
Alignment explanation
Indices: 48555016--48555075 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
48555006 AAGGTTAGAA
*
48555016 GGTTTTTAAGTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGTAAGGGTTTAG
*
48555043 GGTTTTTAAGTTAAGGGTCAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTAAGGGTTTAG
48555071 GGTTT
1 GGTTT
48555076 AGGGTTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (27 bp):
GGTTTTTAAGTTAAGGTAAGGGTTTAG
Found at i:48555067 original size:21 final size:22
Alignment explanation
Indices: 48555026--48555068 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48555016 GGTTTTTAAG
*
48555026 TTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTCAGGGTTT
48555048 TTAAGTTAAGGG-TCAGGGTTT
1 TTAAGTTAAGGGTTCAGGGTTT
48555069 AGGGTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (22 bp):
TTAAGTTAAGGGTTCAGGGTTT
Found at i:48555633 original size:18 final size:18
Alignment explanation
Indices: 48555607--48555649 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48555597 GACTCGGAAA
* *
48555607 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
48555625 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
48555643 AGGAAAC
1 AGGAAAC
48555650 GCACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:48556520 original size:20 final size:20
Alignment explanation
Indices: 48556483--48556520 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48556473 ATTATTTCTA
*
48556483 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
48556503 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
48556521 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:48557481 original size:11 final size:12
Alignment explanation
Indices: 48557467--48557503 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
48557457 AAAAATAGGG
48557467 ATTTAAGAG-AA
1 ATTTAAGAGCAA
48557478 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
48557490 A-TTGAGAGCAA
1 ATTTAAGAGCAA
48557501 ATT
1 ATT
48557504 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:48557513 original size:11 final size:11
Alignment explanation
Indices: 48557483--48557507 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48557473 GAGAAATTTA
48557483 AGAGCAAATTG
1 AGAGCAAATTG
48557494 AGAGCAAATTG
1 AGAGCAAATTG
48557505 AGA
1 AGA
48557508 TTAAATATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:48557514 original size:51 final size:51
Alignment explanation
Indices: 48557459--48557558 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
48557449 AATTATTTAA
48557459 AAATAGGGATTTAAGAGAAATTTA-AGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGCAAATTGAGAGCAAATTGAGATT
* * *
48557510 AAATATGGATTTAAGAGAAATTTAGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGCAAATTGAGA
48557559 GGAAATTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGCAAATTGAGAGCAAATTGAGATT
Found at i:48557532 original size:11 final size:11
Alignment explanation
Indices: 48557518--48557577 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
48557508 TTAAATATGG
*
48557518 ATTTAAGAGAA
1 ATTTGAGAGAA
*
48557529 ATTT-AGAAGGA
1 ATTTGAG-AGAA
48557540 ATTTGAGAGCAA
1 ATTTGAGAG-AA
48557552 A-TTGAGAGGAA
1 ATTTGAGA-GAA
48557563 ATTTGAGAGAGA
1 ATTTGAGAGA-A
48557575 ATT
1 ATT
48557578 AGTTTGTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.05
11 24 0.59
12 15 0.37
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:48557565 original size:23 final size:22
Alignment explanation
Indices: 48557518--48557577 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
48557508 TTAAATATGG
* *
48557518 ATTTAAGAGAAATTTAGAAGGA
1 ATTTGAGAGAAATTGAGAAGGA
48557540 ATTTGAGAGCAAATTGAG-AGGAA
1 ATTTGAGAG-AAATTGAGAAGG-A
48557563 ATTTGAGAGAGAATT
1 ATTTGAGAGA-AATT
48557578 AGTTTGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAAGGA
Found at i:48557568 original size:12 final size:12
Alignment explanation
Indices: 48557526--48557571 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
48557516 GGATTTAAGA
48557526 GAAATTT-AGAAG
1 GAAATTTGAG-AG
48557538 G-AATTTGAGAG
1 GAAATTTGAGAG
*
48557549 CAAA-TTGAGAG
1 GAAATTTGAGAG
48557560 GAAATTTGAGAG
1 GAAATTTGAGAG
48557572 AGAATTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 17 0.59
12 12 0.41
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:48560949 original size:23 final size:23
Alignment explanation
Indices: 48560869--48560953 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 23
48560859 CCTGATCAGT
*
48560869 ATACGACACA-TAAGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
*
48560891 AT--GACACACGAGGTGCC-G--
1 ATACGACACACGAAGTGCCTGAA
*
48560909 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
**
48560932 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
48560954 TCAGCAAGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 2 0.04
20 22 0.42
21 7 0.13
22 2 0.04
23 19 0.37
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Done.