Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 123 of 170
Found at i:37639779 original size:41 final size:41
Alignment explanation
Indices: 37639722--37639803 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
37639712 CACGAAATCA
37639722 GTTGGTCCACGAGAGGAAGTTCATATCAGGAAGGGATCTAT
1 GTTGGTCCACGAGAGGAAGTTCATATCAGGAAGGGATCTAT
37639763 GTTGGTCCACGAGAGGAAGTTCATATCAGGAAGGGATCTAT
1 GTTGGTCCACGAGAGGAAGTTCATATCAGGAAGGGATCTAT
37639804 CTCATAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (41 bp):
GTTGGTCCACGAGAGGAAGTTCATATCAGGAAGGGATCTAT
Found at i:37641304 original size:14 final size:14
Alignment explanation
Indices: 37641285--37641313 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37641275 TACACATTAA
37641285 ATCTAAATTTAAGT
1 ATCTAAATTTAAGT
37641299 ATCTAAATTTAAGT
1 ATCTAAATTTAAGT
37641313 A
1 A
37641314 ACAAATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATCTAAATTTAAGT
Found at i:37641851 original size:13 final size:13
Alignment explanation
Indices: 37641833--37641865 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
37641823 ATGAAAAGGA
37641833 TTATTTTAATTTT
1 TTATTTTAATTTT
37641846 TTA-TTTAATTTT
1 TTATTTTAATTTT
37641858 TTAATTTT
1 TT-ATTTT
37641866 TAGTCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 4 0.22
14 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTAATTTT
Found at i:37642002 original size:19 final size:18
Alignment explanation
Indices: 37641958--37642002 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
37641948 GTAATTATTT
37641958 TTAATTTT-AAAAATTAA
1 TTAATTTTAAAAAATTAA
37641975 --AATTATTAAAAAATTAA
1 TTAATT-TTAAAAAATTAA
37641992 TTAATTGTTAA
1 TTAATT-TTAA
37642003 TATATACGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
15 4 0.17
16 2 0.09
17 9 0.39
19 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAATTTTAAAAAATTAA
Found at i:37663062 original size:26 final size:26
Alignment explanation
Indices: 37663026--37663092 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
37663016 AAAAATAAAA
*
37663026 ATTTACCAAAATAT-TATAATTTTTTT
1 ATTTACCAAAATATAAATAA-TTTTTT
37663052 ATTTACCAAAATATAAATAATTTTTT
1 ATTTACCAAAATATAAATAATTTTTT
37663078 ATTTACCAAAATATA
1 ATTTACCAAAATATA
37663093 TCAAAAACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 35 0.90
27 4 0.10
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTACCAAAATATAAATAATTTTTT
Found at i:37663234 original size:4 final size:4
Alignment explanation
Indices: 37663225--37663424 Score: 143
Period size: 4 Copynumber: 50.0 Consensus size: 4
37663215 GAAGGAGAGG
* *
37663225 GAAA GAAA GAAA CAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA
* * *
37663275 GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA
*
37663323 AAAA G-AA G-AA G-AA GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA
1 GAAA GAAA GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA
* *
37663367 GAAG GAAA GAAAA GGAAA -ACA G-AA GAAA -AAA GAAA -AAA GAAA GAAA
1 GAAA GAAA G-AAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
37663413 GAAG GAAA GAAA
1 GAAA GAAA GAAA
37663425 AGGAAAGGAG
Statistics
Matches: 159, Mismatches: 18, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
3 28 0.18
4 96 0.60
5 27 0.17
6 8 0.05
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:37663276 original size:18 final size:18
Alignment explanation
Indices: 37663225--37663431 Score: 108
Period size: 18 Copynumber: 11.1 Consensus size: 18
37663215 GAAGGAGAGG
*
37663225 GAAAGAAAGA-AA-CAAA
1 GAAAGAAAGAGAAGGAAA
37663241 GAAAGAAAGA-AA-GAAA
1 GAAAGAAAGAGAAGGAAA
37663257 GAAAGAAAG-GAGAGGAAA
1 GAAAGAAAGAGA-AGGAAA
*
37663275 GAAAGAAAAAGAAGGAAA
1 GAAAGAAAGAGAAGGAAA
37663293 GAAAAGGAAAGGAGAAGAGAAA
1 G-AAA-GAAA-GAGAAG-GAAA
* * *
37663315 AAAAGAAAAAAAGAAGAAGAA
1 GAAAG--AAAGAGAAGGA-AA
37663336 GAAAAGGAAAAGAGAA-GAAA
1 G-AAA-G-AAAGAGAAGGAAA
37663356 -AAAGAAAGAAAGAAGGAAA
1 GAAAGAAAG--AGAAGGAAA
*
37663375 GAAAAGGAAAACAGAA-GAAA
1 G-AAA-G-AAAGAGAAGGAAA
* *
37663395 -AAAGAAAAAAGAAAGAAA
1 GAAAG-AAAGAGAAGGAAA
* *
37663413 GAAGGAAAGAAAAGGAAA
1 GAAAGAAAGAGAAGGAAA
37663431 G
1 G
37663432 GAGAAGAGAA
Statistics
Matches: 154, Mismatches: 15, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
16 29 0.19
17 11 0.07
18 44 0.29
19 12 0.08
20 12 0.08
21 23 0.15
22 19 0.12
23 4 0.03
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAGGAAA
Found at i:37663437 original size:46 final size:46
Alignment explanation
Indices: 37663350--37663486 Score: 174
Period size: 46 Copynumber: 3.1 Consensus size: 46
37663340 AGGAAAAGAG
37663350 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAACAGAAGAAAA
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAACAGAAGAAAA
** *
37663396 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAA
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAACAGAAGAAAA
** * * *
37663442 AA-AAAAAAG-AAGAGGGAAGGAAGGAAAA--AAAAAAGAAAAAAA
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAACAGAAGAAAA
37663484 AAG
1 AAG
37663487 GTAATTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 12 0.15
44 16 0.20
45 7 0.09
46 45 0.56
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (46 bp):
AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAACAGAAGAAAA
Found at i:37663485 original size:11 final size:11
Alignment explanation
Indices: 37663312--37663412 Score: 60
Period size: 11 Copynumber: 9.0 Consensus size: 11
37663302 AGGAGAAGAG
37663312 AAAAAAAGAAA
1 AAAAAAAGAAA
* *
37663323 AAAAGAAGAAG
1 AAAAAAAGAAA
* *
37663334 AAGAAAAGGAA
1 AAAAAAAGAAA
* *
37663345 AAGAGAAGAAA
1 AAAAAAAGAAA
*
37663356 AAAGAAAGAAA
1 AAAAAAAGAAA
**
37663367 GAAGGAAAGAAA
1 -AAAAAAAGAAA
*
37663379 AGGAAAACAG-AA
1 A--AAAAAAGAAA
*
37663391 GAAAAAAGAAA
1 AAAAAAAGAAA
*
37663402 AAAGAAAGAAA
1 AAAAAAAGAAA
37663413 GAAGGAAAGA
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
10 6 0.09
11 45 0.67
12 12 0.18
13 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:37663487 original size:26 final size:27
Alignment explanation
Indices: 37663434--37663487 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
37663424 AAGGAAAGGA
* ***
37663434 GAAGAGAAAAAAAAAAGAAGAGGGAAG
1 GAAGAGAAAAAAAAAAGAAAAAAAAAG
37663461 GAAG-GAAAAAAAAAAGAAAAAAAAAG
1 GAAGAGAAAAAAAAAAGAAAAAAAAAG
37663487 G
1 G
37663488 TAATTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (27 bp):
GAAGAGAAAAAAAAAAGAAAAAAAAAG
Found at i:37664540 original size:160 final size:160
Alignment explanation
Indices: 37664339--37665046 Score: 546
Period size: 160 Copynumber: 4.4 Consensus size: 160
37664329 TATGATATTT
*
37664339 TTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
1 TTTAAAGTAATAAAATGCGGAGAAAATAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
* *
37664404 CTTTTATAAAATTCAGAAATAATTAATATCAAATATTTAAAAGAAAATGTACTAAAATAATATAA
66 CTTTTATAAAATTAAGAAATAATTAATATCAAATATTTAAAAGAAAATGTACTGAAATAATATAA
37664469 AACAATAAAATACGAGAATAATATATTTTTG
131 AACAATAAAATA-GAGAATAATATATTTTTG
* * *
37664500 TTTAAAGTAATAAAAAT-C-GAGAAAATAATACGAGCAAATGGCATG-GGTAAGGGT-TATT--T
1 TTTAAAGTAAT-AAAATGCGGAGAAAATAATACGAACAAATGGCA-GAAGTAAGAGTGTATTACT
* * * * * * ** *
37664559 ---TTTTACACCAAATTAATTTAAATAA-CACACTAGAGT-AATAAATTTCAAACATTATGCACT
64 AACTTTTATA--AAATTAA--GAAATAATTA-A-T--A-TCAA-ATATTTAAAAGAAAATGTACT
* ** *
37664619 GAAATAATGTAAAATTATAAAATTAGA-AAT--TATGA-TATT-
119 GAAATAATATAAAACAATAAAA-TAGAGAATAATAT-ATTTTTG
*
37664658 TTTAAAGTAATAAAATGCGGAGAAAA-AATACGAACAAATAGCAGAAGTAAGAGTGTATTACTAA
1 TTTAAAGTAATAAAATGCGGAGAAAATAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
*
37664722 CTTTTATAAAATTTAGAAATAATTAATA-CAAAATATTTAAAAGAAAATGTACTGAAATAATATA
66 CTTTTATAAAATTAAGAAATAATTAATATC-AAATATTTAAAAGAAAATGTACTGAAATAATATA
37664786 AAACAATAAAATAAGAGAATAATATATTTTTG
130 AAACAATAAAAT-AGAGAATAATATATTTTTG
* * * *
37664818 TTTAAAGTAATAAAAAT-C-GAGAAAATAATACGAGCAAAAGGCATG-GGTAAGGGT-TATT--T
1 TTTAAAGTAAT-AAAATGCGGAGAAAATAATACGAACAAATGGCA-GAAGTAAGAGTGTATTACT
* * * * * * ** *
37664877 ---TTTTACACCAAATTAATTTAAATAA-CACACTAGAGT-AATAAATTTCAAACATTATGCACT
64 AACTTTTATA--AAATTAA--GAAATAATTA-A-T--A-TCAA-ATATTTAAAAGAAAATGTACT
* ** *
37664937 GAAATAATGTAAAATTATAAAATTAGA-AAT--TATGATATTT-
119 GAAATAATATAAAACAATAAAA-TAGAGAATAATAT-ATTTTTG
* *
37664977 TTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAA
1 TTTAAAGTAATAAAATGCGGAGAAAATAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
37665042 CTTTT
66 CTTTT
37665047 TTTTCAACTT
Statistics
Matches: 428, Mismatches: 62, Indels: 109
0.71 0.10 0.18
Matches are distributed among these distances:
154 12 0.03
155 1 0.00
156 49 0.11
157 16 0.04
158 54 0.13
159 57 0.13
160 104 0.24
161 37 0.09
162 84 0.20
163 4 0.01
164 6 0.01
166 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (160 bp):
TTTAAAGTAATAAAATGCGGAGAAAATAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
CTTTTATAAAATTAAGAAATAATTAATATCAAATATTTAAAAGAAAATGTACTGAAATAATATAA
AACAATAAAATAGAGAATAATATATTTTTG
Found at i:37664688 original size:158 final size:158
Alignment explanation
Indices: 37664500--37665019 Score: 573
Period size: 160 Copynumber: 3.3 Consensus size: 158
37664490 TATATTTTTG
*
37664500 TTTAAAGTAATAAAAATCGAGAAAATAATACGAGCAAATGGCATGGGTAAGGGTTATTTTTTTAC
1 TTTAAAGTAATAAAAATCGAGAAAATAATACGAACAAATGGCATGGGTAAGGGTTATTTTTTTAC
37664565 ACCAAATTAATTTAAATAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTA
66 ACCAAATTAATTTAAATAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTA
37664630 AAATTATAAAATTAGAAATTATGATATT
131 AAATTATAAAATTAGAAATTATGATATT
* * *
37664658 TTTAAAGTAAT-AAAATGCGGAGAAAA-AATACGAACAAATAGCA-GAAGTAAGAGTGTATTACT
1 TTTAAAGTAATAAAAAT-C-GAGAAAATAATACGAACAAATGGCATG-GGTAAGGGT-TATT--T
* ** * * * * * ** *
37664720 AACTTTTATA--AAATT--TAGAAATAATTA-A-TACA--AA-ATATTTAAAAGAAAATGTACTG
60 ---TTTTACACCAAATTAATTTAAATAA-CACACTAGAGTAATAAATTTCAAACATTATGCACTG
* ** * *
37664776 AAATAATATAAAACAATAAAATAAGAGAATAATAT-ATTTTT
121 AAATAATGTAAAATTATAAAATTAGA-AAT--TATGA-TATT
* *
37664817 GTTTAAAGTAATAAAAATCGAGAAAATAATACGAGCAAAAGGCATGGGTAAGGGTTATTTTTTTA
1 -TTTAAAGTAATAAAAATCGAGAAAATAATACGAACAAATGGCATGGGTAAGGGTTATTTTTTTA
37664882 CACCAAATTAATTTAAATAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGT
65 CACCAAATTAATTTAAATAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGT
37664947 AAAATTATAAAATTAGAAATTATGATATTT
130 AAAATTATAAAATTAGAAATTATGATA-TT
*
37664977 TTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAACAAATGGC
1 TTTAAAGTAATAAAAAT-C-GAGAAAATAATACGAACAAATGGC
37665020 CGAAGTAAGA
Statistics
Matches: 287, Mismatches: 44, Indels: 60
0.73 0.11 0.15
Matches are distributed among these distances:
154 6 0.02
156 43 0.15
157 13 0.05
158 48 0.17
159 50 0.17
160 65 0.23
161 13 0.05
162 43 0.15
164 6 0.02
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (158 bp):
TTTAAAGTAATAAAAATCGAGAAAATAATACGAACAAATGGCATGGGTAAGGGTTATTTTTTTAC
ACCAAATTAATTTAAATAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTA
AAATTATAAAATTAGAAATTATGATATT
Found at i:37664840 original size:318 final size:320
Alignment explanation
Indices: 37664260--37665046 Score: 1411
Period size: 318 Copynumber: 2.5 Consensus size: 320
37664250 TATTCCCCCT
* * * *
37664260 TAACACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTAT-AAA-ATTA
**
37664325 -AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTA
64 GAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTA
37664389 AGAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATATCAAATATTTAAAAGAAAATGT
129 AGAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATATCAAATATTTAAAAGAAAATGT
*
37664454 ACTAAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCG
194 ACTAAAATAATATAAAACAATAAAATAAGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCG
*
37664519 AGAAAATAATACGAGCAAATGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
259 AGAAAATAATACGAGCAAAAGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
37664581 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
*
37664646 AATTATGATA-TTTTTAAAGTAATAAAATGCGGAG-AAAAAATACGAACAAATAGCAGAAGTAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAG
*
37664709 AGTGTATTACTAACTTTTATAAAATTTAGAAATAATTAATA-CAAAATATTTAAAAGAAAATGTA
131 AGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATATC-AAATATTTAAAAGAAAATGTA
*
37664773 CTGAAATAATATAAAACAATAAAATAAGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCGA
195 CTAAAATAATATAAAACAATAAAATAAGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCGA
37664838 GAAAATAATACGAGCAAAAGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
260 GAAAATAATACGAGCAAAAGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
37664899 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
*
37664964 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAG
37665029 AGTGTATTACTAACTTTT
131 AGTGTATTACTAACTTTT
37665047 TTTTCAACTT
Statistics
Matches: 449, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
317 1 0.00
318 287 0.64
319 51 0.11
320 57 0.13
321 53 0.12
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (320 bp):
TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAG
AGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATATCAAATATTTAAAAGAAAATGTAC
TAAAATAATATAAAACAATAAAATAAGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCGAG
AAAATAATACGAGCAAAAGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
Found at i:37667031 original size:3 final size:3
Alignment explanation
Indices: 37667025--37667068 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
37667015 CAACAACAAC
*
37667025 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
37667069 CTATTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37667138 original size:19 final size:21
Alignment explanation
Indices: 37667114--37667152 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
37667104 ACTAAAACAA
*
37667114 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
37667133 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
37667153 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:37667331 original size:27 final size:27
Alignment explanation
Indices: 37667301--37667385 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
37667291 CCAAACAATA
37667301 TGGCACCATTGGTGCCGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* **
37667328 TGGCACCATTGGTGCCACCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* **
37667355 TGGCACCTTTGGTGCCGCCAATACCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
37667382 TGGC
1 TGGC
37667386 GTGACCAAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCAT
Found at i:37669296 original size:22 final size:22
Alignment explanation
Indices: 37669265--37669314 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
37669255 CACAAATCGA
*
37669265 TTTTTTTTTC-TTTTGTTT-AGT
1 TTTTTTTTTCATTTT-TTTCAAT
37669286 TTTTTTGTTTCATTTTTTTCAAT
1 TTTTTT-TTTCATTTTTTTCAAT
37669309 TTTTTT
1 TTTTTT
37669315 ACTATCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTCATTTTTTTCAAT
Found at i:37669785 original size:30 final size:31
Alignment explanation
Indices: 37669751--37669810 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
37669741 AAACCTTTTA
*
37669751 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
37669781 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
37669811 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:37674240 original size:30 final size:30
Alignment explanation
Indices: 37674206--37674264 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37674196 ACAAATCCTA
* *
37674206 TCTCAATTTCCTTCCAAAATTTTCTCAAAC
1 TCTCAATTTCCTTCCAAAAATCTCTCAAAC
37674236 TCTCAATTTCCTTCCAAAAATCTCTCAAA
1 TCTCAATTTCCTTCCAAAAATCTCTCAAA
37674265 TCCATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.37
Consensus pattern (30 bp):
TCTCAATTTCCTTCCAAAAATCTCTCAAAC
Found at i:37674331 original size:30 final size:31
Alignment explanation
Indices: 37674297--37674362 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
37674287 CCTCAATTTC
37674297 ATTTTTTTAAAATAATTTTAA-TTTTTTTAT
1 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
37674327 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
1 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
37674358 ATTTT
1 ATTTT
37674363 CATCAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTTAATTTTTTTTAT
Found at i:37676725 original size:30 final size:30
Alignment explanation
Indices: 37676672--37677018 Score: 553
Period size: 30 Copynumber: 11.8 Consensus size: 30
37676662 TACTAAAAAT
*
37676672 CCTAATTTAATT-AAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
37676701 CCTAATTTAATTAAAAACCGTAAA-CCTCA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676730 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676759 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
37676789 CCTAATTTAATTAAAAACCATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676819 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
37676848 CCTAATTTAATTAAAACCCCTAAACCCAAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676878 CCTAATTTAATTAAAAACCCTAAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
37676907 CCTAATTTAATTAAAAACCCT-GACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* * * *
37676936 CTTGATTTAATTAAAAATCGTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676966 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
37676996 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
37677019 CCATTAACAA
Statistics
Matches: 291, Mismatches: 21, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
28 3 0.01
29 135 0.46
30 153 0.53
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (30 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:37676796 original size:59 final size:60
Alignment explanation
Indices: 37676672--37677018 Score: 553
Period size: 59 Copynumber: 5.9 Consensus size: 60
37676662 TACTAAAAAT
* * *
37676672 CCTAATTTAATT-AAAACCCTAAACACTAACCTAATTTAATTAAAAACCGTAAA-CCTCA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
37676730 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
37676789 CCTAATTTAATTAAAAACCATAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
37676848 CCTAATTTAATTAAAACCCCTAAACCCAAACCTAATTTAATTAAAAACCCTAAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * * * *
37676907 CCTAATTTAATTAAAAACCCT-GACCCTAACTTGATTTAATTAAAAATCGTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
37676966 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAA
37677019 CCATTAACAA
Statistics
Matches: 264, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
58 68 0.26
59 139 0.53
60 57 0.22
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (60 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:37680434 original size:121 final size:122
Alignment explanation
Indices: 37680217--37680493 Score: 450
Period size: 121 Copynumber: 2.3 Consensus size: 122
37680207 CCACGATGGT
*
37680217 GCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGT-CAAAAAAA-TATTTCTTACATGACCAACTGTAGCG
*
37680282 AAATATCGTCAACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
64 AAATAGCGTCAACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
*
37680341 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-ATTTCTTACATGACCAATTGTAGCGAA
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCTTACATGACCAACTGTAGCGAA
* *
37680405 ATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 ATAGCGTCAACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* *
37680462 GCGACTTTATAATATTTGACT-AGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
37680494 CTCAAAATAA
Statistics
Matches: 145, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
121 107 0.74
122 2 0.01
123 7 0.05
124 29 0.20
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (122 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTTCTTACATGACCAACTGTAGCGAA
ATAGCGTCAACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:37682279 original size:43 final size:43
Alignment explanation
Indices: 37682030--37682259 Score: 334
Period size: 43 Copynumber: 5.3 Consensus size: 43
37682020 GCGTCGCTAA
* * * *
37682030 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGACCAGGAC
1 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
37682073 CTTTAGTGGCACTTTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
37682116 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
*
37682159 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
37682202 CTTTAGCGGCACTTTTACTACAAACGCTGCTAAAGAACAAGAC
1 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
37682245 CTTTAGCGGCACTTT
1 CTTTAGCGGCACTTT
37682260 CTCCAAAAAC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 173 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAGAC
Found at i:37683440 original size:160 final size:160
Alignment explanation
Indices: 37683176--37683691 Score: 892
Period size: 160 Copynumber: 3.2 Consensus size: 160
37683166 AATGGAAAGT
* * *
37683176 AGCACTTTAACACTTCAATTTA-AAGCATTTAAACACTTCAATTTGCAGCACTTTAACATATCAA
1 AGCACTTAAACACTTCAATTTACAA-CATTTAAACACTTAAATTTGCAGCACTTAAACATATCAA
* *
37683240 TTAACAACATTTATACACCTCAATTACAGTGATAAAACATCTCAATTTCTAGCAACTAAACACTT
65 TTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTT
37683305 CAATTTGCAGCACTTAAACACTTCAATTTGC
130 CAATTTGCAGCACTTAAACACTTCAATTTGC
37683336 AGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
1 AGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
* * *
37683401 TAACAACATTTATACACCTCAATCACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTC
66 TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTC
37683466 AATTTGCAGCACTTAAACACTTCAATTTGC
131 AATTTGCAGCACTTAAACACTTCAATTTGC
*
37683496 AGCACTTAAACACTTTAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
1 AGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
*
37683561 TAACAACATTTATACACCTCAATTACAGCGATAAAACATTTCAATTTCCAGCAACTAAACACTTC
66 TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTC
37683626 AATTTGCAGCACTTAAACACTTCAATTTGC
131 AATTTGCAGCACTTAAACACTTCAATTTGC
* *
37683656 AGCACTTAAACA-TATCAATTAACAACATTTATACAC
1 AGCACTTAAACACT-TCAATTTACAACATTTAAACAC
37683692 CTCAATTACA
Statistics
Matches: 338, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
159 1 0.00
160 335 0.99
161 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (160 bp):
AGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTC
AATTTGCAGCACTTAAACACTTCAATTTGC
Found at i:37683598 original size:114 final size:113
Alignment explanation
Indices: 37683480--37683766 Score: 470
Period size: 114 Copynumber: 2.5 Consensus size: 113
37683470 TGCAGCACTT
* *
37683480 AAACACTTCAATTTGCAGCACTTAAACACTTTAATTTACAACATTTAAACACTTAAATTTGCAGC
1 AAACA-TTCAATTTCCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGC
37683545 ACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
65 ACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
* * * *
37683594 AAACATTTCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAG
1 AAACA-TTCAATTTCCAGC-ACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAG
37683658 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
64 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
37683708 AAA-ATCTCAATTTCCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTT
1 AAACAT-TCAATTTCCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTT
37683767 ACAAATCCAC
Statistics
Matches: 159, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
112 3 0.02
113 47 0.30
114 107 0.67
115 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (113 bp):
AAACATTCAATTTCCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTTGCAGCA
CTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
Found at i:37683770 original size:23 final size:23
Alignment explanation
Indices: 37683176--37683769 Score: 418
Period size: 23 Copynumber: 26.0 Consensus size: 23
37683166 AATGGAAAGT
* *
37683176 AGCACTTTAACACTTCAATTTAA
1 AGCACTTAAACACTTCAATTTAC
* *
37683199 AGCATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
37683222 AGCACTTTAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
37683245 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
37683267 AGTGA-TAAAACA-TCTCAATTT-C
1 AG-CACTTAAACACT-TCAATTTAC
*
37683289 TAGCAAC-TAAACACTTCAATTTGC
1 -AGC-ACTTAAACACTTCAATTTAC
*
37683313 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
37683336 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
37683359 AACATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37683382 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * * *
37683405 AACATTTATACACCTCAA-TCAC
1 AGCACTTAAACACTTCAATTTAC
* * *
37683427 AACGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
37683450 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
37683473 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37683496 AGCACTTAAACACTTTAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
37683519 AACATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37683542 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
37683565 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
37683587 AGCGA-TAAAACATTTCAATTTCC
1 AGC-ACTTAAACACTTCAATTTAC
*
37683610 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
37683633 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37683656 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
37683679 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
37683701 AGCGA--TAAA-AATCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
37683723 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
37683746 AACATTTAAACACTTAAATTTAC
1 AGCACTTAAACACTTCAATTTAC
37683769 A
1 A
37683770 AATCCACCAT
Statistics
Matches: 448, Mismatches: 90, Indels: 66
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.00
21 8 0.02
22 64 0.14
23 370 0.83
24 5 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:37686792 original size:40 final size:41
Alignment explanation
Indices: 37686684--37686803 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
37686674 TCAATTCTGG
* * * *
37686684 ATTAGCGACGCTTTTTTAAAAATGCCGTTAAAGACACGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGAGC
*
37686725 ATTAGCGGTGCTTTTTCAAAAATGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGAGC
* *
37686766 ATTAGCGGCG-TTTTTCAAAAACGCCGCTAAAGCCCCGA
1 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGA
37686804 AAGGTCAGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 26 0.37
41 45 0.63
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCGAGC
Found at i:37686939 original size:40 final size:40
Alignment explanation
Indices: 37686860--37686970 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
37686850 CTCAAAAAAA
*
37686860 CGCCGCTAATGCTC-ATTTTTCA-CGGCGCTTTCCTGAAAG
1 CGCCGCTAATGCTCAATTTTT-AGCGGCGTTTTCCTGAAAG
* *
37686899 CGCCGCTAATGCTCAATTTTTAGCGGCATTTTAC-GTAAAG
1 CGCCGCTAATGCTCAATTTTTAGCGGCGTTTTCCTG-AAAG
*
37686939 CACCGCTAATGCT-AGATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTCA-ATTTTTAGCGGCGTTTT
37686971 TTGTCCAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 17 0.27
40 46 0.73
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (40 bp):
CGCCGCTAATGCTCAATTTTTAGCGGCGTTTTCCTGAAAG
Found at i:37687902 original size:20 final size:20
Alignment explanation
Indices: 37687874--37687912 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37687864 AGGCCAAAAT
37687874 AAAAATTGACATACATTTTC
1 AAAAATTGACATACATTTTC
* *
37687894 AAAATTTGACATTCATTTT
1 AAAAATTGACATACATTTT
37687913 TACTTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATTGACATACATTTTC
Found at i:37691766 original size:15 final size:14
Alignment explanation
Indices: 37691745--37691780 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
37691735 ATAATCCTTA
*
37691745 ATAATTATCTTAAT
1 ATAATTATCCTAAT
37691759 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
37691774 ATAATTA
1 ATAATTA
37691781 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:37693501 original size:22 final size:22
Alignment explanation
Indices: 37693476--37693525 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
37693466 GGTGCTTGGG
*
37693476 TGCAGGGATAAGGGT-GGTTAGC
1 TGCAGGAAT-AGGGTAGGTTAGC
* *
37693498 TGCAGGAATAGGGTAGTTTGGC
1 TGCAGGAATAGGGTAGGTTAGC
37693520 TGCAGG
1 TGCAGG
37693526 CATTCTGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.22, C:0.10, G:0.44, T:0.24
Consensus pattern (22 bp):
TGCAGGAATAGGGTAGGTTAGC
Found at i:37693697 original size:12 final size:12
Alignment explanation
Indices: 37693672--37693744 Score: 57
Period size: 13 Copynumber: 6.2 Consensus size: 12
37693662 ATTAATATCC
*
37693672 AAATAAGTAAT-
1 AAATAAATAATA
*
37693683 AAATAATAAAATA
1 AAATAA-ATAATA
37693696 AAATAAAGTAAT-
1 AAATAAA-TAATA
*
37693708 AAATAAAGTAAAA
1 AAATAAA-TAATA
37693721 AAATAAA-AA-A
1 AAATAAATAATA
37693731 AAATAAA-AATA
1 AAATAAATAATA
37693742 AAA
1 AAA
37693745 ATTGGGTTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.19
11 12 0.23
12 15 0.28
13 16 0.30
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:37693702 original size:17 final size:17
Alignment explanation
Indices: 37693680--37693744 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
37693670 CCAAATAAGT
37693680 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
37693697 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
* * *
37693714 AGTAAAAAAATAAAAAAA
1 AAT-AAATAATAAAATAA
37693732 AATAAA-AATAAAA
1 AATAAATAATAAAA
37693745 ATTGGGTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.17
17 20 0.49
18 14 0.34
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:37693729 original size:8 final size:8
Alignment explanation
Indices: 37693695--37693745 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
37693685 ATAATAAAAT
37693695 AAAATAAA
1 AAAATAAA
**
37693703 GTAATAAA
1 AAAATAAA
*
37693711 TAAAGTAAA
1 -AAAATAAA
37693720 AAAATAAA
1 AAAATAAA
37693728 AAAA-AATA
1 AAAATAA-A
37693736 AAAATAAA
1 AAAATAAA
37693744 AA
1 AA
37693746 TTGGGTTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 2 0.06
8 25 0.74
9 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:37693746 original size:12 final size:11
Alignment explanation
Indices: 37693680--37693744 Score: 59
Period size: 10 Copynumber: 6.2 Consensus size: 11
37693670 CCAAATAAGT
37693680 AATAAATAATAA
1 AATAAA-AATAA
37693692 AAT-AAAATAA
1 AATAAAAATAA
*
37693702 AGTAATAAATAA
1 AATAA-AAATAA
*
37693714 AGT--AAA-AA
1 AATAAAAATAA
37693722 AATAAAAA-AA
1 AATAAAAATAA
37693732 AATAAAAATAA
1 AATAAAAATAA
37693743 AA
1 AA
37693745 ATTGGGTTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 20 0.43
11 7 0.15
12 12 0.26
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:37700146 original size:15 final size:15
Alignment explanation
Indices: 37700126--37700163 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
37700116 AAATAATCCT
*
37700126 TAATAATTATCTTAA
1 TAATAATTATCCTAA
37700141 TAATAATTATCCTAA
1 TAATAATTATCCTAA
37700156 T-ATAATTA
1 TAATAATTA
37700164 AAATAGAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATTATCCTAA
Found at i:37701700 original size:18 final size:17
Alignment explanation
Indices: 37701667--37701705 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37701657 TTGTATAAAT
37701667 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37701685 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37701702 TGTG
1 TGTG
37701706 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37701837 original size:8 final size:8
Alignment explanation
Indices: 37701824--37701848 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37701814 CACTAGAGAC
37701824 CAGTGTTA
1 CAGTGTTA
37701832 CAGTGTTA
1 CAGTGTTA
37701840 CAGTGTTA
1 CAGTGTTA
37701848 C
1 C
37701849 GTGAGTCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (8 bp):
CAGTGTTA
Found at i:37701965 original size:23 final size:23
Alignment explanation
Indices: 37701938--37702035 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
37701928 AGTGTTATTG
37701938 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
37701961 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
37701984 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37702006 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37702029 ATCAGTG
1 ATCAGTG
37702036 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:37702004 original size:45 final size:45
Alignment explanation
Indices: 37701940--37702028 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
37701930 TGTTATTGAT
* *
37701940 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
37701985 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
37702029 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:37709056 original size:18 final size:17
Alignment explanation
Indices: 37709023--37709061 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37709013 TTGTATAAAT
37709023 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37709041 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37709058 TGTG
1 TGTG
37709062 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37709193 original size:8 final size:8
Alignment explanation
Indices: 37709180--37709204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37709170 CACTAGAGAC
37709180 CAGTGTTA
1 CAGTGTTA
37709188 CAGTGTTA
1 CAGTGTTA
37709196 CAGTGTTA
1 CAGTGTTA
37709204 C
1 C
37709205 GTGAGTCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (8 bp):
CAGTGTTA
Found at i:37709320 original size:23 final size:23
Alignment explanation
Indices: 37709293--37709390 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
37709283 AGTGTTATTG
37709293 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
37709316 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
37709339 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
37709361 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37709384 ATCAGTG
1 ATCAGTG
37709391 TGACACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:37709359 original size:45 final size:45
Alignment explanation
Indices: 37709295--37709383 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
37709285 TGTTATTGAT
*
37709295 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTTGGCTACATC
37709340 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTTGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTTGGCTACAT
37709384 ATCAGTGTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTTGGCTACATC
Found at i:37715728 original size:7 final size:7
Alignment explanation
Indices: 37715716--37715747 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
37715706 CAAATTTTCT
37715716 AATTAAA
1 AATTAAA
37715723 AATTAAA
1 AATTAAA
37715730 AATTAAA
1 AATTAAA
37715737 AATTAAA
1 AATTAAA
37715744 AATT
1 AATT
37715748 TTATCTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAA
Found at i:37721484 original size:260 final size:262
Alignment explanation
Indices: 37721009--37721532 Score: 953
Period size: 260 Copynumber: 2.0 Consensus size: 262
37720999 CAAAAGTTCT
37721009 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
1 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
* *
37721074 GATCATTTACACGAGTGCATATTTATATTTCTTCTGTGCTTTTTGGCATTCCAATAAATGATTAA
66 GATCATTTACACGACTGCATATTTATATTTCTACTGTGCTTTTTGGCATTCCAATAAATGATTAA
* *
37721139 TGAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATCGTCTCTTTGGTTTTTTG
131 TGAGCCACTTAAAAACTAATATTTACTTTGAGGTCCATATTAGTCATCGTCTCTTTGGTTTTTTG
*
37721204 CTAGCATAAATATTAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
196 CTAGCATAAATATCAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
37721269 AA
261 AA
* * *
37721271 ACTACCAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCCCATGAAGTATGTTTACTAT
1 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
*
37721336 GATCATTTACATGACTGCATATTTATA-TT-TACTGTGCTTTTTGGCATTCCAATAAATGATTAA
66 GATCATTTACACGACTGCATATTTATATTTCTACTGTGCTTTTTGGCATTCCAATAAATGATTAA
37721399 TGAGCCACTTAAAAACTAATATTTACTTTGAGGTCCATATTAGTCATCGTCTCTTTGGTTTTTTG
131 TGAGCCACTTAAAAACTAATATTTACTTTGAGGTCCATATTAGTCATCGTCTCTTTGGTTTTTTG
37721464 CTAGCATAAATATCAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
196 CTAGCATAAATATCAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
37721529 AA
261 AA
37721531 AC
1 AC
37721533 CATCCATCAC
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
260 164 0.65
261 2 0.01
262 87 0.34
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (262 bp):
ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
GATCATTTACACGACTGCATATTTATATTTCTACTGTGCTTTTTGGCATTCCAATAAATGATTAA
TGAGCCACTTAAAAACTAATATTTACTTTGAGGTCCATATTAGTCATCGTCTCTTTGGTTTTTTG
CTAGCATAAATATCAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
AA
Found at i:37722147 original size:30 final size:30
Alignment explanation
Indices: 37722113--37722169 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
37722103 CAACCACCTT
37722113 TTGTTTACTCTCTATGCTCAACCTTGAAGG
1 TTGTTTACTCTCTATGCTCAACCTTGAAGG
*
37722143 TTGTTTACTCTCTATGCTCAATCTTGA
1 TTGTTTACTCTCTATGCTCAACCTTGA
37722170 TGGCTCTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (30 bp):
TTGTTTACTCTCTATGCTCAACCTTGAAGG
Found at i:37729699 original size:24 final size:24
Alignment explanation
Indices: 37729636--37729687 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37729626 TTTCTAGAAG
* * *
37729636 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
37729660 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
37729684 ATTT
1 ATTT
37729688 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:37734061 original size:24 final size:24
Alignment explanation
Indices: 37734027--37734078 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
37734017 TTTTTAGAAG
* **
37734027 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
37734051 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
37734075 ATTT
1 ATTT
37734079 GAATTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:37734089 original size:24 final size:24
Alignment explanation
Indices: 37734044--37734089 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
37734034 ATTTATGAGT
*
37734044 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAGAATTTATTAAC
37734068 ATAATATATTT-GAATTTGATTA
1 ATAATATATTTAGAATTT-ATTA
37734090 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAGAATTTATTAAC
Found at i:37739201 original size:18 final size:18
Alignment explanation
Indices: 37739178--37739219 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
37739168 CTACTAAAAA
37739178 TCACAAGAAAACAATCAT
1 TCACAAGAAAACAATCAT
*
37739196 TCACAAGAAAGCAATCAT
1 TCACAAGAAAACAATCAT
*
37739214 GCACAA
1 TCACAA
37739220 AAGAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (18 bp):
TCACAAGAAAACAATCAT
Found at i:37749468 original size:14 final size:15
Alignment explanation
Indices: 37749439--37749468 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37749429 TGTGAAGAAA
37749439 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
37749454 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
37749468 T
1 T
37749469 GGTTGAATAC
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:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:37750262 original size:48 final size:48
Alignment explanation
Indices: 37750167--37750265 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
37750157 AAAGTAGAAG
* * *
37750167 TATGTGGCAGTTTATCTGCATTAATGTGACATTGTTCACGATTTTGAT
1 TATGTGGCAGTATATCTGCATTAATGTGACATTGTCCACGATATTGAT
* * *
37750215 TATGTGGCAGTATATCTGCGATT-TTGGTGGC-TTGTCCATGATATTGAT
1 TATGTGGCAGTATATCTGC-ATTAAT-GTGACATTGTCCACGATATTGAT
37750263 TAT
1 TAT
37750266 TAGTAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 36 0.84
49 7 0.16
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.43
Consensus pattern (48 bp):
TATGTGGCAGTATATCTGCATTAATGTGACATTGTCCACGATATTGAT
Found at i:37752459 original size:20 final size:20
Alignment explanation
Indices: 37752422--37752462 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
37752412 TTGTACAGGA
*
37752422 TTGCACTTCGATGTCTCTGT
1 TTGCACTTCGATGCCTCTGT
37752442 TTGCACTTC-AGTGCCTCTGT
1 TTGCACTTCGA-TGCCTCTGT
37752462 T
1 T
37752463 GGCATTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.10, C:0.27, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:37767643 original size:3 final size:3
Alignment explanation
Indices: 37767635--37767668 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
37767625 ACTGCAAATG
37767635 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37767669 GAGAAGCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37777019 original size:15 final size:13
Alignment explanation
Indices: 37776978--37777020 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
37776968 TGGTCCTTTA
37776978 GAATAATTTTTTTT
1 GAATAA-TTTTTTT
37776992 GACATAATTTTTTT
1 GA-ATAATTTTTTT
37777006 GAATATATTGTTTTT
1 GAATA-ATT-TTTTT
37777021 CACTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 14 0.54
15 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (13 bp):
GAATAATTTTTTT
Found at i:37777594 original size:27 final size:27
Alignment explanation
Indices: 37777552--37777607 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
37777542 GTCTGTGTGG
*
37777552 TAGGTGCCACTAGTGACTCCTACCTGA
1 TAGGCGCCACTAGTGACTCCTACCTGA
*
37777579 TAGGCGCCACTGGTGACTCCTACCTGA
1 TAGGCGCCACTAGTGACTCCTACCTGA
37777606 TA
1 TA
37777608 AGCGGCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (27 bp):
TAGGCGCCACTAGTGACTCCTACCTGA
Found at i:37780715 original size:85 final size:85
Alignment explanation
Indices: 37780573--37780809 Score: 334
Period size: 85 Copynumber: 2.8 Consensus size: 85
37780563 TCCGTTACTT
* * * *
37780573 GGTGGATTCAACACTTAGCAACCACC-TTAAATTTAGTGATATGGGGAATCAGCACATAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
37780637 CCTTTCACAATCAAAGATAC
66 CCTTTCACAATCAAAGATAA
* *
37780657 GGTGGAATCAGCACTTAGCCACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
37780722 CCTTTCACAATCAAATATAA
66 CCTTTCACAATCAAAGATAA
* * * * *
37780742 GGTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATCAGCACTTAGAAAC
1 GGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAAC
37780806 CCCT
65 CCCT
37780810 AGGGGAATCT
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 23 0.17
85 112 0.82
86 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (85 bp):
GGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAAGATAA
Found at i:37780800 original size:42 final size:42
Alignment explanation
Indices: 37780610--37780809 Score: 217
Period size: 43 Copynumber: 4.7 Consensus size: 42
37780600 TAAATTTAGT
* *
37780610 GATATGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
* * * **
37780652 GATACGGTGGAATCAGCACTTAGCCACCACCTTT-ATATTCAGT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTCACAATCAAA
*
37780695 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
* * *
37780737 TATAAGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAATA
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTCACAATCAA-A
* *
37780781 -ATTCGGGGAATCAGCACTTAGAAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
37780810 AGGGGAATCT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
41 8 0.06
42 53 0.40
43 60 0.45
44 11 0.08
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAA
Found at i:37783381 original size:77 final size:77
Alignment explanation
Indices: 37783142--37783374 Score: 326
Period size: 77 Copynumber: 3.1 Consensus size: 77
37783132 TTACGTAAAT
* * * * * * *
37783142 AATACAAAGTTTATTATTTAAATTGC-AAAAAAATCC-TAAAATTAATAGCTGAAATAGAGAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAA
*
37783205 ATTCATTACATA
66 AGTCATTACATA
* *
37783217 AATACAAAGTTGACTATTTAAATTGAAAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAA
*
37783282 AGTCATTACACA
66 AGTCATTACATA
* *
37783294 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAAGAACTCAAATGGAAAAAA
1 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAA
*
37783359 AGTCATTATATA
66 AGTCATTACATA
37783371 AATA
1 AATA
37783375 TGAAGTTATT
Statistics
Matches: 139, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
75 23 0.17
76 9 0.06
77 107 0.77
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (77 bp):
AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAA
AGTCATTACATA
Found at i:37783694 original size:33 final size:33
Alignment explanation
Indices: 37783588--37783682 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
37783578 AGAGTACAGT
37783588 GGTGGATATGGGCCGAGAA-GAGTGGAGTATGGC
1 GGTGGATATGGGCCG-GAAGGAGTGGAGTATGGC
* *
37783621 GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
1 GGTGGATATGGGCCGGAAGGAGTGGAGTATGGC
*
37783654 GGTGGATATTGGCCGGAAGGAGTGGAGTA
1 GGTGGATATGGGCCGGAAGGAGTGGAGTA
37783683 CTAAGGTGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.22, C:0.09, G:0.51, T:0.18
Consensus pattern (33 bp):
GGTGGATATGGGCCGGAAGGAGTGGAGTATGGC
Found at i:37783715 original size:66 final size:66
Alignment explanation
Indices: 37783588--37783715 Score: 143
Period size: 66 Copynumber: 1.9 Consensus size: 66
37783578 AGAGTACAGT
** * * * * *
37783588 GGTGGATATGGGCCGAGAAGAGTGGAGTATGGCGGTGGATACGGGCCGGGAGGAGTGGAGTATGG
1 GGTGGATATGGGCCGAGAAGAGTGGAGTATGAAGGTGGATACGAGACGAGAGGACTAGAGTATGG
37783653 C
66 C
* *
37783654 GGTGGATATTGGCCG-GAAGGAGTGGAGTACT-AAGGTGGATACGAGACGAGATGACTAGAGTA
1 GGTGGATATGGGCCGAGAA-GAGTGGAGTA-TGAAGGTGGATACGAGACGAGAGGACTAGAGTA
37783716 CTGAGGTGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 3 0.06
66 47 0.92
67 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.46, T:0.18
Consensus pattern (66 bp):
GGTGGATATGGGCCGAGAAGAGTGGAGTATGAAGGTGGATACGAGACGAGAGGACTAGAGTATGG
C
Found at i:37784184 original size:17 final size:18
Alignment explanation
Indices: 37784143--37784184 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
37784133 TGCAAAAGTT
*
37784143 GAATTCTAGTAGCTATAG
1 GAATTCAAGTAGCTATAG
*
37784161 GTA-TCAAGTAGCTAT-G
1 GAATTCAAGTAGCTATAG
37784177 GAATTCAA
1 GAATTCAA
37784185 AATTGGAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.15
17 15 0.75
18 2 0.10
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (18 bp):
GAATTCAAGTAGCTATAG
Found at i:37785354 original size:26 final size:26
Alignment explanation
Indices: 37785325--37785394 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
37785315 GATATATGGA
37785325 TCTTCGTGAGCTTTCC-GATTAAAGGC
1 TCTTCGTGAGC-TTCCTGATTAAAGGC
* *
37785351 TCTTTGTGAGCTTCCTGATTAATGGC
1 TCTTCGTGAGCTTCCTGATTAAAGGC
**
37785377 TC-TCCAGAGCTTCCTGAT
1 TCTTCGTGAGCTTCCTGAT
37785395 ATGGCTCGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTTCGTGAGCTTCCTGATTAAAGGC
Found at i:37787980 original size:24 final size:26
Alignment explanation
Indices: 37787930--37787989 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
37787920 AATAAAAATA
37787930 ACCAAAATATTATAACTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTATTT
37787956 ACCAAAATATTATAA-TTTTTT-TTT
1 ACCAAAATATTATAACTTTTTTATTT
37787980 ACCAAAATAT
1 ACCAAAATAT
37787990 ACCAAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 13 0.38
25 6 0.18
26 15 0.44
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (26 bp):
ACCAAAATATTATAACTTTTTTATTT
Found at i:37788084 original size:27 final size:27
Alignment explanation
Indices: 37788046--37788124 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
37788036 CACCCTAGTC
* *
37788046 GTGCCAAGGTGATTGGCGGCACTAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
37788073 GTGCCAAAGTGATTGGCTGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
**
37788100 GTGCCAAAGAAATTGGCGGCACCAA
1 GTGCCAAAGTGATTGGCGGCACCAA
37788125 TGTTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.32, T:0.16
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:37788177 original size:4 final size:4
Alignment explanation
Indices: 37788168--37788231 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
37788158 GAAGGAGAGG
* * *
37788168 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAAG GAGAG GAAA GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GA-AA GAAA GAAA GAAA
*
37788217 -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA
37788232 AGGAAAGGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
3 4 0.08
4 41 0.79
5 7 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:37788250 original size:24 final size:23
Alignment explanation
Indices: 37788207--37788267 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
37788197 GAAGGAGAGG
* **
37788207 AAAGAAAGAAAAAGAAGGAAAGAA
1 AAAGAAAGAAGAAGGGGGAAA-AA
* *
37788231 AAGGAAAGGAGAAGGGGGAAAAA
1 AAAGAAAGAAGAAGGGGGAAAAA
37788254 AAAGAAAGAAGAAG
1 AAAGAAAGAAGAAG
37788268 AAGAGGAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAGAAGGGGGAAAAA
Found at i:37788261 original size:33 final size:31
Alignment explanation
Indices: 37788202--37788303 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 31
37788192 GGAAGGAAGG
* *
37788202 AGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AGAGGAAAG-GAGAAAAA-AAAGAAAGAAAA-GA
*
37788236 A-AGGAGAAGGGGGAAAAAAAAGAAAGAAGAAGA
1 AGAGGA-AA-GGAGAAAAAAAAGAAAGAA-AAGA
*
37788269 AGAGGAAATGAGAAGAAAAAAGAAAGAAAAAGA
1 AGAGGAAAGGAGAA-AAAAAAGAAAG-AAAAGA
37788302 AG
1 AG
37788304 GAAAGAAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
32 4 0.07
33 35 0.61
34 17 0.30
35 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (31 bp):
AGAGGAAAGGAGAAAAAAAAGAAAGAAAAGA
Found at i:37788266 original size:80 final size:79
Alignment explanation
Indices: 37788155--37788374 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 79
37788145 GTTGTTGGGG
* * **
37788155 GGAGAAGGAGAGGGAAAGAAAGAAAGAAAGAAAGAAAGGAAGGAAGGAGAGGAAAGAAAGAAAAA
1 GGAGAAGG-G-GGAAAAAAAAGAAAG-AAG-AAGAAAGGAAGGAAGGAGAAAAAAGAAAGAAAAA
37788220 GAAGGAAAGAAAAGGAAA
62 GAAGGAAAGAAAAGGAAA
* *
37788238 GGAGAAGGGGGAAAAAAAAGAAAGAAGAAGAAGAGGAAATG-AGAAGAAAAAAGAAAGAAAAAGA
1 GGAGAAGGGGGAAAAAAAAGAAAGAAGAAGAA-AGG-AAGGAAGGAGAAAAAAGAAAGAAAAAGA
37788302 AGGAAAGAAAAGGAAA
64 AGGAAAGAAAAGGAAA
* * *
37788318 TGAGAA--GAGAAAAAAAAG-AAGAAGAAG-AGGGAAGGAAGGA-AAAAAAGGAAA-AAAAAG
1 GGAGAAGGGGGAAAAAAAAGAAAGAAGAAGAAAGGAAGGAAGGAGAAAAAA-GAAAGAAAAAG
37788375 GTAATTTTTA
Statistics
Matches: 122, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
74 15 0.12
75 9 0.07
76 1 0.01
77 9 0.07
78 11 0.09
79 5 0.04
80 47 0.39
81 16 0.13
82 1 0.01
83 8 0.07
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (79 bp):
GGAGAAGGGGGAAAAAAAAGAAAGAAGAAGAAAGGAAGGAAGGAGAAAAAAGAAAGAAAAAGAAG
GAAAGAAAAGGAAA
Found at i:37788343 original size:41 final size:41
Alignment explanation
Indices: 37788177--37788344 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
37788167 GGAAAGAAAG
* * * * *
37788177 AAAGAAAGAAAG-AAAGG-AAGGAAGGAGAGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAATG-AGAAGAGAAAAAAAAGAA
* *
37788217 AAAGAAGGAAAGAAAAGGAAAGGAGAAGGGGGAAAAAAAAG--
1 AAAGAAGGAAAGAAAAGGAAATGAGAA--GAGAAAAAAAAGAA
*
37788258 AAAGAA-G-AAGAAGAGGAAATGAGAAGA-AAAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAA-AAAGAA
37788297 AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAAAGAA
1 AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAAAGAA
*
37788338 GAAGAAG
1 AAAGAAG
37788345 AGGGAAGGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
36 5 0.05
37 5 0.05
39 22 0.20
40 13 0.12
41 45 0.42
42 9 0.08
43 9 0.08
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (41 bp):
AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAAAGAA
Found at i:37789125 original size:27 final size:27
Alignment explanation
Indices: 37789095--37789150 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
37789085 AAAGAGGGTG
* *
37789095 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
37789122 ATGGAGAGGAATAAAAAGGCAGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
37789149 AT
1 AT
37789151 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.32, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCAGCACCA
Found at i:37790637 original size:7 final size:7
Alignment explanation
Indices: 37790625--37790663 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
37790615 TAATATATTG
37790625 CCTAAAC
1 CCTAAAC
37790632 CCTAAAC
1 CCTAAAC
*
37790639 CCTAAAT
1 CCTAAAC
37790646 CCTAAAC
1 CCTAAAC
37790653 CCTAAAC
1 CCTAAAC
37790660 CCTA
1 CCTA
37790664 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:37794107 original size:18 final size:18
Alignment explanation
Indices: 37794084--37794128 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
37794074 ATCCCAATGA
37794084 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
37794102 TCGCCACCATCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
37794120 TCACCACCA
1 TCGCCACCA
37794129 ACCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.49, G:0.04, T:0.31
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:37795081 original size:19 final size:21
Alignment explanation
Indices: 37795054--37795092 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
37795044 ACTAAAACAA
*
37795054 AAAATAAT-ACAA-AATATAC
1 AAAACAATAACAACAATATAC
37795073 AAAACAATAACAACAATATA
1 AAAACAATAACAACAATATA
37795093 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAACAACAATATAC
Found at i:37795140 original size:13 final size:11
Alignment explanation
Indices: 37795115--37795156 Score: 61
Period size: 10 Copynumber: 4.0 Consensus size: 11
37795105 TAAAAAAATA
37795115 TCTTCTTTTTC
1 TCTTCTTTTTC
*
37795126 TCTTCTCTTTC
1 TCTTCTTTTTC
37795137 TC-TCTTTTTC
1 TCTTCTTTTTC
37795147 TCTT-TTTTTC
1 TCTTCTTTTTC
37795157 CGCAACTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:37795279 original size:27 final size:27
Alignment explanation
Indices: 37795249--37795308 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
37795239 CCAATCAGTA
*
37795249 TGGCACCATTGGTGCCACCAATAACTT
1 TGGCACCATTGGTGCCACCAATAACCT
* * *
37795276 TGGCACCTTTGGTGCCGCCAATCACCT
1 TGGCACCATTGGTGCCACCAATAACCT
37795303 TGGCAC
1 TGGCAC
37795309 GACCAGGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (27 bp):
TGGCACCATTGGTGCCACCAATAACCT
Found at i:37795418 original size:27 final size:27
Alignment explanation
Indices: 37795366--37795455 Score: 164
Period size: 27 Copynumber: 3.4 Consensus size: 27
37795356 TTTTTTGGGT
37795366 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
*
37795392 ATATATTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
37795419 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
37795446 ATATTTTGGT
1 ATATTTTGGT
37795456 TATTTTTATT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 20 0.33
27 41 0.67
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:37796743 original size:105 final size:104
Alignment explanation
Indices: 37796479--37796910 Score: 550
Period size: 104 Copynumber: 4.2 Consensus size: 104
37796469 TAAATTAAAT
*
37796479 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
37796544 AAAATAACTAT-AAATTATTATTTTTTAAAA-TACATTAC
66 AAAATAACTATAAAATTATT-TTTTTTAAAATTACATTAC
37796582 TAAAAAATCACAAAAACACTAAACTAAAC-CTTAACAATTTATATAACCTAATCATAAATTACTA
1 TAAAAAATCAC-AAAACACTAAACTAAACAC-TAACAATTTATATAACCTAATCATAAATTACTA
37796646 ACAAAATAACTATAAAATTATTTTTTTTAAAATTACATTAC
64 ACAAAATAACTATAAAATTATTTTTTTTAAAATTACATTAC
* *
37796687 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAA-TT-TATAACCTAATCCCATAAATTACT
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACT
* ****
37796750 AACAAAATAAATAATTATAACATT-TTTTAAAAATAAATTACATTAC
63 AACAAAATAACT-A-TA-AA-ATTATTTTTTTTA-AAATTACATTAC
* * *
37796796 TAAAAAATAACAAAAGAC---A--AAACACTAACAA-TT-TATAACCTAATCATAAACTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
37796854 AAAATAACTATAAAATTA-TTTTTTTAAAATTTACATTAC
66 AAAATAACTATAAAATTATTTTTTTTAAAA-TTACATTAC
*
37796893 TAAAAACTCACAAAACAC
1 TAAAAAATCACAAAACAC
37796911 AACAATTTAT
Statistics
Matches: 293, Mismatches: 21, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
96 3 0.01
97 31 0.11
98 2 0.01
99 2 0.01
100 1 0.00
101 21 0.07
103 47 0.16
104 74 0.25
105 61 0.21
106 12 0.04
107 2 0.01
108 21 0.07
109 16 0.05
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (104 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACTATAAAATTATTTTTTTTAAAATTACATTAC
Found at i:37796894 original size:206 final size:204
Alignment explanation
Indices: 37796479--37796910 Score: 571
Period size: 206 Copynumber: 2.1 Consensus size: 204
37796469 TAAATTAAAT
37796479 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
* *
37796544 AAAATAACTATAAATTATTATTTTTTAAAATACATTACTAAAAAATCACAAAAACACTAAACTAA
66 AAAATAAC-ATAAATTATCATTTTTTAAAATACATTACTAAAAAATAACAAAAACAC-AAAC--A
*
37796609 ACCTTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
127 ACCTTAACAATTTATATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTTT
37796674 AAAATTACATTAC
192 AAAATTACATTAC
* * *
37796687 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAA-TT-TATAACCTAATCCCATAAATTACT
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAAT--CATAAATTACT
37796750 AACAAAATAA-AT-AATTATAACATTTTTTAAAAATAAATTACATTACTAAAAAATAACAAAAGA
63 AACAAAATAACATAAATTAT--CATTTTTT----A-AAA-TACATTACTAAAAAATAACAAAA-A
37796813 CA-AAAC-A-C-TAACAA-TT-TATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTA
119 CACAAACAACCTTAACAATTTATATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTA
37796872 -TTTTTTTAAAATTTACATTAC
184 TTTTTTTTAAAA-TTACATTAC
*
37796893 TAAAAACTCACAAAACAC
1 TAAAAAATCACAAAACAC
37796911 AACAATTTAT
Statistics
Matches: 203, Mismatches: 8, Indels: 29
0.85 0.03 0.12
Matches are distributed among these distances:
205 26 0.13
206 58 0.29
207 14 0.07
208 16 0.08
209 55 0.27
210 1 0.00
212 1 0.00
213 7 0.03
214 22 0.11
215 3 0.01
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (204 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
AAAATAACATAAATTATCATTTTTTAAAATACATTACTAAAAAATAACAAAAACACAAACAACCT
TAACAATTTATATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTTTAAAA
TTACATTAC
Found at i:37796959 original size:72 final size:72
Alignment explanation
Indices: 37796883--37797047 Score: 294
Period size: 72 Copynumber: 2.3 Consensus size: 72
37796873 TTTTTTAAAA
* *
37796883 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATCGCTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAACTTATAATAAATCACTAACAAAATATTTAACA
37796948 AAATAAT
66 AAATAAT
*
37796955 TTTACATTACTAAAAACTCACAAAACACAACAACTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAACTTATAATAAATCACTAACAAAATATTTAACA
37797020 AAATAAT
66 AAATAAT
*
37797027 TTTACATTACTAAAAAATCAC
1 TTTACATTACTAAAAACTCAC
37797048 CAAATACTAA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 89 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAACTTATAATAAATCACTAACAAAATATTTAACA
AAATAAT
Found at i:37797305 original size:3 final size:3
Alignment explanation
Indices: 37797297--37797359 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
37797287 TTTCCTTTCT
*
37797297 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37797345 TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC T
37797360 CATTTCTCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:37797740 original size:24 final size:23
Alignment explanation
Indices: 37797693--37797739 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37797683 CCCAATATAT
37797693 ATAAAAATATTTTTTAAAATAAA
1 ATAAAAATATTTTTTAAAATAAA
* * *
37797716 ATAATAATATTTTTTTAAGTAAA
1 ATAAAAATATTTTTTAAAATAAA
37797739 A
1 A
37797740 AATTCTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAAAAATATTTTTTAAAATAAA
Found at i:37797909 original size:6 final size:6
Alignment explanation
Indices: 37797898--37797945 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
37797888 AGAAAAATTA
* *
37797898 TATTTT TATTTT TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
37797946 AATGTCTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (6 bp):
TATTTC
Found at i:37799927 original size:20 final size:19
Alignment explanation
Indices: 37799898--37799936 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
37799888 TAGAAATAAC
37799898 TTTTAAGATTAGATTTGTG
1 TTTTAAGATTAGATTTGTG
37799917 TTTTGAAGATTAGATTTGTG
1 TTTT-AAGATTAGATTTGTG
37799937 CTTAAGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (19 bp):
TTTTAAGATTAGATTTGTG
Found at i:37802812 original size:45 final size:44
Alignment explanation
Indices: 37802755--37803091 Score: 141
Period size: 44 Copynumber: 7.7 Consensus size: 44
37802745 TTAATCTGTT
* * *
37802755 TCACTACAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTGCC
1 TCACTGCAACTTCAGGGAGATAAGACTTGCTCA-ATT-AGTCTGCC
* *
37802800 TCGCTGCAACTTCA-GGAGGATAAGACTTGCTCAATTAGTCTGCT
1 TCACTGCAACTTCAGGGA-GATAAGACTTGCTCAATTAGTCTGCC
* * **
37802844 TCACTGCAACTTCAGGAAGATAAGACTAG----ATGCGATCTG-C
1 TCACTGCAACTTCAGGGAGATAAGACTTGCTCAATTAG-TCTGCC
* * * * * ** *
37802884 TCTCTGCAACTTCAGAGAGATAAGATCTAAGGT--TTTAACCCG-C
1 TCACTGCAACTTCAGGGAGATAAGA-CT-TGCTCAATTAGTCTGCC
* * ** * *
37802927 TCTACTGCAACTTCAGGTAGATAGGA-TTG-TCGGCTTTAATTTG-C
1 TC-ACTGCAACTTCAGGGAGATAAGACTTGCTC--AATTAGTCTGCC
* * *
37802971 TCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAATCTGCC
1 T-CACTGCAACTTCAGGGAGATAAGACTTGCTCA-ATT-AGTCTGCC
* * * * *
37803017 TCACTGCAACTTTA-GGAGGATAAGACCTGCTTACTTAGTCTG-T
1 TCACTGCAACTTCAGGGA-GATAAGACTTGCTCAATTAGTCTGCC
*
37803060 TCCACTGCAACTTCAGGGAGATAGGAC-TGCTC
1 T-CACTGCAACTTCAGGGAGATAAGACTTGCTC
37803092 TCTGCAATCT
Statistics
Matches: 227, Mismatches: 42, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
40 26 0.11
41 7 0.03
42 3 0.01
43 10 0.04
44 111 0.49
45 65 0.29
46 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
TCACTGCAACTTCAGGGAGATAAGACTTGCTCAATTAGTCTGCC
Found at i:37802855 original size:44 final size:45
Alignment explanation
Indices: 37802749--37802870 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 45
37802739 TCGGCTTTAA
* * * *
37802749 TCTGTTTCACTACAACTTCAGG-GAGATAAGATTTGCCATCTTCAG
1 TCTGCTTCACTGCAACTTCAGGAG-GATAAGACTTGCCATATTCAG
* *
37802794 TCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTCA-ATT-AG
1 TCTGCTTCACTGCAACTTCAGGAGGATAAGACTTGC-CATATTCAG
*
37802838 TCTGCTTCACTGCAACTTCAGGAAGATAAGACT
1 TCTGCTTCACTGCAACTTCAGGAGGATAAGACT
37802871 AGATGCGATC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
44 32 0.48
45 31 0.47
46 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGCTTCACTGCAACTTCAGGAGGATAAGACTTGCCATATTCAG
Found at i:37802892 original size:217 final size:215
Alignment explanation
Indices: 37802480--37803247 Score: 949
Period size: 217 Copynumber: 3.6 Consensus size: 215
37802470 AATTTAGTGC
* * * * *
37802480 TTTAATCCACTCCATTGCAATTTCAGGGAGATATGATTATCGGCTTTAATCTACTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCA-GGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
* ** * * *
37802545 TTCAGGGAGATAAGACTAGATGTGATCTTCAGTCTGCCTCACTGCAACTTGAAGATGATAAGACC
65 TTCAGGGAGATAAGA-T--TTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACC
* * *
37802610 TGCTTACTTAGTCTGCTCCACTGTAACCTT-AGGGAGATAAGACTAGATACGATCTGCTCTCTGC
127 TGCTTACTTAGTCTGCTTCACTGCAA-CTTCA-GGAGATAAGACTAGATGCGATCTGCTCTCTGC
*
37802674 AACTTCAGAGAGATAAGATCTAAAGT
190 AACTTCAGAGAGATAAGATCTAAGGT
* * * * * *
37802700 TTTGATCCGCTCCACTGTAACTTCAAGGAGATGGGATTATCGGCTTTAATCTGTTTCACTACAAC
1 TTTAATCCGCTCCACTGCAACTTC-AGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
* *
37802765 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGC
65 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACCTGC
* *
37802830 TCAATTAGTCTGCTTCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACT
130 TTACTTAGTCTGCTTCACTGCAACTTCAGG-AGATAAGACTAGATGCGATCTGCTCTCTGCAACT
37802895 TCAGAGAGATAAGATCTAAGGT
194 TCAGAGAGATAAGATCTAAGGT
* * * *
37802917 TTTAACCCGCTCTACTGCAACTTCAGGTAGATAGGATTGTCGGCTTTAATTTGCTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGG-AGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
* *
37802982 TTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTTAGGAGGATAAGACCTGC
65 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACCTGC
37803047 TTACTTAGTCTG-TTCCACTGCAACTTCAGG-G---AGA-T--A-G-GA-CTGCTCTCTGCAATC
130 TTACTTAGTCTGCTT-CACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA-C
*
37803101 TTTAGAGAGATAAGATCTAAGGT
193 TTCAGAGAGATAAGATCTAAGGT
* * * *
37803124 TTTAATCCGCT-CACTACAACTTCAGCAAGATAGGATTACCGGCTTTAATCTGCTCCACTGCATC
1 TTTAATCCGCTCCACTGCAACTTCAG-GAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
*
37803188 TTCAGGGAGATAAGATTTGCC-TACTT-AGTCTG-TTCCACTGCAACTTCAGG-GAGATAAGAC
65 TTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGAC
37803248 TCGATCTGTT
Statistics
Matches: 485, Mismatches: 53, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
204 2 0.00
205 28 0.06
206 82 0.17
207 35 0.07
208 1 0.00
209 1 0.00
211 1 0.00
212 3 0.01
215 1 0.00
216 10 0.02
217 252 0.52
219 1 0.00
220 67 0.14
221 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (215 bp):
TTTAATCCGCTCCACTGCAACTTCAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACT
TCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACCTGCT
TACTTAGTCTGCTTCACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTC
AGAGAGATAAGATCTAAGGT
Found at i:37803199 original size:44 final size:45
Alignment explanation
Indices: 37803124--37803246 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 45
37803114 GATCTAAGGT
* * ** * *
37803124 TTTAATCCGCT-CACTACAACTTCAGCAAGATAGGA-TTACCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCGAC
* * *
37803167 TTTAATCTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCCTAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCGAC
* *
37803212 -TTAGTCTGTTCCACTGCAACTTCAGGGAGATAAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
37803247 CTCGATCTGT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 10 0.15
44 51 0.77
45 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCGAC
Found at i:37824881 original size:146 final size:144
Alignment explanation
Indices: 37824617--37825050 Score: 769
Period size: 146 Copynumber: 3.0 Consensus size: 144
37824607 GAATCTCTAC
* *
37824617 TCTTTGCATGTCTGTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAA
1 TCTTTGCATGTC--TGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAA
37824682 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
64 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
37824747 AAACGGGAAATTGTAT
129 AAACGGGAAATTGTAT
37824763 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGGGTGATAGAATATAAAA
1 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCA--GTGATAGAATATAAAA
* *
37824828 ACACTGCAATTTCTATTAGACATGAAATTTTGTTCATAACCACGAGTATTAAGCTGACCAACAAG
64 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
37824893 AAACGGGAAATTGTAT
129 AAACGGGAAATTGTAT
37824909 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
1 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
* *
37824974 AGTGCAATTTCTATTAGACATGGAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
66 AATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
*
37825039 ACGGTAAATTGT
131 ACGGGAAATTGT
37825051 GTTTTTGAGC
Statistics
Matches: 278, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
144 124 0.45
146 154 0.55
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (144 bp):
TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
AATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
ACGGGAAATTGTAT
Found at i:37825809 original size:3 final size:3
Alignment explanation
Indices: 37825803--37825829 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37825793 CCACCACCAC
37825803 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
37825830 TTATTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:37830038 original size:83 final size:83
Alignment explanation
Indices: 37829954--37830181 Score: 227
Period size: 84 Copynumber: 2.7 Consensus size: 83
37829944 AATTATATCA
* * *
37829954 AAATAAAATC-TATTAAACGGCGGAAATAAATCCCGAAACATAATTATTTGA-TTACA-TCTTTA
1 AAATAAAATCTTGTTAAACGGCGGAAATAAATCCCGAAACATAATTATTTAATTTA-ATTC-TAA
*
37830016 TTT-GAAAACAAAATAAAATC
64 TTTAG-AAACAAAACAAAATC
* * *
37830036 AAATAAAATCTTGTTAAATGGCGTG-AATAAAT-CCAAGAACATATTTTATTTAATTTAATTCTA
1 AAATAAAATCTTGTTAAACGGCG-GAAATAAATCCCGA-AACATA-ATTATTTAATTTAATTCTA
37830099 ATTTAGAAACAAAACAAAATC
63 ATTTAGAAACAAAACAAAATC
** *
37830120 AAATAAAATCTTGTTAAACTAC-GAGAATAAATCCCGAAACAAAATTTTATTTAATTTTAATT
1 AAATAAAATCTTGTTAAACGGCGGA-AATAAATCCCGAAACATAA--TTATTTAA-TTTAATT
37830182 TCTCATTTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 22
0.77 0.08 0.14
Matches are distributed among these distances:
82 14 0.12
83 23 0.19
84 59 0.49
85 17 0.14
86 7 0.06
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (83 bp):
AAATAAAATCTTGTTAAACGGCGGAAATAAATCCCGAAACATAATTATTTAATTTAATTCTAATT
TAGAAACAAAACAAAATC
Found at i:37830121 original size:84 final size:86
Alignment explanation
Indices: 37830021--37830181 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 86
37830011 CTTTATTTGA
* * * *
37830021 AAACAAAATAAAATCAAATAAAATCTTGTTAAA-TGGCGTGAATAAATCCA-AGAAC-ATATTTT
1 AAACAAAACAAAATCAAATAAAATCTTGTTAAACT-ACGAGAATAAATCCAGA-AACAAAATTTT
37830083 ATTTAA-TTTAATTCTAATTTAG
64 ATTTAATTTTAATTCTAATTTAG
*
37830105 AAACAAAACAAAATCAAATAAAATCTTGTTAAACTACGAGAATAAATCCCGAAACAAAATTTTAT
1 AAACAAAACAAAATCAAATAAAATCTTGTTAAACTACGAGAATAAATCCAGAAACAAAATTTTAT
37830170 TTAATTTTAATT
66 TTAATTTTAATT
37830182 TCTCATTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
84 47 0.69
85 14 0.21
86 7 0.10
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (86 bp):
AAACAAAACAAAATCAAATAAAATCTTGTTAAACTACGAGAATAAATCCAGAAACAAAATTTTAT
TTAATTTTAATTCTAATTTAG
Found at i:37830318 original size:86 final size:86
Alignment explanation
Indices: 37830144--37830403 Score: 333
Period size: 86 Copynumber: 3.0 Consensus size: 86
37830134 TAAACTACGA
* * ** *
37830144 GAATAAATCCCGAAACAAAATTTTATTTAATTTTAATTTCTCATTTTTGGAAATAAAATAAAAAT
1 GAATCAATCCCGAAA-TAAATTTTATTTACCTTTAATTTC-CA-GTTTGGAAATAAAATAAAAA-
* *
37830209 TTGGAATAAAATCGTTGAACGGAGG
62 ATAGAATAAAATCGTTGAACGGAGG
37830234 GAATCAATCCCGAAATAAATTTTATTTACCTTTAATTTCCAGTTTGGAAATAAAATAAAAAATAG
1 GAATCAATCCCGAAATAAATTTTATTTACCTTTAATTTCCAGTTTGGAAATAAAATAAAAAATAG
37830299 AATAAAATCGTTGAACGGAGG
66 AATAAAATCGTTGAACGGAGG
* * * * * *
37830320 GAATCAATCCCGAAATAGATTTTATTTACCTTTAATCTCCCGTTTAGAAAT-AAATAAAATAGAG
1 GAATCAATCCCGAAATAAATTTTATTTACCTTTAATTTCCAGTTTGGAAATAAAATAAAAAATA-
*
37830384 GAAAAAAATCTGTTGAACGG
65 GAATAAAATC-GTTGAACGG
37830404 CAGAAAAAAT
Statistics
Matches: 154, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
85 10 0.06
86 79 0.51
87 28 0.18
88 2 0.01
89 21 0.14
90 14 0.09
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (86 bp):
GAATCAATCCCGAAATAAATTTTATTTACCTTTAATTTCCAGTTTGGAAATAAAATAAAAAATAG
AATAAAATCGTTGAACGGAGG
Found at i:37830420 original size:86 final size:85
Alignment explanation
Indices: 37830148--37830432 Score: 254
Period size: 86 Copynumber: 3.3 Consensus size: 85
37830138 CTACGAGAAT
* * ** * * * *
37830148 AAATCCCGAAACAAAATTTTATTTAATTTTAATTTCTCATTTTTGGAAATAAAATAAAAATTTG-
1 AAATCCCGAAA-TAGATTTTATTTACCTTTAATCTC-CA-GTTTAGAAATAAAATAAAAA--AGA
* *
37830212 GAATAAAATCGTTGAACGGAGGGAAT
61 GAAAAAAATCGTTGAACGGA-GGAAA
* * * * * *
37830238 CAATCCCGAAATAAATTTTATTTACCTTTAATTTCCAGTTTGGAAATAAAATAAAAAATAGAATA
1 AAATCCCGAAATAGATTTTATTTACCTTTAATCTCCAGTTTAGAAATAAAATAAAAAAGAGAAAA
*
37830303 AAATCGTTGAACGGAGGGAAT
66 AAATCGTTGAACGGA-GGAAA
* * *
37830324 CAATCCCGAAATAGATTTTATTTACCTTTAATCTCCCGTTTAGAAAT-AAATAAAATAGAGGAAA
1 AAATCCCGAAATAGATTTTATTTACCTTTAATCTCCAGTTTAGAAATAAAATAAAAAAGA-GAAA
37830388 AAAATCTGTTGAACGGCA-GAAA
65 AAAATC-GTTGAACGG-AGGAAA
* *
37830410 AAATCTCGAAACAGA-TTTATTTA
1 AAATCCCGAAATAGATTTTATTTA
37830433 ATTAAAAAAA
Statistics
Matches: 173, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
85 18 0.10
86 93 0.54
87 28 0.16
88 3 0.02
89 21 0.12
90 10 0.06
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (85 bp):
AAATCCCGAAATAGATTTTATTTACCTTTAATCTCCAGTTTAGAAATAAAATAAAAAAGAGAAAA
AAATCGTTGAACGGAGGAAA
Found at i:37831551 original size:24 final size:23
Alignment explanation
Indices: 37831510--37831554 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
37831500 CACGTTAGCG
37831510 AACAAAATATATAAATATAAAGA
1 AACAAAATATATAAATATAAAGA
* *
37831533 AACAAATATTTATATATATAAA
1 AACAAA-ATATATAAATATAAA
37831555 ATAAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AACAAAATATATAAATATAAAGA
Found at i:37836925 original size:18 final size:18
Alignment explanation
Indices: 37836904--37836940 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37836894 TGAGTTTTCG
37836904 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
37836922 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
37836940 A
1 A
37836941 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:37837187 original size:30 final size:31
Alignment explanation
Indices: 37837153--37837212 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
37837143 AAATCTTTTA
*
37837153 TTTTCCCCCAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
* *
37837183 TTTTCCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCA
37837213 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
Found at i:37837317 original size:17 final size:17
Alignment explanation
Indices: 37837290--37837347 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
37837280 ACTCCCCCTA
37837290 TTTACTTTCCCTCAAACT
1 TTTA-TTTCCCTCAAACT
*
37837308 TTTATTTCCC-AAAACTT
1 TTTATTTCCCTCAAAC-T
*
37837325 TTTATTTTCCTCCTAAACT
1 TTTATTTCCCT-C-AAACT
37837344 TTTA
1 TTTA
37837348 CTTCTCACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
18 4 0.12
19 5 0.15
20 4 0.12
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTTCCCTCAAACT
Found at i:37838984 original size:17 final size:19
Alignment explanation
Indices: 37838964--37839013 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
37838954 ATTTATTAAA
37838964 TAAATTAATTTT-TCAAT-
1 TAAATTAATTTTCTCAATC
37838981 TAAA-TAATTTTCTCAATC
1 TAAATTAATTTTCTCAATC
*
37838999 TAATTCTAATTTTCT
1 TAAAT-TAATTTTCT
37839014 TAAAGTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 9 0.32
18 3 0.11
20 9 0.32
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTAATTTTCTCAATC
Found at i:37849408 original size:25 final size:24
Alignment explanation
Indices: 37849327--37849448 Score: 104
Period size: 25 Copynumber: 4.9 Consensus size: 24
37849317 AATCTTATGG
37849327 AAAGCCTTTGTGGCGTATTATCTAA
1 AAAGCCTTTGTGGCGTATTAT-TAA
* * *
37849352 AAATCCATTGTGGC-TAATATTATGA
1 AAAGCCTTTGTGGCGTATTATTA--A
37849377 AAAGCCTTTGTGGCGTATTATGTAA
1 AAAGCCTTTGTGGCGTATTAT-TAA
** * *
37849402 AAAGCCTTTAAGGC-TAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATTA--A
*
37849427 AAAGCCTTTGTGGTGTATTATT
1 AAAGCCTTTGTGGCGTATTATT
37849449 TGGAATGCCT
Statistics
Matches: 75, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
23 4 0.05
24 9 0.12
25 50 0.67
26 10 0.13
27 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (24 bp):
AAAGCCTTTGTGGCGTATTATTAA
Found at i:37849475 original size:100 final size:100
Alignment explanation
Indices: 37849301--37849497 Score: 252
Period size: 100 Copynumber: 2.0 Consensus size: 100
37849291 GAATTACCTG
** * * *
37849301 AAAAGCCTTTGGGGATAATCTTATGGAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTGTGGC
1 AAAAGCCTTTAAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTATGAC
*
37849366 TAATATTATGAAAAGCCTTTGTGGCGTATTATGTA
66 TAATATTATGAAAAACCTTTGTGGCGTATTATGTA
* * *** *
37849401 AAAAGCCTTTAAGGCTAATCTTATGAAAAGCCTTTGTGGTGTATTAT-TTGGAATGCCTTTATGA
1 AAAAGCCTTTAAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAAT-CCATTATGA
* *
37849465 CTAATCTTATGAAAAACTTTTGTGGCGTATTAT
65 CTAATATTATGAAAAACCTTTGTGGCGTATTAT
37849498 TTGGAAAGAC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 4 0.05
100 78 0.95
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (100 bp):
AAAAGCCTTTAAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTATGAC
TAATATTATGAAAAACCTTTGTGGCGTATTATGTA
Found at i:37849503 original size:50 final size:50
Alignment explanation
Indices: 37849316--37849499 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
37849306 CCTTTGGGGA
* * * *
37849316 TAATCTTATGGAAAGCCTTTGTGGCGTATTATCTAAAAAT-CCATTGTGGC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTAT-TTAAAATGCCTTTATGGC
* * * *
37849366 TAATATTATGAAAAGCCTTTGTGGCGTATTATGTAAAAAGCCTTTAAGGC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTTATGGC
* ** *
37849416 TAATCTTATGAAAAGCCTTTGTGGTGTATTATTTGGAATGCCTTTATGAC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTTATGGC
* *
37849466 TAATCTTATGAAAAACTTTTGTGGCGTATTATTT
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTT
37849500 GGAAAGACTG
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 4 0.04
50 110 0.96
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTTATGGC
Found at i:37861973 original size:12 final size:12
Alignment explanation
Indices: 37861956--37861980 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37861946 CCCATAGCAG
37861956 TTGAGTTGTTCT
1 TTGAGTTGTTCT
37861968 TTGAGTTGTTCT
1 TTGAGTTGTTCT
37861980 T
1 T
37861981 CGCCACATAT
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTGAGTTGTTCT
Found at i:37862973 original size:65 final size:67
Alignment explanation
Indices: 37862896--37863023 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
37862886 TATCGATACT
* * *
37862896 TTTAAATA-TTTTT-CACATATATATTTATAATCTAATTTTTAGTTTCATGATAAATTATATAAA
1 TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATAAA
37862959 CA
66 CA
* * * *
37862961 TTTAAATGTTTTTTACACACACATATTTATAGTTTAATTTTTAGTTTCTTAATAAATTATATA
1 TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATA
37863024 TTATTTTGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 7 0.13
66 5 0.09
67 42 0.78
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (67 bp):
TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATAAA
CA
Found at i:37872758 original size:15 final size:15
Alignment explanation
Indices: 37872740--37872774 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
37872730 TGGTTTAAAT
37872740 TTATATATTATCATC
1 TTATATATTATCATC
*
37872755 TTATATATTATTATC
1 TTATATATTATCATC
37872770 -TATAT
1 TTATAT
37872775 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:37879103 original size:87 final size:87
Alignment explanation
Indices: 37878957--37879471 Score: 604
Period size: 87 Copynumber: 5.9 Consensus size: 87
37878947 TCAGTGAAAA
* *
37878957 ATCGAAAAGAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
37879022 TCCTGCGTTAACAGTGGAGCAG
66 TCCTGCATTAACAGTGAAGCAG
* *
37879044 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* * *
37879109 TCATGCATTAACAGCGAAGTAG
66 TCCTGCATTAACAGTGAAGCAG
* * * *
37879131 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTAGTTAAAGATAGCAAATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
** * *
37879196 TCCTGTGTTAATAGTGGAGCAG
66 TCCTGCATTAACAGTGAAGCAG
* *
37879218 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
1 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
**
37879283 TCCTGCATTAACAGCAAAGCAG
66 TCCTGCATTAACAGTGAAGCAG
* * * ** * * *
37879305 ATCGAAGACACAAACCTTACCTCTC-TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGC
1 ATCGAAAACA-AAACCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
37879369 CTTCCTGCATTAACA-TCGAAGCAG
64 CTTCCTGCATTAACAGT-GAAGCAG
* * * ** * * * *
37879393 ATCGAAGACACAAACCTTGCCTCTC-TCGGGTGTAGCAGAGCTGGTTGAAGACAACAGATATTGC
1 ATCGAAAACA-AAACCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
37879457 CCTCCTGCATCAACA
64 CTTCCTGCATTAACA
37879472 ACAGAGCAGG
Statistics
Matches: 378, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
87 237 0.63
88 140 0.37
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
TCCTGCATTAACAGTGAAGCAG
Found at i:37879445 original size:43 final size:43
Alignment explanation
Indices: 37879308--37879445 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
37879298 AAAGCAGATC
* *
37879308 GAAGACACAAACCTTACCTCTCTCGGTTGTAGCAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
* * * * * * *
37879351 GAAGACAACAGATCTTGCCT-TC-CTGCAT-TAACATCGAAGCAGATC
1 GAAGAC-ACAAACCTTGCCTCTCTC-GGATGTAGCA--G-AGCTGGTT
*
37879396 GAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
37879439 GAAGACA
1 GAAGACA
37879446 ACAGATATTG
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 22 0.31
44 23 0.33
45 15 0.21
46 5 0.07
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
Found at i:37879712 original size:40 final size:40
Alignment explanation
Indices: 37879584--37879737 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
37879574 AGATTACGGA
* * *
37879584 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAG
* ** * * *
37879624 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAACCA-AG
* **
37879667 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGTACCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAG
*
37879708 TCTTATCTCCCTAAGCAGTGGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
37879738 CGAAAAAAAA
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 39 0.43
41 15 0.17
42 10 0.11
43 15 0.17
44 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAG
Found at i:37881387 original size:15 final size:15
Alignment explanation
Indices: 37881369--37881403 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
37881359 TGGTTTAAAT
37881369 TTATATATTATCATC
1 TTATATATTATCATC
*
37881384 TTATATATTATTATC
1 TTATATATTATCATC
37881399 -TATAT
1 TTATAT
37881404 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:37882270 original size:107 final size:106
Alignment explanation
Indices: 37882097--37882294 Score: 315
Period size: 107 Copynumber: 1.9 Consensus size: 106
37882087 ATGTTTTGCT
* * **
37882097 TTTGGAAAATCGAGAAAACGTGCTCTAACGTGCTGGGTTTCGATTTCTCGTTTGACTAAATAGCC
1 TTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCGTTCAACTAAATAGCC
* *
37882162 AAATATCCTTTTTAAACTTTTAAAGTAAAGCAATATTTCGCG
66 AAATATCCTCTTAAAAC-TTTAAAGTAAAGCAATATTTCGCG
* *
37882204 TTTGGAAAATCGAGAAAACGTGCCCTAATGTGCTAGTTTTCGATTTCTCGTTCAACTAAATAGCC
1 TTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCGTTCAACTAAATAGCC
37882269 AAATATCCTCTTAAAACTTTAAAGTA
66 AAATATCCTCTTAAAACTTTAAAGTA
37882295 TGGTTTCATT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
106 9 0.11
107 74 0.89
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (106 bp):
TTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCGTTCAACTAAATAGCC
AAATATCCTCTTAAAACTTTAAAGTAAAGCAATATTTCGCG
Found at i:37883065 original size:13 final size:13
Alignment explanation
Indices: 37883049--37883073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37883039 TAATACATAT
37883049 TTTTAAAAAAATA
1 TTTTAAAAAAATA
37883062 TTTTAAAAAAAT
1 TTTTAAAAAAAT
37883074 CTAGATACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:37892768 original size:30 final size:30
Alignment explanation
Indices: 37892681--37892768 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
37892671 TGAGGTGATC
*
37892681 CACACGGCCTAGAGACATAG-CTGTGTGGCA
1 CACACGGCCTAGAGACATAGTC-GTGTGACA
* * * *
37892711 CGCACGGCTTGGAGACAT-GATCATGTGACA
1 CACACGGCCTAGAGACATAG-TCGTGTGACA
*
37892741 TACACGGCCTAGAGACATAGTCGTGTGA
1 CACACGGCCTAGAGACATAGTCGTGTGA
37892769 GTACTGGAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
29 1 0.02
30 42 0.93
31 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (30 bp):
CACACGGCCTAGAGACATAGTCGTGTGACA
Found at i:37893515 original size:3 final size:3
Alignment explanation
Indices: 37893501--37893625 Score: 61
Period size: 3 Copynumber: 43.3 Consensus size: 3
37893491 TATTTCATAT
* * * * *
37893501 TTA TTT TTA TTA TTA ATA CTT- TTA TTA TT- TT- TTA TTT TTC CT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
37893543 TTA TT- TTA TTA TTA TTA GT- TTA TTA TCA TTAA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * *
37893586 TTC TTA TGA TTC TTA TTA TTA TT- TTCA TT- TTCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT-A TTA TTA T
37893626 CGTTGTTCTG
Statistics
Matches: 92, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
2 16 0.17
3 68 0.74
4 8 0.09
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37895347 original size:6 final size:6
Alignment explanation
Indices: 37895338--37895419 Score: 110
Period size: 6 Copynumber: 13.7 Consensus size: 6
37895328 CTGATTTTGG
* *
37895338 TTTTAT TTTTAC TTTTAC TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* ** *
37895386 TTTCAT TTTTAT TTTTGC TTTTAG TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
37895420 TTCTTAGACT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:37898609 original size:27 final size:26
Alignment explanation
Indices: 37898568--37898738 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 26
37898558 GAGAGGTCAA
*
37898568 TAAAATGACCAAAATACTCCCATAGGG
1 TAAAATGA-CGAAATACTCCCATAGGG
* *
37898595 TAAATTGATCGAAATACTCCCATAGGA
1 TAAAATGA-CGAAATACTCCCATAGGG
*
37898622 TAAAATGACTGAAATACAT-TCATAGGG
1 TAAAATGAC-GAAATAC-TCCCATAGGG
*
37898649 TAAAATGACCGAAATAC-CCCTATAGGT
1 TAAAATGA-CGAAATACTCCC-ATAGGG
* *
37898676 TAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGAC-GAAATACTCCCATAGGG
*
37898703 TAGAATGATCGAAATAC-CCTCATAGGG
1 TAAAATGA-CGAAATACTCC-CATAGGG
37898730 TAAAATGAC
1 TAAAATGAC
37898739 TGTTATACCT
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.05
27 109 0.90
28 6 0.05
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (26 bp):
TAAAATGACGAAATACTCCCATAGGG
Found at i:37898710 original size:81 final size:81
Alignment explanation
Indices: 37898568--37898738 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
37898558 GAGAGGTCAA
* * *
37898568 TAAAATGACCAAAATACTCCCATAGGGTAAATTGATCGAAATACTCCCATAGGATAAAATGA-CT
1 TAAAATGACCAAAATACTCCCATAGGGTAAAATGATCAAAATACCCCCATAGGATAAAATGATC-
*
37898632 GAAATACATTCATAGGG
65 GAAATACACTCATAGGG
* * * *
37898649 TAAAATGACCGAAATAC-CCCTATAGGTTAAAATGA-CTAAAATACCCCCATAGGGTAGAATGAT
1 TAAAATGACCAAAATACTCCC-ATAGGGTAAAATGATC-AAAATACCCCCATAGGATAAAATGAT
*
37898712 CGAAATACCCTCATAGGG
64 CGAAATACACTCATAGGG
37898730 TAAAATGAC
1 TAAAATGAC
37898739 TGTTATACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.05
81 73 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (81 bp):
TAAAATGACCAAAATACTCCCATAGGGTAAAATGATCAAAATACCCCCATAGGATAAAATGATCG
AAATACACTCATAGGG
Found at i:37898747 original size:54 final size:52
Alignment explanation
Indices: 37898567--37898740 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 52
37898557 CGAGAGGTCA
** *
37898567 ATAAAATGACCAAAATACTCCCATAGGGTAAATTGATCGAAATACTCCCATAGG
1 ATAAAATGACTGAAATACCCCCATAGGGTAAA-TGATCGAAATAC-CCCATAGG
*** *
37898621 ATAAAATGACTGAAATACATTCATAGGGTAAAATGACCGAAATACCCCTATAGG
1 ATAAAATGACTGAAATACCCCCATAGGGT-AAATGATCGAAATACCCC-ATAGG
* *
37898675 TTAAAATGACTAAAATACCCCCATAGGGTAGAATGATCGAAATACCCTCATAGG
1 ATAAAATGACTGAAATACCCCCATAGGGTA-AATGATCGAAATACCC-CATAGG
*
37898729 GTAAAATGACTG
1 ATAAAATGACTG
37898741 TTATACCTCT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
53 4 0.04
54 94 0.92
55 4 0.04
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (52 bp):
ATAAAATGACTGAAATACCCCCATAGGGTAAATGATCGAAATACCCCATAGG
Found at i:37927690 original size:11 final size:11
Alignment explanation
Indices: 37927674--37927700 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37927664 GGGTGGCAAT
37927674 AGAAATTTGAG
1 AGAAATTTGAG
37927685 AGAAATTTGAG
1 AGAAATTTGAG
37927696 AGAAA
1 AGAAA
37927701 AAGTGAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (11 bp):
AGAAATTTGAG
Done.