Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 161 of 175
Found at i:48409834 original size:59 final size:58
Alignment explanation
Indices: 48409735--48409847 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
48409725 ATGTTTTGTA
* * * * *
48409735 AACATTACAAATATTGTAATAATTTTTTGTTATTGGGTAATATTTTGTGTAATTACAC
1 AACATTACAAAAATTGTAATAATTTTATATAATTGAGTAATATTTTGTGTAATTACAC
* *
48409793 AACATTACAAAAAATTGTAAATAA-TTTATATAATTGAGTAATGTTTTTTGTAATT
1 AACATTAC-AAAAATTGT-AATAATTTTATATAATTGAGTAATATTTTGTGTAATT
48409848 GGGTAATATC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 8 0.17
59 33 0.72
60 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (58 bp):
AACATTACAAAAATTGTAATAATTTTATATAATTGAGTAATATTTTGTGTAATTACAC
Found at i:48414004 original size:4 final size:4
Alignment explanation
Indices: 48413995--48414026 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
48413985 TCAGTTATGC
48413995 TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA
48414027 AAGATTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:48422480 original size:25 final size:25
Alignment explanation
Indices: 48422452--48422504 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
48422442 ATACATCATA
* *
48422452 GCTCACTTGAGCTTCCCAATACTTG
1 GCTCACATGACCTTCCCAATACTTG
* * *
48422477 GCTCTCATGACCTTCCCGATATTTG
1 GCTCACATGACCTTCCCAATACTTG
48422502 GCT
1 GCT
48422505 TGTAAGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (25 bp):
GCTCACATGACCTTCCCAATACTTG
Found at i:48422587 original size:75 final size:75
Alignment explanation
Indices: 48422471--48422609 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 75
48422461 AGCTTCCCAA
* * * *
48422471 TACTTGGCTCTCATGACCTTCCCGATATTTGGCTTGTAAGAGCTTCCCAATATACA-GCTTGTAT
1 TACTTAGCTCACATGACCTTCCCGATATATGGCTTGGAAGAGCTTCCC-ATATACATGCTTGTAT
48422535 GAGCTTTCCGT
65 GAGCTTTCCGT
* *
48422546 TACTTAGCTCACATGAGCC-TCCCGTTATATGGCTTGGAAGAGCTTCCCATTTACATGCTTGTAT
1 TACTTAGCTCACATGA-CCTTCCCGATATATGGCTTGGAAGAGCTTCCCATATACATGCTTGTAT
48422610 AAGCATACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 6 0.11
75 48 0.86
76 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (75 bp):
TACTTAGCTCACATGACCTTCCCGATATATGGCTTGGAAGAGCTTCCCATATACATGCTTGTATG
AGCTTTCCGT
Found at i:48427674 original size:20 final size:22
Alignment explanation
Indices: 48427641--48427688 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
48427631 TATTTTATAA
*
48427641 TTTTTGCATAATTTTC-TTTTC
1 TTTTTTCATAATTTTCATTTTC
48427662 TTTTTTCAT-ATTTTCATTTTC
1 TTTTTTCATAATTTTCATTTTC
48427683 TTTTTT
1 TTTTTT
48427689 TCAAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTTCATAATTTTCATTTTC
Found at i:48432461 original size:29 final size:28
Alignment explanation
Indices: 48432404--48432461 Score: 64
Period size: 31 Copynumber: 2.0 Consensus size: 28
48432394 ATTAACGCAA
* *
48432404 ATATTGATATAACATAATTTTATGATTAT
1 ATATTGATATAAAATAATTATAT-ATTAT
48432433 ATATTGCATATAAAAATAATTATAT-TTAT
1 ATATTG-ATAT-AAAATAATTATATATTAT
48432462 TCAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
30 4 0.16
31 11 0.44
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (28 bp):
ATATTGATATAAAATAATTATATATTAT
Found at i:48435657 original size:46 final size:46
Alignment explanation
Indices: 48435586--48435912 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
48435576 TACGTATGAT
* *
48435586 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
48435630 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48435676 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48435722 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
48435758 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
48435804 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-GC---AG-T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48435841 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
48435886 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
48435913 AGTACTCAAA
Statistics
Matches: 251, Mismatches: 10, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
36 57 0.23
38 3 0.01
39 4 0.02
40 5 0.02
42 5 0.02
43 4 0.02
44 12 0.05
45 6 0.02
46 155 0.62
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:48435763 original size:36 final size:36
Alignment explanation
Indices: 48435722--48435876 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
48435712 CTAAAGCTAC
48435722 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
48435758 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAAG--T-G-T--AG
* *
48435800 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGCAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
48435840 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
48435876 C
1 C
48435877 TAAAGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
38 1 0.01
39 1 0.01
40 3 0.03
42 2 0.02
43 1 0.01
44 1 0.01
46 29 0.29
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:48435813 original size:82 final size:82
Alignment explanation
Indices: 48435676--48435912 Score: 420
Period size: 82 Copynumber: 2.9 Consensus size: 82
48435666 CTAAGGCTAC
*
48435676 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
48435741 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGCAG
* *
48435758 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
48435823 TGATCAGATAAGTGCAG
66 TGATCAGATAAGTGCAG
* *
48435840 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
48435905 TGATCAGA
66 TGATCAGA
48435913 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGCAG
Found at i:48435890 original size:128 final size:133
Alignment explanation
Indices: 48435585--48435912 Score: 420
Period size: 128 Copynumber: 2.6 Consensus size: 133
48435575 TTACGTATGA
* * *
48435585 TCACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
*
48435648 TTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
66 TTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG-GTAGC
48435713 TAAAGC
130 --AAGC
*
48435719 TACCACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG----CACTTATCACTTTTTC
1 T--CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
* *
48435774 ACTTGATCAGATAAGTTTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G
64 ACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGGTAG
48435837 C-AG-
129 CAAGC
*
48435840 T-ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTC
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
48435904 TTGATCAGA
66 TTGATCAGA
48435913 AGTACTCAAA
Statistics
Matches: 172, Mismatches: 8, Indels: 34
0.80 0.04 0.16
Matches are distributed among these distances:
118 29 0.17
120 2 0.01
121 2 0.01
122 3 0.02
124 2 0.01
125 2 0.01
126 2 0.01
128 97 0.56
132 1 0.01
134 2 0.01
135 1 0.01
136 11 0.06
137 6 0.03
138 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (133 bp):
TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
TTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCA
AGC
Found at i:48440126 original size:23 final size:23
Alignment explanation
Indices: 48440096--48440139 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48440086 TTCCCTTTTT
*
48440096 GTAATTTTTGGGGTATTACAGTA
1 GTAATTTTCGGGGTATTACAGTA
48440119 GTAATTTTCGGGGTATTACAG
1 GTAATTTTCGGGGTATTACAG
48440140 GGGGTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (23 bp):
GTAATTTTCGGGGTATTACAGTA
Found at i:48447066 original size:6 final size:6
Alignment explanation
Indices: 48447055--48447088 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
48447045 AAGTAATCTT
*
48447055 TAAATA TAAATA TAAATA TAAATAA TATATA TAA
1 TAAATA TAAATA TAAATA TAAAT-A TAAATA TAA
48447089 TTGCCTGCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:48452456 original size:29 final size:31
Alignment explanation
Indices: 48452417--48452481 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
48452407 TGATCTATAT
* *
48452417 TTTTATAATTTTTAAATAAGT-AAATTA-AA
1 TTTTATAATTTTTAAAAAAGTCAAAATACAA
*
48452446 TTTTATTATTTTTAAAAAAGTCAAAATACAA
1 TTTTATAATTTTTAAAAAAGTCAAAATACAA
48452477 TTTTA
1 TTTTA
48452482 CTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 5 0.16
31 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTTATAATTTTTAAAAAAGTCAAAATACAA
Found at i:48455258 original size:66 final size:66
Alignment explanation
Indices: 48455152--48455286 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 66
48455142 CTTGAAAATA
* *
48455152 AGCTCCTCGAGTGTATTGGAGAGTCTAATTTGATGTATCAAATTACGGTAGATCAATAAGAAGCA
1 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
48455217 T
66 T
*
48455218 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTATGGTAGATCAATAAGAAGCA
1 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
48455283 T
66 T
48455284 AGC
1 AGC
48455287 GATAAGATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (66 bp):
AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
T
Found at i:48465282 original size:10 final size:10
Alignment explanation
Indices: 48465254--48465368 Score: 64
Period size: 10 Copynumber: 11.4 Consensus size: 10
48465244 AAATGAGAGG
*
48465254 GAAAGGAGAA
1 GAAAGGAAAA
48465264 GAAA-G-AAA
1 GAAAGGAAAA
48465272 GAAAGGAAAA
1 GAAAGGAAAA
48465282 GAAA-GAAAA
1 GAAAGGAAAA
48465291 GGAAAGGAGAGGAAA
1 -GAAA-G-GA--AAA
*
48465306 GAAAGAAAAA
1 GAAAGGAAAA
48465316 G-AA-GAAAA
1 GAAAGGAAAA
*
48465324 GGAAAGGAAAT
1 -GAAAGGAAAA
*
48465335 GAGAAGAAAAAA
1 GA-AAG-GAAAA
*
48465347 GAAAGAAAAA
1 GAAAGGAAAA
48465357 G-AAGG-AAA
1 GAAAGGAAAA
48465365 GAAA
1 GAAA
48465369 ATAAAAGGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 29
0.70 0.06 0.24
Matches are distributed among these distances:
8 14 0.17
9 15 0.18
10 29 0.35
11 10 0.12
12 6 0.07
13 3 0.04
14 4 0.05
15 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
GAAAGGAAAA
Found at i:48465282 original size:14 final size:14
Alignment explanation
Indices: 48465265--48465369 Score: 58
Period size: 14 Copynumber: 7.2 Consensus size: 14
48465255 AAAGGAGAAG
48465265 AAAGAAAGAAAGGA
1 AAAGAAAGAAAGGA
48465279 AAAGAAAGAAAAGGAA
1 AAAGAAAG-AAAGG-A
*
48465295 AGGAGAGGAAAGAAAGAA
1 A--A-A-GAAAGAAAGGA
48465313 AAAG-AAGAAAAGGA
1 AAAGAAAG-AAAGGA
*
48465327 AAGGAAATGAGAA-G-
1 AAAGAAA-GA-AAGGA
*
48465341 AAA-AAAGAAAGAA
1 AAAGAAAGAAAGGA
*
48465354 AAAGAAGGAAA-GA
1 AAAGAAAGAAAGGA
48465367 AAA
1 AAA
48465370 TAAAAGGAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 27
0.68 0.07 0.26
Matches are distributed among these distances:
11 2 0.03
12 2 0.03
13 13 0.18
14 25 0.35
15 10 0.14
16 6 0.08
18 3 0.04
19 5 0.07
20 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (14 bp):
AAAGAAAGAAAGGA
Found at i:48465285 original size:5 final size:5
Alignment explanation
Indices: 48465265--48465375 Score: 52
Period size: 5 Copynumber: 22.8 Consensus size: 5
48465255 AAAGGAGAAG
* * * * *
48465265 AAAG- AAAGA AAGGA AAAG- AAAGA AAAGG AAAGG AGAGG AAAG- AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
* * * * * * *
48465312 AAA-A GAAGA AAAGGA AAGGA AATGA GAAGA AAAAA GAAAGA AAA-A GAAGG
1 AAAGA AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AAAGA
*
48465362 AAAGA AAATA AAAG
1 AAAGA AAAGA AAAG
48465376 GAGAAGAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
4 18 0.22
5 54 0.68
6 8 0.10
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:48465296 original size:38 final size:37
Alignment explanation
Indices: 48465253--48465364 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 37
48465243 AAAATGAGAG
48465253 GGAAAGGAGAAGAAAGAAAGAAAGGAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAA-GAAAAGAAAGAAAA
* *
48465291 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGAAAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAA-AAG-AAAGAAAA
* *
48465329 GGAAATGAGAAGAAA-AAAGAAAGAAAAAGAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAG-AAAAGAAAGAAA
48465365 GAAAATAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
36 2 0.03
37 15 0.23
38 45 0.70
39 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (37 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAGAAAA
Found at i:48465356 original size:41 final size:41
Alignment explanation
Indices: 48465262--48465383 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 41
48465252 GGGAAAGGAG
* *
48465262 AAGAAAGAAAGAA-AGGAAAAG-AAAGAAAAGGA-AAGGAGAGGA
1 AAGAAAGAAA-AAGAAGAAAAGAAAAGAAAAGGAGAA-GA-A-AA
* * *
48465304 AAGAAAGAAAAAGAAGAAAAGGAAAGGAAATGAGAAGAAAA
1 AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAAAA
* *
48465345 AAGAAAGAAAAAGAAGGAAAGAAAATAAAAGGAGAAGAA
1 AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAA
48465384 GAAGAGGGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 37 0.54
42 18 0.26
43 11 0.16
44 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (41 bp):
AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAAAA
Found at i:48465414 original size:10 final size:10
Alignment explanation
Indices: 48465269--48465364 Score: 77
Period size: 10 Copynumber: 9.1 Consensus size: 10
48465259 GAGAAGAAAG
*
48465269 AAAGAAAGGA
1 AAAGAAAGAA
48465279 AAAGAAAGAA
1 AAAGAAAGAA
*
48465289 AAGGAAAGGAGA
1 AAAGAAA-GA-A
48465301 GGAAAGAAAGAA
1 --AAAGAAAGAA
48465313 AAAG-AAGAA
1 AAAGAAAGAA
* *
48465322 AAGGAAAGGA
1 AAAGAAAGAA
*
48465332 AATGAGAAGAAA
1 AAAGA-AAG-AA
48465344 AAAGAAAGAA
1 AAAGAAAGAA
*
48465354 AAAGAAGGAA
1 AAAGAAAGAA
48465364 A
1 A
48465365 GAAAATAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
9 8 0.11
10 39 0.56
11 8 0.11
12 7 0.10
13 2 0.03
14 6 0.09
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:48466122 original size:153 final size:155
Alignment explanation
Indices: 48465944--48466316 Score: 614
Period size: 154 Copynumber: 2.4 Consensus size: 155
48465934 TCAAATACAC
* * *
48465944 TAAATTAAT-AAATACGAAAATAATATATTTTTATTGAAAGTATTAAAATTCAGGAAAATAATAC
1 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
* *
48466008 GAGCAATGGGTAGGAATAAGGGTTTTTTTT-AATTTATTT-AAAAACACACTAAATTAATAAATT
66 GAGCAAAGGGGAGGAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAATTAATAAATT
48466071 TCAAACATAATGTATTGAAATAATA
131 TCAAACATAATGTATTGAAATAATA
48466096 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
1 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
*
48466161 -AGTAAAGGGGAGGAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAATTAATAAATT
66 GAGCAAAGGGGAGGAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAATTAATAAATT
*
48466225 TCAAACATAATGTATTGAAATAATG
131 TCAAACATAATGTATTGAAATAATA
*
48466250 TAAAATAATAAAATTA-GAAAAT-ATGATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAGT
1 TAAAATAATAAAA-TACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAAT
48466313 ACGA
64 ACGA
48466317 ATAAATGACC
Statistics
Matches: 207, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
152 34 0.16
153 64 0.31
154 106 0.51
155 3 0.01
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (155 bp):
TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
GAGCAAAGGGGAGGAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAATTAATAAATT
TCAAACATAATGTATTGAAATAATA
Found at i:48466341 original size:154 final size:153
Alignment explanation
Indices: 48465743--48466342 Score: 560
Period size: 154 Copynumber: 4.0 Consensus size: 153
48465733 AAAAATGGTA
* * * *
48465743 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATTAGA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
* * *
48465808 AAATTAGAAAAT-ATGATATTTTTTAAATT--AAGTAATAAAATGCGGAGAAAA-AATACAAACA
65 AAATTAGAAAATAAT-ATA-TTTTT--ATTGAAAGTAATAAAATTCGG-GAAAATAATACGAATA
* * *
48465869 AAT-AGTCGAAGTAAGAGTTTTTTACTAAATT
125 AATGA-TAGAAATAAGGGTTTTTT--TAAATT
** * * * * * *
48465900 T-TTTAAAAATTCA-GAAA-TAATTAA--T---ACA-AATAT-TTCAAATACA-CTAAATTAATA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATA-ATGTAAAATAATA
** * * * * **
48465954 AATACGAAAATA--ATATATTTTTATTGAAAGTATTAAAATTCAGGAAAATAATACG-AGCAATG
65 AA-ATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAAT-
* * *
48466016 GGTAGGAATAAGGGTTTTTTTTAATT
128 GATAGAAATAAGGGTTTTTTTAAATT
*
48466042 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATATAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATAA
* * *
48466107 AA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC-AGTAAAGGG
66 AATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATGA
* *
48466170 GAGGAATAAGGGTTTTTTTTAAATT
130 TAGAAATAAGGG-TTTTTTTAAATT
48466195 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
*
48466260 AAATTAGAAAAT-ATGATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAGTACGAATAAATG
65 AAATTAGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATG
**
48466324 ACCGAAATAAGGGTTTTTT
129 ATAGAAATAAGGGTTTTTT
48466343 ACTAATTTTT
Statistics
Matches: 362, Mismatches: 54, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
142 9 0.02
143 19 0.05
144 40 0.11
145 9 0.02
146 17 0.05
147 11 0.03
148 3 0.01
150 4 0.01
151 10 0.03
152 31 0.09
153 66 0.18
154 115 0.32
155 24 0.07
156 3 0.01
157 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (153 bp):
TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATAA
AATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATGAT
AGAAATAAGGGTTTTTTTAAATT
Found at i:48468017 original size:12 final size:12
Alignment explanation
Indices: 48468000--48468025 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48467990 TCCCGAGTCG
48468000 GAGCCCCAGCCA
1 GAGCCCCAGCCA
48468012 GAGCCCCAGCCA
1 GAGCCCCAGCCA
48468024 GA
1 GA
48468026 TCCCGAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.46, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGCCCCAGCCA
Found at i:48472648 original size:7 final size:7
Alignment explanation
Indices: 48472634--48472663 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
48472624 TTAATAAATA
48472634 ATATTAT
1 ATATTAT
*
48472641 ATACTAT
1 ATATTAT
48472648 ATATTAT
1 ATATTAT
48472655 ATATTAT
1 ATATTAT
48472662 AT
1 AT
48472664 GTATTAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:48473142 original size:8 final size:8
Alignment explanation
Indices: 48473130--48473169 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
48473120 AGTTATTTTT
48473130 AATTTTAA
1 AATTTTAA
*
48473138 TATTTTTAA
1 -AATTTTAA
*
48473147 ATTTTTAA
1 AATTTTAA
48473155 AATTTTAA
1 AATTTTAA
48473163 AATTTTA
1 AATTTTA
48473170 GCCTTCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
AATTTTAA
Found at i:48473146 original size:9 final size:8
Alignment explanation
Indices: 48473124--48473169 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
48473114 TAATTTAGTT
48473124 ATTTTT-A
1 ATTTTTAA
48473131 A-TTTTAA
1 ATTTTTAA
48473138 TATTTTTAA
1 -ATTTTTAA
48473147 ATTTTTAA
1 ATTTTTAA
*
48473155 AATTTTAA
1 ATTTTTAA
*
48473163 AATTTTA
1 ATTTTTA
48473170 GCCTTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
6 4 0.11
7 2 0.06
8 23 0.66
9 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTTTAA
Found at i:48473154 original size:17 final size:17
Alignment explanation
Indices: 48473123--48473168 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
48473113 TTAATTTAGT
48473123 TATTTTT-AA-TTTTAA
1 TATTTTTAAATTTTTAA
48473138 TATTTTTAAATTTTTAA
1 TATTTTTAAATTTTTAA
* *
48473155 AATTTTAAAATTTT
1 TATTTTTAAATTTT
48473169 AGCCTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 7 0.26
16 2 0.07
17 18 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAAATTTTTAA
Found at i:48476387 original size:3 final size:3
Alignment explanation
Indices: 48476379--48476403 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48476369 CACTGACAAT
48476379 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
48476404 GGTAATTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:48478171 original size:8 final size:7
Alignment explanation
Indices: 48478161--48478200 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
48478151 CATTTTTACT
48478161 TTTTTTA
1 TTTTTTA
48478168 TTTTTTA
1 TTTTTTA
*
48478175 TGTTTTA
1 TTTTTTA
*
48478182 GTTTTTA
1 TTTTTTA
48478189 TTATTTTA
1 TT-TTTTA
48478197 TTTT
1 TTTT
48478201 ATTTTATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:48478180 original size:14 final size:15
Alignment explanation
Indices: 48478153--48478200 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
48478143 TCTCTATGCA
*
48478153 TTTTTACTTTTTTTAT
1 TTTTTA-TTATTTTAT
* *
48478169 TTTTTA-TGTTTTAG
1 TTTTTATTATTTTAT
48478183 TTTTTATTATTTTAT
1 TTTTTATTATTTTAT
48478198 TTT
1 TTT
48478201 ATTTTATTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 12 0.44
15 9 0.33
16 6 0.22
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTTTATTATTTTAT
Found at i:48478421 original size:24 final size:25
Alignment explanation
Indices: 48478384--48478430 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
48478374 GTTGTTTTAT
* * *
48478384 TTTTTAATATTTTATAATTATAAAA
1 TTTTGAATATTTTAAAATAATAAAA
48478409 TTTTGAATA-TTTAAAATAATAA
1 TTTTGAATATTTTAAAATAATAA
48478431 TCAAGTTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTGAATATTTTAAAATAATAAAA
Found at i:48479219 original size:48 final size:48
Alignment explanation
Indices: 48479140--48479233 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
48479130 AGGGAATTCT
*
48479140 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
*
48479188 GTTGAATCCTTTTTTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
48479234 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.43
Consensus pattern (48 bp):
GTTGAATCCTTTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:48482033 original size:20 final size:20
Alignment explanation
Indices: 48482010--48482047 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48482000 CTTTTTTATA
*
48482010 TTAAAATATTTTTTTATTTT
1 TTAAAATATTATTTTATTTT
*
48482030 TTAAATTATTATTTTATT
1 TTAAAATATTATTTTATT
48482048 GGTGACGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTAAAATATTATTTTATTTT
Found at i:48482175 original size:27 final size:27
Alignment explanation
Indices: 48482138--48482249 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
48482128 TATGGGGGTA
* *
48482138 GGTGGCGCCTATCTGGTAGGCACGACT
1 GGTGGAGCCTATCTGGTAGGCGCGACT
*
48482165 GATGGAGCCTATCTGGTAGGCGCGACT
1 GGTGGAGCCTATCTGGTAGGCGCGACT
* *
48482192 GGTGGAGCCTATTTGGTATGCGCGACT
1 GGTGGAGCCTATCTGGTAGGCGCGACT
* **
48482219 GGTGGAGCTTATCTGACAGGCGCGACT
1 GGTGGAGCCTATCTGGTAGGCGCGACT
48482246 GGTG
1 GGTG
48482250 CTTAATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.16, C:0.21, G:0.38, T:0.24
Consensus pattern (27 bp):
GGTGGAGCCTATCTGGTAGGCGCGACT
Found at i:48485304 original size:33 final size:34
Alignment explanation
Indices: 48485267--48485338 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
48485257 CGATGAACTT
* * *
48485267 GAGCCGT-AAGGAGTGGAGTACGGCGATGGATAC
1 GAGCCGTGAAGGAGAGGAATACGGAGATGGATAC
* *
48485300 GAGCC-TGAAGGAGAGGAATACTGAGGTGGATAC
1 GAGCCGTGAAGGAGAGGAATACGGAGATGGATAC
48485333 GAGCCG
1 GAGCCG
48485339 GGATGACTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.29, C:0.15, G:0.42, T:0.14
Consensus pattern (34 bp):
GAGCCGTGAAGGAGAGGAATACGGAGATGGATAC
Found at i:48487374 original size:15 final size:16
Alignment explanation
Indices: 48487338--48487377 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
48487328 ATATTTTAAT
48487338 AAATAAATAAAAATTGTC
1 AAATAAATAAAAA-T-TC
48487356 AAATAAATAAAAA-TC
1 AAATAAATAAAAATTC
48487371 AAATAAA
1 AAATAAA
48487378 ATTACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
18 13 0.59
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAATAAAAATTC
Found at i:48487508 original size:101 final size:102
Alignment explanation
Indices: 48487401--48487677 Score: 393
Period size: 101 Copynumber: 2.7 Consensus size: 102
48487391 AAAATTACAT
48487401 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
48487466 AAAATAACGATAAAATTA-TTTAAAAAAATACATTAC
66 AAAATAACGATAAAATTATTTTAAAAAAATACATTAC
*
48487502 TAAAAAAATCACAAAACACATAAA-TAAACA-TAACAATTTATAAAACCTAATCATAAATTACTA
1 T-AAAAAATCACAAAACAC-TAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTA
* ** *
48487565 ACAAAATAACTATAAAATTAGTTTTTTTAAAATTACATTAC
64 ACAAAATAACGATAAAATTA--TTTTAAAAAAATACATTAC
* * *
48487606 TAAAAAATCACAAAACTCTATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTACTA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACTA
48487669 ACAAAATAA
64 ACAAAATAA
48487678 ATAACTATAA
Statistics
Matches: 158, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
101 52 0.33
102 35 0.22
103 28 0.18
104 43 0.27
ACGTcount: A:0.56, C:0.16, G:0.01, T:0.27
Consensus pattern (102 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACGATAAAATTATTTTAAAAAAATACATTAC
Found at i:48487671 original size:104 final size:99
Alignment explanation
Indices: 48487401--48487677 Score: 369
Period size: 104 Copynumber: 2.7 Consensus size: 99
48487391 AAAATTACAT
*
48487401 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTATACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
48487466 AAAATAACGATAAAATTATTTAAAAAAATACATTAC
64 AAAATAACGATAAAATTATTTAAAAAAATACATTAC
*
48487502 TAAAAAAATCACAAAACAC-ATAAATAAACA-TAACAATTTATAAAACCTAATCATAAATTACTA
1 T-AAAAAATCACAAAACACTAT-ACTAAACACTAACAATTTAT--AACCTAATCATAAATTACTA
* ** *
48487565 ACAAAATAACTATAAAATTAGTTTTTTTAAAATTACATTAC
62 ACAAAATAACGATAAAATTA---TTTAAAAAAATACATTAC
* *
48487606 TAAAAAATCACAAAACTCTATACTAAACACTAACAATTTGTAACCTAATCCCATAAATTACTAAC
1 TAAAAAATCACAAAACACTATACTAAACACTAACAATTTATAACCTAAT--CATAAATTACTAAC
48487671 AAAATAA
64 AAAATAA
48487678 ATAACTATAA
Statistics
Matches: 156, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
99 3 0.02
100 2 0.01
101 47 0.30
102 32 0.21
103 23 0.15
104 49 0.31
ACGTcount: A:0.56, C:0.16, G:0.01, T:0.27
Consensus pattern (99 bp):
TAAAAAATCACAAAACACTATACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
AATAACGATAAAATTATTTAAAAAAATACATTAC
Found at i:48487725 original size:29 final size:29
Alignment explanation
Indices: 48487629--48487730 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 29
48487619 AACTCTATAC
*
48487629 TAAAC-ACTAACAATTTGTAACCTAATCCCA
1 TAAACTACTAACAATTTATAACCTAAT--CA
* ** *
48487659 TAAATTACTAACAAAATAAATAA-CTATAACA
1 TAAACTACTAAC--AATTTATAACCTA-ATCA
48487690 -AAA-TACTAACAATTTATAACCTAATCA
1 TAAACTACTAACAATTTATAACCTAATCA
48487717 TAAACTACTAACAA
1 TAAACTACTAACAA
48487731 AATAACTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
27 10 0.18
28 6 0.11
29 16 0.28
30 7 0.12
31 8 0.14
32 3 0.05
33 7 0.12
ACGTcount: A:0.53, C:0.20, G:0.01, T:0.26
Consensus pattern (29 bp):
TAAACTACTAACAATTTATAACCTAATCA
Found at i:48487931 original size:60 final size:60
Alignment explanation
Indices: 48487862--48488040 Score: 331
Period size: 60 Copynumber: 3.0 Consensus size: 60
48487852 ATACTAAACT
48487862 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
*
48487922 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTATTTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
* *
48487982 AAACACAACAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
48488041 TAAAAAAATT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 115 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
Found at i:48489600 original size:30 final size:30
Alignment explanation
Indices: 48489543--48489602 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48489533 ATTTAACCAG
* *
48489543 TTTTATGAATTTTTAATACATATTTTAATT
1 TTTTATGAAATTTTAATAAATATTTTAATT
*
48489573 TTTTATGAAATTTTAA-AAATTTATTTAATT
1 TTTTATGAAATTTTAATAAATAT-TTTAATT
48489603 ATTGTTAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTATGAAATTTTAATAAATATTTTAATT
Found at i:48489665 original size:5 final size:5
Alignment explanation
Indices: 48489655--48489682 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48489645 AGGACCGGTT
48489655 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
48489683 GCAAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:48496451 original size:22 final size:22
Alignment explanation
Indices: 48496411--48496452 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48496401 TATTTTCTTA
*
48496411 AATTTAAAAAATTCGAAAAAAT
1 AATTTAAAAAATTAGAAAAAAT
*
48496433 AATTTAAAAAATTATAAAAA
1 AATTTAAAAAATTAGAAAAA
48496453 TACATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATTTAAAAAATTAGAAAAAAT
Found at i:48496459 original size:22 final size:21
Alignment explanation
Indices: 48496411--48496459 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
48496401 TATTTTCTTA
48496411 AATTTAAAAAATTCGAAAAAAT
1 AATTTAAAAAATTC-AAAAAAT
48496433 AATTTAAAAAATT-ATAAAAAT
1 AATTTAAAAAATTCA-AAAAAT
48496454 ACATTT
1 A-ATTT
48496460 TTAATGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 7 0.28
22 17 0.68
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AATTTAAAAAATTCAAAAAAT
Found at i:48499332 original size:14 final size:15
Alignment explanation
Indices: 48499313--48499342 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48499303 ACAATTTTAA
48499313 ATTTTAA-TTAATAT
1 ATTTTAATTTAATAT
48499327 ATTTTAATTTAATAT
1 ATTTTAATTTAATAT
48499342 A
1 A
48499343 ATTTGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAATTTAATAT
Found at i:48502864 original size:64 final size:64
Alignment explanation
Indices: 48502785--48502916 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 64
48502775 CAAAATAGAT
*
48502785 AGTTTTGAACATCTCGAGATGGACTTCAAGCCTACATGAGAGAACATAAAACAGATTATGGTCA
1 AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
* *
48502849 AGTTTTGAACATCTCGAGATGGACTTCAAACCTGCATGAGAGAGCATAAAACAGATTATGGTCA
1 AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
48502913 AGTT
1 AGTT
48502917 AAAACCTTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (64 bp):
AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
Found at i:48524067 original size:15 final size:15
Alignment explanation
Indices: 48524047--48524080 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48524037 TTAAATAAGA
48524047 TTAAAATAGTATAAC
1 TTAAAATAGTATAAC
*
48524062 TTAAAATAGTATAAT
1 TTAAAATAGTATAAC
48524077 TTAA
1 TTAA
48524081 CAATCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (15 bp):
TTAAAATAGTATAAC
Found at i:48526107 original size:12 final size:12
Alignment explanation
Indices: 48526076--48526115 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
48526066 AAAATATTTT
48526076 TAAAATTAAATA
1 TAAAATTAAATA
48526088 TAATAATT-AATAA
1 TAA-AATTAAAT-A
48526101 TAAAATTAAATA
1 TAAAATTAAATA
48526113 TAA
1 TAA
48526116 TATTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:48529824 original size:21 final size:18
Alignment explanation
Indices: 48529781--48529827 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
48529771 GTTCACAAGC
*
48529781 TGTTAATATCAGTTAGTT
1 TGTTAGTATCAGTTAGTT
48529799 TGTTAGTATGCAGTTAGTAGT
1 TGTTAGTAT-CAGTTAGT--T
48529820 TGTTAGTA
1 TGTTAGTA
48529828 GACAGCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 8 0.32
21 9 0.36
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (18 bp):
TGTTAGTATCAGTTAGTT
Found at i:48531559 original size:34 final size:34
Alignment explanation
Indices: 48531500--48531566 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
48531490 TCAAACACCA
48531500 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAATATTTTCCAGTAAATCATTTTAC-GAAAAG
*
48531535 TAAAATATTTTCTAG-AAATCATTTTACGAAAA
1 TAAAATATTTTCCAGTAAATCATTTTACGAAAA
48531567 ATATTTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.16
34 12 0.39
35 14 0.45
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (34 bp):
TAAAATATTTTCCAGTAAATCATTTTACGAAAAG
Found at i:48532683 original size:20 final size:21
Alignment explanation
Indices: 48532658--48532703 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
48532648 ATGTATTGTT
48532658 AGGGGCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
48532678 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
48532699 AGGGG
1 AGGGG
48532704 GTATTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.13, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:48532877 original size:99 final size:100
Alignment explanation
Indices: 48532705--48532897 Score: 343
Period size: 99 Copynumber: 1.9 Consensus size: 100
48532695 AAAAAGGGGG
* *
48532705 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
*
48532770 AGTGCGAGTTGCTGATGTGGCAACAAATCTCGCGA
66 AGCGCGAGTTGCTGATGTGGCAACAAATCTCGCGA
*
48532805 TATTTATACTTTTTTTT-GGACCGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
48532869 AGCGCGAGTTGCTGATGTGGCAACAAATC
66 AGCGCGAGTTGCTGATGTGGCAACAAATC
48532898 GCTCCCCTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 72 0.81
100 17 0.19
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (100 bp):
TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
AGCGCGAGTTGCTGATGTGGCAACAAATCTCGCGA
Found at i:48533343 original size:99 final size:100
Alignment explanation
Indices: 48533171--48533366 Score: 331
Period size: 99 Copynumber: 2.0 Consensus size: 100
48533161 AAAAAGGGGG
* *
48533171 TATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTCATGCGTAGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTC
*
48533236 AGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 AGTGCGAGTTGCTGACGTGGCAACAAATCGCGCGA
*
48533271 TATTTATAC-TTTTTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTC
* *
48533335 AGTGCGAGTTGCTGACGTGGTAGCAAATCGCG
66 AGTGCGAGTTGCTGACGTGGCAACAAATCGCG
48533367 TCCTTGAGGG
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 81 0.90
100 9 0.10
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (100 bp):
TATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTC
AGTGCGAGTTGCTGACGTGGCAACAAATCGCGCGA
Found at i:48533346 original size:466 final size:467
Alignment explanation
Indices: 48532437--48533365 Score: 1761
Period size: 466 Copynumber: 2.0 Consensus size: 467
48532427 GCTCTTTTTT
*
48532437 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATATTTTTTGTACTTGTTGCATTTA
48532502 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
48532567 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
131 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
48532632 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
196 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
48532697 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
261 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
*
48532762 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCTCGCGATATTTATACTTTTTTTTGGACC
326 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
*
48532827 GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAA
391 GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGACGTGGCAA
48532892 CAAATCGCTCCC
456 CAAATCGCTCCC
48532904 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATATTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATATTTTTTGTACTTGTTGCATTTA
48532969 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
48533034 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
131 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
*
48533099 ACAATAATACATTAATA-GTATTGTTAGGGGCAAAATATCAAAAAAAGGGGCAAATTACACATAA
196 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
* *
48533163 AAAGGGGGTATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTCATGCGTAGGCCGAAATCGCG
261 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
48533228 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
326 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
* * * *
48533293 GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACGTCAGTGCGAGTTGCTGACGTGGTAG
391 GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGACGTGGCAA
48533358 CAAATCGC
456 CAAATCGC
48533366 GTCCTTGAGG
Statistics
Matches: 452, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
466 241 0.53
467 211 0.47
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (467 bp):
CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATATTTTTTGTACTTGTTGCATTTA
TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGACGTGGCAA
CAAATCGCTCCC
Found at i:48537809 original size:18 final size:18
Alignment explanation
Indices: 48537786--48537820 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48537776 TTTTTTACTC
48537786 AATTAATATAT-AAAAATT
1 AATTAAT-TATGAAAAATT
48537804 AATTAATTATGAAAAAT
1 AATTAATTATGAAAAAT
48537821 GTATAGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAATTATGAAAAATT
Found at i:48539205 original size:9 final size:9
Alignment explanation
Indices: 48539191--48539216 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48539181 TTTTTTTTAA
48539191 AAATTATAC
1 AAATTATAC
48539200 AAATTATAC
1 AAATTATAC
48539209 AAATTATA
1 AAATTATA
48539217 TTATAAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTATAC
Found at i:48540987 original size:21 final size:21
Alignment explanation
Indices: 48540939--48540980 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48540929 TTTGCCTAAG
* *
48540939 ATGTGAATTGAATTGAATTGA
1 ATGTAAATTGAATTAAATTGA
*
48540960 ATGTAAATTGTATTAAATTGA
1 ATGTAAATTGAATTAAATTGA
48540981 TGTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
ATGTAAATTGAATTAAATTGA
Found at i:48541399 original size:24 final size:25
Alignment explanation
Indices: 48541347--48541393 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48541337 TGACCCTTTC
* *
48541347 GAGCTTCCCATTATATGGTTCTTGT
1 GAGCTTCCCATTATATAGCTCTTGT
48541372 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
48541394 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGT
Found at i:48541505 original size:26 final size:25
Alignment explanation
Indices: 48541468--48541535 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
48541458 CCCGATATAT
48541468 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCGTGAGCTTCCT-ATTAAA
* *
48541494 GGCTCTTTGTGAGCTTCCTATTAAC
1 GGCTCTTCGTGAGCTTCCTATTAAA
* *
48541519 GACTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
48541536 CAATATGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 8 0.22
25 11 0.30
26 18 0.49
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (25 bp):
GGCTCTTCGTGAGCTTCCTATTAAA
Found at i:48544427 original size:20 final size:20
Alignment explanation
Indices: 48544398--48544436 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48544388 TAACAGTAAA
48544398 CTGATAATGA-TCTGTATTAT
1 CTGATAATGACT-TGTATTAT
*
48544418 CTGATTATGACTTGTATTA
1 CTGATAATGACTTGTATTA
48544437 GGATAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
CTGATAATGACTTGTATTAT
Found at i:48545740 original size:5 final size:5
Alignment explanation
Indices: 48545730--48545756 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48545720 GACAAGTATT
48545730 TGTTA TGTTA TGTTA TGTTA TGTTA TG
1 TGTTA TGTTA TGTTA TGTTA TGTTA TG
48545757 AATGGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (5 bp):
TGTTA
Found at i:48546758 original size:18 final size:18
Alignment explanation
Indices: 48546735--48546773 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48546725 TTGATTATGT
48546735 TTTTAT-ATGTTTTATTAA
1 TTTTATAATGTTTTA-TAA
*
48546753 TTTTATAATTTTTTATAA
1 TTTTATAATGTTTTATAA
48546771 TTT
1 TTT
48546774 ATTAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATAATGTTTTATAA
Found at i:48546871 original size:20 final size:18
Alignment explanation
Indices: 48546626--48546917 Score: 105
Period size: 19 Copynumber: 15.1 Consensus size: 18
48546616 TTAAATTATT
*
48546626 TTTTTATAATTTCTA-AA
1 TTTTTATAATTTTTATAA
* *
48546643 TTTTTATAGTTTCTTTACAA
1 TTTTTATA-ATT-TTTATAA
* * *
48546663 TGTATTAGAGTTTATTAT-A
1 T-TTTTATAATTT-TTATAA
*
48546682 TTATTTATATTTTTTTATGAA
1 TT-TTTATA-ATTTTTAT-AA
48546703 -TTTTATAATCTTTTATAAAA
1 TTTTTATAAT-TTTTAT--AA
* *
48546723 TTTTGATTATGTTTT-TATA
1 TTTTTATAAT-TTTTATA-A
48546742 TGTTTTATTAA-TTTTATAA
1 T-TTTTA-TAATTTTTATAA
*
48546761 TTTTTTATAATTTATTAGAA
1 -TTTTTATAATTT-TTATAA
* * *
48546781 TTTCTATAAAATTTTACAA
1 TTTTTAT-AATTTTTATAA
*
48546800 TATTTATAAGCTTTTT-TGAA
1 TTTTTATAA--TTTTTAT-AA
48546820 TTTTTAT-ATTTTTATAA
1 TTTTTATAATTTTTATAA
* *
48546837 GTACTATTCTAATTTGTCTATAA
1 -T--TTTTATAATTT-T-TATAA
48546860 TTTTTATAATTTTATATAA
1 TTTTTATAATTTT-TATAA
* *
48546879 ATATT-TAATTTTTATGATA
1 TTTTTATAATTTTTAT-A-A
48546898 TTTTTATAATTTTTTATAA
1 TTTTTATAA-TTTTTATAA
48546917 T
1 T
48546918 AAAAATATAA
Statistics
Matches: 207, Mismatches: 34, Indels: 66
0.67 0.11 0.21
Matches are distributed among these distances:
17 18 0.09
18 20 0.10
19 72 0.35
20 60 0.29
21 30 0.14
22 2 0.01
23 5 0.02
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:48546874 original size:8 final size:9
Alignment explanation
Indices: 48546626--48546917 Score: 105
Period size: 10 Copynumber: 30.1 Consensus size: 9
48546616 TTAAATTATT
48546626 TTTTTATAA
1 TTTTTATAA
*
48546635 TTTCTA-AA
1 TTTTTATAA
*
48546643 TTTTTATAGT
1 TTTTTATA-A
*
48546653 TTCTTTACAA
1 TT-TTTATAA
* * *
48546663 TGTATTAGAG
1 T-TTTTATAA
48546673 TTTATTAT-A
1 TTT-TTATAA
*
48546682 TTATTTATATT
1 TT-TTTATA-A
48546693 TTTTTATGAA
1 TTTTTAT-AA
48546703 -TTTTATAA
1 TTTTTATAA
48546711 TCTTTTATAAAA
1 T-TTTTAT--AA
* *
48546723 TTTTGATTA
1 TTTTTATAA
48546732 TGTTTT-TATA
1 T-TTTTATA-A
48546742 TGTTTTATTAA
1 T-TTTTA-TAA
48546753 -TTTTATAA
1 TTTTTATAA
48546761 TTTTTTATAA
1 -TTTTTATAA
*
48546771 TTTATTAGAA
1 TTT-TTATAA
*
48546781 TTTCTATAAA
1 TTTTTAT-AA
* *
48546791 ATTTTACAA
1 TTTTTATAA
*
48546800 TATTTATAA
1 TTTTTATAA
48546809 GCTTTTT-TGAA
1 --TTTTTAT-AA
48546820 TTTTTAT-A
1 TTTTTATAA
48546828 TTTTTATAA
1 TTTTTATAA
* *
48546837 GTACTATTCTAA
1 -T--TTTTATAA
48546849 TTTGTCTATAA
1 TTT-T-TATAA
48546860 TTTTTATAA
1 TTTTTATAA
48546869 TTTTATATAA
1 TTTT-TATAA
* *
48546879 ATATT-TAA
1 TTTTTATAA
48546887 TTTTTATGATA
1 TTTTTAT-A-A
48546898 TTTTTATAA
1 TTTTTATAA
48546907 TTTTTTATAA
1 -TTTTTATAA
48546917 T
1 T
48546918 AAAAATATAA
Statistics
Matches: 212, Mismatches: 35, Indels: 72
0.66 0.11 0.23
Matches are distributed among these distances:
8 26 0.12
9 60 0.28
10 78 0.37
11 37 0.17
12 11 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48551181 original size:2 final size:2
Alignment explanation
Indices: 48551174--48551206 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48551164 TCAGTTTCTA
48551174 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
48551207 ATGCAAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48554064 original size:11 final size:11
Alignment explanation
Indices: 48554048--48554073 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48554038 ATTTTTTTAA
48554048 TTTTAAAATAC
1 TTTTAAAATAC
48554059 TTTTAAAATAC
1 TTTTAAAATAC
48554070 TTTT
1 TTTT
48554074 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:48554084 original size:41 final size:40
Alignment explanation
Indices: 48554032--48554182 Score: 205
Period size: 41 Copynumber: 3.7 Consensus size: 40
48554022 GAATAATAAA
*
48554032 TTTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
48554071 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC-T
*
48554112 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
**
48554152 TTTTAAAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
48554183 AATTTTTGGT
Statistics
Matches: 101, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
39 6 0.06
40 37 0.37
41 40 0.40
42 3 0.03
43 6 0.06
44 9 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:48554097 original size:17 final size:17
Alignment explanation
Indices: 48554077--48554145 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 17
48554067 TACTTTTTTT
48554077 AATTTTTTTAATTTTAA
1 AATTTTTTTAATTTTAA
**
48554094 AATTTTTTTAAAATACTTTTTTTT
1 AATTTTTTT---A-A---TTTTAA
48554118 AATTTTTTTAATTTTAA
1 AATTTTTTTAATTTTAA
48554135 AATTTTTTTAA
1 AATTTTTTTAA
48554146 AATACTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
17 24 0.59
20 2 0.05
21 2 0.05
24 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTTTTAATTTTAA
Found at i:48554102 original size:11 final size:11
Alignment explanation
Indices: 48554088--48554164 Score: 65
Period size: 11 Copynumber: 7.2 Consensus size: 11
48554078 ATTTTTTTAA
48554088 TTTTAAAATTT
1 TTTTAAAATTT
48554099 TTTTAAAATACTT
1 TTTTAAAAT--TT
**
48554112 TTTTTTAATTT
1 TTTTAAAATTT
48554123 TTTT--AA---
1 TTTTAAAATTT
48554129 TTTTAAAATTT
1 TTTTAAAATTT
*
48554140 TTTTAAAATACT
1 TTTTAAAAT-TT
48554152 TTTTAAAATTT
1 TTTTAAAATTT
48554163 TT
1 TT
48554165 ATTTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
6 4 0.07
8 2 0.04
9 2 0.04
11 27 0.50
12 10 0.19
13 9 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:48554162 original size:40 final size:40
Alignment explanation
Indices: 48554032--48554164 Score: 214
Period size: 40 Copynumber: 3.3 Consensus size: 40
48554022 GAATAATAAA
**
48554032 TTTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
48554071 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATAC-T
48554112 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
**
48554152 TTTTAAAATTTTT
1 TTTTTTAATTTTT
48554165 ATTTTAATTT
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 6 0.07
40 42 0.48
41 40 0.45
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
Found at i:48560897 original size:11 final size:11
Alignment explanation
Indices: 48560881--48560910 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
48560871 TTTATCTCAC
48560881 GCTACAGTATA
1 GCTACAGTATA
48560892 GCTACAGTATA
1 GCTACAGTATA
48560903 GCTACAGT
1 GCTACAGT
48560911 GTCTAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (11 bp):
GCTACAGTATA
Found at i:48561188 original size:11 final size:11
Alignment explanation
Indices: 48561166--48561204 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
48561156 AATGATAAAA
48561166 AATATGAATATT
1 AATAT-AATATT
48561178 AATATAATATT
1 AATATAATATT
*
48561189 CATATAATATT
1 AATATAATATT
*
48561200 CATAT
1 AATAT
48561205 TTTTTTGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (11 bp):
AATATAATATT
Found at i:48565484 original size:16 final size:16
Alignment explanation
Indices: 48565462--48565533 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
48565452 CGTTTGGTTC
*
48565462 ACTGTAATGGAATATA
1 ACTGTAATGGAATAGA
*
48565478 GCTGTAACT-GAATAGA
1 ACTGTAA-TGGAATAGA
48565494 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
** *
48565510 GTTGTAATGGAATAAA
1 ACTGTAATGGAATAGA
48565526 ACTGTAAT
1 ACTGTAAT
48565534 AAGTAATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 44 0.96
17 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:48565503 original size:32 final size:32
Alignment explanation
Indices: 48565462--48565533 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
48565452 CGTTTGGTTC
* *
48565462 ACTGTAATGGAATATAGCTGTAACT-GAATAGA
1 ACTGTAATGGAATAGAGCTGTAA-TGGAATAAA
*
48565494 ACTGTAATGGAATAGAGTTGTAATGGAATAAA
1 ACTGTAATGGAATAGAGCTGTAATGGAATAAA
48565526 ACTGTAAT
1 ACTGTAAT
48565534 AAGTAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (32 bp):
ACTGTAATGGAATAGAGCTGTAATGGAATAAA
Found at i:48565800 original size:17 final size:17
Alignment explanation
Indices: 48565778--48565810 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
48565768 AATTATTATT
48565778 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
48565795 AAATATAATTTAATAA
1 AAATATAATTTAATAA
48565811 CATTCGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:48566622 original size:17 final size:18
Alignment explanation
Indices: 48566588--48566631 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
48566578 AATTTAATTT
*
48566588 AATTTAATTATTTCTCTC
1 AATTAAATTATTTCTCTC
48566606 AATTAAATTATTT-TCTC
1 AATTAAATTATTTCTCTC
*
48566623 AATTCAATT
1 AATTAAATT
48566632 CTAATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAAATTATTTCTCTC
Found at i:48571126 original size:45 final size:45
Alignment explanation
Indices: 48571038--48571131 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
48571028 AAATGAATAG
* *
48571038 AAATAGAGAAATGGAAAACATTCAGAAATGATTATGGTTTTCTCTA
1 AAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTC-A
* ** *
48571084 AAATAGAGAAATGG-AATCATTTGGAAATAAATGTGGTTTTCTCA
1 AAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTCA
48571128 AAAT
1 AAAT
48571132 GGAAATAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 5 0.12
45 23 0.55
46 14 0.33
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (45 bp):
AAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTCA
Found at i:48573636 original size:43 final size:43
Alignment explanation
Indices: 48573575--48573661 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
48573565 GGTGAGTCAC
*
48573575 ATAGTCAAAGGGTAAAAGAAACATGTAATCAAAATTAACTTTA
1 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
48573618 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
1 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
48573661 A
1 A
48573662 AGGCTAAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.25
Consensus pattern (43 bp):
ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
Found at i:48583807 original size:31 final size:33
Alignment explanation
Indices: 48583746--48583810 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
48583736 AATATCCTTT
* * *
48583746 CATAATATTATGTTGTTTAATAAGATAATTTTA
1 CATAAAATTATATTGTTTAATAAGAAAATTTTA
48583779 CATAAAATTATATT-TTT-ATAAGAAAATTTTA
1 CATAAAATTATATTGTTTAATAAGAAAATTTTA
48583810 C
1 C
48583811 GTACAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.48
32 3 0.10
33 12 0.41
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (33 bp):
CATAAAATTATATTGTTTAATAAGAAAATTTTA
Found at i:48592439 original size:11 final size:11
Alignment explanation
Indices: 48592425--48592450 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48592415 AAAAAATAAA
48592425 AAAAGTATTTT
1 AAAAGTATTTT
48592436 AAAAGTATTTT
1 AAAAGTATTTT
48592447 AAAA
1 AAAA
48592451 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:48599310 original size:17 final size:17
Alignment explanation
Indices: 48599288--48599321 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48599278 TGTGCTAGGC
48599288 CTTGTTAAGCATACTGA
1 CTTGTTAAGCATACTGA
*
48599305 CTTGTTAATCATACTGA
1 CTTGTTAAGCATACTGA
48599322 TTCTAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (17 bp):
CTTGTTAAGCATACTGA
Found at i:48600064 original size:99 final size:98
Alignment explanation
Indices: 48599792--48600064 Score: 266
Period size: 99 Copynumber: 2.8 Consensus size: 98
48599782 CTCACTTCAC
* * * * *
48599792 CAATTATTGATGTTGGGTATCAACAAG-GGGGAGACACAGTGGAGGGAGTGGCGGTGTTGGTGAA
1 CAATTATTGATGTTGGGTATCAAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTGAA
*
48599856 GGTCGGTTCA-TCCAATTTGGGCAGAGAGTCGCAT
66 -G-CTGTTCACTCCAATTTGGGCAGAGAGTCGCAT
* * * * * * * * * *
48599890 CGATTGTTGATGTAGGGTATCAAAAAGAAGGGAGATACGAATGAGGGAGTGATGGTGCTAGTAAA
1 CAATTATTGATGTTGGGTATCAAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTGAA
*
48599955 GGCTGATTCACT-CAGTTTGGGCAGAGAGTCGCA-
66 -GCTG-TTCACTCCAATTTGGGCAGAGAGTCGCAT
* * * *
48599988 CTAATTATTGATGTTGGGTATCAATAAGAGGGGAGATATGGAGGAGAGAGTGGTGATGTTGGTGA
1 C-AATTATTGATGTTGGGTATCAAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTGA
48600053 TAGCTAGTTCAC
65 -AGCT-GTTCAC
48600065 ATTTTCTAGG
Statistics
Matches: 138, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
98 26 0.19
99 109 0.79
100 3 0.02
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (98 bp):
CAATTATTGATGTTGGGTATCAAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTGAA
GCTGTTCACTCCAATTTGGGCAGAGAGTCGCAT
Found at i:48604410 original size:16 final size:16
Alignment explanation
Indices: 48604389--48604430 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48604379 TTATTAAATT
*
48604389 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48604405 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48604420 AT-TATGTTTAA
1 ATATAT-TTTAA
48604431 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48604415 original size:15 final size:15
Alignment explanation
Indices: 48604380--48604421 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48604370 TTAAGAATTT
*
48604380 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48604394 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48604408 TATTTAATAATAAT
1 TATTTAATTATAAT
48604422 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48604666 original size:16 final size:16
Alignment explanation
Indices: 48604645--48604691 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
48604635 TTAATTTGCT
48604645 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
48604661 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
48604677 ATTACGCCTCTATTC
1 ATTACACCTCTATTC
48604692 TAATACAGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.23, C:0.36, G:0.02, T:0.38
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48604772 original size:9 final size:9
Alignment explanation
Indices: 48604760--48604827 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
48604750 TCAATTTGGT
*
48604760 TAATTCGGA
1 TAATTCGGG
48604769 TAATTCGGG
1 TAATTCGGG
48604778 TAATTCGGG
1 TAATTCGGG
*
48604787 TAATTCGGT
1 TAATTCGGG
48604796 TAATTCGGG
1 TAATTCGGG
* * *
48604805 TATTTTGGT
1 TAATTCGGG
*
48604814 TAATTCGGT
1 TAATTCGGG
48604823 TAATT
1 TAATT
48604828 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (9 bp):
TAATTCGGG
Found at i:48604781 original size:18 final size:18
Alignment explanation
Indices: 48604752--48604827 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
48604742 GTAGTGATTC
* *
48604752 AATTTGGTTAATTCGGAT
1 AATTCGGTTAATTCGGGT
*
48604770 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGT
48604788 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* * *
48604806 ATTTTGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
48604824 AATT
1 AATT
48604828 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:48604790 original size:27 final size:27
Alignment explanation
Indices: 48604760--48604827 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
48604750 TCAATTTGGT
*
48604760 TAATTCGGATAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGGTAATTCGGG
* * *
48604787 TAATTCGGTTAATTCGGGTATTTTGGT
1 TAATTCGGTTAATTCGGGTAATTCGGG
48604814 TAATTCGGTTAATT
1 TAATTCGGTTAATT
48604828 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCGGG
Found at i:48605504 original size:3 final size:3
Alignment explanation
Indices: 48605496--48605523 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48605486 GTCTGCTTTC
48605496 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48605524 CTTTTCCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:48612501 original size:23 final size:21
Alignment explanation
Indices: 48612462--48612505 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
48612452 ATAATTTTAA
*
48612462 AATGTAATAAAAGTATAATTT
1 AATGTAATAAAAATATAATTT
48612483 AATGTAAATACAAAATATAATTT
1 AATGT-AATA-AAAATATAATTT
48612506 CATCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AATGTAATAAAAATATAATTT
Found at i:48613072 original size:45 final size:45
Alignment explanation
Indices: 48613014--48613695 Score: 842
Period size: 45 Copynumber: 15.3 Consensus size: 45
48613004 GCAATAGTGG
* * * *
48613014 AGTAGGTCAAAGATAGCATATCTTTTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * * *
48613059 AGTAGATCGAAGATAACAAATCTTGTCTTCTTGTATTGATAGCG-
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
48613103 AGTAGATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
***
48613148 AGTAGATCAAAGATAATGGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
*
48613193 AGTAGATC---G--A--AGATCTTGTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
48613231 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATCGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* **
48613276 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAAAGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
48613321 AGTAGATCGAAGATAACAAATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
*
48613366 AGTAGATCAAAGATAGTAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * *
48613411 AGTAGATCGAAGATAGCAGACCTTGTCTTCGTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * * *
48613456 AGTAGATAAAAAATAACAGATCTTGTCTTCTTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
48613501 AGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGCAACGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
** * *
48613546 AGTAGATTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
48613591 AGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * **
48613636 AGTAGATCAAAGATAGAAGACCTTGTCTTCCTAT-TTCGACAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATT-GGTAGCGA
*
48613681 AGTAGATTAAAGATA
1 AGTAGATCAAAGATA
48613696 CAAGTCTTAT
Statistics
Matches: 556, Mismatches: 72, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
38 34 0.06
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 38 0.07
45 480 0.86
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (45 bp):
AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
Found at i:48620849 original size:31 final size:31
Alignment explanation
Indices: 48620814--48620877 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
48620804 GGAGGGCTCA
48620814 ATGGTTTATGAGAGCTGAAGGACAATGATGG
1 ATGGTTTATGAGAGCTGAAGGACAATGATGG
48620845 ATGGTTTATGAGAGCTGAAGGACAATGATGG
1 ATGGTTTATGAGAGCTGAAGGACAATGATGG
48620876 AT
1 AT
48620878 TAAGTATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.34, T:0.27
Consensus pattern (31 bp):
ATGGTTTATGAGAGCTGAAGGACAATGATGG
Found at i:48623004 original size:26 final size:26
Alignment explanation
Indices: 48622974--48623024 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
48622964 AAACTGTTAA
*
48622974 TTAATTAAAAATTAATATAATATATT
1 TTAATTAAAAATTAAAATAATATATT
** *
48623000 TTAATTATTAATTAAAATAGTATAT
1 TTAATTAAAAATTAAAATAATATAT
48623025 ATCTAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATTAAAAATTAAAATAATATATT
Found at i:48624224 original size:23 final size:21
Alignment explanation
Indices: 48624185--48624228 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
48624175 ATAATTTTAA
*
48624185 AATGTAATAAAAGTATAATTT
1 AATGTAATAAAAATATAATTT
48624206 AATGTAAATACAAAATATAATTT
1 AATGT-AATA-AAAATATAATTT
48624229 CATCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AATGTAATAAAAATATAATTT
Found at i:48624794 original size:45 final size:45
Alignment explanation
Indices: 48624736--48625274 Score: 682
Period size: 45 Copynumber: 12.2 Consensus size: 45
48624726 GCAATAGTGG
* * * *
48624736 AGTAGGTCAAAGATAGCAGATCTTTTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* * * * *
48624781 AGTAGATCGAAGATAACAAATCTTGTCTTCCTGTGTTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* * *
48624826 AGTACATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGTC-GCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGG-CAGCGA
** *
48624871 AGTAGATCAAAGATAATAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* * *
48624916 AGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
*
48624961 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
*
48625006 AGTAGATC---G--A--AGATCTTGTCTTCCTATATTGGTAG-GA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* * *
48625043 AGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* **
48625088 AGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGCAATGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
** * *
48625133 AGTAGATTGAAGATAGCAGATGTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* *
48625178 AGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
* * * *
48625223 AGTAGATCAAAGATAGAAGACCTTATCTTCCTATATCGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
48625268 AGTAGAT
1 AGTAGAT
48625275 TGAAGATACT
Statistics
Matches: 434, Mismatches: 50, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
37 10 0.02
38 25 0.06
40 2 0.00
42 2 0.00
44 23 0.05
45 371 0.85
46 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (45 bp):
AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGA
Found at i:48624982 original size:135 final size:135
Alignment explanation
Indices: 48624736--48625274 Score: 781
Period size: 135 Copynumber: 4.1 Consensus size: 135
48624726 GCAATAGTGG
* * * * *
48624736 AGTAGGTCAAAGATAGCAGATCTTTTCTTCCTATGTTGGTAGCGAAGTAGATCGAAGATAACAAA
1 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
* * * * *
48624801 TCTTGTCTTCCTGTGTTGGCAGCGAAGTACATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGT
66 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGG-
48624866 C-GCGA
130 CAGCGA
*
48624871 AGTAGATCAAAGATAATAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
1 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
* *
48624936 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGT
66 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGC
48625001 AGCGA
131 AGCGA
48625006 AGTAGATC---G---A-AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAACAGA
1 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
48625063 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGC
66 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGC
**
48625128 AATGA
131 AGCGA
** * * * * *
48625133 AGTAGATTGAAGATAGCAGATGTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAACAGA
1 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
* * *
48625198 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGAAGACCTTATCTTCCTATATCGGC
66 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGC
48625263 AGCGA
131 AGCGA
48625268 AGTAGAT
1 AGTAGAT
48625275 TGAAGATACT
Statistics
Matches: 369, Mismatches: 26, Indels: 18
0.89 0.06 0.04
Matches are distributed among these distances:
127 95 0.26
128 25 0.07
129 1 0.00
130 1 0.00
132 1 0.00
134 22 0.06
135 224 0.61
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (135 bp):
AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGC
AGCGA
Found at i:48627687 original size:86 final size:87
Alignment explanation
Indices: 48627557--48627761 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 87
48627547 TTGCGGCAAG
* * * *
48627557 CGCCGCTAAAGAT--TAATCTTTAGCGGCACTTTTCCCACAAACGCCGCAAAAGACCTTGATCTA
1 CGCCACTAAAGATCCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAAAAGACCATGATCTA
48627620 TAGCGGCGC-CTCGACCACAAA
66 TAGCGGCGCTCTCGACCACAAA
* * * * *
48627641 CGCCATTAAAGATCCTAATCTTTAGCAGCGCTTTCCCCACAAACGCCGCTAAAGATCATGATCTT
1 CGCCACTAAAGATCCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAAAAGACCATGATCTA
* * ***
48627706 TAGTGGCGCTTTTTTCCACAAA
66 TAGCGGCGCTCTCGACCACAAA
* * *
48627728 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTT
1 CGCCACTAAAGATCCTAATCTTTAGCGGCGCTTT
48627762 TACCAAAAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
84 11 0.11
86 51 0.52
87 37 0.37
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (87 bp):
CGCCACTAAAGATCCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAAAAGACCATGATCTA
TAGCGGCGCTCTCGACCACAAA
Found at i:48627749 original size:44 final size:42
Alignment explanation
Indices: 48627532--48627781 Score: 207
Period size: 43 Copynumber: 5.8 Consensus size: 42
48627522 AAGATCAGGG
* * ** *
48627532 TCTTTAGCGGCGTTTTTGCGGCAAGCGCCGCTAAAGA--TTAA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCTT-A
* *
48627573 TCTTTAGCGGCACTTTTCCCACAAACGCCGCAAAAGACCTTGA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCTT-A
* * *** ** *
48627616 TCTATAGCGGCGCCTCGACCACAAACGCCATTAAAGATCCTAA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGA-CCTTA
* * * *
48627659 TCTTTAGCAGCGCTTTCCCCACAAACGCCGCTAAAGATCATGA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGA-CCTTA
* *
48627702 TCTTTAGTGGCGCTTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAAGA-CCTTA
* * *
48627746 TCTTTAGCGGCGCTTTTACCAAAAAACGCCACTAAA
1 TCTTTAGCGGCGCTTTT-CCCACAAACGCCGCTAAA
48627782 TTTGGCAGAT
Statistics
Matches: 164, Mismatches: 40, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
41 30 0.18
43 80 0.49
44 54 0.33
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCTTA
Found at i:48628119 original size:21 final size:21
Alignment explanation
Indices: 48628090--48628160 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
48628080 TTTGACGCTG
*
48628090 CTCTGCTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
48628111 CTCTACTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
48628132 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
48628153 ATCTGCTT
1 CTCTGCTT
48628161 TAAGCTGCTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.04, C:0.46, G:0.17, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:48628212 original size:66 final size:66
Alignment explanation
Indices: 48628131--48628277 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
48628121 CTCGCTGCCG
* *
48628131 CCTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
48628194 GAA
64 GAA
* * * *
48628197 CCTCAGCTTCTCTCGCTGCTGCATTTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
48628262 A
66 A
48628263 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
48628278 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:48628293 original size:66 final size:65
Alignment explanation
Indices: 48628131--48628301 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
48628121 CTCGCTGCCG
* * * * * *
48628131 CCTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGA
48628196 A
65 A
* ** *
48628197 CCTCAGCTTCTCTCGCTGCTGCATTTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTG
48628261 AA
64 AA
* *
48628263 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
48628302 TAATTTGCTC
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAA
Found at i:48630611 original size:9 final size:9
Alignment explanation
Indices: 48630597--48630963 Score: 66
Period size: 9 Copynumber: 38.8 Consensus size: 9
48630587 CGGTAATTAG
48630597 TTATGTAAT
1 TTATGTAAT
48630606 TTATGT-A-
1 TTATGTAAT
48630613 -TAT-TAAT
1 TTATGTAAT
* *
48630620 TAAT-TAAG
1 TTATGTAAT
48630628 TTATGTAAT
1 TTATGTAAT
48630637 TTATGTATAAT
1 TTATG--TAAT
*
48630648 ATTAATGTAAG
1 -TT-ATGTAAT
48630659 TTATGTAAT
1 TTATGTAAT
48630668 TTATGAATAAT
1 TTATG--TAAT
*
48630679 TATAAAAATGTAAG
1 T-T----ATGTAAT
48630693 TTATGTAA-
1 TTATGTAAT
* *
48630701 GT-TGTAAG
1 TTATGTAAT
*
48630709 TTATGTAAG
1 TTATGTAAT
48630718 TTATGT-AT
1 TTATGTAAT
*
48630726 AATAT-TAAT
1 -TTATGTAAT
** *
48630735 AAAT-TAAG
1 TTATGTAAT
48630743 TTATGTAAT
1 TTATGTAAT
48630752 TTATGTATAAT
1 TTATG--TAAT
*
48630763 ATTAATGTAAG
1 -TT-ATGTAAT
**
48630774 CAATGTAAT
1 TTATGTAAT
48630783 TTATGTGTAAT
1 TTA--TGTAAT
*
48630794 AATTAAT-TAAG
1 --TT-ATGTAAT
48630805 TTATGTAAT
1 TTATGTAAT
48630814 TTATGTATAAT
1 TTATG--TAAT
* *
48630825 ACTAATGTAAG
1 --TTATGTAAT
48630836 TTATGT-AT
1 TTATGTAAT
*
48630844 AATAT-TAAT
1 -TTATGTAAT
* *
48630853 TAAT-TAAG
1 TTATGTAAT
48630861 TTATGTAAT
1 TTATGTAAT
48630870 TTATGTATAAT
1 TTATG--TAAT
* *
48630881 ATTAATGCAAG
1 -TT-ATGTAAT
48630892 TTATGT-AT
1 TTATGTAAT
*
48630900 AATAT-TAAT
1 -TTATGTAAT
* *
48630909 TAAT-TAAG
1 TTATGTAAT
48630917 TTATGTAAT
1 TTATGTAAT
48630926 TTATGTATAAT
1 TTATG--TAAT
*
48630937 ATTAATGTAAC
1 -TT-ATGTAAT
48630948 TTATGTAAT
1 TTATGTAAT
48630957 TTATGTA
1 TTATGTA
48630964 TATTAATTAA
Statistics
Matches: 264, Mismatches: 46, Indels: 96
0.65 0.11 0.24
Matches are distributed among these distances:
5 1 0.00
6 4 0.02
7 5 0.02
8 43 0.16
9 120 0.45
10 6 0.02
11 48 0.18
12 10 0.04
13 19 0.07
14 5 0.02
16 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (9 bp):
TTATGTAAT
Found at i:48630631 original size:31 final size:32
Alignment explanation
Indices: 48630595--48630974 Score: 230
Period size: 31 Copynumber: 12.9 Consensus size: 32
48630585 GTCGGTAATT
48630595 AGTTATGTAATTTATGTATATTAATTAAT-TA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
*
48630626 AGTTATGTAATTTATGTATAAT-ATTAATGTA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
* **
48630657 AGTTATGTAATTTATGAATAATTATAAAAATGTA
1 AGTTATGTAATTTATGTAT-ATTA-ATTAATGTA
* *
48630691 AGTTATGTAA-GT-TG--TA--AGTT-ATGTA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
* *
48630716 AGTTATGTATAATATTA-ATAAATTAAGTT-ATGTA
1 AGTTATG--TAAT-TTATGTATATTAA-TTAATGTA
* *
48630750 ATTTATGT-A--TA---ATATTAATGTAA-GCA
1 AGTTATGTAATTTATGTATATTAAT-TAATGTA
* * *
48630776 ATGTAAT-----TTATGTGTAATAATTAAT-TA
1 A-GTTATGTAATTTATGTATATTAATTAATGTA
* *
48630803 AGTTATGTAATTTATGTATAAT-ACTAATGTA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
48630834 AGTTATGT-A--TA---ATATTAATTAAT-TA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
* *
48630859 AGTTATGTAATTTATGTATAAT-ATTAATGCA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
48630890 AGTTATGT-A--TA---ATATTAATTAAT-TA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
*
48630915 AGTTATGTAATTTATGTATAAT-ATTAATGTA
1 AGTTATGTAATTTATGTATATTAATTAATGTA
*
48630946 ACTTATGTAATTTATGTATATTAATTAAT
1 AGTTATGTAATTTATGTATATTAATTAAT
48630975 TAAATGATAT
Statistics
Matches: 271, Mismatches: 33, Indels: 89
0.69 0.08 0.23
Matches are distributed among these distances:
25 42 0.15
26 27 0.10
27 13 0.05
28 16 0.06
29 2 0.01
30 26 0.10
31 102 0.38
32 11 0.04
33 2 0.01
34 30 0.11
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (32 bp):
AGTTATGTAATTTATGTATATTAATTAATGTA
Found at i:48630699 original size:56 final size:55
Alignment explanation
Indices: 48630599--48630954 Score: 362
Period size: 56 Copynumber: 6.3 Consensus size: 55
48630589 GTAATTAGTT
*
48630599 ATGTAATTTATGTAT-AT-T-AATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAA-TAATTAAGTTATGTAATTTATGTATAATATTA
* *** * **
48630652 ATGTAAGTTATGTA-ATTTATGAATAATTATAAAAATGTAAGTTATGTAAGTTGTAAGTT-
1 ATGTAAGTTATGTATA-ATATGAATAATTA-AGTTATGTAATTTATGT-A-TAAT-A-TTA
*
48630711 ATGTAAGTTATGTATAATATTAATAAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAAT-AATTAAGTTATGTAATTTATGTATAATATTA
** * * *
48630767 ATGTAAGCAATGTAATTTATGTGTAATAATTAATTAAGTTATGTAATTTATGTATAATACTA
1 ATGTAAGTTATGT-A-TAATATG----AA-TAATTAAGTTATGTAATTTATGTATAATATTA
*
48630829 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAA-TAATTAAGTTATGTAATTTATGTATAATATTA
* *
48630885 ATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAA-TAATTAAGTTATGTAATTTATGTATAATATTA
*
48630941 ATGTAACTTATGTA
1 ATGTAAGTTATGTA
48630955 ATTTATGTAT
Statistics
Matches: 253, Mismatches: 31, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
53 13 0.05
54 1 0.00
55 9 0.04
56 128 0.51
57 4 0.02
58 7 0.03
59 34 0.13
60 12 0.05
61 1 0.00
62 43 0.17
63 1 0.00
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (55 bp):
ATGTAAGTTATGTATAATATGAATAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:48630708 original size:16 final size:16
Alignment explanation
Indices: 48630687--48630719 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48630677 ATTATAAAAA
48630687 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
48630703 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
48630719 T
1 T
48630720 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:48630710 original size:50 final size:50
Alignment explanation
Indices: 48630653--48630750 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
48630643 ATAATATTAA
*
48630653 TGTAAGTTATGTAATTTATGAATAAT-TATAA-AAATGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGAATAATAT-TAATAAAT-TAAGTTATGTAAGT
*
48630703 TGTAAGTTATGTAAGTTATGTATAATATTAATAAATTAAGTTATGTAA
1 TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAA
48630751 TTTATGTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 39 0.89
51 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (50 bp):
TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAAGT
Found at i:48630833 original size:22 final size:22
Alignment explanation
Indices: 48630807--48630857 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
48630797 TAATTAAGTT
48630807 ATGTAATTTATGTATAATACTA
1 ATGTAATTTATGTATAATACTA
* *
48630829 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATACTA
48630851 AT-TAATT
1 ATGTAATT
48630858 AAGTTATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (22 bp):
ATGTAATTTATGTATAATACTA
Found at i:48631796 original size:16 final size:16
Alignment explanation
Indices: 48631775--48631825 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
48631765 CTTCGACGAC
* *
48631775 AGAGGAGTGCGATGGT
1 AGAGGAATGCGACGGT
*
48631791 AGAGGACTGCGACGGT
1 AGAGGAATGCGACGGT
* *
48631807 CGACGAATGCGACGGT
1 AGAGGAATGCGACGGT
48631823 AGA
1 AGA
48631826 TGATCGACGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.43, T:0.14
Consensus pattern (16 bp):
AGAGGAATGCGACGGT
Found at i:48632217 original size:84 final size:83
Alignment explanation
Indices: 48632072--48632231 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 83
48632062 CCGTAAAGGC
* * *
48632072 AAAACGGCACCGATTTGTTTAAAAAACCCGAAACTTTGCGGCGTTTTCACCATAGCGCCACTAAT
1 AAAACGACACCGATTTGTTTAAAAAACCCGAAACTTTGCAGCGTTTTCACCATAGCACCACTAAT
* *
48632137 GTCGTTAATGTGCCAGGG
66 GCCCTTAATGTGCCAGGG
*
48632155 AAAACGACACCG-TTTGGTTTAAAAAACCTGAAAACTTTGCAGCGCTTTT-ACCATAGCACCACT
1 AAAACGACACCGATTT-GTTTAAAAAACCCG-AAACTTTGCAGCG-TTTTCACCATAGCACCACT
48632218 AATGCCCTTAATGT
63 AATGCCCTTAATGT
48632232 AAACGACACC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
82 3 0.04
83 24 0.35
84 37 0.54
85 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (83 bp):
AAAACGACACCGATTTGTTTAAAAAACCCGAAACTTTGCAGCGTTTTCACCATAGCACCACTAAT
GCCCTTAATGTGCCAGGG
Found at i:48632682 original size:20 final size:20
Alignment explanation
Indices: 48632637--48632689 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
48632627 TAAAATTAAA
*
48632637 AATTTTAGAGTTTTTATATTT
1 AATTTT-GATTTTTTATATTT
*
48632658 CATTTTGATTTTTGTAT-TTT
1 AATTTTGATTTTT-TATATTT
*
48632678 AATTTTAATTTT
1 AATTTTGATTTT
48632690 AATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTGATTTTTTATATTT
Found at i:48633155 original size:14 final size:15
Alignment explanation
Indices: 48633136--48633166 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
48633126 GACCAACCCT
48633136 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
48633150 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
48633165 TA
1 TA
48633167 TATATTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:48634117 original size:114 final size:114
Alignment explanation
Indices: 48633910--48634611 Score: 1086
Period size: 114 Copynumber: 6.2 Consensus size: 114
48633900 GCTTTAACAA
* * * * * *
48633910 AAACGCCGCTAAAAC-CTATATTATTCGCGACGCTAATCTAAAAACGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTC-ATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAG
* *
48633974 TGTCTCCAAACGACGTCATCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
65 TGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
* *
48634024 AAACACCGCTAATACTAATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
48634089 GTCTCCAGACGACGTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATACA
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATA-G
* ** *
48634139 AAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACTCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * * * * *
48634204 GTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTTCGACGTTTTTGTAG
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
*
48634253 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAG
*
48634317 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
65 TGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
48634367 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
*
48634432 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAG
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
* * *
48634481 AAACGCCGCTAGTACTCATATTATTAGCGGCGCTATTCGAAAAACGCCACTAATGTCACCGAAAT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
*
48634546 TTCTCCAAACGACGTCGTCTGGG-TTTAGTTTTTGCGGCATTTTTATAG
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
48634594 AAACGCCGCTAATACTCA
1 AAACGCCGCTAATACTCA
48634612 ATCGATTGCG
Statistics
Matches: 537, Mismatches: 47, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
113 41 0.08
114 394 0.73
115 102 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (114 bp):
AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAG
Found at i:48634499 original size:228 final size:228
Alignment explanation
Indices: 48633910--48634611 Score: 1086
Period size: 229 Copynumber: 3.1 Consensus size: 228
48633900 GCTTTAACAA
* * * * *
48633910 AAACGCCGCTAAAAC-CTATATTATTCGCGACGCTAATCTAAAAACGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTC-ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAG
* * *
48633974 TGTCTCCAAACGACGTCATCTGGGGTTTAGTTTTTGCGGCATTTTTATAGAAACACCGCTAATAC
65 TGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATAC
* *
48634039 TAATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAGTGTCTCCAGACGACG
130 TCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
* * *
48634103 TCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATACA
194 TCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA-G
* ** *
48634139 AAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACTCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGT
* * * * * *
48634204 GTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTTCGACGTTTTTGTAGAAACGCCGCTAATACT
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACT
*
48634269 CATATTATTAGCGGCGCTATTAGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTC
131 CATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
48634334 GTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
196 GTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
*
48634367 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGT
* *
48634432 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAGAAACGCCGCTAGTACT
66 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACT
* * *
48634497 CATATTATTAGCGGCGCTATTCGAAAAACGCCACTAATGTCACCGAAATTTCTCCAAACGACGTC
131 CATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
48634562 GTCT-GGGTTTAGTTTTTGCGGCATTTTTATAG
196 GTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
48634594 AAACGCCGCTAATACTCA
1 AAACGCCGCTAATACTCA
48634612 ATCGATTGCG
Statistics
Matches: 432, Mismatches: 39, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
227 46 0.11
228 184 0.43
229 201 0.47
230 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (228 bp):
AAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGT
GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACT
CATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
GTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
Found at i:48635811 original size:17 final size:20
Alignment explanation
Indices: 48635791--48635835 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 20
48635781 TAACTTATTT
48635791 AATTTTATTAAAAT-T-A-A
1 AATTTTATTAAAATGTGATA
48635808 AATTATTA-TAAAATGTGATA
1 AATT-TTATTAAAATGTGATA
48635828 AATTTTAT
1 AATTTTAT
48635836 AAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 4 0.17
20 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
AATTTTATTAAAATGTGATA
Found at i:48646207 original size:31 final size:33
Alignment explanation
Indices: 48646147--48646207 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
48646137 AAATAATTTA
* * *
48646147 ATTAATTTAATTTAATTAACTAATTTTTTGGTC
1 ATTAAATTAATTTAATTAAATAATATTTTGGTC
48646180 ATTAAATTAA-TT-ATTAAATAATATTTTG
1 ATTAAATTAATTTAATTAAATAATATTTTG
48646208 AGTACTAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.56
32 2 0.08
33 9 0.36
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (33 bp):
ATTAAATTAATTTAATTAAATAATATTTTGGTC
Found at i:48649185 original size:13 final size:13
Alignment explanation
Indices: 48649167--48649191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48649157 TAAAAATTTG
48649167 AGGGAAAGTAAAT
1 AGGGAAAGTAAAT
48649180 AGGGAAAGTAAA
1 AGGGAAAGTAAA
48649192 ATTTTAGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (13 bp):
AGGGAAAGTAAAT
Found at i:48655718 original size:46 final size:46
Alignment explanation
Indices: 48655651--48655744 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
48655641 TTACTTGTAA
48655651 GAATGCATTTGTGAGTATGGTTGATTTTACAGGCTAAGTTCTAAGG
1 GAATGCATTTGTGAGTATGGTTGATTTTACAGGCTAAGTTCTAAGG
48655697 GAATGCATTTGTGAGTATGGTTGATTTTACAGGCTAAGTTCTAAGG
1 GAATGCATTTGTGAGTATGGTTGATTTTACAGGCTAAGTTCTAAGG
48655743 GA
1 GA
48655745 GAAATTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.36
Consensus pattern (46 bp):
GAATGCATTTGTGAGTATGGTTGATTTTACAGGCTAAGTTCTAAGG
Found at i:48656232 original size:9 final size:9
Alignment explanation
Indices: 48656213--48656249 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48656203 TGAGTTTTCG
*
48656213 AATTGGAAT
1 AATTCGAAT
*
48656222 AACTCGAAT
1 AATTCGAAT
48656231 AATTCGAAT
1 AATTCGAAT
48656240 AATTCGAAT
1 AATTCGAAT
48656249 A
1 A
48656250 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:48657290 original size:5 final size:5
Alignment explanation
Indices: 48657280--48657305 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48657270 CTCAAAAAAT
48657280 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
48657306 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:48660045 original size:21 final size:21
Alignment explanation
Indices: 48659995--48660045 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
48659985 GGAATTTTGA
48659995 AAGAGAGAAGTCAATAACAGT
1 AAGAGAGAAGTCAATAACAGT
*
48660016 AAGAAAGAAGTCAATAACAGT
1 AAGAGAGAAGTCAATAACAGT
48660037 GAA-AGAGAA
1 -AAGAGAGAA
48660046 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.57, C:0.08, G:0.24, T:0.12
Consensus pattern (21 bp):
AAGAGAGAAGTCAATAACAGT
Done.