Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 194 of 210
Found at i:64315241 original size:31 final size:29
Alignment explanation
Indices: 64315203--64315278 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
64315193 TTAACAGCTC
*
64315203 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
64315234 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
64315263 AGTGACTAAAATGTAA
1 AGTGACTAAAATGTAA
64315279 ACTGAGGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.54
30 1 0.03
31 17 0.44
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:64320621 original size:22 final size:22
Alignment explanation
Indices: 64320595--64320644 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
64320585 GACTCACATA
64320595 CTTTTCTTCT-AATCCGCAATAT
1 CTTTTCTTCTAAATCCGCAA-AT
**
64320617 CTTTT-TTCTAAATCTTCAAAT
1 CTTTTCTTCTAAATCCGCAAAT
64320638 CTTTTCT
1 CTTTTCT
64320645 GACTGACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.52
Consensus pattern (22 bp):
CTTTTCTTCTAAATCCGCAAAT
Found at i:64361254 original size:19 final size:18
Alignment explanation
Indices: 64361230--64361300 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
64361220 TTTCTATATA
64361230 TTTTATAATTTTATACGAT
1 TTTTATAATTTT-TACGAT
** *
64361249 TTTTATAAAAGTTTACAAT
1 TTTTAT-AATTTTTACGAT
* *
64361268 TTTTATATTTTTTTATGAT
1 TTTTATA-ATTTTTACGAT
*
64361287 TTTTATATTTTTTA
1 TTTTATAATTTTTA
64361301 ACTGTTAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 8 0.19
19 30 0.71
20 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTATAATTTTTACGAT
Found at i:64361254 original size:46 final size:48
Alignment explanation
Indices: 64361166--64361263 Score: 121
Period size: 46 Copynumber: 2.1 Consensus size: 48
64361156 NNNNNNGAAA
* * *
64361166 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAT
1 TTTATATTTCTATACATTTTGTATAATTTTCATACGACTTTATAAAAG
* *
64361214 TTTATATTTCTATATA-TTT-TATAATTTT-ATACGATTTTTATAAAAG
1 TTTATATTTCTATACATTTTGTATAATTTTCATACGA-CTTTATAAAAG
64361260 TTTA
1 TTTA
64361264 CAATTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
45 5 0.11
46 22 0.50
47 3 0.07
48 14 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (48 bp):
TTTATATTTCTATACATTTTGTATAATTTTCATACGACTTTATAAAAG
Found at i:64361555 original size:93 final size:92
Alignment explanation
Indices: 64361418--64361628 Score: 266
Period size: 92 Copynumber: 2.3 Consensus size: 92
64361408 TAATTGCTTT
* * * * *
64361418 TTTTTTTGAAAAAGTTTGAAGG-TCTTTTTTATGCATTTTGAAAGTTCAAGTACCTAAATGAGTG
1 TTTTTTTAAAAAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTG
* * * * * *
64361482 CAAAAAAAGAGAGTAGGGGTTTAATTGC-
66 -AAAAAAA-AAAGCAGAGGCTTAAATACA
*
64361510 TTTTTTTAAAAAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTTAAGTACCAAAATGAGTG
1 TTTTTTTAAAAAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTG
64361575 AAAAAAAAAAGCAGAGGCTTAAATACA
66 AAAAAAAAAAGCAGAGGCTTAAATACA
*
64361602 TTTTTTGAAAAAA-TTTGAGGGCTTTTT
1 TTTTTTTAAAAAAGTTTGAGGGCTTTTT
64361629 ACATCATTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
91 27 0.26
92 39 0.38
93 38 0.37
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (92 bp):
TTTTTTTAAAAAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTG
AAAAAAAAAAGCAGAGGCTTAAATACA
Found at i:64361624 original size:91 final size:92
Alignment explanation
Indices: 64361419--64361628 Score: 264
Period size: 91 Copynumber: 2.3 Consensus size: 92
64361409 AATTGCTTTT
* * * * *
64361419 TTTTTTGAAAAAGTTTGAAGG-TCTTTTTTATGCATTTTGAAAGTTCAAGTACCTAAATGAGTGC
1 TTTTTTGAAAAAATTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTGC
* * * * * *
64361483 AAAAAAAGAGAGTAGGGGTTTAATTGC
66 AAAAAAAGAAAGCAGAGGCTTAAATAC
* *
64361510 TTTTTTTAAAAAAGTTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTTAAGTACCAAAATGAGTG
1 TTTTTTGAAAAAA-TTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTG
64361575 -AAAAAAA-AAAGCAGAGGCTTAAATAC
65 CAAAAAAAGAAAGCAGAGGCTTAAATAC
64361601 ATTTTTTGAAAAAATTTGAGGGCTTTTT
1 -TTTTTTGAAAAAATTTGAGGGCTTTTT
64361629 ACATCATTAA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 38 0.37
92 26 0.25
93 38 0.37
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (92 bp):
TTTTTTGAAAAAATTTGAGGGCTTTTTTTTATGCATTTTAAAAGTTCAAGTACCAAAATGAGTGC
AAAAAAAGAAAGCAGAGGCTTAAATAC
Found at i:64374162 original size:20 final size:20
Alignment explanation
Indices: 64374115--64374169 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
64374105 TAATCATTCT
64374115 TTAAAAAATTTAAAAAAAAAC
1 TTAAAAAA-TTAAAAAAAAAC
* *
64374136 TT-AAAAATTAAAAAAGAAG
1 TTAAAAAATTAAAAAAAAAC
64374155 TTAAAAAATATAAAA
1 TTAAAAAAT-TAAAA
64374170 GTATATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.40
20 11 0.37
21 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
TTAAAAAATTAAAAAAAAAC
Found at i:64374253 original size:21 final size:22
Alignment explanation
Indices: 64374212--64374253 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
64374202 AATTGAAAAT
*
64374212 AAATAAATTAAATATGTTTAAA
1 AAATAAATTAAATATGGTTAAA
*
64374234 AAATAAA-TAAATTTGGTTAA
1 AAATAAATTAAATATGGTTAA
64374254 TTTTTTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAAATTAAATATGGTTAAA
Found at i:64374297 original size:15 final size:15
Alignment explanation
Indices: 64374273--64374306 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64374263 GAATTACAAG
*
64374273 AAAATGTAAAAATTT
1 AAAATGTAAAAAATT
*
64374288 AAAATTTAAAAAATT
1 AAAATGTAAAAAATT
64374303 AAAA
1 AAAA
64374307 AATATATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATGTAAAAAATT
Found at i:64383291 original size:16 final size:16
Alignment explanation
Indices: 64383270--64383300 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
64383260 TAATATTATT
64383270 TAATATTAAATTTAAA
1 TAATATTAAATTTAAA
64383286 TAATATTAAATTTAA
1 TAATATTAAATTTAA
64383301 TTTAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTAAATTTAAA
Found at i:64387072 original size:115 final size:116
Alignment explanation
Indices: 64386869--64387100 Score: 448
Period size: 115 Copynumber: 2.0 Consensus size: 116
64386859 TCTTGATCGG
64386869 TATGATTTGATTCTCGCAGTTCTTTAGTTCATAAGGTACTCTACAAAGTTGGTAAACTCAAGGGT
1 TATGATTTGATTCTCGCAGTTCTTTAGTTCATAAGGTACTCTACAAAGTTGGTAAACTCAAGGGT
64386934 TTTTTACAGAAATAATATAAAAAAATAAAAAATTATCAAAATGTTATAACT
66 TTTTTACAGAAATAATATAAAAAAATAAAAAATTATCAAAATGTTATAACT
64386985 TATGATTTGA-TCTCGCAGTTCTTTAGTTCATAAGGTACTCTACAAAGTTGGTAAACTCAAGGGT
1 TATGATTTGATTCTCGCAGTTCTTTAGTTCATAAGGTACTCTACAAAGTTGGTAAACTCAAGGGT
*
64387049 TTTTTACAGAAATAATATAAAAAAATTAAAAATTATCAAAATGTTATAACT
66 TTTTTACAGAAATAATATAAAAAAATAAAAAATTATCAAAATGTTATAACT
64387100 T
1 T
64387101 TTTTTTATTT
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 105 0.91
116 10 0.09
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (116 bp):
TATGATTTGATTCTCGCAGTTCTTTAGTTCATAAGGTACTCTACAAAGTTGGTAAACTCAAGGGT
TTTTTACAGAAATAATATAAAAAAATAAAAAATTATCAAAATGTTATAACT
Found at i:64387150 original size:24 final size:25
Alignment explanation
Indices: 64387101--64387150 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
64387091 GTTATAACTT
64387101 TTTTTTATTTACCAAAAAATATATAA
1 TTTTTTATTTACC-AAAAATATATAA
64387127 TTTTTTATTTACC-AAAATATATAA
1 TTTTTTATTTACCAAAAATATATAA
64387151 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTTTATTTACCAAAAATATATAA
Found at i:64387325 original size:18 final size:17
Alignment explanation
Indices: 64387302--64387479 Score: 82
Period size: 18 Copynumber: 10.0 Consensus size: 17
64387292 GAAGGAGAGG
64387302 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
64387320 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
64387337 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
64387353 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
64387371 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
64387391 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
*
64387409 GGAAAGAAAAGGAAAGGAGAA
1 GG-AAG-AAA-GAAA-AAGAA
64387430 GAGAA-AAA-AAAAAGAA
1 G-GAAGAAAGAAAAAGAA
* * *
64387446 AGAAGAAA-AAGAGGAAA
1 GGAAGAAAGAAAAAG-AA
64387463 GGAAGGAAA-AAAAAGAA
1 GGAA-GAAAGAAAAAGAA
64387480 AATAAGGTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 29
0.72 0.11 0.17
Matches are distributed among these distances:
15 12 0.10
16 15 0.12
17 14 0.11
18 36 0.29
19 26 0.21
20 16 0.13
21 6 0.05
22 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:64387335 original size:10 final size:10
Alignment explanation
Indices: 64387304--64387375 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
64387294 AGGAGAGGGG
*
64387304 AAGAAGAAGA
1 AAGAAAAAGA
64387314 AAGAAAGGAAGA
1 AAGAAA--AAGA
64387326 AAGAAAAAGA
1 AAGAAAAAGA
* *
64387336 AGGAAAAGGA
1 AAGAAAAAGA
64387346 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
64387360 AAGAAAAAGA
1 AAGAAAAAGA
*
64387370 AGGAAA
1 AAGAAA
64387376 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:64387335 original size:22 final size:23
Alignment explanation
Indices: 64387304--64387480 Score: 82
Period size: 24 Copynumber: 7.5 Consensus size: 23
64387294 AGGAGAGGGG
*
64387304 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
64387326 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
64387348 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
64387374 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
64387398 AAGAAAAATAAGGAAAGAAAAGGAAAGGA
1 AAG--AAA-AA-GAAAGAAAAGG-AA-GA
* *
64387427 GAAGAGAAA-AAA-AAAAGAAAG-
1 -AAGAAAAAGAAAGAAAAGGAAGA
*
64387448 AAGAAAAAG--AGGAAAGGAAGGA
1 AAGAAAAAGAAAGAAAAGGAA-GA
64387470 AA-AAAAAGAAA
1 AAGAAAAAGAAA
64387481 ATAAGGTAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 35
0.67 0.13 0.20
Matches are distributed among these distances:
19 1 0.01
20 13 0.11
21 7 0.06
22 15 0.13
23 13 0.11
24 33 0.29
25 8 0.07
26 4 0.03
27 3 0.03
28 13 0.11
29 2 0.02
30 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:64387362 original size:28 final size:28
Alignment explanation
Indices: 64387307--64387481 Score: 87
Period size: 28 Copynumber: 6.0 Consensus size: 28
64387297 AGAGGGGAAG
64387307 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
64387332 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
** *
64387366 AAGAAGGAAAGAAAAGGAAAG-GGGAGGA
1 AAGAAGGAAAGAAAAGGAAAGAAAGA-AA
*
64387394 AAGAAAGAAA-AATAAGGAAAGAAAAGGAAA
1 AAGAAGGAAAGAA-AAGGAAAG-AAA-GAAA
* * *
64387424 GGAGAAGAGAAAAAAAAAAGAAAG-AAGAAA
1 -AAGAAG-G-AAAGAAAAGGAAAGAAAGAAA
* *
64387454 AAG-AGGAAAG-GAAGGAAAAAAAAGAAA
1 AAGAAGGAAAGAAAAGG-AAAGAAAGAAA
64387481 A
1 A
64387482 TAAGGTAATT
Statistics
Matches: 115, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
25 8 0.07
26 7 0.06
27 15 0.13
28 28 0.24
29 3 0.03
30 6 0.05
31 10 0.09
32 3 0.03
33 16 0.14
34 19 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:64387380 original size:38 final size:37
Alignment explanation
Indices: 64387322--64387481 Score: 177
Period size: 38 Copynumber: 4.3 Consensus size: 37
64387312 GAAAGAAAGG
64387322 AAGAAAGAAAAAGAAG---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGAAAGAAAAGGAAAGGAGAGGA
*
64387356 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAA-GAAAGAAAAGGAAAGGAGAGGA
*
64387394 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 AAGAAAGAAAAAGAA-GAAAGAAAAGGAAAGGAG-AG-GA
* * *
64387434 AAAAAAAAAGAAAGAAGAAA-AAGAGGAAAGGA-AGGAA
1 AAGAAAGAA-AAAGAAGAAAGAAAAGGAAAGGAGAGG-A
*
64387471 AAAAAAGAAAA
1 AAGAAAGAAAA
64387482 TAAGGTAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
36 3 0.03
37 11 0.10
38 49 0.45
39 13 0.12
40 13 0.12
41 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (37 bp):
AAGAAAGAAAAAGAAGAAAGAAAAGGAAAGGAGAGGA
Found at i:64387382 original size:10 final size:10
Alignment explanation
Indices: 64387324--64387424 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
64387314 AAGAAAGGAA
*
64387324 GAAAGAAAAA
1 GAAAGAAAAG
*
64387334 GAAGGAAAAG
1 GAAAGAAAAG
* *
64387344 GAAAGGAGAG
1 GAAAGAAAAG
64387354 GAAAG-AAA-
1 GAAAGAAAAG
64387362 GAAA-AAGAAG
1 GAAAGAA-AAG
64387372 GAAAGAAAAG
1 GAAAGAAAAG
***
64387382 GAAAGGGGAG
1 GAAAGAAAAG
64387392 GAAAG-AAA-
1 GAAAGAAAAG
64387400 GAAA-AATAAG
1 GAAAGAA-AAG
64387410 GAAAGAAAAG
1 GAAAGAAAAG
64387420 GAAAG
1 GAAAG
64387425 GAGAAGAGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 51 0.71
11 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:64387480 original size:18 final size:19
Alignment explanation
Indices: 64387338--64387480 Score: 86
Period size: 18 Copynumber: 7.5 Consensus size: 19
64387328 GAAAAAGAAG
*
64387338 GAAAAGGAAAGGAGAGGAAA
1 GAAAAAGAAAGGA-AGGAAA
64387358 GAAAGAA-AAA-GAAGGAAA
1 GAAA-AAGAAAGGAAGGAAA
* *
64387376 GAAAAGGAAAGGGGAGGAAA
1 GAAAAAGAAA-GGAAGGAAA
*
64387396 GAAAGAA-AAA-TAAGGAAA
1 GAAA-AAGAAAGGAAGGAAA
*
64387414 GAAAAGGAAAGGAGAAGAGAAAA
1 GAAAAAGAAA-G-GAAG-G-AAA
*
64387437 AAAAAAGAAA-GAA-GAAA
1 GAAAAAGAAAGGAAGGAAA
* *
64387454 -AAGAGGAAAGGAAGGAAA
1 GAAAAAGAAAGGAAGGAAA
64387472 -AAAAAGAAA
1 GAAAAAGAAA
64387481 ATAAGGTAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
16 7 0.07
17 8 0.08
18 38 0.40
19 2 0.02
20 24 0.25
21 5 0.05
22 1 0.01
23 11 0.11
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (19 bp):
GAAAAAGAAAGGAAGGAAA
Found at i:64388196 original size:19 final size:19
Alignment explanation
Indices: 64388163--64388214 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
64388153 AAAATATATA
**
64388163 TAATATTTTGGTATTTTT-
1 TAATATTTTATTATTTTTG
64388181 TAAATATTTTATTATTTTTG
1 T-AATATTTTATTATTTTTG
*
64388201 TAATGTTTTATTAT
1 TAATATTTTATTAT
64388215 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:64388281 original size:28 final size:28
Alignment explanation
Indices: 64388250--64388305 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
64388240 AAATAAAAAA
64388250 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTTAT
64388278 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
64388306 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (28 bp):
TTACCAAAATATATATAATTTTTTTTAT
Found at i:64395396 original size:15 final size:14
Alignment explanation
Indices: 64395356--64395384 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64395346 TTTTTGTATC
64395356 AATTTAATTATTCT
1 AATTTAATTATTCT
64395370 AATTTAATTATTCT
1 AATTTAATTATTCT
64395384 A
1 A
64395385 GTTTTAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:64397783 original size:18 final size:18
Alignment explanation
Indices: 64397757--64397794 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64397747 ATCCCAATGA
* *
64397757 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
64397775 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
64397793 TC
1 TC
64397795 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:64397801 original size:18 final size:18
Alignment explanation
Indices: 64397760--64397801 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
64397750 CCAATGATCG
* *
64397760 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
64397778 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
64397796 CCACCA
1 CCACCA
64397802 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:64398895 original size:27 final size:27
Alignment explanation
Indices: 64398865--64398947 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
64398855 AGTTGGCAGG
*
64398865 ACTGGTGCCGCCAACCTGGTTCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
**
64398892 ACTGGTGCCGCCAACCTGCTTCCCTTG
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
**
64398919 TTTGGTGCCGCCAACCTGCTTCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
64398946 AC
1 AC
64398948 CCAGGGAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.11, C:0.43, G:0.20, T:0.25
Consensus pattern (27 bp):
ACTGGTGCCGCCAACCTGCTTCCCTCC
Found at i:64399013 original size:15 final size:13
Alignment explanation
Indices: 64398973--64399006 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
64398963 ATCAGTTCAG
*
64398973 GTTTTTTTTTTCT
1 GTTTTTTTTTTTT
64398986 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
64398999 GTTTTTTT
1 GTTTTTTT
64399007 ATATTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (13 bp):
GTTTTTTTTTTTT
Found at i:64399126 original size:13 final size:13
Alignment explanation
Indices: 64399110--64399134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64399100 TATGATATTT
64399110 AAAAACAAAAAAC
1 AAAAACAAAAAAC
64399123 AAAAACAAAAAA
1 AAAAACAAAAAA
64399135 ACCCTTAAAG
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:64405421 original size:17 final size:16
Alignment explanation
Indices: 64405401--64405443 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
64405391 AACTATTTCA
*
64405401 AATTTAAATTAATTTTG
1 AATTTAAATTAA-TTCG
* *
64405418 AATTCAAATCAATTCG
1 AATTTAAATTAATTCG
64405434 AATTTAAATT
1 AATTTAAATT
64405444 TATCTTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (16 bp):
AATTTAAATTAATTCG
Found at i:64411667 original size:21 final size:22
Alignment explanation
Indices: 64411626--64411667 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
64411616 TAAATATTAG
*
64411626 ATTAAATTTAATATTAAATTTT
1 ATTAAATTTAATATGAAATTTT
64411648 ATTAAA-TTAATA-GAATATTT
1 ATTAAATTTAATATGAA-ATTT
64411668 ATCTACAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 10 0.56
22 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTAAATTTAATATGAAATTTT
Found at i:64415700 original size:13 final size:13
Alignment explanation
Indices: 64415682--64415730 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
64415672 TTTCCTAAAT
64415682 TAAAAAATAATTA
1 TAAAAAATAATTA
64415695 TAAAAAATAATAATA
1 TAAAAAATAAT--TA
64415710 TATTAAAAAT-ATTA
1 TA--AAAAATAATTA
64415724 TAAAAAA
1 TAAAAAA
64415731 AAGTATGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.16
13 11 0.34
14 4 0.12
15 4 0.12
16 2 0.06
17 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAAATAATTA
Found at i:64415719 original size:17 final size:16
Alignment explanation
Indices: 64415683--64415720 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
64415673 TTCCTAAATT
64415683 AAAA-AATAATTATAA
1 AAAATAATAATTATAA
*
64415698 AAAATAATAATATATTA
1 AAAATAATAAT-TATAA
64415715 AAAATA
1 AAAATA
64415721 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATAATTATAA
Found at i:64416883 original size:171 final size:172
Alignment explanation
Indices: 64416587--64416929 Score: 679
Period size: 171 Copynumber: 2.0 Consensus size: 172
64416577 TTTGTAAATA
64416587 TTTTTATATACATATATTAAATATATTTTTCTTAAAATATTGATAAATCTGAAATAATACATTGA
1 TTTTTATATACATATATTAAATATATTTTTCTTAAAATATTGATAAATCTGAAATAATACATTGA
64416652 AATAAATTAATATCAATAAACAAATTTTAATAAAAAATGGTGCAATCTACTGATACAGTACTAAC
66 AATAAATTAATATCAATAAACAAATTTTAATAAAAAATGGTGCAATCTACTGATACAGTACTAAC
64416717 TACCGCCAAACAAAAACATTTCAATGGCGCCACTTTCTCCGC
131 TACCGCCAAACAAAAACATTTCAATGGCGCCACTTTCTCCGC
64416759 TTTTTATATA-ATATATTAAATATATTTTTCTTAAAATATTGATAAATCTGAAATAATACATTGA
1 TTTTTATATACATATATTAAATATATTTTTCTTAAAATATTGATAAATCTGAAATAATACATTGA
64416823 AATAAATTAATATCAATAAACAAATTTTAATAAAAAATGGTGCAATCTACTGATACAGTACTAAC
66 AATAAATTAATATCAATAAACAAATTTTAATAAAAAATGGTGCAATCTACTGATACAGTACTAAC
64416888 TACCGCCAAACAAAAACATTTCAATGGCGCCACTTTCTCCGC
131 TACCGCCAAACAAAAACATTTCAATGGCGCCACTTTCTCCGC
64416930 CATGTTTCTT
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 161 0.94
172 10 0.06
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (172 bp):
TTTTTATATACATATATTAAATATATTTTTCTTAAAATATTGATAAATCTGAAATAATACATTGA
AATAAATTAATATCAATAAACAAATTTTAATAAAAAATGGTGCAATCTACTGATACAGTACTAAC
TACCGCCAAACAAAAACATTTCAATGGCGCCACTTTCTCCGC
Found at i:64423630 original size:16 final size:15
Alignment explanation
Indices: 64423604--64423634 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
64423594 AAAATTATTC
64423604 AAAATATTAAAAATT
1 AAAATATTAAAAATT
64423619 AAAATAATTAAAAATT
1 AAAAT-ATTAAAAATT
64423635 TTAGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATATTAAAAATT
Found at i:64424315 original size:20 final size:20
Alignment explanation
Indices: 64424290--64424332 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
64424280 TTCGATTTCA
64424290 AATATGTTTGTATGCAATGG
1 AATATGTTTGTATGCAATGG
*
64424310 AATATGTTTGTATGTAATGG
1 AATATGTTTGTATGCAATGG
64424330 AAT
1 AAT
64424333 TTATAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (20 bp):
AATATGTTTGTATGCAATGG
Found at i:64430312 original size:66 final size:66
Alignment explanation
Indices: 64430206--64430338 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
64430196 AGGAAAAGCA
64430206 AGCATTGATTCAGTGTATTGATTGACAATGTTGGTACATGTAACATTAGTTATATGGGAATCTCC
1 AGCATTGATTCAGTGTATTGATTGACAATGTTGGTACATGTAACATTAGTTATATGGGAATCTCC
64430271 C
66 C
64430272 AGCATTGATTCAGTGTATTGATTGACAATGTTGGTACATGTAACATTAGTTATATGGGAATCTCC
1 AGCATTGATTCAGTGTATTGATTGACAATGTTGGTACATGTAACATTAGTTATATGGGAATCTCC
64430337 C
66 C
64430338 A
1 A
64430339 ATCTATTTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (66 bp):
AGCATTGATTCAGTGTATTGATTGACAATGTTGGTACATGTAACATTAGTTATATGGGAATCTCC
C
Found at i:64435245 original size:85 final size:84
Alignment explanation
Indices: 64435076--64435248 Score: 206
Period size: 85 Copynumber: 2.0 Consensus size: 84
64435066 GAAGTGGTAG
* *
64435076 AAAAAGTGAAAGAGGAGGCGAAAGGAAAATATTGCGCGAAGTATTGGCTTCCACCACCGCTACCT
1 AAAAAGTCAAAGAGGAGGCGAAAGGAAAAGATTGCGCGAAGTATTGGCTTCCACCACCGCTACCT
* *
64435141 TTGTTGCCATTATGTTTAT
66 TTGCTGCCAGTATGTTTAT
* * ** * *
64435160 AAAAATGTCAAAGAGGAGGCGGAAGGAAAAGATTGTGTTAAGTATTGGCTTCCACCGCTGCTACC
1 AAAAA-GTCAAAGAGGAGGCGAAAGGAAAAGATTGCGCGAAGTATTGGCTTCCACCACCGCTACC
*
64435225 ATTT-CTGTCAGTATAG-TTAT
65 -TTTGCTGCCAGTAT-GTTTAT
64435245 AAAA
1 AAAA
64435249 GTTGAAATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
84 5 0.07
85 66 0.88
86 4 0.05
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (84 bp):
AAAAAGTCAAAGAGGAGGCGAAAGGAAAAGATTGCGCGAAGTATTGGCTTCCACCACCGCTACCT
TTGCTGCCAGTATGTTTAT
Found at i:64435991 original size:168 final size:168
Alignment explanation
Indices: 64435695--64436019 Score: 418
Period size: 168 Copynumber: 1.9 Consensus size: 168
64435685 TTGTGGCCTC
* * * * *
64435695 AGAACCCAAAACCGAGATTAAGACCCAAAAACTAGTTGAATCAGGCTTGGTATGTGAAACTGAGA
1 AGAACCCAAAACCAAGATCAAGACCCAAAAACTAGTCGAATCAGGCCTGATATGTGAAACTGAGA
** * * * * *
64435760 CGATGATCCAACCGGTGGCTGGGCCGGACCAGTTAGGCCATCACTAGGTCAAGACCGAACCGGCT
66 AAATGATCCAACAGGTGGCTAGACCGGACCAGTGAGGCCATCACTAGGTCAAGACCAAACCGGCT
* *
64435825 CAGGGTGTCGTGAGGGTGTTGCACCTGTAATGGCACAT
131 CAGGGTGCCGTGAGGGTGTCGCACCTGTAATGGCACAT
* * *
64435863 AGAACCCAAAACCAAGATCAATACCCAAAAACTGGTCGAATCAGGCCTGATATGTGAAACTGGGA
1 AGAACCCAAAACCAAGATCAAGACCCAAAAACTAGTCGAATCAGGCCTGATATGTGAAACTGAGA
** * * * *
64435928 AAATGATCCAACAGGTGGCTAGATTGGACCAGTCGA-GCCGTCATTAGGTCCAGACTAAACCGGC
66 AAATGATCCAACAGGTGGCTAGACCGGACCAGT-GAGGCCATCACTAGGTCAAGACCAAACCGGC
*
64435992 TCGGGGTGCCGTGAGGGTGTCGCACCTG
130 TCAGGGTGCCGTGAGGGTGTCGCACCTG
64436020 CGATAGCACA
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
168 131 0.99
169 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.18
Consensus pattern (168 bp):
AGAACCCAAAACCAAGATCAAGACCCAAAAACTAGTCGAATCAGGCCTGATATGTGAAACTGAGA
AAATGATCCAACAGGTGGCTAGACCGGACCAGTGAGGCCATCACTAGGTCAAGACCAAACCGGCT
CAGGGTGCCGTGAGGGTGTCGCACCTGTAATGGCACAT
Found at i:64441946 original size:30 final size:30
Alignment explanation
Indices: 64441905--64441964 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
64441895 AGTAATTTGT
* *
64441905 AAAGGGTTTTAGTTAAGCTACAAAAACTAG
1 AAAGGGCTTTAGTTAAGCCACAAAAACTAG
*
64441935 AAAGGGCTTTAGTTTAGCCACAAAAACTAG
1 AAAGGGCTTTAGTTAAGCCACAAAAACTAG
64441965 GGGAAATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (30 bp):
AAAGGGCTTTAGTTAAGCCACAAAAACTAG
Found at i:64442468 original size:24 final size:21
Alignment explanation
Indices: 64442441--64442484 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
64442431 TACCCTTTAA
64442441 ATTTATAATGAATTGTTAACATAT
1 ATTTATAAT-AATT-TT-ACATAT
64442465 ATTTATAATAATTTTACATA
1 ATTTATAATAATTTTACATA
64442485 GTTGTGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 4 0.20
24 9 0.45
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTTATAATAATTTTACATAT
Found at i:64443061 original size:20 final size:19
Alignment explanation
Indices: 64443038--64443090 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
64443028 TATCTCTCAA
*
64443038 CAAAAATTATAAAAATAATT
1 CAAAAATTATAAAAA-AATC
64443058 CAAAATATTTAATAAAAAAATC
1 CAAAA-A-TT-ATAAAAAAATC
*
64443080 CAAAATTTATA
1 CAAAAATTATA
64443091 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 1 0.04
22 10 0.36
23 7 0.25
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
CAAAAATTATAAAAAAATC
Found at i:64448290 original size:22 final size:20
Alignment explanation
Indices: 64448264--64448311 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
64448254 AGAAGAGAAT
64448264 AGAAAATAAAGAGAGAAAAAAA
1 AGAAAATAAA-A-AGAAAAAAA
* * *
64448286 AGAAAGTTAAAAGAATAAAA
1 AGAAAATAAAAAGAAAAAAA
64448306 AGAAAA
1 AGAAAA
64448312 CAATTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.59
21 1 0.05
22 8 0.36
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (20 bp):
AGAAAATAAAAAGAAAAAAA
Found at i:64462311 original size:20 final size:20
Alignment explanation
Indices: 64462286--64462325 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
64462276 CGTAAAATAA
*
64462286 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
64462306 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
64462326 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:64462315 original size:34 final size:35
Alignment explanation
Indices: 64462271--64462337 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
64462261 CAGTAAAATA
* *
64462271 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
64462305 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
64462338 TTGGTGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:64462469 original size:22 final size:24
Alignment explanation
Indices: 64462444--64462495 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
64462434 ATAATTTATT
64462444 TATAAATAA-A-TCAA-ATT-AAA
1 TATAAATAATACTCAATATTAAAA
64462464 TATATAATAATACTCAATTATTAAAA
1 TATA-AATAATACTCAA-TATTAAAA
64462490 TATAAA
1 TATAAA
64462496 AGCATTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 1 0.04
23 4 0.15
25 5 0.19
26 7 0.27
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TATAAATAATACTCAATATTAAAA
Found at i:64469598 original size:953 final size:953
Alignment explanation
Indices: 64467752--64469657 Score: 3812
Period size: 953 Copynumber: 2.0 Consensus size: 953
64467742 TGGTTCAAAT
64467752 ATACACTTGAAACTTTAATTTTGATTTAATTATATACATTTAAAAAAACAAATACATCGATTTAT
1 ATACACTTGAAACTTTAATTTTGATTTAATTATATACATTTAAAAAAACAAATACATCGATTTAT
64467817 TTTTATATTGAATAAATATAATTATTTAAATTTTATAAATAAAAAAAATTACTTGCATGTCACTC
66 TTTTATATTGAATAAATATAATTATTTAAATTTTATAAATAAAAAAAATTACTTGCATGTCACTC
64467882 TTCGCCATGTGTTCAAATGAATCTAGCACATCCAATTAATGTCGAAAGTGACAGGCAGGATTGTT
131 TTCGCCATGTGTTCAAATGAATCTAGCACATCCAATTAATGTCGAAAGTGACAGGCAGGATTGTT
64467947 AAGGCAGGAAGAAGTGTGTGTGTAGCATGGCGAGTATAGGAAAGGAGGCGAGTGGGAGACAGGTA
196 AAGGCAGGAAGAAGTGTGTGTGTAGCATGGCGAGTATAGGAAAGGAGGCGAGTGGGAGACAGGTA
64468012 GATGGGAAAATACACGTGTAAATAGGGCAGGATCTGAAAAAAGCAATCACGACAGTGAGCGTGGG
261 GATGGGAAAATACACGTGTAAATAGGGCAGGATCTGAAAAAAGCAATCACGACAGTGAGCGTGGG
64468077 GGCTGTAATTGCCTCGTTGTTCTTTGGTTCCAAACCGCTACTGGCCTCGGATCTCGTTATTGCCA
326 GGCTGTAATTGCCTCGTTGTTCTTTGGTTCCAAACCGCTACTGGCCTCGGATCTCGTTATTGCCA
64468142 CGTCAGCTTTAAATTAATAATATAATGTTTTAAGACAATTAATTTATATTATTAGAAAAATAATT
391 CGTCAGCTTTAAATTAATAATATAATGTTTTAAGACAATTAATTTATATTATTAGAAAAATAATT
64468207 TCGAGCTCGAATATATATCGTAAAATTATCATAGAAAATCATTATTATAATTTATTAAATACTAA
456 TCGAGCTCGAATATATATCGTAAAATTATCATAGAAAATCATTATTATAATTTATTAAATACTAA
64468272 TTCATATTTAAAATATTTAAAATTTATAAAAAAAAAAGGTTATGTGCTTTTTTATAATTTTAATG
521 TTCATATTTAAAATATTTAAAATTTATAAAAAAAAAAGGTTATGTGCTTTTTTATAATTTTAATG
64468337 TCACCAACACTTACCAACTTGCATATGGAATATTTAAAGATATAAAATATAAAAATAAATACTCC
586 TCACCAACACTTACCAACTTGCATATGGAATATTTAAAGATATAAAATATAAAAATAAATACTCC
64468402 ATTACTTTATGTTTACTGAATATGCAAATTTTAATATATAATCTACCTTAGACCTATTTTATTAC
651 ATTACTTTATGTTTACTGAATATGCAAATTTTAATATATAATCTACCTTAGACCTATTTTATTAC
64468467 TTCAAACTAGACCGGTTCATGGGCGCTCATCCGAATAGTAGAAATGTCTGGGTTTAAACAAAAAA
716 TTCAAACTAGACCGGTTCATGGGCGCTCATCCGAATAGTAGAAATGTCTGGGTTTAAACAAAAAA
64468532 GAAGGCCCGTTTTTTTAGTGGATTTAACCGGTTTGCTCAGAGGCTGTATATATGTAAAAATGATC
781 GAAGGCCCGTTTTTTTAGTGGATTTAACCGGTTTGCTCAGAGGCTGTATATATGTAAAAATGATC
64468597 GATAAGGTAGACTAATTTCTTAAGTTCCAGAAGATACAAGGACCAAAATGTAAAAAATGAAGGTA
846 GATAAGGTAGACTAATTTCTTAAGTTCCAGAAGATACAAGGACCAAAATGTAAAAAATGAAGGTA
64468662 GAGAAGTAGGTTGATAAATAAAAAGGATGAGACATAAGGCAGC
911 GAGAAGTAGGTTGATAAATAAAAAGGATGAGACATAAGGCAGC
64468705 ATACACTTGAAACTTTAATTTTGATTTAATTATATACATTTAAAAAAACAAATACATCGATTTAT
1 ATACACTTGAAACTTTAATTTTGATTTAATTATATACATTTAAAAAAACAAATACATCGATTTAT
64468770 TTTTATATTGAATAAATATAATTATTTAAATTTTATAAATAAAAAAAATTACTTGCATGTCACTC
66 TTTTATATTGAATAAATATAATTATTTAAATTTTATAAATAAAAAAAATTACTTGCATGTCACTC
64468835 TTCGCCATGTGTTCAAATGAATCTAGCACATCCAATTAATGTCGAAAGTGACAGGCAGGATTGTT
131 TTCGCCATGTGTTCAAATGAATCTAGCACATCCAATTAATGTCGAAAGTGACAGGCAGGATTGTT
64468900 AAGGCAGGAAGAAGTGTGTGTGTAGCATGGCGAGTATAGGAAAGGAGGCGAGTGGGAGACAGGTA
196 AAGGCAGGAAGAAGTGTGTGTGTAGCATGGCGAGTATAGGAAAGGAGGCGAGTGGGAGACAGGTA
64468965 GATGGGAAAATACACGTGTAAATAGGGCAGGATCTGAAAAAAGCAATCACGACAGTGAGCGTGGG
261 GATGGGAAAATACACGTGTAAATAGGGCAGGATCTGAAAAAAGCAATCACGACAGTGAGCGTGGG
64469030 GGCTGTAATTGCCTCGTTGTTCTTTGGTTCCAAACCGCTACTGGCCTCGGATCTCGTTATTGCCA
326 GGCTGTAATTGCCTCGTTGTTCTTTGGTTCCAAACCGCTACTGGCCTCGGATCTCGTTATTGCCA
64469095 CGTCAGCTTTAAATTAATAATATAATGTTTTAAGACAATTAATTTATATTATTAGAAAAATAATT
391 CGTCAGCTTTAAATTAATAATATAATGTTTTAAGACAATTAATTTATATTATTAGAAAAATAATT
64469160 TCGAGCTCGAATATATATCGTAAAATTATCATAGAAAATCATTATTATAATTTATTAAATACTAA
456 TCGAGCTCGAATATATATCGTAAAATTATCATAGAAAATCATTATTATAATTTATTAAATACTAA
64469225 TTCATATTTAAAATATTTAAAATTTATAAAAAAAAAAGGTTATGTGCTTTTTTATAATTTTAATG
521 TTCATATTTAAAATATTTAAAATTTATAAAAAAAAAAGGTTATGTGCTTTTTTATAATTTTAATG
64469290 TCACCAACACTTACCAACTTGCATATGGAATATTTAAAGATATAAAATATAAAAATAAATACTCC
586 TCACCAACACTTACCAACTTGCATATGGAATATTTAAAGATATAAAATATAAAAATAAATACTCC
64469355 ATTACTTTATGTTTACTGAATATGCAAATTTTAATATATAATCTACCTTAGACCTATTTTATTAC
651 ATTACTTTATGTTTACTGAATATGCAAATTTTAATATATAATCTACCTTAGACCTATTTTATTAC
64469420 TTCAAACTAGACCGGTTCATGGGCGCTCATCCGAATAGTAGAAATGTCTGGGTTTAAACAAAAAA
716 TTCAAACTAGACCGGTTCATGGGCGCTCATCCGAATAGTAGAAATGTCTGGGTTTAAACAAAAAA
64469485 GAAGGCCCGTTTTTTTAGTGGATTTAACCGGTTTGCTCAGAGGCTGTATATATGTAAAAATGATC
781 GAAGGCCCGTTTTTTTAGTGGATTTAACCGGTTTGCTCAGAGGCTGTATATATGTAAAAATGATC
64469550 GATAAGGTAGACTAATTTCTTAAGTTCCAGAAGATACAAGGACCAAAATGTAAAAAATGAAGGTA
846 GATAAGGTAGACTAATTTCTTAAGTTCCAGAAGATACAAGGACCAAAATGTAAAAAATGAAGGTA
64469615 GAGAAGTAGGTTGATAAATAAAAAGGATGAGACATAAGGCAGC
911 GAGAAGTAGGTTGATAAATAAAAAGGATGAGACATAAGGCAGC
64469658 TTTGTTTGTT
Statistics
Matches: 953, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
953 953 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (953 bp):
ATACACTTGAAACTTTAATTTTGATTTAATTATATACATTTAAAAAAACAAATACATCGATTTAT
TTTTATATTGAATAAATATAATTATTTAAATTTTATAAATAAAAAAAATTACTTGCATGTCACTC
TTCGCCATGTGTTCAAATGAATCTAGCACATCCAATTAATGTCGAAAGTGACAGGCAGGATTGTT
AAGGCAGGAAGAAGTGTGTGTGTAGCATGGCGAGTATAGGAAAGGAGGCGAGTGGGAGACAGGTA
GATGGGAAAATACACGTGTAAATAGGGCAGGATCTGAAAAAAGCAATCACGACAGTGAGCGTGGG
GGCTGTAATTGCCTCGTTGTTCTTTGGTTCCAAACCGCTACTGGCCTCGGATCTCGTTATTGCCA
CGTCAGCTTTAAATTAATAATATAATGTTTTAAGACAATTAATTTATATTATTAGAAAAATAATT
TCGAGCTCGAATATATATCGTAAAATTATCATAGAAAATCATTATTATAATTTATTAAATACTAA
TTCATATTTAAAATATTTAAAATTTATAAAAAAAAAAGGTTATGTGCTTTTTTATAATTTTAATG
TCACCAACACTTACCAACTTGCATATGGAATATTTAAAGATATAAAATATAAAAATAAATACTCC
ATTACTTTATGTTTACTGAATATGCAAATTTTAATATATAATCTACCTTAGACCTATTTTATTAC
TTCAAACTAGACCGGTTCATGGGCGCTCATCCGAATAGTAGAAATGTCTGGGTTTAAACAAAAAA
GAAGGCCCGTTTTTTTAGTGGATTTAACCGGTTTGCTCAGAGGCTGTATATATGTAAAAATGATC
GATAAGGTAGACTAATTTCTTAAGTTCCAGAAGATACAAGGACCAAAATGTAAAAAATGAAGGTA
GAGAAGTAGGTTGATAAATAAAAAGGATGAGACATAAGGCAGC
Found at i:64471706 original size:21 final size:19
Alignment explanation
Indices: 64471661--64471709 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
64471651 ATTTTAAAAA
64471661 ATAATTTTTTGAATTTTTG
1 ATAATTTTTTGAATTTTTG
* *
64471680 AAAATTATTTTGAACTTTTTT
1 ATAATT-TTTTGAA-TTTTTG
64471701 ATAATTTTT
1 ATAATTTTT
64471710 GTTGAGAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 10 0.40
21 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (19 bp):
ATAATTTTTTGAATTTTTG
Found at i:64471714 original size:22 final size:20
Alignment explanation
Indices: 64471661--64471714 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
64471651 ATTTTAAAAA
64471661 ATAA-TTTTTTGAATTTTTG
1 ATAATTTTTTTGAATTTTTG
* * *
64471680 AAAATTATTTTGAACTTTTTT
1 ATAATTTTTTTGAA-TTTTTG
64471701 ATAATTTTTGTTGA
1 ATAATTTTT-TTGA
64471715 GAGAGAGACC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 12 0.44
22 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (20 bp):
ATAATTTTTTTGAATTTTTG
Found at i:64480419 original size:26 final size:28
Alignment explanation
Indices: 64480371--64480424 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
64480361 GTTCTCCTCT
* *
64480371 GTTTTCTTCTTTTTACCCACTCCTTTTG
1 GTTTTCCTCTTTTTAACCACTCCTTTTG
64480399 GTTTTCCTC-TTTTAACC-CTCCTTTTG
1 GTTTTCCTCTTTTTAACCACTCCTTTTG
64480425 TAAGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 7 0.29
28 8 0.33
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.56
Consensus pattern (28 bp):
GTTTTCCTCTTTTTAACCACTCCTTTTG
Found at i:64486183 original size:14 final size:14
Alignment explanation
Indices: 64486147--64486180 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
64486137 TCATCATTTA
64486147 CCTATAACCAAAAC
1 CCTATAACCAAAAC
64486161 CCTATAACCAAAAC
1 CCTATAACCAAAAC
64486175 CC-ATAA
1 CCTATAA
64486181 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:64493615 original size:21 final size:20
Alignment explanation
Indices: 64493591--64493631 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64493581 TTTTTTTGTA
64493591 TTTATAGAAATGGATTGAATT
1 TTTAT-GAAATGGATTGAATT
* *
64493612 TTTATTAAATTGATTGAATT
1 TTTATGAAATGGATTGAATT
64493632 GATATCATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTATGAAATGGATTGAATT
Found at i:64498113 original size:9 final size:9
Alignment explanation
Indices: 64498099--64498129 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
64498089 GTTAAACGAA
64498099 TCGAGTTAT
1 TCGAGTTAT
*
64498108 TCGAGTTAA
1 TCGAGTTAT
64498117 TCGAGTTAT
1 TCGAGTTAT
64498126 TCGA
1 TCGA
64498130 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:64502762 original size:20 final size:19
Alignment explanation
Indices: 64502737--64502775 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64502727 TCCTATGCAA
64502737 TGATGGATGGCATTAATTTC
1 TGATGG-TGGCATTAATTTC
* *
64502757 TGATGGTGGGATTCATTTC
1 TGATGGTGGCATTAATTTC
64502776 ATAAGCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (19 bp):
TGATGGTGGCATTAATTTC
Found at i:64506440 original size:16 final size:15
Alignment explanation
Indices: 64506406--64506456 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
64506396 AACAGATTTT
64506406 AAAAAAC-AAA-GAA
1 AAAAAACAAAATGAA
*
64506419 ACAAAAACAAAATTAA
1 A-AAAAACAAAATGAA
*
64506435 AGAAAAATAAAATGAA
1 A-AAAAACAAAATGAA
64506451 AAAAAA
1 AAAAAA
64506457 ATCCAAACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 6 0.19
15 8 0.26
16 16 0.52
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (15 bp):
AAAAAACAAAATGAA
Found at i:64514856 original size:2 final size:2
Alignment explanation
Indices: 64514849--64514893 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
64514839 TGAATGCACC
* * **
64514849 AT AT AT AT AC AT AT AC AT AT GC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64514891 AT A
1 AT A
64514894 ATAGTATAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:64517180 original size:50 final size:47
Alignment explanation
Indices: 64517088--64517187 Score: 105
Period size: 50 Copynumber: 2.0 Consensus size: 47
64517078 GAAATATAAG
64517088 GATTAAAACTAAAATTTAACCATTATTATATAATCTCAAAAAAGTAAAAA
1 GATTAAAACTAAAATTTAACCA-TATTATATAATCTCAAAAAA--AAAAA
* * *
64517138 GATTAGAACTAAAATTT-AGCA-ATTATATATTCTCATGTAAAAAAAAAA
1 GATTAAAACTAAAATTTAACCATATTATATAATCTCA---AAAAAAAAAA
64517186 GA
1 GA
64517188 GAAAAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
47 13 0.30
48 7 0.16
49 3 0.07
50 21 0.48
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (47 bp):
GATTAAAACTAAAATTTAACCATATTATATAATCTCAAAAAAAAAAA
Found at i:64519104 original size:21 final size:21
Alignment explanation
Indices: 64519078--64519122 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64519068 ACTTTATGGA
* *
64519078 GAAAATGGTGTTGTACAGGAT
1 GAAAATGATGTTGTACAAGAT
*
64519099 GAAAATGATGTTGTAGAAGAT
1 GAAAATGATGTTGTACAAGAT
64519120 GAA
1 GAA
64519123 GTACTTTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.27
Consensus pattern (21 bp):
GAAAATGATGTTGTACAAGAT
Found at i:64519152 original size:36 final size:34
Alignment explanation
Indices: 64519099--64519193 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 34
64519089 TGTACAGGAT
*
64519099 GAAAATGATGTTGTAGAAGATGAAGTACTTTGTGAA
1 GAAAATGATGTTGTAGAAGATGAAGTA--TTATGAA
* *
64519135 GAAAATGATATTTTAGAAGAT-ATAG-ATTATGAA
1 GAAAATGATGTTGTAGAAGATGA-AGTATTATGAA
*
64519168 GAAAATGGTGTTGTAGAAGATGAAGT
1 GAAAATGATGTTGTAGAAGATGAAGT
64519194 TGAAGGAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
33 26 0.52
34 1 0.02
35 2 0.04
36 21 0.42
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.31
Consensus pattern (34 bp):
GAAAATGATGTTGTAGAAGATGAAGTATTATGAA
Found at i:64527215 original size:98 final size:99
Alignment explanation
Indices: 64527087--64527283 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 99
64527077 ATATTGTTGA
64527087 TTTCAAATCTCTTTTTTCCCTTATTATTCATTTTCAAATTTGTTTACATTTTATTTCGCCTTATA
1 TTTCAAATCTCTTTTTTCCCTTATTATTCATTTTCAAATTTGTTTACATTTTATTTCGCCTTATA
64527152 TTTTTATTTTATTTTATACTCTTTGTTTTAAATT
66 TTTTTATTTTATTTTATACTCTTTGTTTTAAATT
64527186 TTTCAAATCT-TTTTTTCCCTTATTATTCATTTTCAAATTTGTTTACATTTTATTTCGCCTTATA
1 TTTCAAATCTCTTTTTTCCCTTATTATTCATTTTCAAATTTGTTTACATTTTATTTCGCCTTATA
64527250 TTTTTATTTTATTTTATACTCTTTGTTTTAAATT
66 TTTTTATTTTATTTTATACTCTTTGTTTTAAATT
64527284 AATTGGTCTT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 88 0.90
99 10 0.10
ACGTcount: A:0.21, C:0.14, G:0.03, T:0.62
Consensus pattern (99 bp):
TTTCAAATCTCTTTTTTCCCTTATTATTCATTTTCAAATTTGTTTACATTTTATTTCGCCTTATA
TTTTTATTTTATTTTATACTCTTTGTTTTAAATT
Found at i:64527353 original size:20 final size:20
Alignment explanation
Indices: 64527330--64527367 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64527320 ATTTGTTATT
* *
64527330 TTAATTTTTTTATTATTAAA
1 TTAATTATTTTAATATTAAA
64527350 TTAATTATTTTAATATTA
1 TTAATTATTTTAATATTA
64527368 TTAATACTAT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATTATTTTAATATTAAA
Found at i:64527411 original size:3 final size:3
Alignment explanation
Indices: 64527403--64527431 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64527393 ATCTTGTATC
64527403 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64527432 ATTCATGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64527779 original size:25 final size:25
Alignment explanation
Indices: 64527751--64527831 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
64527741 ACATACATGG
64527751 TTTTTATATAATATATATATGCATT
1 TTTTTATATAATATATATATGCATT
* * ** **
64527776 TTTTTATATATTGTATGCACACATTGT
1 TTTTTATATAATATATATATGCA-T-T
*
64527803 TTTTTATATACTATATATATGCATT
1 TTTTTATATAATATATATATGCATT
64527828 TTTT
1 TTTT
64527832 ATAGTATACG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
25 22 0.52
26 2 0.05
27 18 0.43
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTATATAATATATATATGCATT
Found at i:64527839 original size:27 final size:25
Alignment explanation
Indices: 64527751--64527840 Score: 81
Period size: 27 Copynumber: 3.4 Consensus size: 25
64527741 ACATACATGG
*
64527751 TTTTTATATAATATATATATGCATT
1 TTTTTATATACTATATATATGCATT
* * ** **
64527776 TTTTTATATATTGTATGCACACATTGT
1 TTTTTATATACTATATATATGCA-T-T
64527803 TTTTTATATACTATATATATGCATT
1 TTTTTATATACTATATATATGCATT
64527828 TTTTATAGTATAC
1 TTTT-TA-TATAC
64527841 GTCTATTTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
25 22 0.45
26 4 0.08
27 23 0.47
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTTTATATACTATATATATGCATT
Found at i:64533239 original size:21 final size:22
Alignment explanation
Indices: 64533210--64533250 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
64533200 CCTATACACT
*
64533210 CTCTCTCCTCTAATTTCCTCGG
1 CTCTCTCCTCTAATCTCCTCGG
*
64533232 CTCT-TCCTCTCATCTCCTC
1 CTCTCTCCTCTAATCTCCTC
64533251 TCTTGCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.07, C:0.46, G:0.05, T:0.41
Consensus pattern (22 bp):
CTCTCTCCTCTAATCTCCTCGG
Found at i:64537253 original size:339 final size:339
Alignment explanation
Indices: 64536622--64537300 Score: 1301
Period size: 339 Copynumber: 2.0 Consensus size: 339
64536612 GTCTCACGCT
64536622 ACAGTATCGCTACAGTATCTAATCTCACCGCCACCGCTGTTTTTACACTAATCACAGAATCACAG
1 ACAGTATCGCTACAGTATCTAATCTCACCGCCACCGCTGTTTTTACACTAATCACAGAA-CACAG
64536687 ACCGCCCATCCAAACTCACCCTTATTGATACAATACTATGGGGATTCAATTAAATGTTTTGAAGT
65 ACCGCCCATCCAAACTCACCCTTATTGATACAATACTATGGGGATTCAATTAAATGTTTTGAAGT
64536752 TAAGGGCTGGTTTTAAAATTAAAGCTATAGTTTGAGGAAGTCTAAAGAAATTAACCCAATAAAAA
130 TAAGGGCTGGTTTTAAAATTAAAGCTATAGTTTGAGGAAGTCTAAAGAAATTAACCCAATAAAAA
64536817 GTCAAAGAAAGTCAAAAGAGATATTTTTAGGTTATAAAATAAGCAACAAAGCAGGAGATTTCCTC
195 GTCAAAGAAAGTCAAAAGAGATATTTTTAGGTTATAAAATAAGCAACAAAGCAGGAGATTTCCTC
64536882 CCTTAAGGATTAATGATTTGTAGTACTGAATATTTTCTCGCTACTGGAAAATACGGTCATTTTTT
260 CCTTAAGGATTAATGATTTGTAGTACTGAATATTTTCTCGCTACTGGAAAATACGGTCATTTTTT
64536947 TTTTTTGCCTCCCTC
325 TTTTTTGCCTCCCTC
64536962 ACAGTATCGC-ACAGTATCTAATCTCACCGCCACCGCTGTTTTTACACTAATCACAGGTAA-AC-
1 ACAGTATCGCTACAGTATCTAATCTCACCGCCACCGCTGTTTTTACACTAATCACA-G-AACACA
64537024 GCACCGCCCATCCAAACTCACCCTTATTGATACAATACTATGGGGATTCAATTAAATGTTTTGAA
64 G-ACCGCCCATCCAAACTCACCCTTATTGATACAATACTATGGGGATTCAATTAAATGTTTTGAA
64537089 GTTAAGGGCTGGTTTTAAAATTAAAGCTATAGTTTGAGGAAGTCTAAAGAAATTAACCCAATAAA
128 GTTAAGGGCTGGTTTTAAAATTAAAGCTATAGTTTGAGGAAGTCTAAAGAAATTAACCCAATAAA
64537154 AAGTCAAAGAAAGTCAAAAGAGATATTTTTAGGTTATAAAATAAGCAACAAAGCAGGAGATTTCC
193 AAGTCAAAGAAAGTCAAAAGAGATATTTTTAGGTTATAAAATAAGCAACAAAGCAGGAGATTTCC
64537219 TCCCTTAAGGATTAATGATTTGTAGTACTGAATATTTTCTCGCTACTGGAAAATACGGTCATTTT
258 TCCCTTAAGGATTAATGATTTGTAGTACTGAATATTTTCTCGCTACTGGAAAATACGGTCATTTT
64537284 TTTTTTTTGCCTCCCTC
323 TTTTTTTTGCCTCCCTC
64537301 TTTCAGTGGA
Statistics
Matches: 336, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
338 1 0.00
339 322 0.96
340 11 0.03
341 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (339 bp):
ACAGTATCGCTACAGTATCTAATCTCACCGCCACCGCTGTTTTTACACTAATCACAGAACACAGA
CCGCCCATCCAAACTCACCCTTATTGATACAATACTATGGGGATTCAATTAAATGTTTTGAAGTT
AAGGGCTGGTTTTAAAATTAAAGCTATAGTTTGAGGAAGTCTAAAGAAATTAACCCAATAAAAAG
TCAAAGAAAGTCAAAAGAGATATTTTTAGGTTATAAAATAAGCAACAAAGCAGGAGATTTCCTCC
CTTAAGGATTAATGATTTGTAGTACTGAATATTTTCTCGCTACTGGAAAATACGGTCATTTTTTT
TTTTTGCCTCCCTC
Found at i:64550101 original size:19 final size:19
Alignment explanation
Indices: 64550077--64550113 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64550067 ATAACATATC
* *
64550077 AATTAAATATAATTTAAAA
1 AATTAAAAAAAATTTAAAA
64550096 AATTAAAAAAAATTTAAA
1 AATTAAAAAAAATTTAAA
64550114 GTTAGGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTAAAAAAAATTTAAAA
Found at i:64559139 original size:68 final size:69
Alignment explanation
Indices: 64559049--64559183 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
64559039 TTTAATAAAT
* * * *
64559049 TTAATATTAAATTTAATTTAATACTTATCTCAATAGT-ATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATATCAATAATCATTATATTAATTTAATATTAAAGTGAT
64559113 TATC
66 TATC
* ** *
64559117 TTAATATTAAATTTAATCTAATATTTATATTGATAATCATTATATTAATTTAATATTAAAGTTAT
1 TTAATATTAAATTTAATCTAATACTTATATCAATAATCATTATATTAATTTAATATTAAAGTGAT
64559182 TA
66 TA
64559184 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 31 0.53
69 27 0.47
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATATCAATAATCATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:64559184 original size:20 final size:20
Alignment explanation
Indices: 64559089--64559191 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
64559079 CAATAGTATT
64559089 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATATTAAAG
* *
64559109 TGATT-ATCTTAATATTAAAT
1 TTATTAAT-TTAATATTAAAG
* *
64559129 TTAATCTAATATTTATATTGATAATCAT
1 TT-AT-TAAT-TTAATA-T--TAA--AG
64559157 TATATTAATTTAATATTAAAG
1 T-TATTAATTTAATATTAAAG
64559178 TTATTAAGTTTAAT
1 TTATTAA-TTTAAT
64559192 CATAGTTGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
19 2 0.03
20 22 0.34
21 10 0.15
22 1 0.02
23 10 0.15
24 1 0.02
25 1 0.02
26 8 0.12
27 4 0.06
28 5 0.08
29 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TTATTAATTTAATATTAAAG
Found at i:64561519 original size:29 final size:29
Alignment explanation
Indices: 64561451--64561523 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
64561441 TCAAAAAAGC
* *
64561451 ATAGGGACTAAAATTGAGCAATTTGAAAA
1 ATAGGGACTAAATTTGAGCAAATTGAAAA
*
64561480 ATAAGGAGACTAAATTTGATCAAATT-AAAA
1 AT-AGG-GACTAAATTTGAGCAAATTGAAAA
64561510 TATAGGGACTAAAT
1 -ATAGGGACTAAAT
64561524 CTACAACTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.26
30 10 0.26
31 18 0.47
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (29 bp):
ATAGGGACTAAATTTGAGCAAATTGAAAA
Found at i:64566932 original size:3 final size:3
Alignment explanation
Indices: 64566924--64566957 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
64566914 AATAAAGAGG
64566924 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
64566958 TCCCCACCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:64572160 original size:32 final size:29
Alignment explanation
Indices: 64572119--64572179 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
64572109 TTTTCCAGAG
*
64572119 TTTTTATATTTTTTTGAATTTTGAATATTAT
1 TTTTTATATTTTTAT-AATTTTGAA-ATTAT
*
64572150 TTTTTAATATTTTTATAATTTTTAAATTAT
1 TTTTT-ATATTTTTATAATTTTGAAATTAT
64572180 CTATTGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.19
31 13 0.48
32 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTTATATTTTTATAATTTTGAAATTAT
Found at i:64574822 original size:28 final size:25
Alignment explanation
Indices: 64574767--64574825 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 25
64574757 AATTGTTAAA
*
64574767 TATATAAAAAAAATATGAAAATATG
1 TATATAAAAAAAATATGAAAATAGG
* *
64574792 TATATACAAAAAAATGTATGTATATAGG
1 TATATA-AAAAAAA--TATGAAAATAGG
64574820 TATATA
1 TATATA
64574826 TATGTACGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.21
26 7 0.25
28 15 0.54
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
TATATAAAAAAAATATGAAAATAGG
Found at i:64575003 original size:10 final size:10
Alignment explanation
Indices: 64574988--64575013 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
64574978 AAAGTAAAAT
64574988 AAAAAATATA
1 AAAAAATATA
64574998 AAAAAATATA
1 AAAAAATATA
64575008 AAAAAA
1 AAAAAA
64575014 AGTATGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATATA
Found at i:64581934 original size:89 final size:89
Alignment explanation
Indices: 64581783--64581946 Score: 256
Period size: 89 Copynumber: 1.8 Consensus size: 89
64581773 ATCAGAGGGG
* * * * *
64581783 AATCTGATTTGTCGTTCTCTTATTGGAAATAGATATAGATGACGTGGAATTAAAGTTTCATACAA
1 AATCTCATTTGTCATTCTCCTATTGGAAATAGATAGAGATGACGTGGAATCAAAGTTTCATACAA
64581848 TCCTTTCTCAACATCAAGAGAAAA
66 TCCTTTCTCAACATCAAGAGAAAA
* * *
64581872 AATCTCATTTGTCATTCTCCTATTGGAAATGGATAGGGATGACGTGGAATCACAGTTTCATACAA
1 AATCTCATTTGTCATTCTCCTATTGGAAATAGATAGAGATGACGTGGAATCAAAGTTTCATACAA
64581937 TCCTTTCTCA
66 TCCTTTCTCA
64581947 TTAATTAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (89 bp):
AATCTCATTTGTCATTCTCCTATTGGAAATAGATAGAGATGACGTGGAATCAAAGTTTCATACAA
TCCTTTCTCAACATCAAGAGAAAA
Found at i:64585725 original size:20 final size:19
Alignment explanation
Indices: 64585679--64585717 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
64585669 AATTTTAAAA
*
64585679 TATTTTAAAAATATTTTTT
1 TATTTTTAAAATATTTTTT
64585698 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATATTTTTT
64585717 T
1 T
64585718 TGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTAAAATATTTTTT
Found at i:64592702 original size:2 final size:2
Alignment explanation
Indices: 64592695--64592722 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64592685 ACCTACCCTG
64592695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64592723 ACATTAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64594527 original size:4 final size:4
Alignment explanation
Indices: 64594510--64594564 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
64594500 GGTATTAAAC
*
64594510 ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
64594558 ACAT ACA
1 ACAT ACA
64594565 AAGAAAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:64595614 original size:15 final size:15
Alignment explanation
Indices: 64595575--64595621 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
64595565 TGATAAATTA
*
64595575 AAAAATTAAATGTTG
1 AAAAATTAAGTGTTG
64595590 AAAAGA-TAAGTGTTG
1 AAAA-ATTAAGTGTTG
* *
64595605 AAAATTTAAGTATTG
1 AAAAATTAAGTGTTG
64595620 AA
1 AA
64595622 TTTAAGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (15 bp):
AAAAATTAAGTGTTG
Found at i:64599182 original size:26 final size:28
Alignment explanation
Indices: 64599148--64599201 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
64599138 AATAAAGATA
*
64599148 ATAAATTCTACAT-ATTA-AAAAATTAT
1 ATAAATTCTACATAATAATAAAAATTAT
64599174 ATAAATTCTACATAATAATAAAAATTAT
1 ATAAATTCTACATAATAATAAAAATTAT
64599202 GACATTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.52
27 3 0.12
28 9 0.36
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAAATTCTACATAATAATAAAAATTAT
Found at i:64610448 original size:20 final size:20
Alignment explanation
Indices: 64610406--64610450 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64610396 TTTGTAGGTT
* *
64610406 AAATTTATTAAATTGAGACC
1 AAATTTATTAAAATAAGACC
* *
64610426 AAATTTGTTAAAATAAGATC
1 AAATTTATTAAAATAAGACC
64610446 AAATT
1 AAATT
64610451 AACAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (20 bp):
AAATTTATTAAAATAAGACC
Found at i:64613575 original size:45 final size:45
Alignment explanation
Indices: 64613491--64613579 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
64613481 TTGATCCTTA
*
64613491 TTCTCCAAAAGAACATCTTTTTCACCCTTCTCTCCCACAGTTTCT
1 TTCTCCAAAAGAACATCTTTTTCACCCTTATCTCCCACAGTTTCT
* ** **
64613536 TTCTCCAAAAGATCA-CTTTTTTCTGCCTTATCTTTCACAGTTTC
1 TTCTCCAAAAGAACATC-TTTTTCACCCTTATCTCCCACAGTTTC
64613580 ATCTTTTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.42
Consensus pattern (45 bp):
TTCTCCAAAAGAACATCTTTTTCACCCTTATCTCCCACAGTTTCT
Found at i:64624328 original size:16 final size:15
Alignment explanation
Indices: 64624307--64624340 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
64624297 GGGAAGGACA
64624307 GAGGAGCTTGCTTCAG
1 GAGGAGCTTGCTTC-G
64624323 GAGGAGCTTGCTTCG
1 GAGGAGCTTGCTTCG
64624338 GAG
1 GAG
64624341 AAGCAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.24
Consensus pattern (15 bp):
GAGGAGCTTGCTTCG
Found at i:64627896 original size:33 final size:33
Alignment explanation
Indices: 64627859--64627928 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
64627849 TTGTTATATG
64627859 AAGATTGATATAATTGCACAAACTGGGTTTAGA
1 AAGATTGATATAATTGCACAAACTGGGTTTAGA
64627892 AAGATTGATATAATTGCACAAACTGGGTTTAGA
1 AAGATTGATATAATTGCACAAACTGGGTTTAGA
64627925 AAGA
1 AAGA
64627929 GTTGTAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (33 bp):
AAGATTGATATAATTGCACAAACTGGGTTTAGA
Found at i:64633878 original size:18 final size:19
Alignment explanation
Indices: 64633849--64633884 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
64633839 TCTGGTTTAA
*
64633849 TTAAATAAATTATAAAATT
1 TTAAATAAATTAAAAAATT
64633868 TTAAA-AAATTAAAAAAT
1 TTAAATAAATTAAAAAAT
64633885 CGATTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAATAAATTAAAAAATT
Found at i:64635125 original size:4 final size:4
Alignment explanation
Indices: 64635118--64635147 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
64635108 AATGAAGACT
*
64635118 TACA TACA TACA TACA TACA TATA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
64635148 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
TACA
Found at i:64635148 original size:8 final size:8
Alignment explanation
Indices: 64635118--64635158 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
64635108 AATGAAGACT
*
64635118 TACATACA
1 TACATATA
*
64635126 TACATACA
1 TACATATA
64635134 TACATATA
1 TACATATA
64635142 TACATATA
1 TACATATA
*
64635150 TATATATA
1 TACATATA
64635158 T
1 T
64635159 GGAAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (8 bp):
TACATATA
Found at i:64635152 original size:12 final size:12
Alignment explanation
Indices: 64635118--64635155 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
64635108 AATGAAGACT
*
64635118 TACATACATACA
1 TACATACATATA
64635130 TACATACATATA
1 TACATACATATA
*
64635142 TACATATATATA
1 TACATACATATA
64635154 TA
1 TA
64635156 TATGGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
TACATACATATA
Found at i:64636809 original size:12 final size:12
Alignment explanation
Indices: 64636792--64636818 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64636782 AAACAGTTAA
64636792 ACCAACGCTAAC
1 ACCAACGCTAAC
64636804 ACCAACGCTAAC
1 ACCAACGCTAAC
64636816 ACC
1 ACC
64636819 CAAAATCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.44, G:0.07, T:0.07
Consensus pattern (12 bp):
ACCAACGCTAAC
Found at i:64638221 original size:24 final size:24
Alignment explanation
Indices: 64638185--64638230 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
64638175 CTAGTTTTAG
64638185 TTTAATATTTAATATTTCTATGTT
1 TTTAATATTTAATATTTCTATGTT
*
64638209 TTTAA-ATTGTAATATTTTTATG
1 TTTAATATT-TAATATTTCTATG
64638231 ATATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTAATATTTAATATTTCTATGTT
Found at i:64647317 original size:5 final size:6
Alignment explanation
Indices: 64647300--64647325 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
64647290 TAGAATCTAG
64647300 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
64647326 AGAATTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:64647356 original size:23 final size:22
Alignment explanation
Indices: 64647314--64647356 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
64647304 TTTATTTTTA
64647314 TTTTTATTTTTAAGAATTTAGT
1 TTTTTATTTTTAAGAATTTAGT
* *
64647336 TTTTCTATTTTTTAGATTTTA
1 TTTT-TATTTTTAAGAATTTA
64647357 AAATTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTATTTTTAAGAATTTAGT
Found at i:64654282 original size:20 final size:21
Alignment explanation
Indices: 64654259--64654300 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64654249 TTTTTTAGAC
*
64654259 AATTAAG-TTTATTTTCTTTA
1 AATTAAGAGTTATTTTCTTTA
*
64654279 AATTAAGAGTTATTTTTTTTA
1 AATTAAGAGTTATTTTCTTTA
64654300 A
1 A
64654301 TTTCATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
AATTAAGAGTTATTTTCTTTA
Found at i:64654859 original size:11 final size:12
Alignment explanation
Indices: 64654834--64654866 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
64654824 TTATCAATTT
64654834 AACCCTAATTAA
1 AACCCTAATTAA
*
64654846 AACGCTAATT-A
1 AACCCTAATTAA
64654857 AACCCTAATT
1 AACCCTAATT
64654867 TTGATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.27
Consensus pattern (12 bp):
AACCCTAATTAA
Found at i:64657157 original size:32 final size:32
Alignment explanation
Indices: 64657116--64657180 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
64657106 TCAAACCTTA
64657116 TATCTTTGATATCCTTTAAAGCATTGATTATT
1 TATCTTTGATATCCTTTAAAGCATTGATTATT
64657148 TATCTTTGATATCCTTTAAAGCATTGATTATT
1 TATCTTTGATATCCTTTAAAGCATTGATTATT
64657180 T
1 T
64657181 CATGCTGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (32 bp):
TATCTTTGATATCCTTTAAAGCATTGATTATT
Found at i:64670403 original size:19 final size:20
Alignment explanation
Indices: 64670368--64670409 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
64670358 CTATTCCACC
64670368 TTAAAAATAATTAAATTATT
1 TTAAAAATAATTAAATTATT
* *
64670388 TTAAAAAT-ATTGAATTTTT
1 TTAAAAATAATTAAATTATT
64670407 TTA
1 TTA
64670410 TATTTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAAAATAATTAAATTATT
Found at i:64672242 original size:69 final size:69
Alignment explanation
Indices: 64672162--64672296 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
64672152 CTCTGGTTAA
*
64672162 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGACT-GATGCATCAAAAAC
1 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGA-TGGATACATCAAAAAC
64672226 TAAAC
65 TAAAC
* ** * *
64672231 AACATCAGAGTTGTTTTCACACTAGCATTTGACTTATCTATCTATAGATGGATACATCAAAAACT
1 AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGATGGATACATCAAAAACT
64672296 A
66 A
64672297 TTACTTTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 1 0.02
69 58 0.98
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (69 bp):
AACAGCAGAGTTGTTCACACACTAACATTTGACTTATCTATCGATAGATGGATACATCAAAAACT
AAAC
Found at i:64678286 original size:12 final size:12
Alignment explanation
Indices: 64678269--64678293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64678259 AATTTTAAAA
64678269 TTTTTATAACTT
1 TTTTTATAACTT
64678281 TTTTTATAACTT
1 TTTTTATAACTT
64678293 T
1 T
64678294 ATGATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:64678320 original size:19 final size:19
Alignment explanation
Indices: 64678271--64678312 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
64678261 TTTTAAAATT
64678271 TTTATAACTTTTTTTATAAC
1 TTTATAA-TTTTTTTATAAC
* *
64678291 TTTATGATTTTTTTATTAC
1 TTTATAATTTTTTTATAAC
64678310 TTT
1 TTT
64678313 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATAATTTTTTTATAAC
Found at i:64678967 original size:18 final size:19
Alignment explanation
Indices: 64678905--64678967 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
64678895 GATATAAAAA
*
64678905 TATAAAAATAATAATAAAAC
1 TATAAAAATACTAAT-AAAC
* *
64678925 T-TATAAATACT-ATAAAA
1 TATAAAAATACTAATAAAC
*
64678942 TATGAAAAT-CTAATAAAC
1 TATAAAAATACTAATAAAC
64678960 TATAAAAA
1 TATAAAAA
64678968 AATTATGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 6 0.18
18 19 0.56
19 8 0.24
20 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (19 bp):
TATAAAAATACTAATAAAC
Found at i:64679049 original size:30 final size:30
Alignment explanation
Indices: 64678992--64679047 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
64678982 TAAAACATAT
*
64678992 TTAAAATTTTATAAAAATGTATTAAAATCC
1 TTAAAATTTTATAAAAATGTATAAAAATCC
64679022 TTAAAATTATT-TAAAAA-GTATAAAAA
1 TTAAAATT-TTATAAAAATGTATAAAAA
64679048 ATATCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 8 0.33
30 14 0.58
31 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (30 bp):
TTAAAATTTTATAAAAATGTATAAAAATCC
Found at i:64679677 original size:19 final size:18
Alignment explanation
Indices: 64679653--64679746 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 18
64679643 TTATGATTTA
64679653 TTATAATGTATTATATTAT
1 TTATAATGT-TTATATTAT
*
64679672 TTATAAT-TTTATATCAAT
1 TTATAATGTTTATAT-TAT
* *
64679690 TT-TAATATTTAATAATATT
1 TTATAATGTTT-ATATTA-T
* * *
64679709 TTAGAATTTATTATAATAT
1 TTATAATGT-TTATATTAT
*
64679728 TTATAA-GTTTTTATTAT
1 TTATAATGTTTATATTAT
64679745 TT
1 TT
64679747 TATTATAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 19 0.32
18 10 0.17
19 19 0.32
20 10 0.17
21 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATAATGTTTATATTAT
Found at i:64679683 original size:30 final size:30
Alignment explanation
Indices: 64679649--64679797 Score: 97
Period size: 30 Copynumber: 5.2 Consensus size: 30
64679639 TTTTTTATGA
*
64679649 TTTATTATAATGTATTATATTATTTATAAT
1 TTTATTATAATTTATTATATTATTTATAAT
64679679 TTTA-TATCAA-TT-TTA-A-TATTTAATAAT
1 TTTATTAT-AATTTATTATATTATTT-ATAAT
* * *
64679706 ATT-TTAGAATTTATTATAATATTTATAAGTT
1 TTTATTATAATTTATTATATTATTTATAA--T
*
64679737 TTTATTAT--TTTATTATAGTT-TTTATAAG
1 TTTATTATAATTTATTATA-TTATTTATAAT
* *
64679765 TTTA-TATCATTT-TTAATATT-TTTAAAAT
1 TTTATTATAATTTATT-ATATTATTTATAAT
64679793 TTTAT
1 TTTAT
64679798 ATTTTTTATA
Statistics
Matches: 95, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
26 7 0.07
27 15 0.16
28 24 0.25
29 15 0.16
30 27 0.28
31 4 0.04
32 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTATTATAATTTATTATATTATTTATAAT
Found at i:64679709 original size:18 final size:19
Alignment explanation
Indices: 64679679--64679729 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
64679669 TATTTATAAT
*
64679679 TTTATATCA-ATTTTA-ATA
1 TTTATATAATATTTTAGA-A
64679697 TTTA-ATAATATTTTAGAA
1 TTTATATAATATTTTAGAA
64679715 TTTATTATAATATTT
1 TTTA-TATAATATTT
64679730 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.11
18 15 0.54
19 1 0.04
20 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTATATAATATTTTAGAA
Found at i:64679740 original size:22 final size:20
Alignment explanation
Indices: 64679701--64679761 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
64679691 TTAATATTTA
* **
64679701 ATAATATTTTAGAATTTATT
1 ATAATATTATAGTTTTTATT
64679721 ATAATATTTATAAGTTTTTATT
1 ATAATA-TTAT-AGTTTTTATT
**
64679743 ATTTTATTATAGTTTTTAT
1 ATAATATTATAGTTTTTAT
64679762 AAGTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 15 0.44
21 7 0.21
22 12 0.35
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
ATAATATTATAGTTTTTATT
Found at i:64679768 original size:20 final size:21
Alignment explanation
Indices: 64679728--64679769 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64679718 ATTATAATAT
* *
64679728 TTATAAGTTTTTATTATTTTA
1 TTATAAGTTTTTATAAGTTTA
64679749 TTAT-AGTTTTTATAAGTTTA
1 TTATAAGTTTTTATAAGTTTA
64679769 T
1 T
64679770 ATCATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTATAAGTTTTTATAAGTTTA
Found at i:64679818 original size:56 final size:53
Alignment explanation
Indices: 64679722--64679852 Score: 120
Period size: 54 Copynumber: 2.4 Consensus size: 53
64679712 GAATTTATTA
* **
64679722 TAATATTTATAAGTTTTTATTATTTTATTATAGTTTTTATAAGTTTATATCATTTT
1 TAATATTTTTAAAATTTTA-TATTTTATTATAGTTTTTAT-AGTTTA-ATCATTTT
* * *
64679778 TAATATTTTTAAAATTTTATATTTT-TTATATTTTAATTATATTTTAATGATTTT
1 TAATATTTTTAAAATTTTATATTTTATTATAGTTT--TTATAGTTTAATCATTTT
** *
64679832 TTTTATTTTTAATCATTTTAT
1 TAATATTTTTAA-AATTTTAT
64679853 GGGGAAAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
54 25 0.40
55 18 0.29
56 20 0.32
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (53 bp):
TAATATTTTTAAAATTTTATATTTTATTATAGTTTTTATAGTTTAATCATTTT
Found at i:64679819 original size:11 final size:11
Alignment explanation
Indices: 64679794--64679825 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
64679784 TTTTAAAATT
64679794 TTATATTTT--
1 TTATATTTTAA
64679803 TTATATTTTAA
1 TTATATTTTAA
64679814 TTATATTTTAA
1 TTATATTTTAA
64679825 T
1 T
64679826 GATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTTTAA
Found at i:64687743 original size:20 final size:20
Alignment explanation
Indices: 64687718--64687760 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
64687708 TGTAGAACGA
64687718 AAGATTAAGTTAATATAATT
1 AAGATTAAGTTAATATAATT
*
64687738 AAGATTAAGTTAATTTAATT
1 AAGATTAAGTTAATATAATT
64687758 AAG
1 AAG
64687761 TAATTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AAGATTAAGTTAATATAATT
Found at i:64691660 original size:22 final size:22
Alignment explanation
Indices: 64691626--64691668 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64691616 GTTGGTCTTG
*
64691626 AGACCTAGTCTCGAGACATAAA
1 AGACCTAGCCTCGAGACATAAA
*
64691648 AGACCTTGCCTCGAGACATAA
1 AGACCTAGCCTCGAGACATAA
64691669 CATGTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
AGACCTAGCCTCGAGACATAAA
Found at i:64701508 original size:15 final size:16
Alignment explanation
Indices: 64701484--64701516 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
64701474 TGGTTCCGGA
64701484 TTTTTCTTTTTCT-TT
1 TTTTTCTTTTTCTCTT
*
64701499 TTTTTTTTTTTCTCTT
1 TTTTTCTTTTTCTCTT
64701515 TT
1 TT
64701517 GTACTGGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCTTTTTCTCTT
Found at i:64701514 original size:17 final size:16
Alignment explanation
Indices: 64701484--64701516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64701474 TGGTTCCGGA
64701484 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
64701500 TTTTT-TTTTTCTCTTT
1 TTTTTCTTTTTCT-TTT
64701516 T
1 T
64701517 GTACTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTT
Found at i:64702718 original size:26 final size:27
Alignment explanation
Indices: 64702675--64702727 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
64702665 ATATTTCATT
* **
64702675 TTTTTATTTTAAAGTATTTTTATTTAA
1 TTTTAATTTTAAAGTATTCATATTTAA
*
64702702 TTTTAATTTT-AATTATTCATATTTAA
1 TTTTAATTTTAAAGTATTCATATTTAA
64702728 CTAATCATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTAATTTTAAAGTATTCATATTTAA
Found at i:64703270 original size:29 final size:30
Alignment explanation
Indices: 64703229--64703305 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
64703219 AAGATGTAGA
** * *
64703229 TTTAGTCCCTGTACTTTT-ATTTGATCATT
1 TTTAGTCATTGTACTTTTAAATTGATCAAT
* *
64703258 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
1 TTTAGTCATTGTACTTTT-AAATTGATCAAT
64703289 TTTAGTCATTGTACTTT
1 TTTAGTCATTGTACTTT
64703306 ACAGAATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 16 0.40
31 24 0.60
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTAGTCATTGTACTTTTAAATTGATCAAT
Found at i:64703295 original size:31 final size:31
Alignment explanation
Indices: 64703257--64703328 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
64703247 ATTTGATCAT
* *
64703257 TTTTAGTCTTTGTACTTTTCA-AATTGGTCAA
1 TTTTAGTCTTTGTACTTTACAGAATTGG-AAA
* *
64703288 TTTTAGTCATTGTACTTTACAGAATTTGAAA
1 TTTTAGTCTTTGTACTTTACAGAATTGGAAA
64703319 TTTTAGTCTT
1 TTTTAGTCTT
64703329 GACCCAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.51
Consensus pattern (31 bp):
TTTTAGTCTTTGTACTTTACAGAATTGGAAA
Found at i:64703581 original size:32 final size:31
Alignment explanation
Indices: 64703524--64703600 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
64703514 AATGGGGTTT
* * *
64703524 TAGATTCCTTAAAAGTTGGAGAAAATTTTTTC
1 TAGATCCCTTAAAAGTTGGA-AAAAATATTTC
64703556 TAGATCCCTTAAAAGTT-GATAAAAATATTTC
1 TAGATCCCTTAAAAGTTGGA-AAAAATATTTC
*
64703587 T-GAGCCCTTAAAAG
1 TAGATCCCTTAAAAG
64703601 CTAAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 12 0.30
31 12 0.30
32 16 0.40
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (31 bp):
TAGATCCCTTAAAAGTTGGAAAAAATATTTC
Found at i:64703610 original size:30 final size:31
Alignment explanation
Indices: 64703552--64703610 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
64703542 GAGAAAATTT
* * * *
64703552 TTTCTAGATCCCTTAAAAGTTGATAAAAATA
1 TTTCTAGAGCCCTTAAAAGCTAAAAAAAATA
64703583 TTTCT-GAGCCCTTAAAAGCTAAAAAAAA
1 TTTCTAGAGCCCTTAAAAGCTAAAAAAAA
64703611 AATGGCCCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
TTTCTAGAGCCCTTAAAAGCTAAAAAAAATA
Found at i:64730164 original size:44 final size:44
Alignment explanation
Indices: 64730116--64730300 Score: 128
Period size: 44 Copynumber: 4.2 Consensus size: 44
64730106 CCAGTAACTC
64730116 TATCTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCT
1 TATCTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCT
** ** * ** * *
64730160 TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTGAA-CAACAGTGGAATAGATTGAAGATTTCAGATCT
** **** * * *
64730204 TCCCTCCCTGTGGTTACAGT-GAAGTACATTGAAG---CCAGTAACT
1 TATCTCCCTG-AACAACAGTGGAA-TAGATTGAAGATTTCAG-ATCT
64730247 CTATCTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCT
64730292 TATCTCCCT
1 TATCTCCCT
64730301 AAGCAGTAGT
Statistics
Matches: 97, Mismatches: 34, Indels: 20
0.64 0.23 0.13
Matches are distributed among these distances:
42 2 0.02
43 18 0.19
44 61 0.63
45 13 0.13
46 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCT
Found at i:64730176 original size:132 final size:132
Alignment explanation
Indices: 64730011--64730336 Score: 652
Period size: 132 Copynumber: 2.5 Consensus size: 132
64730001 ATGGAGCTGG
64730011 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTCCC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTCCC
64730076 TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAACTCTATCTCCCTGAACAACAGTGGAATA
66 TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAACTCTATCTCCCTGAACAACAGTGGAATA
64730141 GA
131 GA
64730143 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTCCC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTCCC
64730208 TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAACTCTATCTCCCTGAACAACAGTGGAATA
66 TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAACTCTATCTCCCTGAACAACAGTGGAATA
64730273 GA
131 GA
64730275 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
64730337 AATTGTAATT
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 194 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTCCC
TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTAACTCTATCTCCCTGAACAACAGTGGAATA
GA
Found at i:64733698 original size:21 final size:22
Alignment explanation
Indices: 64733663--64733703 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
64733653 AGCCCCTATA
*
64733663 CTCTTCTATTTTTAAATTTAGT
1 CTCTTCTACTTTTAAATTTAGT
*
64733685 CTCTT-TACTTTTAATTTTA
1 CTCTTCTACTTTTAAATTTA
64733704 AAAAATTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (22 bp):
CTCTTCTACTTTTAAATTTAGT
Found at i:64733938 original size:14 final size:14
Alignment explanation
Indices: 64733919--64733963 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
64733909 TCAAACTAGT
*
64733919 TAAAACCCTAAATC
1 TAAAACCCTAAACC
64733933 TAAAACCCTAAACCC
1 TAAAACCCTAAA-CC
64733948 T-AAACCCTAAACC
1 TAAAACCCTAAACC
64733961 TAA
1 TAA
64733964 GTTTAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 23 0.82
15 2 0.07
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAACCCTAAACC
Found at i:64733947 original size:7 final size:7
Alignment explanation
Indices: 64733921--64733960 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
64733911 AAACTAGTTA
64733921 AAACCCT
1 AAACCCT
*
64733928 AAA-TCT
1 AAACCCT
64733934 AAAACCCT
1 -AAACCCT
64733942 AAACCCT
1 AAACCCT
64733949 AAACCCT
1 AAACCCT
64733956 AAACC
1 AAACC
64733961 TAAGTTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 2 0.07
7 25 0.86
8 2 0.07
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Done.