Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 12 of 100
Found at i:2295825 original size:3 final size:3
Alignment explanation
Indices: 2295817--2295852 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2295807 CACAATAGAG
2295817 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2295853 AAAAATATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2300311 original size:23 final size:21
Alignment explanation
Indices: 2300255--2300311 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
2300245 ATTATCATCT
*
2300255 TAATTTTATTTATAAAATTAAA
1 TAATTTT-TTTATAAAATCAAA
* **
2300277 AAATTTCATTATAATATATCAAA
1 TAATTTTTTTATAA-A-ATCAAA
2300300 TAATTTTTTTAT
1 TAATTTTTTTAT
2300312 TATAAACAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 14 0.54
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTTTTTTATAAAATCAAA
Found at i:2300689 original size:13 final size:13
Alignment explanation
Indices: 2300670--2300703 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2300660 TTGGGATTTA
2300670 AATTTTTCTTTTT
1 AATTTTTCTTTTT
* *
2300683 TATTTTTATTTTT
1 AATTTTTCTTTTT
2300696 AATTTTTC
1 AATTTTTC
2300704 AATTAAATCA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
AATTTTTCTTTTT
Found at i:2307492 original size:16 final size:16
Alignment explanation
Indices: 2307453--2307492 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2307443 CAAGCTGAGG
*
2307453 AAAATCAAAGAAAAAA
1 AAAATCAAAAAAAAAA
**
2307469 AAGGTCAAAAAAAAAA
1 AAAATCAAAAAAAAAA
2307485 AAAATCAA
1 AAAATCAA
2307493 TTCATCCTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAATCAAAAAAAAAA
Found at i:2310390 original size:11 final size:11
Alignment explanation
Indices: 2310352--2310395 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
2310342 ATATAATGCG
2310352 AAATTTGAATTT
1 AAATTTG-ATTT
*
2310364 AAATTCGATTT
1 AAATTTGATTT
2310375 GAAATTTGATTT
1 -AAATTTGATTT
2310387 AAATTTGAT
1 AAATTTGAT
2310396 CAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (11 bp):
AAATTTGATTT
Found at i:2315389 original size:4 final size:4
Alignment explanation
Indices: 2315361--2315418 Score: 71
Period size: 4 Copynumber: 14.5 Consensus size: 4
2315351 CATAAATGCT
* * * *
2315361 TCTC TCTC CCTC CCTC CCTC CCTC TCTC TCTC TCTC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
*
2315409 TGTC TCTC TC
1 TCTC TCTC TC
2315419 CATATACACG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.00, C:0.55, G:0.02, T:0.43
Consensus pattern (4 bp):
TCTC
Found at i:2316365 original size:120 final size:120
Alignment explanation
Indices: 2316147--2316398 Score: 486
Period size: 120 Copynumber: 2.1 Consensus size: 120
2316137 CAGTTGTTCT
2316147 ATATGCTTTGCAACAGGAATGCATTTTGTCTTCCCGTGGATTCATTATGCCGTCTTATATATATT
1 ATAT-CTTTGCAACAGGAATGCATTTTGTCTTCCCGTGGATTCATTATGCCGTCTTATATATATT
2316212 GAAATCTACATGTGCACCATGGCAGATTTTACTATTATGTCTTTCTTATTTGCCTA
65 GAAATCTACATGTGCACCATGGCAGATTTTACTATTATGTCTTTCTTATTTGCCTA
2316268 ATATCTTTGCAACAGGAATGCATTTTGTCTTCCCGTGGATTCATTATGCCGTCTTATATATATTG
1 ATATCTTTGCAACAGGAATGCATTTTGTCTTCCCGTGGATTCATTATGCCGTCTTATATATATTG
2316333 AAATCTACATGTGCACCATGGCAGATTTTACTATTATGTCTTTCTTATTTGCCTA
66 AAATCTACATGTGCACCATGGCAGATTTTACTATTATGTCTTTCTTATTTGCCTA
*
2316388 ATATCATTGCA
1 ATATCTTTGCA
2316399 TACGTTTAAT
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 126 0.97
121 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (120 bp):
ATATCTTTGCAACAGGAATGCATTTTGTCTTCCCGTGGATTCATTATGCCGTCTTATATATATTG
AAATCTACATGTGCACCATGGCAGATTTTACTATTATGTCTTTCTTATTTGCCTA
Found at i:2323868 original size:52 final size:52
Alignment explanation
Indices: 2323783--2323938 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
2323773 ATAACCATAC
** * * *
2323783 AAACTTG-CTCATTAAAAATCCCTCTCCTCTTAGAATTCTTCTTTTGTAAGTT
1 AAACTTGCCT-ATTAAAAATCTTTTTCCTTTTAGAATTCTTCTTTTGCAAGTT
* *
2323835 AAACTTGCCTATTAAAAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAAAATCTTTTTCCTTTTAGAATTCTTCTTTTGCAAGTT
* * * * *
2323887 AAACTTACCTATTAAGAAT-TTCTTTTCTTTTAAAATTCTTATTTTGCAAGTT
1 AAACTTGCCTATTAAAAATCTT-TTTCCTTTTAGAATTCTTCTTTTGCAAGTT
2323939 TTTTTTGTCC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (52 bp):
AAACTTGCCTATTAAAAATCTTTTTCCTTTTAGAATTCTTCTTTTGCAAGTT
Found at i:2324270 original size:25 final size:26
Alignment explanation
Indices: 2324237--2324290 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
2324227 AACCATGCAC
* *
2324237 TTCCTACATCTTAAACCTTT-AGCT-T
1 TTCCCACATCTCAAA-CTTTCAGCTCT
2324262 TTCCCACATCTCAAACTTTCAGCTCT
1 TTCCCACATCTCAAACTTTCAGCTCT
2324288 TTC
1 TTC
2324291 ACGTCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 17 0.68
26 4 0.16
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (26 bp):
TTCCCACATCTCAAACTTTCAGCTCT
Found at i:2324305 original size:25 final size:24
Alignment explanation
Indices: 2324270--2324361 Score: 85
Period size: 25 Copynumber: 3.8 Consensus size: 24
2324260 TTTTCCCACA
* *
2324270 TCTCAAACTTTCAGCTCTTTCACG
1 TCTCGAACCTTCAGCTCTTTCACG
* *
2324294 TCTCGAACCTTTAGCTCTTTTCACA
1 TCTCGAACCTTCAGCTC-TTTCACG
* * * *
2324319 CCTTGAATCTTCAACTCTTCTCACG
1 TCTCGAACCTTCAGCTCTT-TCACG
*
2324344 TTTCGAACCTTCAGCTCT
1 TCTCGAACCTTCAGCTCT
2324362 GATATCACTT
Statistics
Matches: 51, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.38
Consensus pattern (24 bp):
TCTCGAACCTTCAGCTCTTTCACG
Found at i:2324949 original size:52 final size:50
Alignment explanation
Indices: 2324860--2324983 Score: 160
Period size: 52 Copynumber: 2.5 Consensus size: 50
2324850 TATACCCATA
2324860 CAAACTTGCCTATTAAGAAT-TCTCATCTTAGAATTCTTCTCTTATAAGT
1 CAAACTTGCCTATTAAGAATCTCTCATCTTAGAATTCTTCTCTTATAAGT
* * * * *
2324909 TAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAAT--CTCTCATCTTAGAATTCTTCTCTTATAAGT
* *
2324961 CAAATTTACCTATTAAGAATCTC
1 CAAACTTGCCTATTAAGAATCTC
2324984 ATTTTTCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 19 0.30
50 2 0.03
52 42 0.67
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (50 bp):
CAAACTTGCCTATTAAGAATCTCTCATCTTAGAATTCTTCTCTTATAAGT
Found at i:2324999 original size:52 final size:52
Alignment explanation
Indices: 2324860--2325013 Score: 156
Period size: 52 Copynumber: 3.0 Consensus size: 52
2324850 TATACCCATA
* * * *
2324860 CAAACTTGCCTATTAAGAAT---TCTCATCTTAGAATTCTTCTCTTATAAGT
1 CAAACTTACCTATTAAGAATCCATTTCTTCTTAGAATTCTTCTCTTGTAAGT
* * *
2324909 TAAACTTGCCTATTAAGAATCCCTTTCCTT-TTAGAATTCTTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCCATTT-CTTCTTAGAATTCTTCTCTTGTAAGT
* * * *
2324961 CAAATTTACCTATTAAGAATCTCATTT-TTCTTATAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-CATTTCTTCTTAGAATTCTTCTCTTGTAAGT
2325013 C
1 C
2325014 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
49 19 0.22
51 2 0.02
52 61 0.69
53 6 0.07
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCATTTCTTCTTAGAATTCTTCTCTTGTAAGT
Found at i:2328356 original size:26 final size:27
Alignment explanation
Indices: 2328321--2328418 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 27
2328311 AATTTATTTT
*
2328321 TTTATATTAAATTTAAATTTTATCAA-A
1 TTTATTTTAAATTTAAATTTTAT-AACA
*
2328348 TTT-TTTTAAATATATAA-TTTATAATCA
1 TTTATTTTAAATTTA-AATTTTATAA-CA
* * *
2328375 TTTATTTTAAATATTAAATATGATATA-T
1 TTTATTTTAAAT-TTAAATTTTATA-ACA
2328403 TTTATTTT-AATTTAAA
1 TTTATTTTAAATTTAAA
2328419 AAATTAAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
25 2 0.03
26 19 0.33
27 12 0.21
28 18 0.31
29 6 0.10
30 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTATTTTAAATTTAAATTTTATAACA
Found at i:2331020 original size:19 final size:19
Alignment explanation
Indices: 2330996--2331037 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
2330986 TTTTCAATTT
2330996 AATAAATATAAAA-TTAAAA
1 AATAAAT-TAAAATTTAAAA
2331015 AATAAATTAAAATTTAAAA
1 AATAAATTAAAATTTAAAA
2331034 AATA
1 AATA
2331038 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAATTAAAATTTAAAA
Found at i:2342401 original size:2 final size:2
Alignment explanation
Indices: 2342394--2342424 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2342384 AGCTCCCACT
2342394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2342425 CACCTAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2353520 original size:31 final size:31
Alignment explanation
Indices: 2353476--2353537 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
2353466 ATCATACTCT
* *
2353476 GTCCAAGCTTGAAACTTGCCTGGTCTAACAA
1 GTCCAAACCTGAAACTTGCCTGGTCTAACAA
*
2353507 GTCCAAACCTGAAACTTGCCTGTTCTAACAA
1 GTCCAAACCTGAAACTTGCCTGGTCTAACAA
2353538 TTAAGCTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (31 bp):
GTCCAAACCTGAAACTTGCCTGGTCTAACAA
Found at i:2362416 original size:34 final size:34
Alignment explanation
Indices: 2362311--2362417 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 34
2362301 CTTTGCCTGG
* * *
2362311 ACATCTTCAGGTGATTTTATGGACGCATTCTCTT
1 ACATCTTCGGGTGATCTTAAGGACGCATTCTCTT
** * * *
2362345 TTATCTTCGGATGATCTTAAGGATGCATTCTTTT
1 ACATCTTCGGGTGATCTTAAGGACGCATTCTCTT
* *
2362379 ACATCTTTGGGTGATCTTAAGGACGCATTCTCCT
1 ACATCTTCGGGTGATCTTAAGGACGCATTCTCTT
2362413 ACATC
1 ACATC
2362418 AACCGAGACT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (34 bp):
ACATCTTCGGGTGATCTTAAGGACGCATTCTCTT
Found at i:2369563 original size:14 final size:14
Alignment explanation
Indices: 2369544--2369577 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2369534 TATCTCTATT
2369544 AAATTATAAATATC
1 AAATTATAAATATC
2369558 AAATTATAAATATC
1 AAATTATAAATATC
2369572 AAATTA
1 AAATTA
2369578 CTAAGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTATAAATATC
Found at i:2373496 original size:16 final size:16
Alignment explanation
Indices: 2373475--2373507 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2373465 AAAATCATCG
2373475 TAAATCATCATTATCA
1 TAAATCATCATTATCA
*
2373491 TAAATCATTATTATCA
1 TAAATCATCATTATCA
2373507 T
1 T
2373508 TCAAATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:2379917 original size:29 final size:27
Alignment explanation
Indices: 2379877--2379930 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 27
2379867 TGGTTTGACT
*
2379877 ATGATATTTGAATGATAGCATATTTTGTA
1 ATGATATTTGAA-G-TAACATATTTTGTA
2379906 ATGAT-TTATGAAGTAACATATTTTG
1 ATGATATT-TGAAGTAACATATTTTG
2379931 ACATTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 11 0.48
28 3 0.13
29 9 0.39
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (27 bp):
ATGATATTTGAAGTAACATATTTTGTA
Found at i:2385877 original size:22 final size:22
Alignment explanation
Indices: 2385852--2385898 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
2385842 TATAATTTAT
*
2385852 ATATTTATATT-TTTAGAATTAA
1 ATATTTAT-TTATTTAAAATTAA
2385874 ATATTTATTTATTTAAAATTAA
1 ATATTTATTTATTTAAAATTAA
2385896 ATA
1 ATA
2385899 CAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTTATTTATTTAAAATTAA
Found at i:2392886 original size:20 final size:20
Alignment explanation
Indices: 2392846--2392890 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2392836 TATTGGAGAA
*
2392846 TTTAA-TGAAAATTTTCATT
1 TTTAAGTGAAAATTGTCATT
2392865 TTTAAGTGAAAATTGT-AGTT
1 TTTAAGTGAAAATTGTCA-TT
2392885 TTTAAG
1 TTTAAG
2392891 ATTCTGGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTAAGTGAAAATTGTCATT
Found at i:2397444 original size:3 final size:3
Alignment explanation
Indices: 2397436--2397482 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2397426 TAATTAATAC
2397436 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2397483 ATGTTAGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2401883 original size:20 final size:20
Alignment explanation
Indices: 2401843--2401887 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2401833 TATAGGAGAA
*
2401843 TTTAA-TGAAAATTTTCATT
1 TTTAAGTGAAAATTGTCATT
2401862 TTTAAGTGAAAATTGT-AGTT
1 TTTAAGTGAAAATTGTCA-TT
2401882 TTTAAG
1 TTTAAG
2401888 ATTCTGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTAAGTGAAAATTGTCATT
Found at i:2406551 original size:2 final size:2
Alignment explanation
Indices: 2406544--2406578 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2406534 TTGACTATTT
2406544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2406579 TGTAAATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2412122 original size:117 final size:117
Alignment explanation
Indices: 2411916--2412147 Score: 419
Period size: 117 Copynumber: 2.0 Consensus size: 117
2411906 ATTTTCACAA
*
2411916 AAAGCTCAAATATAATTTAATATGTATTTCTAAATTGCTTTCTTGCTTTCTCAGCTGAGAAAGTT
1 AAAGCTCAAATATAATTTAATATGTATTTCCAAATTGCTTTCTTGCTTTCTCAGCTGAGAAAGTT
*
2411981 GAGCCATTTTGTGAAGAATCTTTGAACAACCTTTGAGGACATCACTTGCCTG
66 GAGCCACTTTGTGAAGAATCTTTGAACAACCTTTGAGGACATCACTTGCCTG
* *
2412033 AAAGCTCAAATATAATTTAATATGTATTTCCACATTGCTTTGTTGCTTTCTCAGCTGAGAAAGTT
1 AAAGCTCAAATATAATTTAATATGTATTTCCAAATTGCTTTCTTGCTTTCTCAGCTGAGAAAGTT
*
2412098 GAGCCACTTTGTGAAGAATCTTTGAACAACCTTTTAGGACATCACTTGCC
66 GAGCCACTTTGTGAAGAATCTTTGAACAACCTTTGAGGACATCACTTGCC
2412148 CGAGTAGTAT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (117 bp):
AAAGCTCAAATATAATTTAATATGTATTTCCAAATTGCTTTCTTGCTTTCTCAGCTGAGAAAGTT
GAGCCACTTTGTGAAGAATCTTTGAACAACCTTTGAGGACATCACTTGCCTG
Found at i:2413677 original size:12 final size:12
Alignment explanation
Indices: 2413660--2413684 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2413650 TAAACCTCTA
2413660 AAAAATGCAGAC
1 AAAAATGCAGAC
2413672 AAAAATGCAGAC
1 AAAAATGCAGAC
2413684 A
1 A
2413685 GTTGTTATTG
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:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAATGCAGAC
Found at i:2416149 original size:30 final size:29
Alignment explanation
Indices: 2416079--2416185 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 29
2416069 GTACTCTTTA
*
2416079 ATTTTT-AAAAATTTAAT-TTTT-ATAGT
1 ATTTTTAAAAAATTTAATCTTTTAATATT
*
2416105 ATTATTTAAAAAATTTATTCTTTGTAATATT
1 ATT-TTTAAAAAATTTAATCTTT-TAATATT
* *
2416136 ATTTTTAATAAATTTAGTCTTTATAATATT
1 ATTTTTAAAAAATTTAATCTTT-TAATATT
2416166 ATTTTTGAAAAAATTTAATC
1 ATTTTT-AAAAAATTTAATC
2416186 CCTATACATT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.04
27 3 0.04
28 10 0.15
29 3 0.04
30 31 0.46
31 18 0.26
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (29 bp):
ATTTTTAAAAAATTTAATCTTTTAATATT
Found at i:2416286 original size:29 final size:29
Alignment explanation
Indices: 2416225--2416287 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
2416215 TCCTTAAAAC
* * **
2416225 AAATAATACTACAAAGATTAAATTTTTTT
1 AAATAATACTAAAAAGATTAAATTCTTAA
*
2416254 AAATAATATTAAAAAGATTAAATTCTTAA
1 AAATAATACTAAAAAGATTAAATTCTTAA
2416283 AAATA
1 AAATA
2416288 GAAGAGTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (29 bp):
AAATAATACTAAAAAGATTAAATTCTTAA
Found at i:2416695 original size:11 final size:11
Alignment explanation
Indices: 2416679--2416712 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2416669 GTCAAAAAAG
2416679 ATATTGTAACA
1 ATATTGTAACA
*
2416690 ATATTGCAACA
1 ATATTGTAACA
*
2416701 ACATTGTAACA
1 ATATTGTAACA
2416712 A
1 A
2416713 CTTCTGCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (11 bp):
ATATTGTAACA
Found at i:2424965 original size:2 final size:2
Alignment explanation
Indices: 2424953--2425008 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
2424943 TACATGCCTG
* *
2424953 TA TA CA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2424994 TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2425009 GTAGGAAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2437313 original size:6 final size:6
Alignment explanation
Indices: 2437302--2437376 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
2437292 CTTGTGTCTA
* * * *
2437302 ATACAT ATACAT ATACAT ATACAT ACATAC ATACAT ATACAT ATATAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * *
2437350 ATATAT ATATAT ATATAT ATATAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
2437377 ACACGTGTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (6 bp):
ATACAT
Found at i:2437349 original size:4 final size:4
Alignment explanation
Indices: 2437306--2437376 Score: 79
Period size: 4 Copynumber: 17.8 Consensus size: 4
2437296 TGTCTAATAC
* * * * * * *
2437306 ATAT ACAT ATAC ATAT ACAT ACAT ACAT ACAT ATAC ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
2437354 ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATA
2437377 ACACGTGTGC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:2442672 original size:70 final size:70
Alignment explanation
Indices: 2442551--2442690 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 70
2442541 TAGATTATAA
* * * *
2442551 ACTTTCCTGCTTGAACATGGTGTGACCGTGGCTTTATTAAGTCAGCTTGAGACAAAGCAGTTTTA
1 ACTTTCCTGCTTGAACATGGTGTGACCGTGCCTTTATTAAGTCAGCGTGAGACAAAACAATTTTA
2442616 AATAT
66 AATAT
* * * *
2442621 ACTTTCCTGCTTGAATATGGTGTGAATCGT-CCTGTTCTTAAGT-TGCGTGAGACAAAACAATTT
1 ACTTTCCTGCTTGAACATGGTGTG-ACCGTGCCT-TTATTAAGTCAGCGTGAGACAAAACAATTT
2442684 TAAATAT
64 TAAATAT
2442691 TGATCTGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 48 0.80
71 12 0.20
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (70 bp):
ACTTTCCTGCTTGAACATGGTGTGACCGTGCCTTTATTAAGTCAGCGTGAGACAAAACAATTTTA
AATAT
Found at i:2452488 original size:17 final size:17
Alignment explanation
Indices: 2452450--2452485 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2452440 TGCCAACAAC
*
2452450 TTTAATAGACTTTCAAA
1 TTTAATAGAATTTCAAA
2452467 TTTAATAGAATTT-AAA
1 TTTAATAGAATTTCAAA
2452483 TTT
1 TTT
2452486 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTAATAGAATTTCAAA
Found at i:2455485 original size:33 final size:33
Alignment explanation
Indices: 2455448--2455562 Score: 97
Period size: 33 Copynumber: 3.3 Consensus size: 33
2455438 AATGTTATTA
2455448 TATATTTAATAAATATATAATTTTTTATAATTT
1 TATATTTAATAAATATATAATTTTTTATAATTT
* * * *
2455481 TATATTCAGAT-AATAAAAAATTATTAAAATAATATTATTT
1 TATATTTA-ATAAATATATAATT-TT----T--TATAATTT
*
2455521 TATATCTAATAAATATATAATTTTTTATAATTT
1 TATATTTAATAAATATATAATTTTTTATAATTT
*
2455554 TATACTTAA
1 TATATTTAA
2455563 ATTAAATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
33 30 0.48
34 4 0.06
35 1 0.02
38 1 0.02
39 4 0.06
40 22 0.35
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATTTAATAAATATATAATTTTTTATAATTT
Found at i:2456500 original size:19 final size:18
Alignment explanation
Indices: 2456472--2456513 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
2456462 CGAATTGAAT
2456472 TATAATTTTTTTAATTTA
1 TATAATTTTTTTAATTTA
*
2456490 TATATATTTTTTTAATTTT
1 TATA-ATTTTTTTAATTTA
2456509 TATAA
1 TATAA
2456514 AATAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATAATTTTTTTAATTTA
Found at i:2466812 original size:2 final size:2
Alignment explanation
Indices: 2466805--2466834 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2466795 TTTATTTATT
2466805 TA 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 TA
2466835 ACACCAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2476548 original size:30 final size:30
Alignment explanation
Indices: 2476512--2476572 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
2476502 ATGAGCGACA
2476512 TTTTGTATTGATATCATTGGTTGAACTGGG
1 TTTTGTATTGATATCATTGGTTGAACTGGG
*
2476542 TTTTGTATTGATGTCATTGGTTGAACTGGG
1 TTTTGTATTGATATCATTGGTTGAACTGGG
2476572 T
1 T
2476573 ATTTCCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.28, T:0.48
Consensus pattern (30 bp):
TTTTGTATTGATATCATTGGTTGAACTGGG
Found at i:2477395 original size:19 final size:19
Alignment explanation
Indices: 2477371--2477407 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2477361 TTCTACCCCA
*
2477371 ACAATAAAAGGTTAAAAGT
1 ACAATAAAAGGCTAAAAGT
2477390 ACAATAAAAGGCTAAAAG
1 ACAATAAAAGGCTAAAAG
2477408 CATGGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (19 bp):
ACAATAAAAGGCTAAAAGT
Found at i:2478440 original size:18 final size:18
Alignment explanation
Indices: 2478416--2478467 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
2478406 TTCGCTCCCC
2478416 TTTTTATTTTTCTTGTT-
1 TTTTTATTTTTCTTGTTA
*
2478433 TTTGTTATTTTTATTTGTTA
1 TTT-TTATTTTT-CTTGTTA
*
2478453 TTTTAATTTTTCTTG
1 TTTTTATTTTTCTTG
2478468 GGGTTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 12 0.41
20 3 0.10
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTCTTGTTA
Found at i:2478451 original size:13 final size:13
Alignment explanation
Indices: 2478416--2478461 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
2478406 TTCGCTCCCC
*
2478416 TTTTTATTT-TTC
1 TTTTTATTTGTTA
*
2478428 TTGTT-TTTGTTA
1 TTTTTATTTGTTA
2478440 TTTTTATTTGTTA
1 TTTTTATTTGTTA
*
2478453 TTTTAATTT
1 TTTTTATTT
2478462 TTCTTGGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 3 0.11
12 10 0.36
13 15 0.54
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTATTTGTTA
Found at i:2479020 original size:18 final size:18
Alignment explanation
Indices: 2478986--2479020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2478976 AAAATATCAA
* *
2478986 AATAATTATACATATTAT
1 AATAATTACACAAATTAT
2479004 AATAATTACACAAATTA
1 AATAATTACACAAATTA
2479021 ATGATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTACACAAATTAT
Found at i:2480423 original size:19 final size:19
Alignment explanation
Indices: 2480399--2480437 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2480389 AGTTAAGTCT
* *
2480399 TGACCTTATTTCTTAGCAA
1 TGACCTCATTCCTTAGCAA
*
2480418 TGACCTCATTCCTTTGCAA
1 TGACCTCATTCCTTAGCAA
2480437 T
1 T
2480438 TTCATAAGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (19 bp):
TGACCTCATTCCTTAGCAA
Found at i:2480770 original size:24 final size:23
Alignment explanation
Indices: 2480743--2480798 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
2480733 TTATGCGTTA
*
2480743 TTAAATTTTTAATTTTGATTTTAT
1 TTAAATTTTTAATTTTGA-TATAT
* *
2480767 TTAAAATTTTTTATTTTTATATAT
1 TT-AAATTTTTAATTTTGATATAT
2480791 TTAAATTT
1 TTAAATTT
2480799 GAATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 8 0.29
25 14 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTAAATTTTTAATTTTGATATAT
Found at i:2480891 original size:30 final size:30
Alignment explanation
Indices: 2480855--2480911 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2480845 CGAAATTAAT
* * *
2480855 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
2480885 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
2480912 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:2485165 original size:21 final size:22
Alignment explanation
Indices: 2485139--2485181 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2485129 AAAATCAAAA
2485139 TTAATT-AAAT-TAATTGAAATT
1 TTAATTAAAATATAATT-AAATT
2485160 TTAATTAAAATATAATTAAATT
1 TTAATTAAAATATAATTAAATT
2485182 CAAGGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAATTAAAATATAATTAAATT
Found at i:2487444 original size:32 final size:32
Alignment explanation
Indices: 2487408--2487474 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
2487398 TATAATATGT
2487408 AATTTTAATA-TAAAGTATGATATAAATACATG
1 AATTTTAATATTAAA-TATGATATAAATACATG
** *
2487440 AATTTTAATATTTTATATGATATAAATATATG
1 AATTTTAATATTAAATATGATATAAATACATG
2487472 AAT
1 AAT
2487475 AGCTGAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.43
Consensus pattern (32 bp):
AATTTTAATATTAAATATGATATAAATACATG
Found at i:2489852 original size:19 final size:20
Alignment explanation
Indices: 2489801--2489852 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
2489791 ATGTTATTTG
* * *
2489801 ATTTATAAAAATGTGTAAAT
1 ATTTTTAAAAATATGTAAAA
* *
2489821 ATTATTAATAATATG-AAAA
1 ATTTTTAAAAATATGTAAAA
2489840 ATTTTTAAAAATA
1 ATTTTTAAAAATA
2489853 AAATTTATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (20 bp):
ATTTTTAAAAATATGTAAAA
Found at i:2491665 original size:3 final size:3
Alignment explanation
Indices: 2491657--2491691 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2491647 TGACTTTAAA
2491657 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2491692 GGGTTGGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2518310 original size:23 final size:24
Alignment explanation
Indices: 2518258--2518312 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
2518248 TTGATATATA
2518258 TATTT-AAAAATAATACTTTTTAC
1 TATTTAAAAAATAATACTTTTTAC
* * **
2518281 TAGTTAAAAAATAA-AGTTTTTTT
1 TATTTAAAAAATAATACTTTTTAC
2518304 TATTTAAAA
1 TATTTAAAA
2518313 TTATCAGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
TATTTAAAAAATAATACTTTTTAC
Found at i:2526030 original size:22 final size:22
Alignment explanation
Indices: 2525970--2526050 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 22
2525960 TTGTAACTAT
*
2525970 AAAAACAACA-ACAACAACAAT-
1 AAAAACAACATAC-ACAAAAATA
* *
2525991 AACAATAACA-ACA-AAAAATTA
1 AAAAACAACATACACAAAAA-TA
*
2526012 AATCAACAACAT-CACAAAAATA
1 AA-AAACAACATACACAAAAATA
2526034 AAAAACAACATACACAA
1 AAAAACAACATACACAA
2526051 TAACATCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.08
20 2 0.04
21 20 0.41
22 18 0.37
23 5 0.10
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (22 bp):
AAAAACAACATACACAAAAATA
Found at i:2527064 original size:35 final size:33
Alignment explanation
Indices: 2527025--2527128 Score: 93
Period size: 35 Copynumber: 3.0 Consensus size: 33
2527015 TATTTAGGTA
2527025 TTTTGAAAATGAATTTTCAAGAAAATATAAAGTTT
1 TTTTGAAAATGAATTTT--AGAAAATATAAAGTTT
* * * *
2527060 TTTTGGAAATGAATTTTTGAAAAGACGT-AAGATT
1 TTTTGAAAATGAATTTTAGAAAATA--TAAAGTTT
* *
2527094 TCTTGAAAATGGATTTTTGAGAAAATATAAAGTTT
1 TTTTGAAAAT-GAATTTT-AGAAAATATAAAGTTT
2527129 CTCAAAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
33 6 0.11
34 14 0.26
35 28 0.52
36 6 0.11
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTTGAAAATGAATTTTAGAAAATATAAAGTTT
Found at i:2527130 original size:34 final size:35
Alignment explanation
Indices: 2527027--2527130 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 35
2527017 TTTAGGTATT
** * *
2527027 TTGAAAATGAATTTTCAAGAAAATATAAAGTTTTT
1 TTGAAAATGAATTTTTGAGAAAATATAAAGATTTC
* **
2527062 TTGGAAATGAATTTTTGA-AAAGACGT-AAGATTTC
1 TTGAAAATGAATTTTTGAGAAA-ATATAAAGATTTC
*
2527096 TTGAAAATGGATTTTTGAGAAAATATAAAG-TTTC
1 TTGAAAATGAATTTTTGAGAAAATATAAAGATTTC
2527130 T
1 T
2527131 CAAAAATTCC
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
34 32 0.58
35 23 0.42
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.38
Consensus pattern (35 bp):
TTGAAAATGAATTTTTGAGAAAATATAAAGATTTC
Found at i:2531996 original size:16 final size:17
Alignment explanation
Indices: 2531967--2531998 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2531957 TACAATATTA
2531967 TAAATTATTAGTATTTT
1 TAAATTATTAGTATTTT
2531984 TAAATTATT-GTATTT
1 TAAATTATTAGTATTT
2531999 GATATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TAAATTATTAGTATTTT
Found at i:2536529 original size:86 final size:86
Alignment explanation
Indices: 2536382--2536554 Score: 274
Period size: 86 Copynumber: 2.0 Consensus size: 86
2536372 TTGATACTTG
*
2536382 ATATTTCTCATTCTATGGGTCCAAGAATGAAAGTAGATGTAACATTTTCTTAAAAGGTTGACAGT
1 ATATTTCTCATTCTATGGGTCCAAGAATGAAAGTAGATGTAACATTTTCTTAAAACGTTGACAGT
2536447 GATTTTATTAAAGTCATTCAA
66 GATTTTATTAAAGTCATTCAA
* * ** ** *
2536468 ATATTTCTCATTCTATGGGTCCAAGGATGGATTTAGATGTAACATTTTCTTAATTCTTTGACAGT
1 ATATTTCTCATTCTATGGGTCCAAGAATGAAAGTAGATGTAACATTTTCTTAAAACGTTGACAGT
2536533 GATTTTATTAAAGTCATTCAA
66 GATTTTATTAAAGTCATTCAA
2536554 A
1 A
2536555 AAATTCAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (86 bp):
ATATTTCTCATTCTATGGGTCCAAGAATGAAAGTAGATGTAACATTTTCTTAAAACGTTGACAGT
GATTTTATTAAAGTCATTCAA
Found at i:2537212 original size:15 final size:16
Alignment explanation
Indices: 2537187--2537217 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2537177 AAATTTAATT
2537187 ATTATATAATAAATAA
1 ATTATATAATAAATAA
2537203 ATTA-ATAATAAATAA
1 ATTATATAATAAATAA
2537218 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTATATAATAAATAA
Found at i:2537843 original size:33 final size:34
Alignment explanation
Indices: 2537772--2537844 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
2537762 TAATGGTTTT
* * *
2537772 AAATAAAATAAATATAAGAAAATCAAAGTTCAAT
1 AAATAAAATAAATATAAGAAAATCAAAATTAAAG
2537806 AAATAAAAT-AATATAA-AAAA-CAATAATTGAAAG
1 AAATAAAATAAATATAAGAAAATCAA-AATT-AAAG
2537839 AAATAA
1 AAATAA
2537845 GTGTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 3 0.09
32 7 0.21
33 15 0.44
34 9 0.26
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.22
Consensus pattern (34 bp):
AAATAAAATAAATATAAGAAAATCAAAATTAAAG
Found at i:2538144 original size:22 final size:22
Alignment explanation
Indices: 2538092--2538145 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2538082 TAAATTTATA
2538092 ATTTATATA-AAAAAATTTGAC
1 ATTTATATATAAAAAATTTGAC
* *
2538113 ATTTAT-TATAAAATATTTGAG
1 ATTTATATATAAAAAATTTGAC
*
2538134 TTTTATATATAA
1 ATTTATATATAA
2538146 CGATGAATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 21 0.75
22 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTATATATAAAAAATTTGAC
Found at i:2538999 original size:17 final size:16
Alignment explanation
Indices: 2538977--2539010 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2538967 ATTTTTTATA
2538977 TTATTAATATATTAAAT
1 TTATTAATATA-TAAAT
*
2538994 TTATTAATTTATAAAT
1 TTATTAATATATAAAT
2539010 T
1 T
2539011 ATGGATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTAATATATAAAT
Found at i:2539121 original size:33 final size:33
Alignment explanation
Indices: 2539051--2539121 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
2539041 ATCATGTTCT
* ** *
2539051 TATATATATTTGTGTTAGTCGTATTTATTTATA
1 TATATATATATGTGTTAGTCGTACCTATTCATA
*
2539084 TATATATATATGTGTTAGTCGTACCTATTCATG
1 TATATATATATGTGTTAGTCGTACCTATTCATA
2539117 TATAT
1 TATAT
2539122 CTGTTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (33 bp):
TATATATATATGTGTTAGTCGTACCTATTCATA
Found at i:2539328 original size:8 final size:10
Alignment explanation
Indices: 2539306--2539332 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2539296 ATTGAACTTT
2539306 TATATTTAAA
1 TATATTTAAA
2539316 TATATTTAAA
1 TATATTTAAA
2539326 TATATTT
1 TATATTT
2539333 TAATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATTTAAA
Found at i:2539941 original size:33 final size:33
Alignment explanation
Indices: 2539899--2539970 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
2539889 ATGATTGTAC
* * *
2539899 AAATTATTAGTATTTTATATTATATAAATATAT
1 AAATTATTAGTATTATATATGATACAAATATAT
2539932 AAATTATTAGTATTATATATGATACAAATATAT
1 AAATTATTAGTATTATATATGATACAAATATAT
2539965 AAATTA
1 AAATTA
2539971 AAAAAGATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (33 bp):
AAATTATTAGTATTATATATGATACAAATATAT
Found at i:2541978 original size:220 final size:216
Alignment explanation
Indices: 2541718--2542124 Score: 539
Period size: 217 Copynumber: 1.9 Consensus size: 216
2541708 AAGAATTAAG
*
2541718 AGAAAGAAGTTTAAAAGAGACATGAAAAAAACTCATATAACTCTCATTCTTAAAAAAGATAAAAA
1 AGAAAGAAGTGTAAAAGAGACATGAAAAAAACTCATATAACTCTCATTCTTAAAAAAGAT-AAAA
* * * * * *
2541783 AAACTATAAATTACAAGAAAATTAAAGGTAAAAAATATAAATATTATAAAA-TCAAAATTTTGAT
65 AAAC-AT-AAGTACAAAAAAATCAAAAGTAAAAAATATAAATACTATAAAACT-AAAATGTTGAT
*
2541847 TAATAAATTTTAACAAATAATGATTTTAAAAA-AATAAATACAAAAAAATTAAAAGTCAATAAAT
127 CAATAAATTTTAA-AAATAATGATTTTAAAAATAATAAATA-AAAAAAATTAAAAGTCAATAAAT
2541911 AAAGTAATATGACAAACAATAATTGAA
190 AAAGTAATATGACAAACAATAATTGAA
* * * * * * *
2541938 AGAAATAAGTGTAATAGAGACATGAAAAATATTTATATAACTCTCATTCTTAAAATAGATAAAAG
1 AGAAAGAAGTGTAAAAGAGACATGAAAAAAACTCATATAACTCTCATTCTTAAAAAAGATAAAAA
* * *
2542003 ATCATAAGTACAAAAAAATCAAAAGTAAAAAATATAAATGCTATAAGACTAAAATGTTGATCAAT
66 AACATAAGTACAAAAAAATCAAAAGTAAAAAATATAAATACTATAAAACTAAAATGTTGATCAAT
* * * * *
2542068 ATATTTTAAAAGTAATGGTTTTAAAAATAATAAATAGAAAAAATTAAAAGTTAATAA
131 AAATTTTAAAAATAATGATTTTAAAAATAATAAATAAAAAAAATTAAAAGTCAATAA
2542125 TCCAAATTAA
Statistics
Matches: 162, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
216 35 0.22
217 65 0.40
218 3 0.02
219 6 0.04
220 53 0.33
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (216 bp):
AGAAAGAAGTGTAAAAGAGACATGAAAAAAACTCATATAACTCTCATTCTTAAAAAAGATAAAAA
AACATAAGTACAAAAAAATCAAAAGTAAAAAATATAAATACTATAAAACTAAAATGTTGATCAAT
AAATTTTAAAAATAATGATTTTAAAAATAATAAATAAAAAAAATTAAAAGTCAATAAATAAAGTA
ATATGACAAACAATAATTGAA
Found at i:2542158 original size:19 final size:20
Alignment explanation
Indices: 2542107--2542152 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2542097 ATAAATAGAA
*
2542107 AAAATTAAAAGTT-AATAATC
1 AAAATTAATA-TTAAATAATC
*
2542127 CAAATTAATATTAAATAATC
1 AAAATTAATATTAAATAATC
2542147 AAAATT
1 AAAATT
2542153 TTATTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATTAATATTAAATAATC
Found at i:2542248 original size:22 final size:22
Alignment explanation
Indices: 2542196--2542249 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2542186 TAAATTTATA
*
2542196 ATTTCTATA-AAAATATTTGAC
1 ATTTATATATAAAATATTTGAC
* *
2542217 ATTTAT-TATAAAATTTTTGAG
1 ATTTATATATAAAATATTTGAC
*
2542238 TTTTATATATAA
1 ATTTATATATAA
2542250 TGACGATTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.07
21 20 0.74
22 5 0.19
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTATATATAAAATATTTGAC
Found at i:2543716 original size:29 final size:27
Alignment explanation
Indices: 2543674--2543939 Score: 115
Period size: 30 Copynumber: 9.1 Consensus size: 27
2543664 GGATTAGGTT
*
2543674 TTTTATTTTAAGGTTTAAAGAGTTTAAGG
1 TTTTATTTT-AGGTTTAAAG-GTTTAGGG
**
2543703 TTTTAGTTTTAGGTTTTGTAGGTTT-GGAG
1 TTTTA-TTTTAGG-TTTAAAGGTTTAGG-G
* *
2543732 TTTTGATTTTTAGGTTTAAGGGGTTTAAGG
1 TTTT-A-TTTTAGGTTTAA-AGGTTTAGGG
*
2543762 TTTAATTTTAGGTTTTAAAGGTTT-GGAG
1 TTTTATTTTAGG-TTTAAAGGTTTAGG-G
* *
2543790 TTTTGACTTTAAGTTTTAAAGAGTTTAGGG
1 TTTT-A-TTTTAGGTTTAAAG-GTTTAGGG
* * * *
2543820 TTTCGT-TTTTGGGGTTTAGAGGATTTAAGA
1 TTT--TATTTT-AGGTTTAAAGG-TTTAGGG
* * *
2543850 TTTAATTTTAGGGTTTGAAGGTTTGGGG
1 TTTTATTTTA-GGTTTAAAGGTTTAGGG
* * **
2543878 TTTGAATTTTAGGATTTGAAGTGTTTAAAG
1 TTT-TATTTTAGG-TTTAAAG-GTTTAGGG
*
2543908 TTTTGTTTTTAGGGTTTATAAGGTTTAGGG
1 TTTT-ATTTTA-GGTTTA-AAGGTTTAGGG
2543938 TT
1 TT
2543940 AAGTTTAAAA
Statistics
Matches: 178, Mismatches: 35, Indels: 47
0.68 0.13 0.18
Matches are distributed among these distances:
27 1 0.01
28 26 0.15
29 64 0.36
30 78 0.44
31 8 0.04
32 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.50
Consensus pattern (27 bp):
TTTTATTTTAGGTTTAAAGGTTTAGGG
Found at i:2543745 original size:30 final size:29
Alignment explanation
Indices: 2543709--2543795 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 29
2543699 AAGGTTTTAG
*
2543709 TTTTAGGTTTTGTAGGTTTGGAGTTTTGAT
1 TTTTAGGTTTTG-AGGTTTGGAGTTTTGAA
* * * *
2543739 TTTTAGGTTTAAGGGGTTT-AAGGTTT-AA
1 TTTTAGGTTT-TGAGGTTTGGAGTTTTGAA
*
2543767 TTTTAGGTTTTAAAGGTTTGGAGTTTTGA
1 TTTTAGGTTTT-GAGGTTTGGAGTTTTGA
2543796 CTTTAAGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
28 16 0.37
29 10 0.23
30 16 0.37
31 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (29 bp):
TTTTAGGTTTTGAGGTTTGGAGTTTTGAA
Found at i:2543792 original size:58 final size:58
Alignment explanation
Indices: 2543673--2543822 Score: 201
Period size: 58 Copynumber: 2.6 Consensus size: 58
2543663 GGGATTAGGT
* * **
2543673 TTTTTATTTTAAGGTTTAAAGAGTTTAAGGTTTTAGTTTTAGGTTTTGTAGGTTTGGAG
1 TTTTGATTTTAAGGTTTAAAGAGTTTAAGG-TTTAATTTTAGGTTTTAAAGGTTTGGAG
* * *
2543732 TTTTGATTTTTAGGTTTAAGGGGTTTAAGGTTTAATTTTAGGTTTTAAAGGTTTGGAG
1 TTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTTAATTTTAGGTTTTAAAGGTTTGGAG
* * *
2543790 TTTTGACTTTAAGTTTTAAAGAGTTTAGGGTTT
1 TTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTT
2543823 CGTTTTTGGG
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 52 0.67
59 26 0.33
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (58 bp):
TTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTTAATTTTAGGTTTTAAAGGTTTGGAG
Found at i:2543904 original size:88 final size:88
Alignment explanation
Indices: 2543738--2543925 Score: 211
Period size: 88 Copynumber: 2.1 Consensus size: 88
2543728 GGAGTTTTGA
* * * *
2543738 TTTTTA-GGTTTA-AGGGGTTTAAGGTTTAATTTTAGGTTTTAAAGGTTTGGAGTTTTGACTTTA
1 TTTTTAGGGTTTAGA-GGATTTAAGATTTAATTTTAGGGTTTAAAGGTTTGGAGGTTTGACTTTA
* **
2543801 AGTTTTAAAGAGTTTAGGGTTTCG
65 AGATTTAAAGAGTTTAAAGTTTCG
* * *
2543825 TTTTTGGGGTTTAGAGGATTTAAGATTTAATTTTAGGGTTTGAAGGTTTGG-GGTTTGAATTTTA
1 TTTTTAGGGTTTAGAGGATTTAAGATTTAATTTTAGGGTTTAAAGGTTTGGAGGTTTG-ACTTTA
* * * *
2543889 GGATTTGAAGTGTTTAAAGTTTTG
65 AGATTTAAAGAGTTTAAAGTTTCG
2543913 TTTTTAGGGTTTA
1 TTTTTAGGGTTTA
2543926 TAAGGTTTAG
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
87 10 0.12
88 72 0.87
89 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (88 bp):
TTTTTAGGGTTTAGAGGATTTAAGATTTAATTTTAGGGTTTAAAGGTTTGGAGGTTTGACTTTAA
GATTTAAAGAGTTTAAAGTTTCG
Found at i:2544065 original size:14 final size:14
Alignment explanation
Indices: 2544022--2544078 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
2544012 TTTGGATTTA
*
2544022 GAAATTTAGGGTTT
1 GAAATTTAAGGTTT
* * *
2544036 CAATTTTAGAGTTTT
1 GAAATTTA-AGGTTT
2544051 GAAATTTAAGGTTT
1 GAAATTTAAGGTTT
* *
2544065 GGATTTTAAGGTTT
1 GAAATTTAAGGTTT
2544079 AAAGAAAACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 23 0.70
15 10 0.30
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (14 bp):
GAAATTTAAGGTTT
Found at i:2544070 original size:29 final size:28
Alignment explanation
Indices: 2544008--2544072 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
2543998 GGGGTTTTAA
* *
2544008 GGATTTTGGATTTAGAAATTTAGGGTTT
1 GGATTTTAGATTTAGAAATTTAAGGTTT
** *
2544036 CAATTTTAGAGTTTTGAAATTTAAGGTTT
1 GGATTTTAGA-TTTAGAAATTTAAGGTTT
2544065 GGATTTTA
1 GGATTTTA
2544073 AGGTTTAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.48
Consensus pattern (28 bp):
GGATTTTAGATTTAGAAATTTAAGGTTT
Found at i:2544442 original size:18 final size:18
Alignment explanation
Indices: 2544412--2544458 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
2544402 CATATATTTC
*
2544412 ATTACTTATTTTTATTTTT
1 ATTA-TTATTTTCATTTTT
*
2544431 TTATATTATTTTCATTTTT
1 AT-TATTATTTTCATTTTT
2544450 ATTATTATT
1 ATTATTATT
2544459 AAAAACAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.29
19 15 0.62
20 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTATTATTTTCATTTTT
Found at i:2545556 original size:11 final size:10
Alignment explanation
Indices: 2545518--2545555 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
2545508 TTATAGGGAT
2545518 GGCTGTAAGA
1 GGCTGTAAGA
2545528 GGCTGTAAGA
1 GGCTGTAAGA
*
2545538 GGCTGTAGAGT
1 GGCTGTA-AGA
2545549 GGCTGTA
1 GGCTGTA
2545556 GGGTGATGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.24
Consensus pattern (10 bp):
GGCTGTAAGA
Found at i:2545657 original size:18 final size:19
Alignment explanation
Indices: 2545618--2545664 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2545608 TCCCCGTTCC
*
2545618 ATTTTTTTTTA-ATAATTA
1 ATTTTTTATTATATAATTA
*
2545636 ATTTTTTATTATAT-ATTT
1 ATTTTTTATTATATAATTA
2545654 A-TTTTTATTAT
1 ATTTTTTATTAT
2545665 TTAACCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 10 0.38
18 14 0.54
19 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTATTATATAATTA
Found at i:2550320 original size:33 final size:33
Alignment explanation
Indices: 2550248--2550334 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
2550238 TACCTACCTA
* *
2550248 AATTCTAATATAT-AATTTTTA-TATAAAATAT
1 AATTCGAATATATAAATTATTAGTATAAAATAT
* * * *
2550279 GATACGAATATATAAATTATTAGTATTATATAT
1 AATTCGAATATATAAATTATTAGTATAAAATAT
*
2550312 AATTCGAATACATAAATTATTAG
1 AATTCGAATATATAAATTATTAG
2550335 ATCTGTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 10 0.22
32 7 0.16
33 28 0.62
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (33 bp):
AATTCGAATATATAAATTATTAGTATAAAATAT
Found at i:2555928 original size:3 final size:3
Alignment explanation
Indices: 2555920--2555944 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2555910 TTTTTCCCTT
2555920 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
2555945 ATACGAATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2557636 original size:2 final size:2
Alignment explanation
Indices: 2557629--2557655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2557619 CCAAATACAA
2557629 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 A
2557656 TGACGGTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2559124 original size:2 final size:2
Alignment explanation
Indices: 2559117--2559147 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2559107 AATACACATC
*
2559117 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2559148 AACATTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2559896 original size:144 final size:144
Alignment explanation
Indices: 2559747--2560040 Score: 579
Period size: 144 Copynumber: 2.0 Consensus size: 144
2559737 AATCTTCTTT
2559747 AAAATTTGAAATCATAAGATTACTTATTATTTTTTAAAATTTAAAATATATTTATCAATTTAAAT
1 AAAATTTGAAATCATAAGATTACTTATTATTTTTTAAAATTTAAAATATATTTATCAATTTAAAT
2559812 TAAATAAAATTTATTTTAAAATTCACTCTTTTTAAAATTTAAAAATATAATAAAAATTTTATGCA
66 TAAATAAAATTTATTTTAAAATTCACTCTTTTTAAAATTTAAAAATATAATAAAAATTTTATGCA
2559877 TAGTAAGAGATAAA
131 TAGTAAGAGATAAA
2559891 AAAATTTGAAATCATAAGATTACTTATTATTTTTTAAAATTTAAAATATATTTATCAATTTAAAT
1 AAAATTTGAAATCATAAGATTACTTATTATTTTTTAAAATTTAAAATATATTTATCAATTTAAAT
*
2559956 TAAATAAAATTTATTTTAAAATTCACTCTTTTTAAATTTTAAAAATATAATAAAAATTTTATGCA
66 TAAATAAAATTTATTTTAAAATTCACTCTTTTTAAAATTTAAAAATATAATAAAAATTTTATGCA
2560021 TAGTAAGAGATAAA
131 TAGTAAGAGATAAA
2560035 AAAATT
1 AAAATT
2560041 AGTTATTTAA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 149 1.00
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (144 bp):
AAAATTTGAAATCATAAGATTACTTATTATTTTTTAAAATTTAAAATATATTTATCAATTTAAAT
TAAATAAAATTTATTTTAAAATTCACTCTTTTTAAAATTTAAAAATATAATAAAAATTTTATGCA
TAGTAAGAGATAAA
Found at i:2560110 original size:144 final size:141
Alignment explanation
Indices: 2559782--2560098 Score: 386
Period size: 144 Copynumber: 2.2 Consensus size: 141
2559772 ATTATTTTTT
* *
2559782 AAAATTTAAAATATATTTATCAATTTAAATTAAATAAAATTTATTTTAAAATTCACTCTTTTTAA
1 AAAATTTAAAATATATTTATAAATTAAAATT-AATAAAATTTATTTTAAAATTCACTCTTTTTAA
* *
2559847 AATTTAAAAATATAATAAAAATTTTATGCATAGTAAGAGATAAAAAAATTTGAAATCATAAGATT
65 AATTTAAAAATATAATAAAAATTTTATGCATAGTAAGAGATAAAAAAATTAGAAATCATAAAATT
* *** *
2559912 ACTTATTATTTTTT
130 A--TAGTAAACTTG
* *
2559926 AAAATTTAAAATATATTTATCAATTTAAATTAAATAAAATTTATTTTAAAATTCACTCTTTTTAA
1 AAAATTTAAAATATATTTATAAATTAAAATT-AATAAAATTTATTTTAAAATTCACTCTTTTTAA
* ** *
2559991 ATTTTAAAAATATAATAAAAATTTTATGCATAGTAAGAGATAAAAAAATTAGTTAT-TTAATAAT
65 AATTTAAAAATATAATAAAAATTTTATGCATAGTAAGAGATAAAAAAATTAGAAATCATAA-AAT
2560055 TA-AGTAAACTTG
129 TATAGTAAACTTG
* * *
2560067 ACAATTATATAAATTTATTTGTGAAATTAAAA
1 AAAATT-TA-AAATATATTTAT-AAATTAAAA
2560099 GTTTTGCAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
141 10 0.07
142 2 0.01
143 13 0.08
144 128 0.84
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (141 bp):
AAAATTTAAAATATATTTATAAATTAAAATTAATAAAATTTATTTTAAAATTCACTCTTTTTAAA
ATTTAAAAATATAATAAAAATTTTATGCATAGTAAGAGATAAAAAAATTAGAAATCATAAAATTA
TAGTAAACTTG
Found at i:2560564 original size:2 final size:2
Alignment explanation
Indices: 2560559--2560585 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2560549 TTTGAAAACT
2560559 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2560586 CAATGAGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2562398 original size:22 final size:20
Alignment explanation
Indices: 2562372--2562412 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2562362 TGGTTTGAAA
2562372 AAATAAAGTATAAAATAAAAAT
1 AAATAAA-T-TAAAATAAAAAT
*
2562394 AAATAAATTAGAATAAAAA
1 AAATAAATTAAAATAAAAA
2562413 ATTAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAATTAAAATAAAAAT
Found at i:2562416 original size:13 final size:14
Alignment explanation
Indices: 2562391--2562419 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2562381 ATAAAATAAA
2562391 AATAAATAAATTAG
1 AATAAATAAATTAG
2562405 AATAAA-AAATTAG
1 AATAAATAAATTAG
2562418 AA
1 AA
2562420 AAACTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (14 bp):
AATAAATAAATTAG
Found at i:2563322 original size:10 final size:10
Alignment explanation
Indices: 2563294--2563332 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2563284 TTGCCAGCAA
2563294 TATAATATAT
1 TATAATATAT
* *
2563304 TGTATTATAT
1 TATAATATAT
*
2563314 TATAATATAA
1 TATAATATAT
2563324 TATAATATA
1 TATAATATA
2563333 AATTCTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (10 bp):
TATAATATAT
Found at i:2563978 original size:63 final size:63
Alignment explanation
Indices: 2563879--2564009 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
2563869 ATAGGCAAGT
2563879 TTGTATGGTTATAAATAGGTGAAGTCTCTACAGGGTTAGGTATGAGAAAAAGATGTAAGAGAG
1 TTGTATGGTTATAAATAGGTGAAGTCTCTACAGGGTTAGGTATGAGAAAAAGATGTAAGAGAG
2563942 TTGTATGGTTATAAATAGGTGAAGTCTCTACAGGGTTAGGTATGAGAAAAAGATGTAAGAGAG
1 TTGTATGGTTATAAATAGGTGAAGTCTCTACAGGGTTAGGTATGAGAAAAAGATGTAAGAGAG
2564005 TTGTA
1 TTGTA
2564010 GGATTTTGTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.30
Consensus pattern (63 bp):
TTGTATGGTTATAAATAGGTGAAGTCTCTACAGGGTTAGGTATGAGAAAAAGATGTAAGAGAG
Found at i:2564554 original size:50 final size:50
Alignment explanation
Indices: 2564476--2564580 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
2564466 AAGTGGTATC
* * * * *
2564476 AGAGCTGAAGGTTCGAAACGTGAGAAGAGTTGA-AGATTCAAGATGTGGGA
1 AGAGCCGAAGGTTCGAAACATGAAAAGAGTTGACAG-TTCAAGATATGAGA
* * *
2564526 AGAGCCGATGGTTCGAGACATGAAAAGAGTTGACAGTTCGAGATATGAGA
1 AGAGCCGAAGGTTCGAAACATGAAAAGAGTTGACAGTTCAAGATATGAGA
2564576 AGAGC
1 AGAGC
2564581 TTGGTTTAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.34, T:0.19
Consensus pattern (50 bp):
AGAGCCGAAGGTTCGAAACATGAAAAGAGTTGACAGTTCAAGATATGAGA
Found at i:2567807 original size:18 final size:19
Alignment explanation
Indices: 2567772--2567811 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2567762 CGATGAAACT
**
2567772 TTTTTTTTTGTATTCTGAC
1 TTTTTTTTTGTAAACTGAC
2567791 TTTTTTTTT-TAAACTGAC
1 TTTTTTTTTGTAAACTGAC
2567809 TTT
1 TTT
2567812 GCCTTCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTTTTTTTGTAAACTGAC
Found at i:2568225 original size:24 final size:24
Alignment explanation
Indices: 2568191--2568281 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
2568181 CAGCCCCTTT
* *
2568191 TTTTGTTTTTTTGT-TTTTATTGTA
1 TTTTGTATTTTTGTATTTT-TTGAA
2568215 TTTTGTATTTTTGTATTTTTTGAA
1 TTTTGTATTTTTGTATTTTTTGAA
* * *
2568239 TTTTATATTTTTATATTTTTGTTTAA
1 TTTTGTATTTTTGTA-TTTT-TTGAA
*
2568265 TTTT-TATTATTGTATTT
1 TTTTGTATTTTTGTATTT
2568282 AATAATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 33 0.58
25 16 0.28
26 8 0.14
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (24 bp):
TTTTGTATTTTTGTATTTTTTGAA
Found at i:2568230 original size:15 final size:16
Alignment explanation
Indices: 2568199--2568233 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2568189 TTTTTTGTTT
*
2568199 TTTTGTTTTTATTGTA
1 TTTTGTATTTATTGTA
2568215 TTTTGTATTT-TTGTA
1 TTTTGTATTTATTGTA
2568230 TTTT
1 TTTT
2568234 TTGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (16 bp):
TTTTGTATTTATTGTA
Found at i:2568236 original size:9 final size:9
Alignment explanation
Indices: 2568189--2568242 Score: 55
Period size: 8 Copynumber: 6.4 Consensus size: 9
2568179 ACCAGCCCCT
2568189 TTTTTTGT-
1 TTTTTTGTA
2568197 TTTTTTGT-
1 TTTTTTGTA
2568205 TTTTATTGTA
1 TTTT-TTGTA
2568215 --TTTTGTA
1 TTTTTTGTA
2568222 -TTTTTGTA
1 TTTTTTGTA
*
2568230 TTTTTTGAA
1 TTTTTTGTA
2568239 TTTT
1 TTTT
2568243 ATATTTTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
7 5 0.12
8 21 0.51
9 15 0.37
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (9 bp):
TTTTTTGTA
Found at i:2568256 original size:32 final size:32
Alignment explanation
Indices: 2568190--2568262 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
2568180 CCAGCCCCTT
* * *
2568190 TTTTTGTTTTTTTGTTTTTATTGTATTTTGTA
1 TTTTTGTTTTTTTGATTTTATTATATTTTATA
2568222 TTTTTGTATTTTTTGAATTTTA-TAT-TTTTATA
1 TTTTTGT-TTTTTTG-ATTTTATTATATTTTATA
2568254 TTTTTGTTT
1 TTTTTGTTT
2568263 AATTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 2 0.06
32 20 0.56
33 9 0.25
34 5 0.14
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.77
Consensus pattern (32 bp):
TTTTTGTTTTTTTGATTTTATTATATTTTATA
Found at i:2570200 original size:509 final size:507
Alignment explanation
Indices: 2569108--2570932 Score: 2458
Period size: 509 Copynumber: 3.5 Consensus size: 507
2569098 AAAAATAGTT
*
2569108 AAATTCATTAATAATTAAATTTATATAATTT-AAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* * * *
2569172 CCATAAAACAATTAATTACAAATTTTATAACATGTATCTTATAATTAA-T-TT--A-T--T-CAA
66 CCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTAATGCAA
* *
2569229 CTT-AA--T-ACAATCAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTT
131 -TTAAATCTCACAATTAAAATCATTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTT
* * *
2569290 TATTTCTTTCC-TGTATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
195 TATCTC-TTCCATATATCAAAATAATAGTATGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
2569354 TCACATTAAATGTCATATGGGTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
259 TCACATTAAATGTCATATGGGTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
2569419 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATCT-CTTTTACGCATTTGATGATTAAAAT
324 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGAT-TACTTTTACGCATTTGATGATTAAAAT
*
2569483 TTAAATATAAATAATTTTAAATAAAAATATATTATTATTATATTTTTTTCACAACCAATACGAAA
388 TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
*
2569548 TACGTTCATTCATAACTAATCGATTTCATAAATACTATAAATTTAATTAAATTTA
453 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2569603 AAA-TCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
*
2569667 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTAATGCAA
66 CCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTAATGCAA
*
2569732 TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTT
131 TT-AAATCTCACAATTAAAATCATTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTT
* *
2569797 TATTTCTTTCC-TATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
195 TATCTC-TTCCATATATCAAAATAATAGTATGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
*
2569861 TCACATTAAATGTCATATGGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACAT
259 TCACATTAAATGTCATATGGGTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
2569926 CAATTCTAGCGACGTATCAAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
324 CAATTCTAGCGACGTATC-AGTCGTGTCATTATCAGATT-ACTTTTACGCATTTGATGATTAAAA
*
2569991 TTTAAATATAAATAATTTTAAATAAAAAAATATTATGATTATATTTTTTTCACAACCAATACGAA
387 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
2570056 ATACGTTCATTCATAACTAATCAATTTC-TAAATACTATAAATTTAATTAAATTTA
452 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2570111 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
*
2570176 CCATAAATGAATTAATTACAAATTATATAA-ATATATCTTATAATTAATTATTCAACTCAATGCA
66 CCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACT-AATGCA
* *
2570240 ATTAAAATCTCACAATTAAAATCATTTATCATTTAATTAAACACTTTAATTAATCAAACATCATT
130 ATT-AAATCTCACAATTAAAATCATTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
* * * * *
2570305 TTATCTCTTCCATAGATCAAAATAATAGTACGTTATAAATTATTTTTAAAAAAATATAAATCAAA
194 TTATCTCTTCCATATATCAAAATAATAGTATGTTACAAATTA-TTTTAAAAAAGTACAAATCAAA
* * * ** *
2570370 TTCACATTAAATGCCACT-TGGCTACTTTATTGTTTATGTCGCATAACATGCCAAGAACTTTAAC
258 TTCACATTAAATGTCA-TATGGGTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAAC
* * *
2570434 ATCAACTCTAGCGATGTATCAGCCGTGTCATTA-CGAAATTGAGTTTTTACTCATGTGATGTTGA
322 ATCAATTCTAGCGACGTATCAGTCGTGTCATTATC---A--GA----TTA--C---T--T-TT--
* * *
2570498 AAAAGTATTCAAATTTAAATTTAATGATTAAAATTTAAATATAAATAATTTTGAATAAAAAATAA
368 --ACG----C--------ATTTGATGATTAAAATTTAAATATAAATAATTTTAAAT-AAAAA-AA
* * * * * *
2570563 TATCATTATTAGATTTTTTTCGCAACCAATACGAAAATACATTCATTCATAACTAATTAATTTCG
417 TATTATTATTATATTTTTTTCACAACCAATACG-AAATACGTTCATTCATAACTAATCAATTTCA
*
2570628 TAAATACTAGAAATTTAATTAAATTTAAAAATA
481 TAAATACTATAAATTTAATTAAA-TT-----TA
*
2570661 CTTAAATTCATTAATAGTTAAATTTATAT--TTTAAAATAAAATAATAGAAACATTAATGAATAA
1 ---AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAA
2570724 TATCCATAAA-CAATTAATTACAAATTATAT-ATATATATCTTATAATTAATTAATTCAACTTAA
63 TATCCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATT-ATTCAAC-TAA
* **
2570787 TACAATTAAATCTCACAATTAAAATCATTTATCATTTAATTAAACACCTTAATTAATCAAATATC
126 TGCAATTAAATCTCACAATTAAAATCATTTATCATTTAATTAAACAATTTAATTAATCAAATATC
* * * *
2570852 ATTTTATCTCTTCCTTACATCAAAATAATAGTATGTTATAAATTATTTTATAAAAAGTAAAAATC
191 ATTTTATCTCTTCCATATATCAAAATAATAGTATGTTACAAATTATTTTA-AAAAAGTACAAATC
*
2570917 AAATTCATATTAAATG
255 AAATTCACATTAAATG
2570933 CTACATGGCT
Statistics
Matches: 1206, Mismatches: 52, Indels: 89
0.90 0.04 0.07
Matches are distributed among these distances:
494 26 0.02
495 79 0.07
496 1 0.00
497 2 0.00
499 1 0.00
500 1 0.00
502 3 0.00
503 3 0.00
504 2 0.00
506 1 0.00
507 200 0.17
508 81 0.07
509 317 0.26
510 94 0.08
511 2 0.00
513 2 0.00
516 1 0.00
517 2 0.00
518 1 0.00
521 1 0.00
523 1 0.00
524 2 0.00
528 2 0.00
532 1 0.00
540 36 0.03
541 5 0.00
542 31 0.03
543 28 0.02
544 22 0.02
545 2 0.00
549 6 0.00
550 165 0.14
551 58 0.05
552 1 0.00
553 26 0.02
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.39
Consensus pattern (507 bp):
AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
CCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTAATGCAA
TTAAATCTCACAATTAAAATCATTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTTT
ATCTCTTCCATATATCAAAATAATAGTATGTTACAAATTATTTTAAAAAAGTACAAATCAAATTC
ACATTAAATGTCATATGGGTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACATCA
ATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTACTTTTACGCATTTGATGATTAAAATTTA
AATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATAC
GTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
Found at i:2575814 original size:15 final size:16
Alignment explanation
Indices: 2575761--2575816 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
2575751 TTTTTAAAAC
* *
2575761 TAATAAAATTAAAATA
1 TAATAAAAATATAATA
* * *
2575777 TAGTCATAAATTTAATA
1 TAAT-AAAAATATAATA
2575794 TAATAAAAATATAAT-
1 TAATAAAAATATAATA
2575809 TAATAAAA
1 TAATAAAA
2575817 TTCACATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 8 0.26
16 12 0.39
17 11 0.35
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATAAAAATATAATA
Found at i:2579963 original size:30 final size:30
Alignment explanation
Indices: 2579922--2579978 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
2579912 AAAAAGCGCT
2579922 TTAGTTTTTATAATGTAAAAAAGAAAAAAAC
1 TTAGTTTTTATAATGTAAAAAA-AAAAAAAC
2579953 TTAG-TTTTATAATGTAAAAAAAAAAA
1 TTAGTTTTTATAATGTAAAAAAAAAAA
2579979 TGGGGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 5 0.19
30 17 0.65
31 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (30 bp):
TTAGTTTTTATAATGTAAAAAAAAAAAAAC
Found at i:2580820 original size:8 final size:8
Alignment explanation
Indices: 2580804--2580914 Score: 89
Period size: 8 Copynumber: 13.4 Consensus size: 8
2580794 AAAACCCTCG
*
2580804 AAACATTA
1 AAACCTTA
2580812 AAACCTTA
1 AAACCTTA
** *
2580820 AAATATCAA
1 AAACCT-TA
*
2580829 AAATCTTA
1 AAACCTTA
*
2580837 AAACCCTA
1 AAACCTTA
2580845 AAACCTTTA
1 AAACC-TTA
2580854 AAACCTTA
1 AAACCTTA
2580862 AAACCTTA
1 AAACCTTA
* *
2580870 AAATCTTCG
1 AAACCTT-A
*
2580879 AAACTTTTA
1 AAAC-CTTA
2580888 AAA-CTTA
1 AAACCTTA
2580895 AAACCCTTA
1 AAA-CCTTA
2580904 AAACCTTA
1 AAACCTTA
2580912 AAA
1 AAA
2580915 TTTGTAATGT
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
7 6 0.07
8 48 0.59
9 26 0.32
10 2 0.02
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (8 bp):
AAACCTTA
Found at i:2580822 original size:25 final size:25
Alignment explanation
Indices: 2580785--2580901 Score: 71
Period size: 25 Copynumber: 4.7 Consensus size: 25
2580775 TTTAAAAATT
*
2580785 TTAAATCC-TAAAACCCTCGAAACA
1 TTAAAACCTTAAAACCCTCGAAACA
** *
2580809 TTAAAACCTTAAAA-TATC-AAAAA
1 TTAAAACCTTAAAACCCTCGAAACA
* * ** *
2580832 TCTTAAAACCCTAAAACCTTTAAAACC
1 --TTAAAACCTTAAAACCCTCGAAACA
* * *
2580859 TTAAAACCTTAAAATCTTCGAAACTT
1 TTAAAACCTTAAAACCCTCGAAAC-A
2580885 TTAAAA-CTTAAAACCCT
1 TTAAAACCTTAAAACCCT
2580902 TAAAACCTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
23 4 0.06
24 9 0.13
25 47 0.67
26 7 0.10
27 3 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (25 bp):
TTAAAACCTTAAAACCCTCGAAACA
Found at i:2580854 original size:17 final size:17
Alignment explanation
Indices: 2580834--2580914 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
2580824 ATCAAAAATC
*
2580834 TTAAAACCCTAAAACCT
1 TTAAAACCTTAAAACCT
2580851 TTAAAACCTTAAAACC-
1 TTAAAACCTTAAAACCT
* * *
2580867 TTAAAATCTTCGAAACTT
1 TTAAAACCTT-AAAACCT
*
2580885 TTAAAA-CTTAAAACCC
1 TTAAAACCTTAAAACCT
2580901 TTAAAACCTTAAAA
1 TTAAAACCTTAAAA
2580915 TTTGTAATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
16 19 0.35
17 29 0.54
18 6 0.11
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.28
Consensus pattern (17 bp):
TTAAAACCTTAAAACCT
Found at i:2580863 original size:50 final size:49
Alignment explanation
Indices: 2580778--2580914 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 49
2580768 TATTTTTTTT
* ** *
2580778 AAAAATTTTAAATCCTAAAACCCTCGAAACATTAAAACCTTAAAAT-ATC
1 AAAAA-TTTAAAACCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
* *
2580827 AAAAATCTTAAAACCCTAAAACCTTTAAAACCTTAAAACCTTAAAATCTTC
1 AAAAAT-TTAAAA-CCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
** *
2580878 GAAACTTTTAAAACTTAAAACCCTTAAAACCTTAAAA
1 -AAAAATTTAAAACCTAAAACCCTTAAAACCTTAAAA
2580915 TTTGTAATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 10 0.14
50 51 0.69
51 8 0.11
52 4 0.05
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.27
Consensus pattern (49 bp):
AAAAATTTAAAACCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
Found at i:2581124 original size:29 final size:28
Alignment explanation
Indices: 2581085--2581149 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2581075 TTTAAACCTT
* * *
2581085 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACCT-GAAAA
*
2581114 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCTGAAAA
2581142 TCAAAATC
1 T-AAAATC
2581150 TTGAAACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCTGAAAA
Found at i:2581140 original size:15 final size:15
Alignment explanation
Indices: 2581122--2581185 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
2581112 AATAAAATCC
2581122 TAAAACCTAAAACCT
1 TAAAACCTAAAACCT
* *
2581137 TAAAATC-AAAATCT
1 TAAAACCTAAAACCT
* * * *
2581151 TGAAACTTTAAACCC
1 TAAAACCTAAAACCT
2581166 TAAAACCTAAAACCT
1 TAAAACCTAAAACCT
*
2581181 CAAAA
1 TAAAA
2581186 TCTTAAAAAC
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
14 10 0.29
15 25 0.71
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAAACCTAAAACCT
Found at i:2581156 original size:29 final size:28
Alignment explanation
Indices: 2581085--2581170 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 28
2581075 TTTAAACCTT
* * * *
2581085 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACC-CTAAAA
*
2581114 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCCTAAAA
* * * *
2581142 TCAAAATCTTGAAACTTTAAACCCTAAAA
1 T-AAAATCCTAAAACCTAAAACCCTAAAA
2581171 CCTAAAACCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 5 0.11
29 41 0.89
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCCTAAAA
Found at i:2582438 original size:15 final size:15
Alignment explanation
Indices: 2582415--2582448 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2582405 TTTAATTGAT
*
2582415 ATTTAATTTTAATTC
1 ATTTCATTTTAATTC
2582430 ATTTCATTTTAATTC
1 ATTTCATTTTAATTC
2582445 -TTTC
1 ATTTC
2582449 GAAAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTCATTTTAATTC
Found at i:2585316 original size:15 final size:14
Alignment explanation
Indices: 2585292--2585324 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2585282 TTTGATGATT
2585292 AAAA-TTTAAATATA
1 AAAATTTTAAATA-A
2585306 AAAATTTTAAATAA
1 AAAATTTTAAATAA
2585320 AAAAT
1 AAAAT
2585325 ATTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTTTAAATAA
Found at i:2586720 original size:506 final size:510
Alignment explanation
Indices: 2584170--2587624 Score: 5080
Period size: 506 Copynumber: 6.7 Consensus size: 510
2584160 GCTATATGTA
* * *
2584170 ATTGTTTATGTTGAATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGTC
1 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
*
2584235 ATTATCAAATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAA-TTTAAATAAAAA
66 ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
*
2584299 AATATTGTTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
131 AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
* *
2584364 ATAAATACTATAAA-TTAATTAAATTTAAAAATCATTAATATTTAAATTTATATAATTTAAAATA
196 ATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT-
* *
2584428 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAGTATATA
260 AAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATA
*
2584493 TCTTATAATTAATTATTCAACTTAATGCAAATTAAAATCTCACAATTAAAATCGTTTATCATTTA
325 TCTTATAATTAATTATTCAACTGAATGC-AATTAAAATCTCACAATTAAAATCGTTTATCATTTA
2584558 ATTAAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTT
389 ATT-AAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTT
2584623 ACAAATTATTTTAAAAAAGTACAAATCAAAATTCACATTAAATGTCATATGGGTACTTT
453 ACAAATTATTTTAAAAAAGTACAAATC-AAATTCACATTAAATGTCATATGGGTACTTT
* *
2584682 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGGCGACGTATTCAATCGTG
1 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTA-ACGACGTA-TCAGTCGTG
** *
2584747 TCATTATCAGATTCTCTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTAAAAT-AA
64 TCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAA
2584811 AAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATT
129 AAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATT
*
2584876 TCATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTTAATTTATATAATTTAAAA
194 TCATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAA
2584941 TAAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATAT
259 TAAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATAT
*
2585006 ATCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTA
324 ATCTTATAATTAATTATTCAACTGAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTA
2585071 ATTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTA
389 ATTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTA
* *
2585136 CAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATATCAATATGGTTACTTT
454 CAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTC-ATATGGGTACTTT
* *
2585194 ATTGTTTATGTCGAATAACGTGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
1 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
* *
2585259 ACTATCAGATTGACTTTTACGTATTTGATGATTAAAATTTAAATATAAA-AATTTTAAAT-AAAA
66 ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
*
2585322 AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCGATTTC
131 AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
*
2585387 ATAAATACTATAAATTTAATTAAATTTAAAA-TCATTAATATTTAAATTTATATAATTTAAAAAT
196 ATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTT-AAAAT
* * *
2585451 AAAATAATAAAAACATTAATGAAATAATATCCATAAAATCAATTAAATTACAATTTATATCAGTA
260 AAAATAATAAAAACATTAATG-AATAATATCCAT-AAATGAATT-AATTACAAATTATAT-AATA
*
2585516 TTATTATCTTATAATTAATTAATTCAACTTGAATGCAATTAAAATCTCACAATTAAAATCGTTGA
321 -TA-TATCTTATAATTAATT-ATTCAAC-TGAATGCAATTAAAATCTCACAATTAAAATCGTTTA
2585581 TCATTTAATTTAAACAATTTAATTAATCAAATATCA-TTTATTTCTTTCCCTATATC-AAATAGA
382 TCATTTAA-TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTT-CCTATATCAAAATA-A
*
2585644 TAGTTTGTTATACAATTATTTTAAAAAGAGTACAAATCAAATTCACATTAAATGTCATATGGGTA
444 TAGTTTGTTACA-AATTATTTTAAAAA-AGTACAAATCAAATTCACATTAAATGTCATATGGGTA
*
2585709 TTTT
507 CTTT
* **
2585713 ATGTGTTTATGTCGTATGAACGCGCC-AAAACTTTAACATCAATCCTTGCGACGTATCAGTCGTG
1 AT-TGTTTATGTCGTAT-AACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTG
**
2585777 TCATTATCAGATTCTCTTTTACGCATTTGATGATTAAAATTTAAAATATAAATAATTTTAAATAA
64 TCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTT-AAATATAAATAATTTTAAATAA
2585842 AAAAATTATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAA
128 AAAAA-TATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAA
2585907 TTTCATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTT-AATTTATATAATTTAA
192 TTTCATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAA
2585971 AATAAAAT-AT-AAAACATTAATGAATAATATCCATAAA-GAATT-ATTAC-AATTATATAATAT
257 AATAAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATAT
2586031 ATATCTTATAATTAATTATTCAACTGAATGCAATTAAAAATCTCACAATTAAAATCGTTTTATCA
322 ATATCTTATAATTAATTATTCAACTGAATGCAATT-AAAATCTCACAATTAAAATCG-TTTATCA
2586096 TTTAATTTAAACAATTTAATTAATC-AATATCATTTTATTTCTTTCCTATATCAAAATAATAGTT
385 TTTAA-TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTT
*
2586160 TGTTACAAATTATTTTAAAAAAGTATAAATCAAATTCACATTAAATGTCATATGGGTACTTT
449 TGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTTT
* *
2586222 ATTGTTTATGTCGTATAACGCGCC-AAAATTTTAACATCAATTCTAACGACGTATCAATCGTGTC
1 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
2586286 ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
66 ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
2586351 AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
131 AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
2586416 ATAAATACTATAAATTTAATT-AATTTAAAATTCATTAATAGTT-AATTTATATAATTTAAAAT-
196 ATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAATA
2586478 AAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATAT
261 AAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATAT
2586543 CTTATAATTAATTATTCAACTGAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAAT
326 CTTATAATTAATTATTCAACTGAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAAT
*
2586608 TAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAAAAATAGTTTGTTACA
391 TAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACA
2586673 AATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTTT
456 AATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTTT
*
2586728 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTTTC
1 ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
*
2586793 ATTATCAGATTAACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
66 ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
2586858 AA-A-TATTATT-TATATTTTTTCACAA-CAATACGAAATAACGTTCATTCATAAC-AATCAA-T
131 AATATTATTATTATAT-TTTTTTCACAACCAATACGAAAT-ACGTTCATTCATAACTAATCAATT
2586917 TCATAAATACTATAAATTTAATATAAA-TTAAAATTCATTAATAGTTAAATTTATATAATTTAAA
194 TCATAAATACTATAAATTTAAT-TAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAA
2586981 ATAAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATA
258 ATAAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATA
* *
2587046 TATCTTATAATTAATTATTCAACTCAATGCAATTAAAATCTCACAATTAAAATCATTTATCATTT
323 TATCTTATAATTAATTATTCAACTGAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTT
* * * * * **
2587111 AATTAAACACTTTAATTAATCAAACATCATTTTATCTCTTCCCTAAGATCAAAATTAATGAGTAC
388 AATTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCT-ATATCAAAA-TAAT-AGTTT
* * * * * * *
2587176 GTTATGAAATTATTTTTAAAAAAATTATGAGATCAAATTCACATT-AATGCCACT-TGGCTAATT
450 GTTA-CAAATTA-TTTT-AAAAAAGTA-CAAATCAAATTCACATTAAATGTCA-TATGGGTACTT
2587239 T
510 T
* * * * * *
2587240 A-TGTCCATTATGTCGCATTATACATGC-CCAGAACCTTT-ACATCAACTCTAGCGATTGTATCA
1 ATTGT---TTATGTCG---TATA-ACGCGCCAAAAACTTTAACATCAATTCTAACGA-CGTATCA
* * * * * *
2587302 GCCGTGTCATTA-CGAAATTGAGTTTTTACTCATGTGATG-TTGAAAAAGTATTCAAATTTAAAT
58 GTCGTGTCATTATC-AGATTGA-CTTTTACGCATTTGATGATT--AAAA-T-TT-AAATATAAA-
*
2587365 TTTAATGATTAAAATTTAAATATAAATAATTTTGAATAAAAAATAATATCATTATTAGATTTTTT
115 --TAAT--TTTAAA--TAAA-A-AAAT-A--TT--AT------T-AT-T-A-TA-T---TTTTTT
* * * *
2587430 CGCAACCAATACGAAAATACATTCATTCATAACTAATTAATTTC-TAAATACTAATTTAATTTAC
153 CACAACCAATACG-AAATACGTTCATTCATAACTAATCAATTTCATAAATACT-A--TAAATT--
*
2587494 TAATATTAATAATACTT-AAATTCA-TAATAG-TAAATTTTATATAATTTAAAATAAAATAATAG
212 T-A-ATT-A-AAT--TTAAAATTCATTAATAGTTAAA-TTTATATAATTTAAAATAAAATAATAA
*
2587556 AAACATTAATGAA-AATATCCATAAATCAATTAATTACAAATTATATAGATATATATCTTATAAT
270 AAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATA-ATATATATCTTATAAT
2587620 TAATT
334 TAATT
2587625 NNNNNNNNNN
Statistics
Matches: 2724, Mismatches: 105, Indels: 177
0.91 0.03 0.06
Matches are distributed among these distances:
503 27 0.01
504 83 0.03
505 184 0.07
506 333 0.12
507 218 0.08
508 90 0.03
509 182 0.07
510 98 0.04
511 94 0.03
512 288 0.11
513 68 0.02
514 245 0.09
515 75 0.03
516 27 0.01
517 94 0.03
518 68 0.02
519 34 0.01
520 126 0.05
521 30 0.01
522 20 0.01
523 16 0.01
524 107 0.04
525 15 0.01
527 5 0.00
529 4 0.00
530 1 0.00
531 3 0.00
533 1 0.00
536 1 0.00
538 2 0.00
544 1 0.00
545 2 0.00
546 1 0.00
549 2 0.00
550 1 0.00
552 11 0.00
553 21 0.01
554 17 0.01
555 4 0.00
557 5 0.00
559 1 0.00
560 2 0.00
561 3 0.00
562 39 0.01
563 66 0.02
564 7 0.00
565 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.39
Consensus pattern (510 bp):
ATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGTC
ATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAAA
AATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTTC
ATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAATA
AAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATAT
CTTATAATTAATTATTCAACTGAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAAT
TAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACA
AATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTTT
Found at i:2586952 original size:34 final size:32
Alignment explanation
Indices: 2586914--2586982 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
2586904 CATAACAATC
2586914 AATTCATAAATACTATAAATTTAATATAAATTAA
1 AATTCATAAATACT-TAAATTT-ATATAAATTAA
* * *
2586948 AATTCATTAATAGTTAAATTTATATAATTTAA
1 AATTCATAAATACTTAAATTTATATAAATTAA
2586980 AAT
1 AAT
2586983 AAAATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 13 0.41
33 7 0.22
34 12 0.38
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (32 bp):
AATTCATAAATACTTAAATTTATATAAATTAA
Found at i:2586991 original size:32 final size:33
Alignment explanation
Indices: 2586929--2586991 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
2586919 ATAAATACTA
** *
2586929 TAAATTTAATATAAATTAAAATTCATTAATAGT
1 TAAATTTAATATAAATTAAAATAAAATAATAGT
*
2586962 TAAATTT-ATATAATTTAAAATAAAATAATA
1 TAAATTTAATATAAATTAAAATAAAATAATA
2586992 AAAACATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
TAAATTTAATATAAATTAAAATAAAATAATAGT
Found at i:2590774 original size:26 final size:26
Alignment explanation
Indices: 2590737--2590799 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
2590727 CACCAGCCCC
* *
2590737 TTTTT-TATTTTTTTTTGTATTTTATA
1 TTTTTGTATTTTTGTTT-AATTTTATA
*
2590763 TTTTTGTATTTTTGTTTAATTTTTTA
1 TTTTTGTATTTTTGTTTAATTTTATA
*
2590789 TTATTGTATTT
1 TTTTTGTATTT
2590800 AATAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTTGTATTTTTGTTTAATTTTATA
Found at i:2590800 original size:20 final size:20
Alignment explanation
Indices: 2590749--2590802 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
2590739 TTTTATTTTT
2590749 TTTTGTATTTTATATTTTTGTA
1 TTTTGTA-TTTA-ATTTTTGTA
*
2590771 TTTT-TGTTTAATTTTT-TA
1 TTTTGTATTTAATTTTTGTA
2590789 TTATTGTATTTAAT
1 TT-TTGTATTTAAT
2590803 AATATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 11 0.39
21 1 0.04
22 4 0.14
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTGTATTTAATTTTTGTA
Found at i:2591242 original size:48 final size:49
Alignment explanation
Indices: 2591066--2591538 Score: 475
Period size: 48 Copynumber: 9.8 Consensus size: 49
2591056 ATTTCAGCAA
* * * * *
2591066 AGGCTCAACAACTTTAAAA-TTCATTTTG-AAAAAGCTTCTTTTAGCAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * * * ** * * * *
2591113 AGGCTTAACAAGTTTTGAAATCTT-ATCTT-CAAAAAGCTTATTTTAGCAA
1 AGGCTCAACAA-CTTTAAAAT-TTCATCTTGAAAAAAGCTCCTCTCAACAG
2591162 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * **
2591211 AAGCTCAACAACTTTAAAAATTC-TCTTGAAAAAA-CTTTTCTCAACAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * * *
2591258 AGGCTTAACAACTTTAAAA-TCCATCTTG-AAAAAGCTTCTCTCAGCAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * * **
2591305 AGGCTCAACAACTTTAAAATTTTATTTTG-AAAAAGCTTCTCTCAGTAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * **
2591353 AAGCTCAACAACTTTAAAATTTCATC-TAAAAAAAGCTCCTCTCAGTAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
* * * *
2591401 AGGCTCAACAACTTTAAAATTTAAAATC-TGAAATAGGCTCCTCTCAACAA
1 AGGCTCAACAACTTTAAAATTT--CATCTTGAAAAAAGCTCCTCTCAACAG
* *
2591451 AGGTTCAACAACTTTAAAATTTCATCTTGGAAAAAGCTCCTCTCAACAG
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
*
2591500 AGGCTCAACAACTTTAAAATCTCAT-TTGAAAAAAGCTCC
1 AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCC
2591539 AAATCGAGTT
Statistics
Matches: 361, Mismatches: 52, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
46 7 0.02
47 75 0.21
48 131 0.36
49 106 0.29
50 42 0.12
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (49 bp):
AGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCCTCTCAACAG
Found at i:2601421 original size:190 final size:190
Alignment explanation
Indices: 2601098--2601481 Score: 698
Period size: 190 Copynumber: 2.0 Consensus size: 190
2601088 CCATTGGCTT
2601098 TTACAAAATTCTTCGATTGGTGCCTTATTTCGAAGATATGGTTTCAAAAATACACTCTTCCTACA
1 TTACAAAATTCTTCGATTGGTGCCTTATTTCGAAGATATGGTTTCAAAAATACACTCTTCCTACA
2601163 CTTGAAATGACTTCTAACCCATATATATAATAGAGATACACATCATATGAATCATCTTTTTCTAT
66 CTTGAAATGACTTCTAACCCATATATATAATAGAGATACACATCATATGAATCATCTTTTTCTAT
* *
2601228 TTTGTTGACAAAAATTTAATGACCTGATGGTTTCAGCTAAGACTGCTGGAGCGAGATTAA
131 TTTGTCGACAAAAATTCAATGACCTGATGGTTTCAGCTAAGACTGCTGGAGCGAGATTAA
2601288 TTACAAAATTCTTCGATTGGTGCCTTATTTCGAAGATATGGTTTCAAAAATACACTCTTTCC-AC
1 TTACAAAATTCTTCGATTGGTGCCTTATTTCGAAGATATGGTTTCAAAAATACACTC-TTCCTAC
*
2601352 ACTTGAAATGACTTCTAACCCATATATATAATAGAGATGCACATCATATGAATCATCTTTTTCTA
65 ACTTGAAATGACTTCTAACCCATATATATAATAGAGATACACATCATATGAATCATCTTTTTCTA
* * *
2601417 TTTTGTCGACAGAAATTCAATGACCTGATGGTTTCAGCTAGGACTGTTGGAGCGAGATTAA
130 TTTTGTCGACAAAAATTCAATGACCTGATGGTTTCAGCTAAGACTGCTGGAGCGAGATTAA
2601478 TTAC
1 TTAC
2601482 TTGAGTTTCA
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
190 183 0.98
191 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (190 bp):
TTACAAAATTCTTCGATTGGTGCCTTATTTCGAAGATATGGTTTCAAAAATACACTCTTCCTACA
CTTGAAATGACTTCTAACCCATATATATAATAGAGATACACATCATATGAATCATCTTTTTCTAT
TTTGTCGACAAAAATTCAATGACCTGATGGTTTCAGCTAAGACTGCTGGAGCGAGATTAA
Found at i:2602328 original size:23 final size:23
Alignment explanation
Indices: 2602302--2602345 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2602292 AGAAAAAAAT
2602302 ATTTTTTGTTT-TTTAGTTTTGAG
1 ATTTTTT-TTTATTTAGTTTTGAG
*
2602325 ATTTTTTTTTATTTTGTTTTG
1 ATTTTTTTTTATTTAGTTTTG
2602346 TATTATACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.75
Consensus pattern (23 bp):
ATTTTTTTTTATTTAGTTTTGAG
Found at i:2603762 original size:18 final size:18
Alignment explanation
Indices: 2603739--2603773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2603729 TCTCTCATTT
*
2603739 TTTATTACTTATTTTTAA
1 TTTATTACTTAATTTTAA
*
2603757 TTTATTAGTTAATTTTA
1 TTTATTACTTAATTTTA
2603774 TTGTTATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTATTACTTAATTTTAA
Found at i:2604663 original size:21 final size:21
Alignment explanation
Indices: 2604624--2604667 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2604614 TCGATGAAAC
**
2604624 TTTTTTTTTTGTATTCTGACT
1 TTTTTTTTTTGTAAACTGACT
*
2604645 TTTTTTTTTTTTAAACTGACT
1 TTTTTTTTTTGTAAACTGACT
2604666 TT
1 TT
2604668 GCCTTCTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTTTTTTTGTAAACTGACT
Found at i:2605078 original size:24 final size:24
Alignment explanation
Indices: 2605051--2605134 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
2605041 CCTTTTTTTT
* *
2605051 TTTTTGT-TTTTATTGTATTTTGTA
1 TTTTTGTATTTT-TTGAATTTTATA
2605075 TTTTTGTATTTTTTGAATTTTATA
1 TTTTTGTATTTTTTGAATTTTATA
* *
2605099 TTTTTATATTTTTGTTTAATTTT-TA
1 TTTTTGTA-TTTT-TTGAATTTTATA
*
2605124 TTATTGTATTT
1 TTTTTGTATTT
2605135 AATAATAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 27 0.53
25 16 0.31
26 8 0.16
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (24 bp):
TTTTTGTATTTTTTGAATTTTATA
Found at i:2605083 original size:15 final size:16
Alignment explanation
Indices: 2605052--2605086 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2605042 CTTTTTTTTT
*
2605052 TTTTGTTTTTATTGTA
1 TTTTGTATTTATTGTA
2605068 TTTTGTATTT-TTGTA
1 TTTTGTATTTATTGTA
2605083 TTTT
1 TTTT
2605087 TTGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (16 bp):
TTTTGTATTTATTGTA
Found at i:2605087 original size:16 final size:16
Alignment explanation
Indices: 2605051--2605113 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
2605041 CCTTTTTTTT
*
2605051 TTTTTGTTTTTATTGTA
1 TTTTTGTATTT-TTGTA
2605068 -TTTTGTATTTTTGTA
1 TTTTTGTATTTTTGTA
* *
2605083 TTTTT-TGAATTTTATA
1 TTTTTGT-ATTTTTGTA
*
2605099 TTTTTATATTTTTGT
1 TTTTTGTATTTTTGT
2605114 TTAATTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.16
16 31 0.82
17 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.75
Consensus pattern (16 bp):
TTTTTGTATTTTTGTA
Found at i:2608862 original size:998 final size:1019
Alignment explanation
Indices: 2605961--2610344 Score: 7430
Period size: 998 Copynumber: 4.3 Consensus size: 1019
2605951 AAAAATAGTT
*
2605961 AAATTCATTAATAATTAAATTTATATAATTT-AAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
** * * *
2606025 CCATAAAACAATTAATTACAAATTTTATAACATGTATCTTATAATTAA-T-TT--A--T--T-CA
66 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
*
2606081 ACTT--AA--T-ACAATCAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
131 A-TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
2606141 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
195 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
*
2606206 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCACCAAAAACTTTAACA
260 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
* *
2606271 TCAATTCTAGCGACGTATCAATCGTGTCATTATCAGATTGACTTTTACGTATTTGATGATTAAAA
325 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
* *
2606336 TTTAAATATAAATAATTTTAAAT--AAAATTATTA-TATTAATATTTTTTTCAC-ATCAATACGA
390 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATT-ATATTTTTTTCACAACCAATACGA
2606397 AATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAA-TT-AAAATCAT
454 AATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCAT
2606460 TAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAAT
519 TAATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAAT
2606524 CAATTAATTACAAATTATATAGTATATATC-TATAATTAATTATTCAACTTAATGCAATTAAAAT
584 CAATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAAT
2606588 CTCACAATTAAAATCGTTTATCATTTAATT-AACAATTT-ATTAATCAAATATCATTTTATTTCT
649 CTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATTTTATTTCT
*
2606651 TTCCTATAATCAAAAAAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATT
713 TTCCTAT-ATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATT
2606716 AAATGTCATATGGGGTAC-TTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTC
777 AAATGTCATAT-GGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTC
* *
2606780 TAACGATGTATCAGTCGTTTCATTATCAGATT--CTCTTTACGCATTTGATGATTAAAATTTAAA
841 TAACGACGTATCAGTCGTGTCATTATCAGATTGACT-TTTACGCATTTGATGATTAAAATTTAAA
*
2606843 TATAAATAATTTTAAATAAAAAAAATATTATGATTATA-TTTTTTCAACAACCAATACGAAATAC
905 TATAAATAATTTTAAAT-AAAAAAATATTATTATTATATTTTTTTC-ACAACCAATACGAAATAC
2606907 GTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
968 GTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2606959 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATT-ATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
2607023 CCATAAATGAATTAATTACAAATTATATAATAATATATCTTAT-ATTAATTATTCAAC-TAATGC
66 CCATAAATGAATTAATTACAAATTATATAAT-ATATATCTTATAATTAATTATTCAACTTAATGC
2607086 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
130 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
2607151 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
195 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
2607216 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
260 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
*
2607281 TCAATTCTAACGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
325 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
2607346 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
390 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
2607411 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCATT
455 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCATT
2607476 AATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAATC
520 AATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAATC
2607541 AATTAATTACAAA-T-TATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAATC
585 AATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAATC
2607604 TCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTTTATTTCTT
650 TCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATTTTATTTCTT
2607669 TCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAA
714 TCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAA
* *
2607734 ATGTCATATGGGTACTTTATTG-TTATATCGTATAACGCGCCAAAAACTTTAACATCAATTCTAG
779 ATGTCATATGGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAA
* * * *
2607798 CGACGTATCAATCGTGTCATTATCAAATTGACTTTTAAGCATTTAATGATTAAAATTTAAATATA
844 CGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATA
2607863 AATAATTTTAAATAAAAAAATATTATTATTATA-TTTTTTCACAACCAATACGAAATACGTTCAT
909 AATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCAT
2607927 TCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTT-
974 TCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2607972 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAAT-AAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
2608036 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
66 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
2608101 ATTAAAATCTCACAATTAAAATCGTTTATCA-TTAATTAAACAATTTAATTAATCAAATATCATT
131 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
2608165 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTA-TTTAAAAAAGTAC-AATCAAAT
196 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
*
2608228 TCACATTAAATATCATATGGTTACTGTATTG-TTA-GTC-AATAACG-GCCAAAAACTTTAACAT
261 TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
2608289 CAATTCTA-CGACGTATCA-TCGT-TCATTATCAGATTGAC-TTTAC-CA-TTGATGATTAAAAT
326 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAAT
*
2608348 TTAAATATAAATAATTTAAAATAAAAAAATA-TATTATTATA-TTTTTTCACAACCAATACGAAA
391 TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
*
2608411 TACGTTCATTCATAACTAATC-ATTTCATAAATACTATAAATTTAATTAAATTTTAAAATCATTA
456 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCATTA
2608475 ATATTTAAATTTATATAATTTAAAAT-AAATAAT-AAAACATTAATGAATAATATCCATAAATCA
521 ATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAATCA
* * *
2608538 ATTAATTACAAAATTATCTA-TATATATCTTATAATTAATTATTCAACTGATTGCAATTAAAATC
586 ATTAATTAC-AAATTATATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAATC
2608602 TCACAATTAAAATCGGTTTATCATTTAATTAAACAATTTAATTAATC-ATATCATTTTATTTCTT
650 TCACAATTAAAATC-GTTTATCATTTAATTAAACAATTTAATTAATCAATATCATTTTATTTCTT
* *
2608666 TCCTATATTAAAATAA-AG-TTGTTTACAAATTATTTAAAAAAAGTA-ACAATCAAATTCACATT
714 TCCTATATCAAAATAATAGTTTG-TTACAAATTATTTTAAAAAAGTACA-AATCAAATTCACATT
**
2608728 AAAATGTCATATTAGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTC
777 -AAATGTCATATGGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTC
* *
2608793 TAGTC-AGGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAA
841 TA-ACGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAA
2608857 TATAAATAATTTTAAAT-AAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGT
905 TATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGT
2608921 TCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
970 TCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2608971 AAATTCATTAATAG-TAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
*
2609035 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGTA
66 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
*
2609100 ATTAAAATCTCACAATTAAAATCGTTTATCTTTTAATTAAACAATTTAATTAATCAAATATCATT
131 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
*
2609165 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTGCAAATCAAAT
196 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
2609230 TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
261 TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
* *
2609295 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAAATTGACTTTTATGCATTTGATGATTAAAAT
326 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAAT
*
2609360 TTAAATATAAATAATTTTAAATAAAAAAAATATTATTGTTATATTTTTTTCACAACCAATACGAA
391 TTAAATATAAATAATTTTAAAT-AAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
*
2609425 ATACGTTCATTCATAACTAATCAATTTCATAAATA-TATAAA-TTAACTAAATTTAAAAATCATT
455 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCATT
2609488 AATATTTAAATTTATATAATTTAAAATAAAATAAT-AAAACATTAATGAATAATATCCATAAATC
520 AATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAATC
* *
2609552 GATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTCAATGCAATTAAAATC
585 AATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAATC
2609617 TCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATTTTATTTCTT
650 TCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATTTTATTTCTT
2609682 TCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAA
714 TCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAA
* * *
2609747 ATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACATCAATTCTAA
779 ATGTCATATGGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAA
* *
2609812 CGACGTATCAGTCGTGTCATTATCAGATTAACTTTTACACATTTGATGATTAAAATTTAAATATA
844 CGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATA
*
2609877 AATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACTTTCAT
909 AATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCAT
2609942 TCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
974 TCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2609988 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* * *
2610053 CCATAAATGAATTAATCACAAATTATATAATATATATCTTATAATTAATTATTCAACTCAATGCT
66 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
* * * *
2610118 ATTAAAATCTCACAATTAAAATCATTTATCATTTAATTAAATACTTTAATTAATCAAACATCATT
131 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
* * ** * * *
2610183 TTATCTC-TTCCATAGATCAAAATAATAGTACGTTATAAATTATTTTTAAAAAAATATAAATCAA
196 TTATTTCTTTCC-TATATCAAAATAATAGTTTGTTACAAATTA-TTTTAAAAAAGTACAAATCAA
* ** * ** *
2610247 ATTCACATTAAATGTCACT-TGACTACTTTATTGTTTATGTCGCATAACATGCCAAGAACTTTAA
259 ATTCACATTAAATATCA-TATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAA
* * *
2610311 CATCAACTCTAGCGATGTATCAGCCGTGTCATTA
323 CATCAATTCTAGCGACGTATCAGTCGTGTCATTA
2610345 CGAAATTGAG
Statistics
Matches: 3220, Mismatches: 93, Indels: 125
0.94 0.03 0.04
Matches are distributed among these distances:
995 4 0.00
996 78 0.02
997 83 0.03
998 414 0.13
999 239 0.07
1000 87 0.03
1001 56 0.02
1002 41 0.01
1003 9 0.00
1004 19 0.01
1005 14 0.00
1006 38 0.01
1007 37 0.01
1008 11 0.00
1009 19 0.01
1010 273 0.08
1011 40 0.01
1012 89 0.03
1013 250 0.08
1014 219 0.07
1015 326 0.10
1016 375 0.12
1017 187 0.06
1018 207 0.06
1019 104 0.03
1020 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (1019 bp):
AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAAT
TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTAAAAATCATTA
ATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATCCATAAATCA
ATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTTAATGCAATTAAAATCT
CACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAATATCATTTTATTTCTTTC
CTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAAT
GTCATATGGGTACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAACG
ACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAA
TAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTC
ATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
Found at i:2609090 original size:507 final size:508
Alignment explanation
Indices: 2605961--2610344 Score: 7198
Period size: 508 Copynumber: 8.7 Consensus size: 508
2605951 AAAAATAGTT
2605961 AAATTCATTAATAATTAAATTTATATAATTT-AAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAAT-ATTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
** * * *
2606025 CCATAAAACAATTAATTACAAATTTTATAACATGTATCTTATAATTAA-T-TT--A--T--T-CA
65 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
*
2606081 ACTT--AA--T-ACAATCAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
130 A-TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCAT
2606141 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
193 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
*
2606206 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCACCAAAAACTTTAACA
258 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
* *
2606271 TCAATTCTAGCGACGTATCAATCGTGTCATTATCAGATTGACTTTTACGTATTTGATGATTAAAA
323 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
* *
2606336 TTTAAATATAAATAATTTTAAAT--AAAATTATTA-TATTAATATTTTTTTCAC-ATCAATACGA
388 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATT-ATATTTTTTTCACAACCAATACGA
2606397 AATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAA-TTA
452 AATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2606453 AAA-TCATTAATATTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATC
1 AAATTCATTAATATTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATC
* *
2606517 CATAAATCAATTAATTACAAATTATATAGTATATATC-TATAATTAATTATTCAACTTAATGCAA
66 CATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCAA
2606581 TTAAAATCTCACAATTAAAATCGTTTATCATTTAATT-AACAATTT-ATTAATCAAATATCATTT
131 TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATTT
*
2606644 TATTTCTTTCCTATAATCAAAAAAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
195 TATTTCTTTCCTAT-ATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
* * *
2606709 TCACATTAAATGTCATATGGGGTAC-TTATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACA
259 TCACATTAAATATCATAT-GGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
* * *
2606773 TCAATTCTAACGATGTATCAGTCGTTTCATTATCAGATT--CTCTTTACGCATTTGATGATTAAA
323 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACT-TTTACGCATTTGATGATTAAA
*
2606836 ATTTAAATATAAATAATTTTAAATAAAAAAAATATTATGATTATA-TTTTTTCAACAACCAATAC
387 ATTTAAATATAAATAATTTTAAAT-AAAAAAATATTATTATTATATTTTTTTC-ACAACCAATAC
2606900 GAAATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
450 GAAATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2606959 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATT-ATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
2607023 CCATAAATGAATTAATTACAAATTATATAATAATATATCTTAT-ATTAATTATTCAAC-TAATGC
65 CCATAAATGAATTAATTACAAATTATATAAT-ATATATCTTATAATTAATTATTCAACTTAATGC
2607086 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
129 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCAT
2607151 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
193 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
2607216 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
258 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
*
2607281 TCAATTCTAACGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
323 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
2607346 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
388 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
2607411 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
453 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
*
2607467 AAAATCATTAATATTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* *
2607532 CCATAAATCAATTAATTACAAA-T-TATAGTATATATCTTATAATTAATTATTCAACTTAATGCA
65 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
2607595 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCATT
130 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATT
2607660 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
194 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
* * * *
2607725 TCACATTAAATGTCATATGGGTACTTTATTG-TTATATCGTATAACGCGCCAAAAACTTTAACAT
259 TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
* * * *
2607789 CAATTCTAGCGACGTATCAATCGTGTCATTATCAAATTGACTTTTAAGCATTTAATGATTAAAAT
324 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAAT
2607854 TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATA-TTTTTTCACAACCAATACGAAA
389 TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
2607918 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTT-
454 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2607972 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAAT-AAAACATTAATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
2608036 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
65 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
2608101 ATTAAAATCTCACAATTAAAATCGTTTATCA-TTAATTAAACAATTTAATTAATCAAATATCATT
130 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATT
2608165 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTA-TTTAAAAAAGTAC-AATCAAAT
194 TTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAAT
*
2608228 TCACATTAAATATCATATGGTTACTGTATTG-TTA-GTC-AATAACG-GCCAAAAACTTTAACAT
259 TCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACAT
2608289 CAATTCTA-CGACGTATCA-TCGT-TCATTATCAGATTGAC-TTTAC-CA-TTGATGATTAAAAT
324 CAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAAT
*
2608348 TTAAATATAAATAATTTAAAATAAAAAAATA-TATTATTATA-TTTTTTCACAACCAATACGAAA
389 TTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
2608411 TACGTTCATTCATAACTAATC-ATTTCATAAATACTATAAATTTAATTAAATTTTA
454 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAA-TTTA
2608466 AAA-TCATTAATATTTAAATTTATATAATTTAAAAT-AAATAAT-AAAACATTAATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* * * *
2608528 CCATAAATCAATTAATTACAAAATTATCT-ATATATATCTTATAATTAATTATTCAACTGATTGC
65 CCATAAATGAATTAATTAC-AAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGC
2608592 AATTAAAATCTCACAATTAAAATCGGTTTATCATTTAATTAAACAATTTAATTAATC-ATATCAT
129 AATTAAAATCTCACAATTAAAATC-GTTTATCATTTAATTAAACAATTTAATTAATCAATATCAT
* *
2608656 TTTATTTCTTTCCTATATTAAAATAA-AG-TTGTTTACAAATTATTTAAAAAAAGTA-ACAATCA
193 TTTATTTCTTTCCTATATCAAAATAATAGTTTG-TTACAAATTATTTTAAAAAAGTACA-AATCA
* * *
2608718 AATTCACATTAAAATGTCATATTAG-TACTTTATTGTTTATGTCGTATAACGCGCCAAAAACTTT
256 AATTCACATT-AAATATCATA-TGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTT
*
2608782 AACATCAATTCTAGTC-AGGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGAT
319 AACATCAATTCTAG-CGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGAT
2608846 TAAAATTTAAATATAAATAATTTTAAAT-AAAAAATATTATTATTATATTTTTTTCACAACCAAT
383 TAAAATTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAAT
2608910 ACGAAATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
448 ACGAAATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
*
2608971 AAATTCATTAATAGTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATC
1 AAATTCATTAATATTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATC
*
2609036 CATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGTAA
66 CATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCAA
*
2609101 TTAAAATCTCACAATTAAAATCGTTTATCTTTTAATTAAACAATTTAATTAATCAAATATCATTT
131 TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATTT
*
2609166 TATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTGCAAATCAAATT
195 TATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATT
2609231 CACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACATC
260 CACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACATC
* *
2609296 AATTCTAGCGACGTATCAGTCGTGTCATTATCAAATTGACTTTTATGCATTTGATGATTAAAATT
325 AATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATT
*
2609361 TAAATATAAATAATTTTAAATAAAAAAAATATTATTGTTATATTTTTTTCACAACCAATACGAAA
390 TAAATATAAATAATTTTAAAT-AAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAA
*
2609426 TACGTTCATTCATAACTAATCAATTTCATAAATA-TATAAA-TTAACTAAATTTA
454 TACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
*
2609479 AAAATCATTAATATTTAAATTTATATAATTTAAAATAAAATAAT-AAAACATTAATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* *
2609543 CCATAAATCG-ATTAATTACAAATTATATAGTATATATCTTATAATTAATTATTCAACTCAATGC
65 CCATAAAT-GAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGC
2609607 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAAATATCAT
129 AATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCAT
2609672 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
193 TTTATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAA
2609737 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
258 TTCACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACA
* * *
2609802 TCAATTCTAACGACGTATCAGTCGTGTCATTATCAGATTAACTTTTACACATTTGATGATTAAAA
323 TCAATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAA
2609867 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
388 TTTAAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAA
*
2609932 ATACTTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
453 ATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
2609988 AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
1 AAATTCATTAATA-TTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATAT
* * *
2610053 CCATAAATGAATTAATCACAAATTATATAATATATATCTTATAATTAATTATTCAACTCAATGCT
65 CCATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCA
* * * *
2610118 ATTAAAATCTCACAATTAAAATCATTTATCATTTAATTAAATACTTTAATTAATCAAACATCATT
130 ATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC-AATATCATT
* * ** * * *
2610183 TTATCTC-TTCCATAGATCAAAATAATAGTACGTTATAAATTATTTTTAAAAAAATATAAATCAA
194 TTATTTCTTTCC-TATATCAAAATAATAGTTTGTTACAAATTA-TTTTAAAAAAGTACAAATCAA
* ** * ** *
2610247 ATTCACATTAAATGTCACT-TGACTACTTTATTGTTTATGTCGCATAACATGCCAAGAACTTTAA
257 ATTCACATTAAATATCA-TATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAA
* * *
2610311 CATCAACTCTAGCGATGTATCAGCCGTGTCATTA
321 CATCAATTCTAGCGACGTATCAGTCGTGTCATTA
2610345 CGAAATTGAG
Statistics
Matches: 3678, Mismatches: 127, Indels: 155
0.93 0.03 0.04
Matches are distributed among these distances:
490 30 0.01
491 87 0.02
492 179 0.05
493 118 0.03
494 88 0.02
495 7 0.00
496 8 0.00
497 21 0.01
498 32 0.01
499 20 0.01
500 34 0.01
501 98 0.03
502 154 0.04
503 87 0.02
504 113 0.03
505 254 0.07
506 247 0.07
507 423 0.12
508 1067 0.29
509 252 0.07
510 254 0.07
511 104 0.03
512 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (508 bp):
AAATTCATTAATATTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAATGAATAATATC
CATAAATGAATTAATTACAAATTATATAATATATATCTTATAATTAATTATTCAACTTAATGCAA
TTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATCAATATCATTTT
ATTTCTTTCCTATATCAAAATAATAGTTTGTTACAAATTATTTTAAAAAAGTACAAATCAAATTC
ACATTAAATATCATATGGTTACTTTATTGTTTATGTCGAATAACGCGCCAAAAACTTTAACATCA
ATTCTAGCGACGTATCAGTCGTGTCATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTT
AAATATAAATAATTTTAAATAAAAAAATATTATTATTATATTTTTTTCACAACCAATACGAAATA
CGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAATTTA
Found at i:2609498 original size:32 final size:32
Alignment explanation
Indices: 2609451--2609513 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
2609441 CTAATCAATT
2609451 TCATAAATATATAAATTAACTA-AATTTAAAAA
1 TCATAAATATATAAATTAA-TATAATTTAAAAA
* * *
2609483 TCATTAATATTTAAATTTATATAATTTAAAA
1 TCATAAATATATAAATTAATATAATTTAAAA
2609514 TAAAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
TCATAAATATATAAATTAATATAATTTAAAAA
Done.