Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 11 of 147
Found at i:2318467 original size:18 final size:20
Alignment explanation
Indices: 2318418--2318468 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2318408 AATATTTTTA
**
2318418 AAAATATTAAAATATAAAAT
1 AAAATATTTTAATATAAAAT
*
2318438 AAAATATTTTAATATTAAAT
1 AAAATATTTTAATATAAAAT
2318458 -AAAT-TTTTAAT
1 AAAATATTTTAAT
2318469 GGGAGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 17 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATTTTAATATAAAAT
Found at i:2318838 original size:18 final size:18
Alignment explanation
Indices: 2318815--2318866 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
2318805 CATATAAATA
2318815 TATTTAATAAATTAATTT
1 TATTTAATAAATTAATTT
*
2318833 TATTTAATAATATAAATTT
1 TATTTAATAA-ATTAATTT
2318852 TATTT--TAAATTAATT
1 TATTTAATAAATTAATT
2318867 AAAACTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 6 0.19
17 3 0.10
18 10 0.32
19 12 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAATAAATTAATTT
Found at i:2318852 original size:19 final size:19
Alignment explanation
Indices: 2318806--2318856 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
2318796 GGATATATAC
*
2318806 ATATAAA-TATATTTAATA
1 ATATAAATTTTATTTAATA
*
2318824 A-ATTAATTTTATTTAATA
1 ATATAAATTTTATTTAATA
2318842 ATATAAATTTTATTT
1 ATATAAATTTTATTT
2318857 TAAATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATAAATTTTATTTAATA
Found at i:2320157 original size:21 final size:19
Alignment explanation
Indices: 2320133--2320180 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
2320123 ATTTTTATTG
2320133 TTTAATAAAAAATTATTAAAT
1 TTTAATAAAAAATTA--AAAT
* * *
2320154 TTTAATTATAAATTAAATT
1 TTTAATAAAAAATTAAAAT
2320173 TTTAATAA
1 TTTAATAA
2320181 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
21 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAATAAAAAATTAAAAT
Found at i:2323625 original size:23 final size:23
Alignment explanation
Indices: 2323599--2323642 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2323589 AGGAATTTAT
*
2323599 TTTTTTATTATGATTTTTTAAAA
1 TTTTTTATTATGATTTATTAAAA
* *
2323622 TTTTTTTTTATTATTTATTAA
1 TTTTTTATTATGATTTATTAA
2323643 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTTATTATGATTTATTAAAA
Found at i:2324690 original size:613 final size:616
Alignment explanation
Indices: 2323480--2324710 Score: 2369
Period size: 613 Copynumber: 2.0 Consensus size: 616
2323470 AAATAAATTT
2323480 TACGATTATCCCGATTCTTCGGTGAAATCCTAAAAATTTTTAAGTAAGTTTTAGAATCATCTCAA
1 TACGATTATCCCGATTCTTCGGTGAAATCCTAAAAATTTTT-A-TAAGTTTTAGAATCATCTCAA
2323545 CTTTTTGACAAGATTCTAAATACAATCATTTTTTTTATAATTAAAGGAATTTATTTTTTTATTAT
64 CTTTTTGACAAGATTCTAAATACAATCATTTTTTTTATAATTAAAGGAATTTATTTTTTTATTAT
**** *
2323610 GATTTTTTAAAATTTTTTTTTATTATTTATTAATTATTTTTATTAAAAAAATTAGATTATCTCGA
129 GATTTTTTAAAAAAACTTTTTATTATTTATTAATTATTTTTATTAAAAAAATTAGATTATCCCGA
2323675 CTCACCGGATAAATCTAAATATTTATATTTTGCTTGTATTAAAAAAATTGAACTCTTTCAATTTT
194 CTCACCGGATAAATCTAAATATTTATATTTTGCTTGTATTAAAAAAATTGAACTCTTTCAATTTT
2323740 CTATATATATTTTTAAAATGTTCAAAATATCAATTTTTTTTCATTTTTTATTTTTATTATTTTAT
259 CTATATATATTTTTAAAATGTTCAAAATATCAATTTTTTTTCATTTTTTATTTTTATTATTTTAT
2323805 AAGATTTATTTTAAAAAAATAAAATTATCATAAATTTTTACTTTTATTAATTATTAAAATAAAAA
324 AAGATTTATTTTAAAAAAATAAAATTATCATAAATTTTTACTTTTATTAATTATTAAAATAAAAA
2323870 TATTTTTTATTCTGGTAAATTTAATCATTTTGACATGCATAAATATTAATAACAAATTTTAAAAT
389 TATTTTTTATTCTGGTAAATTTAATCATTTTGACATGCATAAATATTAATAACAAATTTTAAAAT
2323935 AAAAAAATAATATTTTAAAAAATTAAAAAAATTAAAAAAAATTATTTTTACCTAAACCGGACCGG
454 AAAAAAATAATATTTTAAAAAATTAAAAAAATTAAAAAAAATTATTTTTACCTAAACCGGACCGG
2324000 TCAACAGTCTGGTCAGCGTGTGGTTCAGTCCGGCAATTCGGTCGCATTTAGCGGTTTAATTTTAG
519 TCAACAGTCTGGTCAGCGTGTGGTTCAGTCCGGCAATTCGGTCGCATTTAGCGGTTTAATTTTAG
2324065 TTCAGTCAGACTGATCAGAGATCGATGGATAAG
584 TTCAGTCAGACTGATCAGAGATCGATGGATAAG
*
2324098 TACGATTATCCTGATTCTTCGGTGAAATCCTAAAAA-TTTT-TAAGTTTTAGAATCATCTCAACT
1 TACGATTATCCCGATTCTTCGGTGAAATCCTAAAAATTTTTATAAGTTTTAGAATCATCTCAACT
2324161 TTTTGACAAGATTCTAAATACAATCATTTTTTTTATAATTAAAGGAATTTATTTTTTTATTATGA
66 TTTTGACAAGATTCTAAATACAATCATTTTTTTTATAATTAAAGGAATTTATTTTTTTATTATGA
2324226 TTTTTTAAAAAAACTTTTTATTATTTATTAATTATTTTTATTAAAAAAATTAGATTATCCCGACT
131 TTTTTTAAAAAAACTTTTTATTATTTATTAATTATTTTTATTAAAAAAATTAGATTATCCCGACT
2324291 CACCGGATAAATCTAAATATTTATATTTTGCTTGTATTAAAAAAATTGAACTCTTTCAATTTTCT
196 CACCGGATAAATCTAAATATTTATATTTTGCTTGTATTAAAAAAATTGAACTCTTTCAATTTTCT
2324356 ATATATATTTTT-AAATGTTCAAAATATCAATTTTTTTTCATTTTTTATTTTTATTATTTTATAA
261 ATATATATTTTTAAAATGTTCAAAATATCAATTTTTTTTCATTTTTTATTTTTATTATTTTATAA
2324420 GATTTATTTTAAAAAAATAAAATTATCATAAATTTTTACTTTTATTAATTATTAAAATAAAAATA
326 GATTTATTTTAAAAAAATAAAATTATCATAAATTTTTACTTTTATTAATTATTAAAATAAAAATA
2324485 TTTTTTATTCTGGTAAATTTAATCATTTTGACATGCATAAATATTAATAACAAATTTTAAAATAA
391 TTTTTTATTCTGGTAAATTTAATCATTTTGACATGCATAAATATTAATAACAAATTTTAAAATAA
2324550 AAAAATAATATTTTAAAAAATTAAAAAAATTAAAAAAAATTATTTTTACCTAAACCGGACCGGTC
456 AAAAATAATATTTTAAAAAATTAAAAAAATTAAAAAAAATTATTTTTACCTAAACCGGACCGGTC
2324615 AACAGTCTGGTCAGCGTGTGGTTCAGTCCGGCAATTCGGTCGCATTTAGCGGTTTAATTTTAGTT
521 AACAGTCTGGTCAGCGTGTGGTTCAGTCCGGCAATTCGGTCGCATTTAGCGGTTTAATTTTAGTT
2324680 CAGTCAGACTGATCAGAGATCGATGGATAAG
586 CAGTCAGACTGATCAGAGATCGATGGATAAG
2324711 CAGGTCGCGG
Statistics
Matches: 607, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
613 343 0.57
614 225 0.37
617 4 0.01
618 35 0.06
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.43
Consensus pattern (616 bp):
TACGATTATCCCGATTCTTCGGTGAAATCCTAAAAATTTTTATAAGTTTTAGAATCATCTCAACT
TTTTGACAAGATTCTAAATACAATCATTTTTTTTATAATTAAAGGAATTTATTTTTTTATTATGA
TTTTTTAAAAAAACTTTTTATTATTTATTAATTATTTTTATTAAAAAAATTAGATTATCCCGACT
CACCGGATAAATCTAAATATTTATATTTTGCTTGTATTAAAAAAATTGAACTCTTTCAATTTTCT
ATATATATTTTTAAAATGTTCAAAATATCAATTTTTTTTCATTTTTTATTTTTATTATTTTATAA
GATTTATTTTAAAAAAATAAAATTATCATAAATTTTTACTTTTATTAATTATTAAAATAAAAATA
TTTTTTATTCTGGTAAATTTAATCATTTTGACATGCATAAATATTAATAACAAATTTTAAAATAA
AAAAATAATATTTTAAAAAATTAAAAAAATTAAAAAAAATTATTTTTACCTAAACCGGACCGGTC
AACAGTCTGGTCAGCGTGTGGTTCAGTCCGGCAATTCGGTCGCATTTAGCGGTTTAATTTTAGTT
CAGTCAGACTGATCAGAGATCGATGGATAAG
Found at i:2327545 original size:19 final size:19
Alignment explanation
Indices: 2327521--2327573 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2327511 TATATAAATA
2327521 TATTTAATAAATTAATTTT
1 TATTTAATAAATTAATTTT
*
2327540 TATTTAAT-AATATAAATTT
1 TATTTAATAAAT-TAATTTT
2327559 TATTT--TAAATTAATT
1 TATTTAATAAATTAATT
2327574 AAAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTAATAAATTAATTTT
Found at i:2328329 original size:22 final size:22
Alignment explanation
Indices: 2328304--2328346 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2328294 CATGAAAAGA
2328304 ATAAAAATTTTAAGTAAAATTT
1 ATAAAAATTTTAAGTAAAATTT
* * *
2328326 ATAAAATTTTTTATTAAAATT
1 ATAAAAATTTTAAGTAAAATT
2328347 AATTAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAAAATTTTAAGTAAAATTT
Found at i:2333747 original size:24 final size:23
Alignment explanation
Indices: 2333720--2333765 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2333710 ATAAATTGCA
*
2333720 TAATATAAATACATTTTGCAAATG
1 TAATATAAATA-AATTTGCAAATG
* *
2333744 TAATTTACATAAATTTGCAAAT
1 TAATATAAATAAATTTGCAAAT
2333766 ACTATTGGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
TAATATAAATAAATTTGCAAATG
Found at i:2338221 original size:24 final size:24
Alignment explanation
Indices: 2338154--2338221 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
2338144 TAATAAACAA
* *
2338154 TTATAT-TTAAATTACTT-ATTTAT
1 TTATATATTAAATTA-TTAAATAAT
* *
2338177 TTAATATATTAAATAAATAAATAAT
1 TT-ATATATTAAATTATTAAATAAT
2338202 TTATATATTAAATTATTAAA
1 TTATATATTAAATTATTAAA
2338222 CAAAAATGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 21 0.58
25 13 0.36
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (24 bp):
TTATATATTAAATTATTAAATAAT
Found at i:2339236 original size:15 final size:17
Alignment explanation
Indices: 2339216--2339248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2339206 AAATTAAATT
2339216 TTTTA-TTTAT-TAAGA
1 TTTTATTTTATATAAGA
2339231 TTTTATTTTATATAAGA
1 TTTTATTTTATATAAGA
2339248 T
1 T
2339249 CAATTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTATTTTATATAAGA
Found at i:2339391 original size:30 final size:30
Alignment explanation
Indices: 2339357--2339435 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
2339347 TTAGGTGTTT
*
2339357 AATTGTGTGATTAAGAATGCAATTCTATCC
1 AATTGTATGATTAAGAATGCAATTCTATCC
* * * *
2339387 AATTGAATGATTAGGAATGCAATTTTATCT
1 AATTGTATGATTAAGAATGCAATTCTATCC
* *
2339417 AATTGTATGACTAGGAATG
1 AATTGTATGATTAAGAATG
2339436 AGCTTTACAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (30 bp):
AATTGTATGATTAAGAATGCAATTCTATCC
Found at i:2342025 original size:6 final size:7
Alignment explanation
Indices: 2341993--2342031 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
2341983 AATTTTTTAA
2341993 AAAAAACT
1 AAAAAA-T
2342001 AAAAAA-
1 AAAAAAT
2342007 AGAAAAAT
1 A-AAAAAT
2342015 AAAAAAT
1 AAAAAAT
2342022 AAAAAAT
1 AAAAAAT
2342029 AAA
1 AAA
2342032 TCCAGATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.03
7 21 0.72
8 7 0.24
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (7 bp):
AAAAAAT
Found at i:2343970 original size:36 final size:37
Alignment explanation
Indices: 2343930--2344002 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
2343920 ATGGATGTTG
*
2343930 AAAATATTTTTACTTAATATT-TTACATATAAAATTT
1 AAAATATATTTACTTAATATTATTACATATAAAATTT
* *
2343966 AAAATATATTTAGTTAATATTATTATATATAAAATTT
1 AAAATATATTTACTTAATATTATTACATATAAAATTT
2344003 GTTTTGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 19 0.58
37 14 0.42
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
AAAATATATTTACTTAATATTATTACATATAAAATTT
Found at i:2358645 original size:2 final size:2
Alignment explanation
Indices: 2358638--2358665 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2358628 TTCATATGTT
2358638 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
2358666 CATTCTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2358998 original size:2 final size:2
Alignment explanation
Indices: 2358991--2359028 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2358981 ACTCTACATA
2358991 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2359029 AGCTTAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2360545 original size:3 final size:3
Alignment explanation
Indices: 2360537--2360575 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2360527 TTTGTAGTTC
2360537 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2360576 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2360580 original size:3 final size:3
Alignment explanation
Indices: 2360574--2360618 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2360564 AATAATAATA
2360574 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2360619 TGATATTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2361826 original size:22 final size:23
Alignment explanation
Indices: 2361786--2361829 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
2361776 TAACGTGCTT
*
2361786 ATAGTATATAATGACTATAAATTG
1 ATAGTATAT-ATGAATATAAATTG
2361810 ATAGTATAT-TGAATATAAAT
1 ATAGTATATATGAATATAAAT
2361830 CTTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
ATAGTATATATGAATATAAATTG
Found at i:2366906 original size:21 final size:19
Alignment explanation
Indices: 2366859--2366907 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
2366849 ATATGTCATT
2366859 TTTTTAATTGAACTTTTTC
1 TTTTTAATTGAACTTTTTC
* * *
2366878 TTTCTAATTGAGCATGTTTTG
1 TTTTTAATTGAAC-T-TTTTC
2366899 TTTTTAATT
1 TTTTTAATT
2366908 AATCTATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 11 0.46
20 1 0.04
21 12 0.50
ACGTcount: A:0.20, C:0.08, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTTTAATTGAACTTTTTC
Found at i:2368544 original size:10 final size:10
Alignment explanation
Indices: 2368518--2368655 Score: 65
Period size: 10 Copynumber: 13.8 Consensus size: 10
2368508 AAAATAGAAT
2368518 AATAAAAA-A
1 AATAAAAATA
* *
2368527 AGTGAAAATA
1 AATAAAAATA
2368537 AATAAAAATA
1 AATAAAAATA
*
2368547 AA-AAAATTA
1 AATAAAAATA
* *
2368556 AAGAAAAGT-
1 AATAAAAATA
*
2368565 AA-AACAA-A
1 AATAAAAATA
2368573 AAT-AAAATA
1 AATAAAAATA
*
2368582 AGATAAAGAAAA
1 A-ATAAA-AATA
*
2368594 AATATTAAATA
1 AATA-AAAATA
*
2368605 AATCTAATCTAATA
1 AA--TAA--AAATA
2368619 AATAAAAATA
1 AATAAAAATA
*
2368629 AATAAAGATA
1 AATAAAAATA
*
2368639 AA-ACAAATA
1 AATAAAAATA
2368648 AATAAAAA
1 AATAAAAA
2368656 ATTCAAAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
8 8 0.08
9 25 0.26
10 37 0.39
11 10 0.10
12 8 0.08
13 2 0.02
14 6 0.06
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (10 bp):
AATAAAAATA
Found at i:2368549 original size:22 final size:23
Alignment explanation
Indices: 2368507--2368550 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2368497 TTTATTTAAA
2368507 GAAAATAGAATAATAAAAAAAGT
1 GAAAATAGAATAATAAAAAAAGT
*
2368530 GAAAATA-AATAAAAATAAAAA
1 GAAAATAGAATAATAA-AAAAA
2368551 AATTAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
GAAAATAGAATAATAAAAAAAGT
Found at i:2369161 original size:19 final size:19
Alignment explanation
Indices: 2369137--2369173 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2369127 TGGCCGAAAT
*
2369137 TTTCGCCGGAAAATTCAAG
1 TTTCGCCGAAAAATTCAAG
2369156 TTTCGCCGAAAAATTCAA
1 TTTCGCCGAAAAATTCAA
2369174 CCGAAAACTG
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:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (19 bp):
TTTCGCCGAAAAATTCAAG
Found at i:2369180 original size:31 final size:31
Alignment explanation
Indices: 2369108--2369182 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
2369098 ACTGGGCAAG
* **
2369108 TCACCGAAAACTTCAAGTTTGGCCGAAATTT
1 TCACCGAAAACTTCAAGTTTCGCCGAAAAAT
*
2369139 TCGCCGGAAAA-TTCAAGTTTCGCCGAAAAAT
1 TCACC-GAAAACTTCAAGTTTCGCCGAAAAAT
2369170 TCAACCGAAAACT
1 TC-ACCGAAAACT
2369183 GGAATTTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 28 0.78
32 8 0.22
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (31 bp):
TCACCGAAAACTTCAAGTTTCGCCGAAAAAT
Found at i:2369736 original size:3 final size:3
Alignment explanation
Indices: 2369728--2369773 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
2369718 AAAGATATAC
2369728 ATA ATA ATA CATA ATA ATA ATA ATAA ATA ATA A-A ATA CATA A-A ATA
1 ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA
2369774 CAAAAGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 4 0.11
3 25 0.66
4 9 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:2369739 original size:10 final size:10
Alignment explanation
Indices: 2369724--2369775 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
2369714 AAATAAAGAT
2369724 ATACATAATA
1 ATACATAATA
2369734 ATACATAATA
1 ATACATAATA
2369744 ATA-ATAATAA
1 ATACATAAT-A
2369754 ATA-ATAA-A
1 ATACATAATA
2369762 ATACATAA-A
1 ATACATAATA
2369771 ATACA
1 ATACA
2369776 AAAGGAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.10
9 15 0.38
10 21 0.52
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
ATACATAATA
Found at i:2369747 original size:16 final size:16
Alignment explanation
Indices: 2369728--2369770 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
2369718 AAAGATATAC
*
2369728 ATAATAATACATAATA
1 ATAATAATAAATAATA
2369744 ATAATAATAAATAATA
1 ATAATAATAAATAATA
2369760 A-AATACATAAA
1 ATAATA-ATAAA
2369771 ATACAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAATAAATAATA
Found at i:2372311 original size:15 final size:15
Alignment explanation
Indices: 2372272--2372310 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
2372262 GACTTAAATA
*
2372272 ATTATCAAAATAATT
1 ATTATCAAAATAATC
2372287 ATTATCAAAAT-ATC
1 ATTATCAAAATAATC
2372301 ATTATCAAAA
1 ATTATCAAAA
2372311 AATAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTATCAAAATAATC
Found at i:2373267 original size:12 final size:12
Alignment explanation
Indices: 2373250--2373294 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
2373240 TACTTGTATC
*
2373250 ATATATATATAT
1 ATATATATTTAT
2373262 ATATATATTTAT
1 ATATATATTTAT
*
2373274 ATA-A-ATTTTT
1 ATATATATTTAT
2373284 ATATATATTTA
1 ATATATATTTA
2373295 ATAAATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 18 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATATTTAT
Found at i:2373286 original size:22 final size:21
Alignment explanation
Indices: 2373261--2373301 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
2373251 TATATATATA
2373261 TATATATATTTATATAAATTTT
1 TATATATATTTA-ATAAATTTT
2373283 TATATATATTTAATAAATT
1 TATATATATTTAATAAATT
2373302 AACTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATATATTTAATAAATTTT
Found at i:2373294 original size:10 final size:10
Alignment explanation
Indices: 2373251--2373294 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
2373241 ACTTGTATCA
*
2373251 TATATATATA
1 TATATATATT
2373261 TATATATATT
1 TATATATATT
*
2373271 TATATAAATTTT
1 TATAT--ATATT
2373283 TATATATATT
1 TATATATATT
2373293 TA
1 TA
2373295 ATAAATTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATATT
Found at i:2373557 original size:13 final size:13
Alignment explanation
Indices: 2373539--2373568 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2373529 TAAAAATAAA
2373539 AAAATATAAAAAT
1 AAAATATAAAAAT
*
2373552 AAAATATGAAAAT
1 AAAATATAAAAAT
2373565 AAAA
1 AAAA
2373569 AATATTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:2373557 original size:21 final size:20
Alignment explanation
Indices: 2373531--2373572 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2373521 CCATTATGTA
2373531 AAAATAAAAAAATATAAAAAT
1 AAAATAAAAAAATA-AAAAAT
**
2373552 AAAATATGAAAATAAAAAAT
1 AAAATAAAAAAATAAAAAAT
2373572 A
1 A
2373573 TTCTATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAATAAAAAAATAAAAAAT
Found at i:2374679 original size:52 final size:52
Alignment explanation
Indices: 2374550--2374693 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 52
2374540 CTTGTAAAAA
* * *
2374550 AAGAATTCTAAGA-GAAAGAAGATTCTTAATA-AGTAAGTTTCACATGCAAGAG
1 AAGAATTCTAAGAGGAAAG-AGATTCTTAATAGA-CAAGTTTAACATACAAGAG
* * * * *
2374602 AAGAATT-TTAGAAGAAAAGATATTCTTAATAGACAAGTTTAACTTATAAGAG
1 AAGAATTCTAAG-AGGAAAGAGATTCTTAATAGACAAGTTTAACATACAAGAG
* * *
2374654 AAGAATTCTAAGAGGAGAGAGATTCTTAATGGGCAAGTTT
1 AAGAATTCTAAGAGGAAAGAGATTCTTAATAGACAAGTTT
2374694 GTATGGATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
51 3 0.04
52 63 0.85
53 8 0.11
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAGAGGAAAGAGATTCTTAATAGACAAGTTTAACATACAAGAG
Found at i:2378705 original size:2 final size:2
Alignment explanation
Indices: 2378698--2378737 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2378688 ACCAAAGGTC
2378698 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2378738 ATGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2380968 original size:14 final size:15
Alignment explanation
Indices: 2380949--2380981 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2380939 ATGATGTTTA
2380949 TTTATTATTAT-ATT
1 TTTATTATTATAATT
*
2380963 TTTATTTTTATAATT
1 TTTATTATTATAATT
2380978 TTTA
1 TTTA
2380982 GTTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTATTATAATT
Found at i:2380980 original size:15 final size:15
Alignment explanation
Indices: 2380949--2380992 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
2380939 ATGATGTTTA
*
2380949 TTTATTATTAT-ATT
1 TTTATTTTTATAATT
2380963 TTTATTTTTATAATT
1 TTTATTTTTATAATT
2380978 TTTAGTTTTT-TAATT
1 TTTA-TTTTTATAATT
2380993 GTGGTCTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
16 5 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATAATT
Found at i:2382905 original size:12 final size:12
Alignment explanation
Indices: 2382884--2382927 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
2382874 CCGAAGAATC
2382884 TTAA-TTTGATT
1 TTAATTTTGATT
2382895 TTAATTTTGATTT
1 TTAATTTTGA-TT
*
2382908 TTTATTTTGATT
1 TTAATTTTGATT
2382920 TTAATTTT
1 TTAATTTT
2382928 TTAGTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 4 0.14
12 14 0.48
13 11 0.38
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTAATTTTGATT
Found at i:2382920 original size:19 final size:19
Alignment explanation
Indices: 2382892--2382930 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2382882 TCTTAATTTG
*
2382892 ATTTTAATTTTGATTTTTT
1 ATTTTAATTTTAATTTTTT
*
2382911 ATTTTGATTTTAATTTTTT
1 ATTTTAATTTTAATTTTTT
2382930 A
1 A
2382931 GTTAAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
ATTTTAATTTTAATTTTTT
Found at i:2382928 original size:13 final size:13
Alignment explanation
Indices: 2382888--2382928 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2382878 AGAATCTTAA
2382888 TTTGATTTTAA-T
1 TTTGATTTTAATT
*
2382900 TTTGATTTT-TTAT
1 TTTGATTTTAAT-T
2382913 TTTGATTTTAATT
1 TTTGATTTTAATT
2382926 TTT
1 TTT
2382929 TAGTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 9 0.38
13 14 0.58
14 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTGATTTTAATT
Found at i:2391548 original size:28 final size:27
Alignment explanation
Indices: 2391517--2391574 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
2391507 AAAAAAATAA
2391517 AATTT-ATTTAAATAAACAATTATTATTT
1 AATTTAATTTAAATAAA-AATTA-TATTT
* *
2391545 AATTTAATTTAATTTAAAATTATATTT
1 AATTTAATTTAAATAAAAATTATATTT
2391572 AAT
1 AAT
2391575 AATCAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 8 0.30
28 10 0.37
29 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTAATTTAAATAAAAATTATATTT
Found at i:2392049 original size:17 final size:17
Alignment explanation
Indices: 2392027--2392080 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2392017 GGCTGTTCTG
2392027 TATGAAGCATGAAACTT
1 TATGAAGCATGAAACTT
*
2392044 TATGAAGTC-GGAAA-TT
1 TATGAAG-CATGAAACTT
*
2392060 GTATAAAGCATGAAACTT
1 -TATGAAGCATGAAACTT
2392078 TAT
1 TAT
2392081 CACCTTCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 3 0.10
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (17 bp):
TATGAAGCATGAAACTT
Found at i:2394869 original size:23 final size:22
Alignment explanation
Indices: 2394816--2394869 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
2394806 AATAAAAATG
*
2394816 TTTTAAAT-TATGTTTTTATTT
1 TTTTAAATATATGTTTTTATAT
*
2394837 TATTTGAATATAATGTTTTTATAT
1 T-TTTAAATAT-ATGTTTTTATAT
2394861 TTTTAAATA
1 TTTTAAATA
2394870 GATTAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 6 0.22
23 8 0.30
24 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTAAATATATGTTTTTATAT
Found at i:2394941 original size:31 final size:31
Alignment explanation
Indices: 2394905--2394972 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
2394895 AATATGGAGA
2394905 TTTTTACATAATATT-TTAATA-TGATATACAG
1 TTTTTACATAAT-TTCTTAA-ACTGATATACAG
** *
2394936 TTTTTATTTAATTTCTTAAACTGATATAGAG
1 TTTTTACATAATTTCTTAAACTGATATACAG
2394967 TTTTTA
1 TTTTTA
2394973 TTTCAACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (31 bp):
TTTTTACATAATTTCTTAAACTGATATACAG
Found at i:2395306 original size:19 final size:19
Alignment explanation
Indices: 2395282--2395322 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2395272 AAAATATTTT
*
2395282 TTTAAAAAATG-ATATTGAA
1 TTTAAAAAAAGAAT-TTGAA
2395301 TTTAAAAAAAGAATTTGAA
1 TTTAAAAAAAGAATTTGAA
2395320 TTT
1 TTT
2395323 TTAACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTTAAAAAAAGAATTTGAA
Found at i:2395981 original size:25 final size:24
Alignment explanation
Indices: 2395953--2396003 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2395943 TTTGTTTCTA
* * *
2395953 TATTTATTATTTTTATCTATATATT
1 TATTTAATAATTTTAT-TATATAAT
2395978 TA-TTAATAATTTTATTATATAAT
1 TATTTAATAATTTTATTATATAAT
2396001 TAT
1 TAT
2396004 ATAAATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
23 9 0.41
24 11 0.50
25 2 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTAATAATTTTATTATATAAT
Found at i:2397343 original size:23 final size:24
Alignment explanation
Indices: 2397299--2397349 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
2397289 TTATTAAAAA
* * *
2397299 AATATATTATTATTTTATAA-TTT
1 AATATATTATTATATAAAAATTTT
*
2397322 AATATTTTATTATATAAAAATTTT
1 AATATATTATTATATAAAAATTTT
2397346 AATA
1 AATA
2397350 AAATATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATATATTATTATATAAAAATTTT
Found at i:2397466 original size:20 final size:20
Alignment explanation
Indices: 2397441--2397482 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2397431 AATTTTAATC
2397441 TTATCATTATAATAATCAAT
1 TTATCATTATAATAATCAAT
*
2397461 TTATCATTATAATAATTAAT
1 TTATCATTATAATAATCAAT
2397481 TT
1 TT
2397483 CATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATCATTATAATAATCAAT
Found at i:2398435 original size:17 final size:17
Alignment explanation
Indices: 2398415--2398451 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2398405 ATTTGATTGA
*
2398415 ATTATTTTTGTATATTT
1 ATTATTTTTATATATTT
*
2398432 ATTATTTTTATCTATTT
1 ATTATTTTTATATATTT
2398449 ATT
1 ATT
2398452 TATTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTATTTTTATATATTT
Found at i:2399635 original size:32 final size:30
Alignment explanation
Indices: 2399599--2399669 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 30
2399589 ATCGTAATTA
*
2399599 TAAAATTT-TAATAAAAATTATATTTATTTGAT
1 TAAAATTTATAA-AAAAATT-TATCTATTTG-T
*
2399631 TAAAATATTATAAATAAATTTATCTATTTGT
1 TAAAAT-TTATAAAAAAATTTATCTATTTGT
2399662 TATAAATT
1 TA-AAATT
2399670 AAAATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 4 0.12
32 19 0.56
33 8 0.24
34 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
TAAAATTTATAAAAAAATTTATCTATTTGT
Found at i:2400219 original size:24 final size:24
Alignment explanation
Indices: 2400187--2400234 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2400177 ATTTGTATCA
2400187 TGTTTTGATATTGAGTTTAATTCC
1 TGTTTTGATATTGAGTTTAATTCC
2400211 TGTTTTGATATTGAGTTTAATTCC
1 TGTTTTGATATTGAGTTTAATTCC
2400235 ATTTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.17, T:0.54
Consensus pattern (24 bp):
TGTTTTGATATTGAGTTTAATTCC
Found at i:2404489 original size:11 final size:11
Alignment explanation
Indices: 2404475--2404511 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2404465 AATTTATGCC
2404475 TTTATTATTCT
1 TTTATTATTCT
2404486 TTTA-T-TTCT
1 TTTATTATTCT
*
2404495 TTTATTATTTT
1 TTTATTATTCT
2404506 TTTATT
1 TTTATT
2404512 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
10 2 0.09
11 13 0.57
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTATTCT
Found at i:2404498 original size:20 final size:20
Alignment explanation
Indices: 2404475--2404512 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2404465 AATTTATGCC
2404475 TTTATTATTCTTTTATTTCT
1 TTTATTATTCTTTTATTTCT
*
2404495 TTTATTATTTTTTTATTT
1 TTTATTATTCTTTTATTT
2404513 TAAAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATTATTCTTTTATTTCT
Found at i:2404804 original size:2 final size:2
Alignment explanation
Indices: 2404797--2404822 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2404787 TTCATATGTT
2404797 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
2404823 CATTCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2405132 original size:2 final size:2
Alignment explanation
Indices: 2405125--2405160 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2405115 ATAACTCTAC
2405125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2405161 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2405165 original size:2 final size:2
Alignment explanation
Indices: 2405160--2405187 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2405150 TATATATATA
2405160 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2405188 AGCTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2406440 original size:23 final size:23
Alignment explanation
Indices: 2406413--2406460 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2406403 CTAGTCGAAA
*
2406413 CATGTTATTTCATCAAAATTTAC
1 CATGTTATTTCATCAAAATTCAC
*
2406436 CATGTTATTTCATCGAAATTCAC
1 CATGTTATTTCATCAAAATTCAC
2406459 CA
1 CA
2406461 AAACTGACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (23 bp):
CATGTTATTTCATCAAAATTCAC
Found at i:2406742 original size:3 final size:3
Alignment explanation
Indices: 2406736--2406765 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2406726 AATAATAATA
2406736 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2406766 TGATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2407977 original size:22 final size:23
Alignment explanation
Indices: 2407937--2407980 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
2407927 TAACGTGCTT
*
2407937 ATAGTATATAATGACTATAAATTG
1 ATAGTATAT-ATGAATATAAATTG
2407961 ATAGTATAT-TGAATATAAAT
1 ATAGTATATATGAATATAAAT
2407981 CTTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
ATAGTATATATGAATATAAATTG
Found at i:2412055 original size:161 final size:161
Alignment explanation
Indices: 2411663--2412460 Score: 1312
Period size: 161 Copynumber: 5.0 Consensus size: 161
2411653 TTAAAATTTT
* * * *
2411663 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
2411728 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
* *
2411793 GATTATTTAAAG-----AAAAATCAAGATCA
131 GATTAATTAAAGAAAAAAAAAATCAAAATCA
*
2411819 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
2411884 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
2411949 GATTAATTAAAGAAAAAAAAAATCAAAATCA
131 GATTAATTAAAGAAAAAAAAAATCAAAATCA
* *
2411980 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
2412045 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
* *
2412110 GGATTATTTAAAG-----AAAAATCAAGATCA
130 GGATTAATTAAAGAAAAAAAAAATCAAAATCA
*
2412137 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
2412202 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
2412267 GATTAATTAAAGAAAAAAAAAATCAAAATCA
131 GATTAATTAAAGAAAAAAAAAATCAAAATCA
* *
2412298 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
2412363 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
2412428 GGATTAATTAAAGAAAAAAGAAAA-AAAAATCA
130 GGATTAATTAAAGAAAAAA-AAAATCAAAATCA
2412460 A
1 A
2412461 GATCAAAATC
Statistics
Matches: 600, Mismatches: 29, Indels: 20
0.92 0.04 0.03
Matches are distributed among these distances:
156 170 0.28
157 114 0.19
161 228 0.38
162 84 0.14
163 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (161 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTAAAGAAAAAAAAAATCAAAATCA
Found at i:2412240 original size:318 final size:318
Alignment explanation
Indices: 2411683--2412445 Score: 1483
Period size: 318 Copynumber: 2.4 Consensus size: 318
2411673 TAGTTGTTGA
*
2411683 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
2411748 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
2411812 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
131 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
2411877 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
196 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
2411942 GTCGTCGGATTAATTAAAGAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
261 GTCGTCGGATTAATTAAAGAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
2412000 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
2412065 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
2412130 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
131 AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
2412195 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
196 ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
2412260 GTCGTCGGATTAATTAAAGAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
261 GTCGTCGGATTAATTAAAGAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
2412318 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
*
2412383 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAA
2412446 AGAAAAAAAA
Statistics
Matches: 441, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
317 83 0.19
318 358 0.81
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (318 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
AAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAA
ATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCC
GTCGTCGGATTAATTAAAGAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGG
Found at i:2412496 original size:1 final size:1
Alignment explanation
Indices: 2412492--2412516 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2412482 AAAAAAATTC
2412492 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2412517 CCTGGAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2412499 original size:15 final size:14
Alignment explanation
Indices: 2412475--2412515 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
2412465 AAAATCAAAG
*
2412475 TCAAATAAAAAAAAT
1 TCAAA-AAAAAAAAA
2412490 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
2412504 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
2412516 ACCTGGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
14 8 0.32
15 5 0.20
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:2412881 original size:19 final size:19
Alignment explanation
Indices: 2412839--2412885 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
2412829 AGAACACCGA
*
2412839 TGCCGGATTCTGGAAATGT
1 TGCCGGAATCTGGAAATGT
* * *
2412858 CGCCGGAATCTGGAATTTT
1 TGCCGGAATCTGGAAATGT
2412877 TGCCGGAAT
1 TGCCGGAAT
2412886 ATGGCCGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
TGCCGGAATCTGGAAATGT
Found at i:2413516 original size:3 final size:3
Alignment explanation
Indices: 2413508--2413539 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2413498 ATCTTACAAA
2413508 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2413540 ATATATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2413722 original size:20 final size:20
Alignment explanation
Indices: 2413699--2413763 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
2413689 CTTACCCATT
* *
2413699 TGGGCCAGGCCCAAATGATC
1 TGGGTCAGGCCCAATTGATC
2413719 TGGGTCAGGCCCAATTGATC
1 TGGGTCAGGCCCAATTGATC
*
2413739 CGGGTCAGGCCCAATTGATC
1 TGGGTCAGGCCCAATTGATC
*
2413759 CGGGT
1 TGGGT
2413764 TCGGACCTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.20
Consensus pattern (20 bp):
TGGGTCAGGCCCAATTGATC
Found at i:2413882 original size:1 final size:1
Alignment explanation
Indices: 2413878--2413987 Score: 94
Period size: 1 Copynumber: 110.0 Consensus size: 1
2413868 TTATTTTTGA
* * * ** ** ** *
2413878 TTTTTTTTTTATTTTTGTTTTTATTTTTTTTTGATTTTTTTTGATTTTTTTTGATTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
2413943 TTTGTTTTTTTGTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2413988 GGCCGAAGCT
Statistics
Matches: 84, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:2413924 original size:44 final size:41
Alignment explanation
Indices: 2413871--2413988 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 41
2413861 AACATTTTTA
*
2413871 TTTTTGATTTTTTTTTTATTTTTGTTTTTATTTTTTTTTGATTT
1 TTTTTGATTTTTTTTTT-TTTTTGTTTTT-TGTTTTTTTG-TTT
2413915 TTTTTGATTTTTTTTGATTTTTTTGTTTTTTGTTTTTTTGTTT
1 TTTTTGATTTTTTTT--TTTTTTTGTTTTTTGTTTTTTTGTTT
* *
2413958 TTTTTGTTTTTTTTTTTTGTTTTTTTTTTTG
1 TTTTTGATTTTTTTTTTT-TTTTGTTTTTTG
2413989 GCCGAAGCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
41 3 0.04
42 11 0.16
43 17 0.25
44 24 0.35
45 11 0.16
46 2 0.03
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (41 bp):
TTTTTGATTTTTTTTTTTTTTTGTTTTTTGTTTTTTTGTTT
Found at i:2414073 original size:40 final size:40
Alignment explanation
Indices: 2413995--2414184 Score: 162
Period size: 41 Copynumber: 5.0 Consensus size: 40
2413985 TTTGGCCGAA
* * *
2413995 GCTCCTCTAAACAGAGACTCAAC-GACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGGACTTTGGAAAATAAATT
*
2414036 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAATAAATT
*
2414076 GCTCCTCT-AA-A-AGGCAAC--ACGATTGG---A-AAATT
1 GCTCCTCTAAACAGAGGCAACGGAC-TTTGGAAAATAAATT
2414108 G--CC-CT-AAC--AGGC-ACGGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGG-AAAATAAATT
*
2414142 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACGG-ACTTTGGAAAATAAATT
2414183 GC
1 GC
2414185 ACCACGACTT
Statistics
Matches: 125, Mismatches: 6, Indels: 36
0.75 0.04 0.22
Matches are distributed among these distances:
28 2 0.02
29 12 0.10
30 4 0.03
32 6 0.05
33 1 0.01
34 6 0.05
35 2 0.02
36 6 0.05
37 9 0.07
38 4 0.03
39 6 0.05
40 29 0.23
41 32 0.26
42 6 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAATAAATT
Found at i:2414141 original size:34 final size:38
Alignment explanation
Indices: 2414103--2414515 Score: 246
Period size: 41 Copynumber: 10.6 Consensus size: 38
2414093 CACGATTGGA
2414103 AAATTGCC-CT-AAC-AGGC-ACGG-ACTTTGGAAAAAT
1 AAATTGCCTCTAAACAAGGCAACGGAACTTT-GAAAAAT
2414137 AAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAAT
1 AAATTG--CCTCTAAACA-AGGCAACGGAACTTTGAAAAAT
** *
2414178 AAATTG---C---AC----C-AC-GACTTTTGAAAAGT
1 AAATTGCCTCTAAACAAGGCAACGGAACTTTGAAAAAT
2414204 AAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAAT
1 AAATTG--CCTCTAAACA-AGGCAACGGAACTTTGAAAAAT
*
2414245 AAATTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTTGAAAAGT
1 AAATTG--CCTCTAAACA-AGGCA--ACGGAAC-TTTGAAAAAT
*
2414287 AAATTGCTCCTCTAAATAGAGGCAACGGAACTTTGAAAAAT
1 AAATTG--CCTCTAAACA-AGGCAACGGAACTTTGAAAAAT
*
2414328 AAATTGCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAGT
1 AAATTG--CCTCTAAACA-AGGCAACGGAACTTTGAAAAAT
*
2414368 AAATTGCTCCTCTAAATAGAGGCAAC-GAACTTTGAAAAAAT
1 AAATTG--CCTCTAAACA-AGGCAACGGAACTTTG-AAAAAT
*
2414409 AAATTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGT
1 AAATTG--CCTCTAAACA-AGGCA--ACGGAACTTTGAAAAAT
2414450 AAATTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAAT
1 AAATTG--CCTCTAAACA-AGGCA--ACGGAACTTT-GAAAAAT
2414492 AAATTGCTCCTCTAAACAGAGGCA
1 AAATTG--CCTCTAAACA-AGGCA
2414516 CCACGACTTT
Statistics
Matches: 331, Mismatches: 16, Indels: 56
0.82 0.04 0.14
Matches are distributed among these distances:
26 17 0.05
27 2 0.01
28 1 0.00
31 1 0.00
33 2 0.01
34 8 0.02
36 3 0.01
37 2 0.01
38 3 0.01
39 1 0.00
40 54 0.16
41 156 0.47
42 76 0.23
43 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (38 bp):
AAATTGCCTCTAAACAAGGCAACGGAACTTTGAAAAAT
Found at i:2414208 original size:67 final size:67
Alignment explanation
Indices: 2414123--2414251 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
2414113 AACAGGCACG
2414123 GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGCACC
1 GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGCACC
2414188 AC
66 AC
* *
2414190 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGC
1 GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGC
2414252 TCCTCTAAAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (67 bp):
GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGCACC
AC
Found at i:2414249 original size:41 final size:40
Alignment explanation
Indices: 2414194--2414538 Score: 473
Period size: 41 Copynumber: 8.3 Consensus size: 40
2414184 CACCACGACT
*
2414194 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC-GAAC
2414235 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG-AC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAC
* *
2414276 TTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGGAAC
1 -TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC-GAAC
2414318 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAC
* *
2414358 TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAC
2414398 TTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG-AC
1 TTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAC
*
2414440 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-AC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAC
2414481 TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG-AC
1 TTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAC
2414523 TTTTGAAAAAGTAAAT
1 -TTTGAAAAA-TAAAT
2414539 ACTCCTAGAC
Statistics
Matches: 282, Mismatches: 11, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
40 48 0.17
41 137 0.49
42 84 0.30
43 13 0.05
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (40 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAC
Found at i:2414322 original size:83 final size:82
Alignment explanation
Indices: 2414183--2414538 Score: 587
Period size: 83 Copynumber: 4.3 Consensus size: 82
2414173 AAAATAAATT
2414183 GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAA
1 GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAATAAA
2414248 TTGCTCCTCTAAACAGAG
65 TTGCTCCTCTAAACAGAG
*
2414266 GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGGAACTTTGAAAAATAAA
1 GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAATAAA
2414331 TTGCTCCTCTAAACAGAG
65 TTGCTCCTCTAAACAGAG
*
2414349 GCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAAAATAA
1 GCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAATAA
2414411 ATTGCTCCTCTAAACAGAG
64 ATTGCTCCTCTAAACAGAG
2414430 GCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATA
1 GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAATA
2414493 AATTGCTCCTCTAAACAGAG
63 AATTGCTCCTCTAAACAGAG
2414513 GCACCACGACTTTTGAAAAAGTAAAT
1 GCACCACGACTTTTG-AAAAGTAAAT
2414539 ACTCCTAGAC
Statistics
Matches: 262, Mismatches: 2, Indels: 16
0.94 0.01 0.06
Matches are distributed among these distances:
80 8 0.03
81 69 0.26
82 37 0.14
83 130 0.50
84 8 0.03
85 10 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (82 bp):
GCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAAT
TGCTCCTCTAAACAGAG
Found at i:2414392 original size:164 final size:164
Alignment explanation
Indices: 2414187--2414538 Score: 579
Period size: 164 Copynumber: 2.1 Consensus size: 164
2414177 TAAATTGCAC
2414187 CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGAACTTTG-AAAAATAAATTG
1 CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-GAACTTTGAAAAAATAAATTG
*
2414251 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCA-ACGG
65 CTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC-G
2414315 AACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA
128 -ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA
*
2414352 -ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAAAATAAATTG
1 CACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAATAAATTG
2414415 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
65 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGA
2414480 CTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA
129 CTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA
2414516 CCACGACTTTTGAAAAAGTAAAT
1 -CACGACTTTTG-AAAAGTAAAT
2414539 ACTCCTAGAC
Statistics
Matches: 176, Mismatches: 2, Indels: 16
0.91 0.01 0.08
Matches are distributed among these distances:
163 46 0.26
164 107 0.61
165 6 0.03
166 7 0.04
167 10 0.06
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (164 bp):
CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAATAAATTGC
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACT
TTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA
Found at i:2415574 original size:9 final size:9
Alignment explanation
Indices: 2415562--2415630 Score: 81
Period size: 9 Copynumber: 7.7 Consensus size: 9
2415552 CACTTTTTCT
2415562 TTTTTTCCA
1 TTTTTTCCA
2415571 TTTTTTCCA
1 TTTTTTCCA
*
2415580 TTTTTTTTCA
1 -TTTTTTCCA
2415590 -TTTTT-CA
1 TTTTTTCCA
2415597 TCATTTTT-CA
1 T--TTTTTCCA
2415607 TTTTTTCCA
1 TTTTTTCCA
2415616 TTTTTTCCA
1 TTTTTTCCA
2415625 TTTTTT
1 TTTTTT
2415631 TATTTTTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
7 2 0.04
8 10 0.19
9 26 0.48
10 16 0.30
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTTCCA
Found at i:2415576 original size:10 final size:9
Alignment explanation
Indices: 2415555--2415657 Score: 90
Period size: 10 Copynumber: 11.6 Consensus size: 9
2415545 TTTCATTCAC
2415555 TTTTTC-TT
1 TTTTTCATT
2415563 TTTTTCCATT
1 TTTTT-CATT
*
2415573 TTTTCCATTT
1 TTTTTCA-TT
2415583 TTTTTCA--
1 TTTTTCATT
*
2415590 TTTTTCATCA
1 TTTTTCAT-T
2415600 TTTTTCATT
1 TTTTTCATT
*
2415609 TTTTCCATT
1 TTTTTCATT
*
2415618 TTTTCCATT
1 TTTTTCATT
2415627 TTTTT-ATT
1 TTTTTCATT
2415635 TTTTT-ATT
1 TTTTTCATT
*
2415643 TTTTTGTATT
1 TTTTT-CATT
2415653 TTTTT
1 TTTTT
2415658 TCAAGCATAG
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.09
8 21 0.26
9 24 0.29
10 30 0.37
ACGTcount: A:0.11, C:0.13, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:2415635 original size:17 final size:16
Alignment explanation
Indices: 2415550--2415646 Score: 79
Period size: 17 Copynumber: 5.6 Consensus size: 16
2415540 TCCTTTTTCA
* *
2415550 TTCACTTTTTCTTTTT
1 TTCATTTTTTCATTTT
2415566 TTCCATTTTTTCCATTTTTT
1 TT-CATTTTTT-CA--TTTT
2415586 TTCA-TTTTTCATCATTT
1 TTCATTTTTTCAT--TTT
2415603 TTCATTTTTTCCATTTT
1 TTCATTTTTT-CATTTT
*
2415620 TTCCATTTTTTTATTTT
1 TT-CATTTTTTCATTTT
*
2415637 TTTATTTTTT
1 TTCATTTTTT
2415647 TGTATTTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
15 1 0.01
16 9 0.13
17 28 0.41
18 19 0.28
19 5 0.07
20 6 0.09
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCATTTTTTCATTTT
Found at i:2415639 original size:45 final size:47
Alignment explanation
Indices: 2415543--2415631 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
2415533 TGAGTCCTCC
*
2415543 TTTTTCATTCACTTTTTCTTTTTTTCCATTTTTTCCATTTTTTTTCA
1 TTTTTCATTCACTTTTTCATTTTTTCCATTTTTTCCATTTTTTTTCA
2415590 TTTTTCA-TCA-TTTTTCATTTTTTCCATTTTTTCCATTTTTTT
1 TTTTTCATTCACTTTTTCATTTTTTCCATTTTTTCCATTTTTTT
2415632 ATTTTTTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 31 0.76
46 3 0.07
47 7 0.17
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (47 bp):
TTTTTCATTCACTTTTTCATTTTTTCCATTTTTTCCATTTTTTTTCA
Found at i:2415654 original size:8 final size:8
Alignment explanation
Indices: 2415600--2415657 Score: 53
Period size: 9 Copynumber: 6.8 Consensus size: 8
2415590 TTTTTCATCA
*
2415600 TTTTTCAT
1 TTTTTTAT
*
2415608 TTTTTCCAT
1 TTTTT-TAT
*
2415617 TTTTTCCAT
1 TTTTT-TAT
2415626 TTTTTTAT
1 TTTTTTAT
2415634 TTTTTTATT
1 TTTTTTA-T
2415643 TTTTTGTAT
1 TTTTT-TAT
2415652 TTTTTT
1 TTTTTT
2415658 TCAAGCATAG
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
8 15 0.33
9 29 0.63
10 2 0.04
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2418004 original size:3 final size:3
Alignment explanation
Indices: 2417996--2418024 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2417986 ATCTTACAAA
2417996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2418025 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2418210 original size:20 final size:20
Alignment explanation
Indices: 2418187--2418252 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
2418177 CTTACCCATT
* *
2418187 TGGGCCAGGCCCAAATGATC
1 TGGGTCAGGCCCAATTGATC
2418207 TGGGTCAGGCCCAATTGATC
1 TGGGTCAGGCCCAATTGATC
* *
2418227 CGAGTCAGGCCCAATTGATC
1 TGGGTCAGGCCCAATTGATC
*
2418247 CGGGTC
1 TGGGTC
2418253 CGGACCTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.20
Consensus pattern (20 bp):
TGGGTCAGGCCCAATTGATC
Found at i:2420083 original size:20 final size:20
Alignment explanation
Indices: 2420047--2420085 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2420037 CAACTCATAA
*
2420047 ATTAATATGTGTCTAAATTC
1 ATTAATATATGTCTAAATTC
2420067 ATTAATATAT-TCATAAATT
1 ATTAATATATGTC-TAAATT
2420086 TTATGGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTAATATATGTCTAAATTC
Found at i:2421704 original size:18 final size:19
Alignment explanation
Indices: 2421681--2421716 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2421671 CTCTTGAGAC
*
2421681 CTTGAATCTTAAC-GGTTG
1 CTTGAAGCTTAACAGGTTG
2421699 CTTGAAGCTTAACAGGTT
1 CTTGAAGCTTAACAGGTT
2421717 ATCAAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (19 bp):
CTTGAAGCTTAACAGGTTG
Found at i:2422437 original size:17 final size:16
Alignment explanation
Indices: 2422417--2422463 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
2422407 TAATTTTATT
*
2422417 AATATAATATGTATATA
1 AATATAATAT-TAAATA
*
2422434 AATATAAAATTAAATA
1 AATATAATATTAAATA
*
2422450 AA-ATAATATAAAAT
1 AATATAATATTAAAT
2422464 TTAATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 10 0.38
16 7 0.27
17 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AATATAATATTAAATA
Found at i:2422799 original size:16 final size:16
Alignment explanation
Indices: 2422778--2422821 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2422768 AATTAAAAAC
*
2422778 AAAAAATAAAAGTAAA
1 AAAAAATAAAAGCAAA
*
2422794 AAAAAAAAAAAGCAAA
1 AAAAAATAAAAGCAAA
*
2422810 AGAAAAGTAAAA
1 A-AAAAATAAAA
2422822 AAAACAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (16 bp):
AAAAAATAAAAGCAAA
Found at i:2422935 original size:5 final size:5
Alignment explanation
Indices: 2422925--2422955 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
2422915 TATCTTTCGT
*
2422925 TTTTA TTTTA TTTTA ATTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
2422956 GTTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:2424218 original size:1 final size:1
Alignment explanation
Indices: 2424214--2424238 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2424204 AAAATATATT
2424214 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2424239 CCTGATGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2425132 original size:14 final size:15
Alignment explanation
Indices: 2425102--2425140 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
2425092 TATATTTTAT
2425102 TAAAAAAATCATCTA
1 TAAAAAAATCATCTA
* *
2425117 TATAAAAATTAT-TA
1 TAAAAAAATCATCTA
2425131 TAAAAAAATC
1 TAAAAAAATC
2425141 CAAATAAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAAATCATCTA
Found at i:2426706 original size:330 final size:333
Alignment explanation
Indices: 2426036--2426708 Score: 808
Period size: 334 Copynumber: 2.0 Consensus size: 333
2426026 ATTTATTTAA
* * **
2426036 ATTTATATGAATATTGATTTAGACAGTGTATAATTTTTTTATGGTTTCTAAAATTTAGGGATTTA
1 ATTTATATGAATAATGATTTAGACAGTATATAATTTTTTTATAATTTCTAAAATTTAGGGATTTA
* * * * *
2426101 ATTTTTAAAAATTATTTGAATTTTGTAGTTCATATATATGGATAAGAGTGAGGTATAAAATGTCT
66 ATTTATAAAAATTATTTGAATTTTGTAGTTCATATAAATGGATAAGAGTAAGGTATAAAATATCG
* * *
2426166 TTTTTTTTAATTTAAATTAGGATATAATCTATATATTTAAAAAAAAAACTTTTATAAATGTAAAT
131 TTTTTCTGAATTTAAATTAGGATAAAATCTATATATTT----AAAAAACTTTTATAAATGTAAAT
2426231 TTTAAAACTTTAAAATTTTTAAAAATTAAATAAGTAATTAAATAAAATTATTTAAAACTATCATT
192 TTTAAAACTTTAAAATTTTTAAAAATTAAATAAGTAATTAAATAAAATTATTTAAAACTATC---
**
2426296 TGTGTCAATAATATAGATTATTTACCTAAGTGTTCACGTAAATAAACATTTTCAAGTTTCTATGT
254 TGTGTCAATAATATAGATTATCCACCTAAGTGTTCACGTAAATAAACATTTTCAAGTTTCTATGT
*
2426361 ATGTTATAATATAAT
319 ATATTATAATATAAT
** * *
2426376 ATTTATATGAATAATGATTTAGATGGTATATGATTTTTTT-TAATTTCTAAGATTTAGGGATTTA
1 ATTTATATGAATAATGATTTAGACAGTATATAATTTTTTTATAATTTCTAAAATTTAGGGATTTA
* * *
2426440 ATTTAT-AAAATTATTTGAATTCTT-TATTTCATATAAATGTG-TAAGAGTAAGGTATGAGATAT
66 ATTTATAAAAATTATTTGAATT-TTGTAGTTCATATAAATG-GATAAGAGTAAGGTATAAAATAT
* * * ** *
2426502 -GTTTTTCTGGATTTAAATTTGGATAAAA-CTTATATATTT-TAAATGTTTTGGATATATGTAAA
129 CGTTTTTCTGAATTTAAATTAGGATAAAATC-TATATATTTAAAAAACTTTT--ATAAATGTAAA
* * * *
2426564 TTTTGAAACTTTAAAATTTTTAAAAATTGAATAATTAATTAAATTAAATTATTTAAAACTATC-G
191 TTTTAAAACTTTAAAATTTTTAAAAATTAAATAAGTAATTAAATAAAATTATTTAAAACTATCTG
* * * * *
2426628 TGTCAATAATATAGATTGTCCACTTAATTG-TCTACGTAAATAAA-TTTTATCAAGTTTTTATGT
256 TGTCAATAATATAGATTATCCACCTAAGTGTTC-ACGTAAATAAACATTT-TCAAGTTTCTATGT
*
2426691 ATATTGTAATATAAT
319 ATATTATAATATAAT
2426706 ATT
1 ATT
2426709 ACATATGATT
Statistics
Matches: 288, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
329 5 0.02
330 66 0.23
332 7 0.02
334 69 0.24
336 1 0.00
337 31 0.11
338 45 0.16
339 29 0.10
340 35 0.12
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (333 bp):
ATTTATATGAATAATGATTTAGACAGTATATAATTTTTTTATAATTTCTAAAATTTAGGGATTTA
ATTTATAAAAATTATTTGAATTTTGTAGTTCATATAAATGGATAAGAGTAAGGTATAAAATATCG
TTTTTCTGAATTTAAATTAGGATAAAATCTATATATTTAAAAAACTTTTATAAATGTAAATTTTA
AAACTTTAAAATTTTTAAAAATTAAATAAGTAATTAAATAAAATTATTTAAAACTATCTGTGTCA
ATAATATAGATTATCCACCTAAGTGTTCACGTAAATAAACATTTTCAAGTTTCTATGTATATTAT
AATATAAT
Found at i:2428510 original size:19 final size:19
Alignment explanation
Indices: 2428477--2428528 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
2428467 TATAGCATAT
*
2428477 ATATAAA-TATATTTAATA
1 ATATAAATTTTATTTAATA
*
2428495 A-ATTAATTTTTATTTAATA
1 ATA-TAAATTTTATTTAATA
2428514 ATATAAATTTTATTT
1 ATATAAATTTTATTT
2428529 TAAATTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.14
19 22 0.79
20 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATAAATTTTATTTAATA
Found at i:2429284 original size:22 final size:22
Alignment explanation
Indices: 2429259--2429307 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2429249 GAAAAAAATA
*
2429259 AAATTTTTAAGTAAAATTTATG
1 AAATTTTTAAGTAAAATTAATG
* * *
2429281 AAATTTTTTATTAAAATTAATT
1 AAATTTTTAAGTAAAATTAATG
2429303 AAATT
1 AAATT
2429308 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
AAATTTTTAAGTAAAATTAATG
Found at i:2429335 original size:14 final size:14
Alignment explanation
Indices: 2429290--2429338 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
2429280 GAAATTTTTT
*
2429290 ATTAAAATTAATTAA
1 ATTAAAATTTA-TAA
*
2429305 ATTAAATTTTA-AA
1 ATTAAAATTTATAA
*
2429318 ATTAAAATTTATAG
1 ATTAAAATTTATAA
2429332 ATTAAAA
1 ATTAAAA
2429339 AATTTTGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 12 0.41
14 8 0.28
15 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATTAAAATTTATAA
Found at i:2433308 original size:33 final size:33
Alignment explanation
Indices: 2433262--2433326 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2433252 ATTTAAACCA
* *
2433262 TCGGTGCTTCTTCGGCCGGGGAGAGGTTCTCTT
1 TCGGTGCTCCTTCGGCCGGGGAAAGGTTCTCTT
2433295 TCGGTGCTCCTTCGGCCGGGGAAAGGTTCTCT
1 TCGGTGCTCCTTCGGCCGGGGAAAGGTTCTCT
2433327 CTCTCTCGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.08, C:0.26, G:0.35, T:0.31
Consensus pattern (33 bp):
TCGGTGCTCCTTCGGCCGGGGAAAGGTTCTCTT
Found at i:2433329 original size:2 final size:2
Alignment explanation
Indices: 2433322--2433356 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2433312 GGGGAAAGGT
*
2433322 TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2433357 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
TC
Found at i:2439798 original size:24 final size:21
Alignment explanation
Indices: 2439765--2439811 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
2439755 TATAATATGT
*
2439765 AAAATAAATATATAATATTTTAA
1 AAAATAAATAAATAA-A-TTTAA
2439788 AAAATCAAATAAATAAATTTAA
1 AAAAT-AAATAAATAAATTTAA
2439810 AA
1 AA
2439812 GTATAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAAATAAATAAATTTAA
Found at i:2439808 original size:22 final size:23
Alignment explanation
Indices: 2439765--2439828 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
2439755 TATAATATGT
*
2439765 AAAATAAATATATAATATTTTAA
1 AAAATAAATAAATAATATTTTAA
2439788 AAAATCAAATAAATAA-A-TTT-A
1 AAAAT-AAATAAATAATATTTTAA
* *
2439809 AAAGTATAACAAATAATATT
1 AAAATA-AATAAATAATATT
2439829 ATCAATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 4 0.12
23 7 0.21
24 9 0.26
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATAAATAAATAATATTTTAA
Found at i:2440164 original size:7 final size:7
Alignment explanation
Indices: 2440154--2440180 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2440144 AATTATAAAA
2440154 TATATTT
1 TATATTT
2440161 TATATTT
1 TATATTT
2440168 TATATTT
1 TATATTT
2440175 TATATT
1 TATATT
2440181 CATATACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATATTT
Found at i:2443647 original size:20 final size:20
Alignment explanation
Indices: 2443622--2443659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2443612 ATTTTTTTTA
2443622 TTATTTAA-AAAAATAAAAAT
1 TTATTTAAGAAAAA-AAAAAT
2443642 TTATTTAAGAAAAAAAAA
1 TTATTTAAGAAAAAAAAA
2443660 CTTAAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TTATTTAAGAAAAAAAAAAT
Found at i:2444129 original size:41 final size:41
Alignment explanation
Indices: 2444084--2444214 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
2444074 TGGGATTCTA
*
2444084 TTATTACTT-TTAATTGCTTAAATTTATAGTTAAAGTTTTTG
1 TTATTA-TTCTTAATTGCTTAAATTTATAGTTAAGGTTTTTG
* * * *
2444125 TTATTGTTCTTAATTACTCAAATTTATATTTAAGGTTTTTTG
1 TTATTATTCTTAATTGCTTAAATTTATAGTTAAGG-TTTTTG
* * *
2444167 TTGTTATTCTTAATTG-TTCAAATTTATAGTTGAGGTTTTTA
1 TTATTATTCTTAATTGCTT-AAATTTATAGTTAAGGTTTTTG
2444208 TT-TTATT
1 TTATTATT
2444215 TTCAAAGTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 7 0.09
41 35 0.47
42 33 0.44
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (41 bp):
TTATTATTCTTAATTGCTTAAATTTATAGTTAAGGTTTTTG
Found at i:2444178 original size:42 final size:42
Alignment explanation
Indices: 2444084--2444206 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
2444074 TGGGATTCTA
* *
2444084 TTATTACTT-TTAATTGCTTAAATTTATAGTTAAAG-TTTTTG
1 TTATTA-TTCTTAATTGCTCAAATTTATAGTTAAGGTTTTTTG
* * *
2444125 TTATTGTTCTTAATTACTCAAATTTATATTTAAGGTTTTTTG
1 TTATTATTCTTAATTGCTCAAATTTATAGTTAAGGTTTTTTG
* * *
2444167 TTGTTATTCTTAATTGTTCAAATTTATAGTTGAGGTTTTT
1 TTATTATTCTTAATTGCTCAAATTTATAGTTAAGGTTTTT
2444207 ATTTTATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.03
41 27 0.39
42 40 0.58
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (42 bp):
TTATTATTCTTAATTGCTCAAATTTATAGTTAAGGTTTTTTG
Found at i:2445235 original size:29 final size:30
Alignment explanation
Indices: 2445186--2445254 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
2445176 AATTAATAAA
2445186 TTTATAATTTAAATACCACATTAAATATTT
1 TTTATAATTTAAATACCACATTAAATATTT
**
2445216 TTTA-AATTTAAATATTACATTAAATATTT
1 TTTATAATTTAAATACCACATTAAATATTT
2445245 TATTATAATT
1 T-TTATAATT
2445255 CATATGAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 24 0.69
30 7 0.20
31 4 0.11
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTATAATTTAAATACCACATTAAATATTT
Found at i:2446780 original size:34 final size:31
Alignment explanation
Indices: 2446742--2446806 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 31
2446732 ATATTTTATA
2446742 TTTATATGTTAACATAAATTATAATATGATAATT
1 TTTATAT-TTAACATAAATT-TAATATGA-AATT
* * *
2446776 TTTATATTTTATATATATTTAATATGAAATT
1 TTTATATTTAACATAAATTTAATATGAAATT
2446807 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.14
32 8 0.29
33 9 0.32
34 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTATATTTAACATAAATTTAATATGAAATT
Found at i:2446801 original size:32 final size:32
Alignment explanation
Indices: 2446763--2446824 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2446753 ACATAAATTA
* * *
2446763 TAATATGATAATTTTTATATTT-TATATATATT
1 TAATATGA-AATTATAAAATTTATATATATATT
2446795 TAATATGAAATTATAAAATTTATATATATA
1 TAATATGAAATTATAAAATTTATATATATA
2446825 AGTTGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
TAATATGAAATTATAAAATTTATATATATATT
Found at i:2446850 original size:22 final size:22
Alignment explanation
Indices: 2446808--2446850 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2446798 TATGAAATTA
* *
2446808 TAAAATTTATATATATAAGTTG
1 TAAAATCTATATATAAAAGTTG
2446830 TAAAATCTATATA-AAACAGTT
1 TAAAATCTATATATAAA-AGTT
2446851 TTTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAAATCTATATATAAAAGTTG
Found at i:2448493 original size:13 final size:14
Alignment explanation
Indices: 2448477--2448505 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2448467 AAATGAAAAC
2448477 AAAAAA-TAAAATG
1 AAAAAAGTAAAATG
2448490 AAAAAAGTAAAATG
1 AAAAAAGTAAAATG
2448504 AA
1 AA
2448506 TACCTGCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AAAAAAGTAAAATG
Found at i:2448494 original size:19 final size:20
Alignment explanation
Indices: 2448456--2448493 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
2448446 ATTTATAAAT
2448456 CAAATAAATAAAAATGAAAA
1 CAAATAAATAAAAATGAAAA
2448476 CAAA-AAAT-AAAATGAAAA
1 CAAATAAATAAAAATGAAAA
2448494 AAGTAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (20 bp):
CAAATAAATAAAAATGAAAA
Found at i:2460326 original size:26 final size:25
Alignment explanation
Indices: 2460266--2460332 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 25
2460256 ATATAAAAAG
* *
2460266 TTTTAT-TTTAAATTAATTATTTAA
1 TTTTATATTTATATTAATTATATAA
* *
2460290 TTTTTTATTTATATATATTTATATAA
1 TTTTATATTTATAT-TAATTATATAA
2460316 TTTTATATTTATATTAA
1 TTTTATATTTATATTAA
2460333 AAAAATAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 5 0.14
25 8 0.23
26 22 0.63
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTATATTTATATTAATTATATAA
Found at i:2465647 original size:18 final size:18
Alignment explanation
Indices: 2465626--2465689 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
2465616 AAATTTCAAA
*
2465626 AAAAAATAAAAAGTTTTT
1 AAAAAATAAAAATTTTTT
** *
2465644 AAAATTTTAAAATTTTTT
1 AAAAAATAAAAATTTTTT
* **
2465662 AAAACATCTAAATTATTTT
1 AAAAAATAAAAATT-TTTT
2465681 AAAAAATAA
1 AAAAAATAA
2465690 GAAAATTACA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAAATAAAAATTTTTT
Found at i:2465738 original size:20 final size:20
Alignment explanation
Indices: 2465713--2465750 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2465703 ACTTAAAAAT
2465713 TAAAAAATAAAAAAATTTAA
1 TAAAAAATAAAAAAATTTAA
* *
2465733 TAAAAATTTAAAAAATTT
1 TAAAAAATAAAAAAATTT
2465751 TAAAGATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAATAAAAAAATTTAA
Found at i:2465752 original size:10 final size:10
Alignment explanation
Indices: 2465720--2465754 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2465710 AATTAAAAAA
2465720 TAAAAAAATT
1 TAAAAAAATT
2465730 TAATAAAAATT
1 TAA-AAAAATT
*
2465741 TAAAAAATTT
1 TAAAAAAATT
2465751 TAAA
1 TAAA
2465755 GATGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:2469205 original size:36 final size:36
Alignment explanation
Indices: 2469165--2469238 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
2469155 TTTAAAAGAC
* *
2469165 ATCATTTAGTTGAATTATATTGAGAGAATAAAAGTT
1 ATCATTCAGTTGAATTATACTGAGAGAATAAAAGTT
* *
2469201 ATCATTCAGTTGAATTATACTGATAGAATGAAAGTT
1 ATCATTCAGTTGAATTATACTGAGAGAATAAAAGTT
2469237 AT
1 AT
2469239 GTTATTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (36 bp):
ATCATTCAGTTGAATTATACTGAGAGAATAAAAGTT
Found at i:2473390 original size:55 final size:54
Alignment explanation
Indices: 2473331--2473465 Score: 137
Period size: 56 Copynumber: 2.4 Consensus size: 54
2473321 TATAGGTAAA
**
2473331 AAAAT-TACAAATCTATACTGACAGGCGTTAACCATCAGTATAGGTCAAAAAAATT
1 AAAATATA-AAATCTATACTGACAGGCACTAACCATCAGTATAGGTC-AAAAAATT
* * * * ** *
2473386 AAAATATATAAGTCTATATTAACGGGCACTAGGCATTAGTATAGGTCAAAAAATT
1 AAAATATA-AAATCTATACTGACAGGCACTAACCATCAGTATAGGTCAAAAAATT
*
2473441 AAAATGTAAAACTCTATACTGACAG
1 AAAATATAAAA-TCTATACTGACAG
2473466 ACTTTAAGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
54 2 0.03
55 30 0.48
56 31 0.49
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (54 bp):
AAAATATAAAATCTATACTGACAGGCACTAACCATCAGTATAGGTCAAAAAATT
Found at i:2473402 original size:56 final size:55
Alignment explanation
Indices: 2473342--2473465 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 55
2473332 AAATTACAAA
** * *
2473342 TCTATACTGACAGGCGTTAACCATCAGTATAGGTCAAAAAAATTAAAATATATAAG
1 TCTATACTGACAGGCACTAACCATCAGTATAGGTC-AAAAAATTAAAATATAAAAC
* * * ** * *
2473398 TCTATATTAACGGGCACTAGGCATTAGTATAGGTCAAAAAATTAAAATGTAAAAC
1 TCTATACTGACAGGCACTAACCATCAGTATAGGTCAAAAAATTAAAATATAAAAC
2473453 TCTATACTGACAG
1 TCTATACTGACAG
2473466 ACTTTAAGTG
Statistics
Matches: 54, Mismatches: 14, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
55 27 0.50
56 27 0.50
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (55 bp):
TCTATACTGACAGGCACTAACCATCAGTATAGGTCAAAAAATTAAAATATAAAAC
Found at i:2473521 original size:159 final size:159
Alignment explanation
Indices: 2473260--2473561 Score: 353
Period size: 159 Copynumber: 1.9 Consensus size: 159
2473250 AGTTTCTAAC
* * * *
2473260 CATTGGTATAGGCAAAAAAATTAAAAAATATAAGTCTATACTGATGAATGTTAAGTATCGATATA
1 CATTAGTATAGGCAAAAAAATTAAAAAATAAAACTCTATACTGAAGAATGTTAAGTATCGATATA
* * *
2473325 GGTAAAAAAATTACAAATCTATACTGACAGGCGTTAACCATCAGTATAGGTCAA-AAAAATTAAA
66 GGTAAAAAAATTACAAATCTATACTAACAGGCATTAACCATCAGTATAAGT-AAGAAAAATTAAA
* *
2473389 ATATATAAGTCTATATTAACGGGCACTAGG
130 ACATACAAGTCTATATTAACGGGCACTAGG
** * * * *
2473419 CATTAGTATAGGTC-AAAAAATTAAAATGTAAAACTCTATACTGACAGACT-TTAAGTGTTGGTA
1 CATTAGTATAGG-CAAAAAAATTAAAAAATAAAACTCTATACTGA-AGAATGTTAAGTATCGATA
* * * *
2473482 TAGGTAAAAAAATTA-AAAGTCTATATTAAC-GATCATTAACCATCGGTATAAGTAAGAAAACTT
64 TAGGTAAAAAAATTACAAA-TCTATACTAACAG-GCATTAACCATCAGTATAAGTAAGAAAAATT
2473545 AAAACATACAAGTCTAT
127 AAAACATACAAGTCTAT
2473562 GCTGACGGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
158 6 0.05
159 109 0.92
160 4 0.03
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (159 bp):
CATTAGTATAGGCAAAAAAATTAAAAAATAAAACTCTATACTGAAGAATGTTAAGTATCGATATA
GGTAAAAAAATTACAAATCTATACTAACAGGCATTAACCATCAGTATAAGTAAGAAAAATTAAAA
CATACAAGTCTATATTAACGGGCACTAGG
Found at i:2474663 original size:2 final size:2
Alignment explanation
Indices: 2474656--2474681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2474646 AATAATTCTA
2474656 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2474682 GTCATTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2475310 original size:28 final size:28
Alignment explanation
Indices: 2475270--2475329 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
2475260 AAATTTCATA
2475270 AGAAGAAATCATGATAAGTACCAAAGTT
1 AGAAGAAATCATGATAAGTACCAAAGTT
*
2475298 AGAAGAAATCATGATAAGTACCAAGGTT
1 AGAAGAAATCATGATAAGTACCAAAGTT
2475326 AGAA
1 AGAA
2475330 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (28 bp):
AGAAGAAATCATGATAAGTACCAAAGTT
Found at i:2476516 original size:16 final size:16
Alignment explanation
Indices: 2476495--2476534 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
2476485 CAATTTGAGT
2476495 TTTGAATTGTTTCAAG
1 TTTGAATTGTTTCAAG
2476511 TTTGAATTGTTTCAAG
1 TTTGAATTGTTTCAAG
2476527 TTTGAATT
1 TTTGAATT
2476535 TATTAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTGAATTGTTTCAAG
Found at i:2483553 original size:2 final size:2
Alignment explanation
Indices: 2483548--2483589 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2483538 TGTGTGTGTG
2483548 TA TA TA TA TA TA TA 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
2483589 T
1 T
2483590 TTTTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2483643 original size:24 final size:25
Alignment explanation
Indices: 2483616--2483687 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 25
2483606 AATTTTATAT
2483616 TTATATATTATATTAA-TAAAATTA
1 TTATATATTATATTAATTAAAATTA
* * *
2483640 TTATTTAATATTTTAATTTAAAA-TA
1 TTATATATTATATTAA-TTAAAATTA
2483665 TTATAT-TTATATATAATTAAAAT
1 TTATATATTATAT-TAATTAAAAT
2483688 GTAATTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
24 23 0.61
25 10 0.26
26 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATATTATATTAATTAAAATTA
Found at i:2485844 original size:38 final size:38
Alignment explanation
Indices: 2485764--2485844 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
2485754 GATTTTTGTT
* * *** *
2485764 TTTTTTTTTGGTCTAAAGCAGTCTATTTCGTTTGATTT
1 TTTTTTTTTGGTCTAAAGCAATCTATTTCCTACCATTA
2485802 TTTTTTTTTGGTCTAAAGCAATCTATTTCCTACCATTA
1 TTTTTTTTTGGTCTAAAGCAATCTATTTCCTACCATTA
2485840 TTTTT
1 TTTTT
2485845 AAATTCTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.57
Consensus pattern (38 bp):
TTTTTTTTTGGTCTAAAGCAATCTATTTCCTACCATTA
Done.