Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, 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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 59 of 73
Found at i:13635755 original size:20 final size:21
Alignment explanation
Indices: 13635719--13635757 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
13635709 TCGATACCAC
13635719 CCTACGAGTATCAATACCTTA
1 CCTACGAGTATCAATACCTTA
13635740 CCTAC-AGTAT-AGATACCT
1 CCTACGAGTATCA-ATACCT
13635758 ATTGCATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
CCTACGAGTATCAATACCTTA
Found at i:13642476 original size:19 final size:19
Alignment explanation
Indices: 13642430--13642482 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
13642420 CTAGCCCAAG
*
13642430 AGTATCGATACTCCTACAAA
1 AGTATCGATACT-TTACAAA
* * *
13642450 AGTTTCGATACTTTATATA
1 AGTATCGATACTTTACAAA
13642469 AGTATCGATACTTT
1 AGTATCGATACTTT
13642483 TAAACATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
AGTATCGATACTTTACAAA
Found at i:13647485 original size:2 final size:2
Alignment explanation
Indices: 13647480--13647524 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13647470 TATATATATA
13647480 TG TG 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 TG TG
13647522 TG T
1 TG T
13647525 CATAAAAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:13648251 original size:21 final size:21
Alignment explanation
Indices: 13648227--13648270 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13648217 AAATTAGTTA
*
13648227 ATTAATTTTTTAGTATAAATT
1 ATTAATTTGTTAGTATAAATT
* * *
13648248 ATTACTTTGTTAGTTTAAGTT
1 ATTAATTTGTTAGTATAAATT
13648269 AT
1 AT
13648271 ATTATATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
ATTAATTTGTTAGTATAAATT
Found at i:13648894 original size:21 final size:21
Alignment explanation
Indices: 13648868--13648951 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
13648858 CTTGAAGCCT
13648868 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
* * *
13648889 GGGGGAATCTGTTCCCCCTAG
1 GGGGGAATCGGTACCCCCTGG
*
13648910 GGGGGAATTGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
* *
13648931 GGGGGAATCTGTACCCACTGG
1 GGGGGAATCGGTACCCCCTGG
13648952 ACATTCTGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.15, C:0.26, G:0.39, T:0.19
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:13651768 original size:20 final size:21
Alignment explanation
Indices: 13651730--13651771 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13651720 ACCGTTAGAC
13651730 AGGGGGAATCGGTACCCCCTG
1 AGGGGGAATCGGTACCCCCTG
*
13651751 AGGGGGAATCTGTACCCCCTG
1 AGGGGGAATCGGTACCCCCTG
13651772 GACAATCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.17
Consensus pattern (21 bp):
AGGGGGAATCGGTACCCCCTG
Found at i:13652647 original size:84 final size:83
Alignment explanation
Indices: 13652490--13652680 Score: 278
Period size: 84 Copynumber: 2.3 Consensus size: 83
13652480 AGTTAGTTAG
* *
13652490 TTATTTTATATTAGAGTATATAAAATTAATTTGTTTAATTTATTCCCGTTTAAAAAAAATATTGT
1 TTATTTTATATTAGATTATATAAAATTAATTTGTTTAATTTATTCCAGTTTAAAAAAAATATTGT
13652555 GTTT-AAAAATATTTAATGT
66 GTTTAAAAAATATTT--TGT
* * *
13652574 TTATTTTATATTAGATTATATAAAATTAATTTGTTTAATTTATTCCAGTTTAAAAATAGTGTTGT
1 TTATTTTATATTAGATTATATAAAATTAATTTGTTTAATTTATTCCAGTTTAAAAAAAATATTGT
13652639 -TTTAAAAAAAATATTTTGT
66 GTTT--AAAAAATATTTTGT
*
13652658 TTAATTTATATTAGATTATATAA
1 TTATTTTATATTAGATTATATAA
13652681 TCTTAAATTT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
83 3 0.03
84 85 0.87
86 10 0.10
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (83 bp):
TTATTTTATATTAGATTATATAAAATTAATTTGTTTAATTTATTCCAGTTTAAAAAAAATATTGT
GTTTAAAAAATATTTTGT
Found at i:13655680 original size:22 final size:22
Alignment explanation
Indices: 13655653--13655729 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
13655643 TGATTAGTAA
13655653 TAATGAAATTATTATTAATATT
1 TAATGAAATTATTATTAATATT
* *
13655675 TAATG-ATTTGA-TAGTAATGATTAGT
1 TAATGAAATT-ATTATTAAT-A-T--T
13655700 AATAATGAAATTATTATTAATATT
1 --TAATGAAATTATTATTAATATT
13655724 TAATGA
1 TAATGA
13655730 TTTGGTAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 9 0.21
22 13 0.31
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 7 0.17
28 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
TAATGAAATTATTATTAATATT
Found at i:13655692 original size:49 final size:49
Alignment explanation
Indices: 13655578--13655973 Score: 537
Period size: 49 Copynumber: 8.3 Consensus size: 49
13655568 TTTGATTTAG
* * * * *
13655578 TAATGATTTGATAATCATGATT--TAATAATTAATTTA-TATTTAAAATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTA-TTAATATT
* *
13655625 GTAATAATTAT-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 -TAATGATT-TGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
13655675 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
13655724 TAATGATTTGGTAGTAATGATTAGTAATAATGAAATTATTTTTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * *
13655773 TAATGATTTGGTAGTAATGATTAGTAATAATAAAATTATTTTTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
13655822 TAATGATTTGGTAGTAATGATTAGTAATAATAAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
13655871 TAATGATTTGGTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
13655920 TAATAATTTGATAGTAATGATT--TAATAATG-----ATT-TTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
13655961 TAATGATTTGATA
1 TAATGATTTGATA
13655974 ATTTAGTATT
Statistics
Matches: 326, Mismatches: 17, Indels: 17
0.91 0.05 0.05
Matches are distributed among these distances:
41 20 0.06
42 3 0.01
47 8 0.02
48 17 0.05
49 257 0.79
50 19 0.06
51 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:13655923 original size:22 final size:21
Alignment explanation
Indices: 13655898--13655964 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
13655888 TGATTAGTAA
13655898 TAATGAAATTATTATTAATATT
1 TAAT-AAATTATTATTAATATT
* *
13655920 TAATAATTTGA-TAGTAATGATT
1 TAATAAATT-ATTATTAAT-ATT
*
13655942 TAAT-AATGATT-TTAATATT
1 TAATAAATTATTATTAATATT
13655961 TAAT
1 TAAT
13655965 GATTTGATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
19 7 0.19
20 5 0.14
21 13 0.35
22 12 0.32
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
TAATAAATTATTATTAATATT
Found at i:13656013 original size:26 final size:26
Alignment explanation
Indices: 13655985--13656188 Score: 279
Period size: 26 Copynumber: 8.0 Consensus size: 26
13655975 TTTAGTATTA
* *
13655985 ATTTGATAATAATCATTATAATAATA
1 ATTTAATAATAATCATTATAATAATG
* *
13656011 ATTTAGTAATAATTATTATAATAATG
1 ATTTAATAATAATCATTATAATAATG
*
13656037 ATTTAGTAATAATCATTATAATAATG
1 ATTTAATAATAATCATTATAATAATG
13656063 ATTTAATAATAATCATTATAATAATG
1 ATTTAATAATAATCATTATAATAATG
*
13656089 ATTTAATAATAATTATTATAATAATG
1 ATTTAATAATAATCATTATAATAATG
* *
13656115 ATTTAATAGTAATGATT-TAATAATG
1 ATTTAATAATAATCATTATAATAATG
* *
13656140 ATTTAGTAATGAT-ATTATAATAATG
1 ATTTAATAATAATCATTATAATAATG
* *
13656165 ATTTAATACTAATGATT-TAATAAT
1 ATTTAATAATAATCATTATAATAAT
13656189 TATTACTAAA
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
24 3 0.02
25 43 0.27
26 115 0.71
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
ATTTAATAATAATCATTATAATAATG
Found at i:13656355 original size:17 final size:17
Alignment explanation
Indices: 13656315--13656356 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
13656305 AATGATTGAG
13656315 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
13656332 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
13656349 TAATTATT
1 TAATTATT
13656357 TAATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:13658737 original size:22 final size:22
Alignment explanation
Indices: 13658712--13658760 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
13658702 ACAACTAATA
13658712 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
*
13658734 AACTATTTTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
13658756 AACTA
1 AACTA
13658761 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (22 bp):
AACTATTCTTTAATATAACTTT
Found at i:13658738 original size:30 final size:29
Alignment explanation
Indices: 13658704--13658811 Score: 122
Period size: 30 Copynumber: 3.9 Consensus size: 29
13658694 TCCCTTAAAC
13658704 AACTAATAAACTATTCTTTAATATAACTTT
1 AACTAATAAACTATT-TTTAATATAACTTT
13658734 AAC---T--A-T-TTTTTAATATAACTTT
1 AACTAATAAACTATTTTTAATATAACTTT
*
13658756 AACTAATAAACTATTCTTTAATATAACTTA
1 AACTAATAAACTATT-TTTAATATAACTTT
*
13658786 AACTAATAAACGATTTTTAATTATAA
1 AACTAATAAACTATTTTTAA-TATAA
13658812 TTGACTACTA
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
22 17 0.25
23 2 0.03
24 1 0.01
25 2 0.03
27 2 0.03
28 1 0.01
29 7 0.10
30 35 0.52
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (29 bp):
AACTAATAAACTATTTTTAATATAACTTT
Found at i:13659033 original size:21 final size:21
Alignment explanation
Indices: 13659009--13659048 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13658999 TTTCTATATG
*
13659009 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACAAACAATA
13659030 ATATAACTTAAACAAACAA
1 ATATAACTTAAACAAACAA
13659049 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATAACTTAAACAAACAATA
Found at i:13659268 original size:27 final size:29
Alignment explanation
Indices: 13659233--13659297 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
13659223 AAAATATAAC
*
13659233 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
13659260 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
13659288 TTAATTATTT
1 TTAAATATTT
13659298 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:13659410 original size:21 final size:20
Alignment explanation
Indices: 13659362--13659410 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
13659352 ATATAACTTA
13659362 AACTAAACTAACAATAATAT
1 AACTAAACTAACAATAATAT
13659382 AACTTAAACTAACAAACTAAT-T
1 AAC-TAAACTAAC-AA-TAATAT
13659404 AACTAAA
1 AACTAAA
13659411 ATTTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 6 0.23
23 4 0.15
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACTAAACTAACAATAATAT
Found at i:13659419 original size:348 final size:343
Alignment explanation
Indices: 13658767--13659423 Score: 900
Period size: 348 Copynumber: 1.9 Consensus size: 343
13658757 ACTAATAAAC
* * *
13658767 TATTCTTTAATATAACTTAAACTAATAAACGATTTTTAATTATAATTGACTACTAAAAAACTAAT
1 TATTCTTTAATATAACTTAAACTAATAAACGATTTTTAATTAAAATTAAATACTAAAAAACTAAT
13658832 TAACTAAATTTTTTATATAAATATAAATTCAACAAACAAATATAACTTAACTATTTAACTAACAC
66 TAACTAAATTTTTTATATAAATATAAATTCAACAAACAAATATAACTTAACTATTTAACTAACAC
*
13658897 AAACTAATTACATATTTTTTTATATATACTAACGACTAACAAACTAACTAATTATTTTTATTAAT
131 AAACTAATTACATA-----TTATATAGACTAAC-ACTAACAAACTAACTAATTATTTTTATTAAT
* * * * *
13658962 ATGTAACTATCAAACATACTAATTAAATAATTTTTTATTTCTATATGATATAACTTAAACTAACA
190 ATATAACCATCAAACAAACTAATTAAATAATTTTATATTTATATATGATATAACTTAAACTAACA
**
13659027 ATAATATAACTTAAACAAACAAACTAATTAACTAATTTTTTGTTTTACCCTAATTTATAATAATA
255 ATAATATAACTTAAACAAACAAACTAATTAACTAAAATTTTGTTTTACCCTAATTTATAATAATA
13659092 AACTAATTAACTAATTTAAATAAT
320 AACTAATTAACTAATTTAAATAAT
* * *
13659116 TATTCTTTTATATAACTTAAACTAATAAACTATTTTTTATTATAATAAAACTTAAAATACTAATA
1 TATTCTTTAATATAACTTAAACTAATAAACGA-TTTTTA--AT--TAAAA-TT-AAATACTAAAA
*
13659181 AACTAATTAACT-AATTTTTTATAT-AATATAAATTCAACAACCAAAATATAACTTAACTATTTA
59 AACTAATTAACTAAATTTTTTATATAAATATAAATTCAACAAAC-AAATATAACTTAACTATTTA
* *
13659244 ACTAACTACAAACTAATTA-A-A-TAT-TAGACT-A-ACTAACACACTAATTAATTATTTTT-TT
123 ACTAAC-ACAAACTAATTACATATTATATAGACTAACACTAACAAACTAACTAATTATTTTTATT
*
13659302 AATATATAACCATCAAACAAACTAATTAAATAATTTTATATTTATGTATGATATAACTTAAACTA
187 AATATATAACCATCAAACAAACTAATTAAATAATTTTATATTTATATATGATATAAC-T----TA
*
13659367 AACTAACAATAATATAACTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTACC
247 AACTAACAATAATATAACTTAAACAAACAAACTAATTAACTAAAATTTTGTTTTACC
13659424 TTAAACTAAC
Statistics
Matches: 275, Mismatches: 19, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
343 53 0.19
344 24 0.09
346 1 0.00
347 5 0.02
348 59 0.21
349 30 0.11
350 6 0.02
352 2 0.01
354 22 0.08
355 41 0.15
356 32 0.12
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (343 bp):
TATTCTTTAATATAACTTAAACTAATAAACGATTTTTAATTAAAATTAAATACTAAAAAACTAAT
TAACTAAATTTTTTATATAAATATAAATTCAACAAACAAATATAACTTAACTATTTAACTAACAC
AAACTAATTACATATTATATAGACTAACACTAACAAACTAACTAATTATTTTTATTAATATATAA
CCATCAAACAAACTAATTAAATAATTTTATATTTATATATGATATAACTTAAACTAACAATAATA
TAACTTAAACAAACAAACTAATTAACTAAAATTTTGTTTTACCCTAATTTATAATAATAAACTAA
TTAACTAATTTAAATAAT
Found at i:13659429 original size:39 final size:39
Alignment explanation
Indices: 13659384--13659468 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
13659374 AATAATATAA
13659384 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
*
13659423 CTTAAACTAACTAACTAATTAACTAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
13659462 CTTAAAC
1 CTTAAAC
13659469 CATAAACCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.39
Consensus pattern (39 bp):
CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
Found at i:13659524 original size:9 final size:9
Alignment explanation
Indices: 13659492--13659529 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
13659482 CTAACAAACT
13659492 AATAATTTAA
1 AATAA-TTAA
13659502 AATAA-TAA
1 AATAATTAA
*
13659510 ACTAATTAA
1 AATAATTAA
13659519 AATAATTAA
1 AATAATTAA
13659528 AA
1 AA
13659530 AACTTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:13662579 original size:16 final size:16
Alignment explanation
Indices: 13662560--13662592 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13662550 TAAAAACAGT
13662560 AAATAAAAAGAAAATA
1 AAATAAAAAGAAAATA
*
13662576 AAATAAAAAGAAGATA
1 AAATAAAAAGAAAATA
13662592 A
1 A
13662593 TCCTCACGTG
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:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:13671119 original size:98 final size:97
Alignment explanation
Indices: 13670951--13671148 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 97
13670941 AAGGGAATTT
13670951 TGGGCTCAAAACCTAGGAAATTCATAGTATAAATAGCTAAGGATACCCTACATTTAAGGGAGCTT
1 TGGGCTCAAAACCTAGGAAATTCATAGTATAAATAGCTAAGGATACCCTACATTTAAGGGAGCTT
13671016 TTTAGAAAGTGACCTAAGGAATAGAAATGAGG
66 TTTAGAAAGTGACCTAAGGAATAGAAATGAGG
13671048 TGGGCTCAAAACCTAGGAAATTCCATAGTATAAATAGCTAAGGATACCCTACATTTAAGGGAGCT
1 TGGGCTCAAAACCTAGGAAATT-CATAGTATAAATAGCTAAGGATACCCTACATTTAAGGGAGCT
13671113 TTTTAGAAAGTGACCTAAGGAATAGAAATGAGG
65 TTTTAGAAAGTGACCTAAGGAATAGAAATGAGG
13671146 TGG
1 TGG
13671149 CAGCTCACAA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 22 0.22
98 78 0.78
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (97 bp):
TGGGCTCAAAACCTAGGAAATTCATAGTATAAATAGCTAAGGATACCCTACATTTAAGGGAGCTT
TTTAGAAAGTGACCTAAGGAATAGAAATGAGG
Found at i:13681351 original size:45 final size:46
Alignment explanation
Indices: 13681270--13681369 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 46
13681260 CCTCGAATTT
*
13681270 ATTTATTTTTGCAAAAAGTATGCGAACTAGAGATCATGTGGTTAGG
1 ATTTATTTTTGCAAAAAGCATGCGAACTAGAGATCATGTGGTTAGG
* * * *
13681316 -TTTATTTTT-CGAACAAGCATGTGAATTAGATATCATGTGGTTAGG
1 ATTTATTTTTGC-AAAAAGCATGCGAACTAGAGATCATGTGGTTAGG
*
13681361 ATTTGTTTT
1 ATTTATTTT
13681370 GTAAATGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 1 0.02
45 38 0.83
46 7 0.15
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (46 bp):
ATTTATTTTTGCAAAAAGCATGCGAACTAGAGATCATGTGGTTAGG
Found at i:13681757 original size:55 final size:55
Alignment explanation
Indices: 13681673--13681779 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
13681663 TGTTCAAACA
* * * *
13681673 ATCCATGAAGGAGAACATCCGATGAATGAATAAATTTGAAACTGATTGAAGACTG
1 ATCCATGAAGAAGAACATCCGATGAATGAAGAAATCTGAAACTGACTGAAGACTG
*
13681728 ATCCATGAAGAA-AGACATCCGATGAATGAAGAAATCTGAAGCTGACTGAAGA
1 ATCCATGAAGAAGA-ACATCCGATGAATGAAGAAATCTGAAACTGACTGAAGA
13681780 TTCCTTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 45 0.98
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (55 bp):
ATCCATGAAGAAGAACATCCGATGAATGAAGAAATCTGAAACTGACTGAAGACTG
Found at i:13685910 original size:125 final size:125
Alignment explanation
Indices: 13685718--13685978 Score: 326
Period size: 125 Copynumber: 2.1 Consensus size: 125
13685708 AGTTATGATG
* * *
13685718 TATTGGGGCACGACTAAACCCACATCAGGTTGAGAAGACAAGATTCAGACCAAGGAGGAATGAAG
1 TATTGGGGCACGACTAAACCCACATCAAGTTGAGAAGACAAGACTCAGACCAAGAAGGAATGAAG
13685783 AATGAGCCTTACAAATTGAGGTGATGGGACATTTAGAAGGCCCATACCAGTATAAGACAA
66 AATGAGCCTTACAAATTGAGGTGATGGGACATTTAGAAGGCCCATACCAGTATAAGACAA
* * * * * * *
13685843 TGTTGGGGCATGACTGAACCCATATCAATTTGAGATGACAAGACTCAGACCAAGAAGGCATTG-A
1 TATTGGGGCACGACTAAACCCACATCAAGTTGAGAAGACAAGACTCAGACCAAGAAGG-AATGAA
* * * * * * * * * *
13685907 GAATGAGCCTTTCAATTTGAGGTGTTGGGGCATTTTGAGGGCTCGTACTAGTATAAGATAA
65 GAATGAGCCTTACAAATTGAGGTGATGGGACATTTAGAAGGCCCATACCAGTATAAGACAA
13685968 TATTGGGGCAC
1 TATTGGGGCAC
13685979 TAGTGAAGGC
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
125 110 0.97
126 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (125 bp):
TATTGGGGCACGACTAAACCCACATCAAGTTGAGAAGACAAGACTCAGACCAAGAAGGAATGAAG
AATGAGCCTTACAAATTGAGGTGATGGGACATTTAGAAGGCCCATACCAGTATAAGACAA
Found at i:13687366 original size:37 final size:37
Alignment explanation
Indices: 13687238--13687395 Score: 194
Period size: 36 Copynumber: 4.3 Consensus size: 37
13687228 GCAAAGTCAG
**
13687238 TCTTAAGCCTTCACCGAAGAGTAGTGAAG-TGATCTA
1 TCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCTA
* *
13687274 TCCTAAGCCTTCACCGAAGAGTAGTGAAGC-GATCTA
1 TCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCTA
* * * * *
13687310 TCATATGCCTTCATCGAAGAGTAGTAAAGCAAATCCA
1 TCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCTA
* *
13687347 TCTTAAGCCTTCACTGAAGAGTAGTGAAGAAAATCTA
1 TCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCTA
*
13687384 TTTTAAGCCTTC
1 TCTTAAGCCTTC
13687396 TCGAAAGAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
36 60 0.57
37 45 0.43
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (37 bp):
TCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCTA
Found at i:13687400 original size:73 final size:72
Alignment explanation
Indices: 13687238--13687405 Score: 194
Period size: 73 Copynumber: 2.3 Consensus size: 72
13687228 GCAAAGTCAG
* * ** *
13687238 TCTTAAGCCTTCACCGAAGAGTAGTGAAGTGATCTATCCTAAGCCTTCACCGAAGAGTAGTGAAG
1 TCTTAAGCCTTCATCGAAGAGTAGTAAAGAAATCCATCCTAAGCCTTCACCGAAGAGTAGTGAAG
**
13687303 CGATCTA
66 AAATCTA
* * * *
13687310 TCATATGCCTTCATCGAAGAGTAGTAAAGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAA
1 TCTTAAGCCTTCATCGAAGAGTAGTAAAG-AAATCCATCCTAAGCCTTCACCGAAGAGTAGTGAA
13687375 GAAAATCTA
65 G-AAATCTA
*
13687384 TTTTAAGCCTTC-TCGAAAGAGT
1 TCTTAAGCCTTCATCG-AAGAGT
13687406 GTTGGAGCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
72 25 0.32
73 34 0.43
74 20 0.25
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (72 bp):
TCTTAAGCCTTCATCGAAGAGTAGTAAAGAAATCCATCCTAAGCCTTCACCGAAGAGTAGTGAAG
AAATCTA
Found at i:13687873 original size:54 final size:54
Alignment explanation
Indices: 13687803--13688831 Score: 1211
Period size: 54 Copynumber: 18.8 Consensus size: 54
13687793 TGAGGCAAAT
* * **
13687803 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTTA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * ** *
13687858 GAAGATGTTTGAGTTCTATACTCCCTAAAGGAAGAGGGAGCGAACCTATTTTCA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* *
13687912 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * *
13687967 AAAGATTGTTCGAGTTC-CTACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * **
13688021 TAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCATTTTTA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688076 GAAGATGTTTGAGTTCTATACTCCCTAAAGGAAGAGGGAGCGAACCCGTTTTCA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * *
13688130 GAAGATTGTTCGATTTCTATACTCCCTAAAGAAAGAGGAAGCAAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688185 GAAGATGTTCAAGTTCTATACTCCGC-AAAGAAAGAGGGAGTGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCC-CTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * * *
13688239 GAAGATTATTCAAGTTCTATACTCCCTAAAGAAAGGGGGAACGAACCCGTTTACA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688294 GAAGATGTTCGAGTTCTATATTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688348 GAAGAT-TGTCGAGTTTTATACTCCCTAAAGAAAAAGGGAGCGAACCCGTTTGAA
1 GAAGATGT-TCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * * *
13688402 AAAGATTTTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* *
13688456 AAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * *
13688511 GAAGATTTTCAAGTTCTATACTCTCTGAAAGAAAGAGGGAGCAAACCCGTTTGCA
1 GAAGATGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCA
* *
13688566 GAAGATTGTTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTACA
1 GAAGA-TGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * * *
13688622 GAATATTATTCGAGTTATATACTTCCTGAAAGAAAGAGGGAGCGAACTCGTTTGCA
1 GAAGA-TGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688678 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTGCA
1 GAAGA-TGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * * **
13688734 GAACATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTGTG
1 GAAGA-TGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
13688790 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGC
1 GAAGA-TGTTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGC
13688832 AGACACGATT
Statistics
Matches: 862, Mismatches: 100, Indels: 24
0.87 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 351 0.41
55 290 0.34
56 220 0.26
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGCA
Found at i:13688002 original size:109 final size:110
Alignment explanation
Indices: 13687803--13688831 Score: 1292
Period size: 109 Copynumber: 9.4 Consensus size: 110
13687793 TGAGGCAAAT
* * **
13687803 GAAGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTTAGAAGA-TGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* * **
13687867 TGAGTTCTATACTCCCTAAAGGAAGAGGGAGCGAACCTATTTTCA
66 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* *
13687912 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAAAAAGATTGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* *
13687977 CGAGTTC-CTACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
66 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * **
13688021 TAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCATTTTTAGAAGA-TGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* *
13688085 TGAGTTCTATACTCCCTAAAGGAAGAGGGAGCGAACCCGTTTTCA
66 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
13688130 GAAGATTGTTCGATTTCTATACTCCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAGA-TGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* * **
13688194 CAAGTTCTATACTCCGC-AAAGAAAGAGGGAGTGAACCCGTTTGAA
66 CGAGTTCTATACTCC-CTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * *
13688239 GAAGATTATTCAAGTTCTATACTCCCTAAAGAAAGGGGGAACGAACCCGTTT-ACAGAAGA-TGT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGA-AGAAGATTGT
* * **
13688302 TCGAGTTCTATATTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAA
65 TCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
13688348 GAAGATTG-TCGAGTTTTATACTCCCTAAAGAAAAAGGGAGCGAACCCGTTTGAAAAAGATT-TT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* *
13688411 CAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCA
66 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* **
13688456 AAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATT-TT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
* * * *
13688520 CAAGTTCTATACTCTCTGAAAGAAAGAGGGAGCAAACCCGTTTGCA
66 CGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
13688566 GAAGATTGTTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTT-ACAGAATATTA
1 GAAGATTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGA-AGAAGATTG
* * * *
13688630 TTCGAGTTATATACTTCCTGAAAGAAAGAGGGAGCGAACTCGTTTGCA
64 TTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * * * *
13688678 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTGCAGAACATTAT
1 GAAGATTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGT
* * *
13688743 TCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCATTTGT-G
65 TCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT-TCA
* * *
13688790 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGC
1 GAAGATTGTTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGC
13688832 AGACACGATT
Statistics
Matches: 814, Mismatches: 91, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
108 103 0.13
109 439 0.54
110 61 0.07
111 47 0.06
112 164 0.20
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (110 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTT
CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
Found at i:13688895 original size:44 final size:45
Alignment explanation
Indices: 13688793--13688933 Score: 266
Period size: 45 Copynumber: 3.2 Consensus size: 45
13688783 ATTTGTGGAA
13688793 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
1 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
*
13688838 GATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGAGTAGACAC
1 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
13688882 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
1 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
13688927 GATTGTT
1 GATTGTT
13688934 GAAGATTGTT
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
44 43 0.46
45 50 0.54
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (45 bp):
GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAC
Found at i:13688970 original size:55 final size:55
Alignment explanation
Indices: 13688882--13689240 Score: 423
Period size: 55 Copynumber: 6.7 Consensus size: 55
13688872 GAGTAGACAC
*
13688882 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* *
13688937 GATTGTTCGAGTCTTATACTATCTGAAGGAATAGGGAGCAGACATGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * ** * *
13688992 TATTGTTTGAGTCTTATACTCTCTGAATAAATAGGGAGGAGACACGTTTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * *
13689047 GATTGTTTGAGTCTTATACTCTCTGAAGGAATAAGAAGGAGACAC-ATTTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGA-TTGTTGAA
* * * *
13689102 GA---TT-GAGTCCTATACTCTCTGAAGGAATAGGAAGCGGACACGTTTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * * *
13689153 GGTTGTTCAAGTCCTATACTCTCTGAAGGAATAAGGAGC-GAACACGTTTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAG-ACACGATTGTTGAA
*
13689208 GA----TCGAGTCCTATACTCTCTGAAGGAATAGGGA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGA
13689241 ACTGACCCGT
Statistics
Matches: 268, Mismatches: 29, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
51 71 0.26
52 2 0.01
54 3 0.01
55 192 0.72
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (55 bp):
GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
Found at i:13689286 original size:106 final size:107
Alignment explanation
Indices: 13688838--13689270 Score: 451
Period size: 106 Copynumber: 4.1 Consensus size: 107
13688828 GAGCAGACAC
* * *
13688838 GATTGTTCGAGTCTTATACTCTCTGAAGAAAT-AGGAG-TAGACACGATTG-T-----TCGAGTC
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGAGACACGTTTGTTGAAGATCGAGTC
* * *
13688895 TTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAA
66 CTATACTCTCTGAAGAAATAGGGAACAGACACGTTTGTTGAA
* * * * * *
13688937 GATTGTTCGAGTCTTATACTATCTGAAGGAATAGGGAGC-AGACATGATTGTTGAATATTGTTTG
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGAGACACGTTTGTTG-A-A--GATCG
* * **
13689001 AGTCTTATACTCTCTGAATAAATAGGGAGGAGACACGTTTGTTGAA
62 AGTCCTATACTCTCTGAAGAAATAGGGAACAGACACGTTTGTTGAA
* * * *
13689047 GATTGTTTGAGTCTTATACTCTCTGAAGGAATAAGAAG-GAGACACATTTGTTGAAGATTGAGTC
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGAGACACGTTTGTTGAAGATCGAGTC
* *
13689111 CTATACTCTCTGAAGGAATA-GGAAGCGGACACGTTTGTTGAA
66 CTATACTCTCTGAAGAAATAGGGAA-CAGACACGTTTGTTGAA
* * *
13689153 GGTTGTTCAAGTCCTATACTCTCTGAAGGAATAAGGAGCGA-ACACGTTTGTTGAAGATCGAGTC
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGAGACACGTTTGTTGAAGATCGAGTC
* * *
13689217 CTATACTCTCTGAAGGAATAGGGAACTGACCCGTTT-TATGAA
66 CTATACTCTCTGAAGAAATAGGGAACAGACACGTTTGT-TGAA
* *
13689259 TATTGTTTGAGT
1 GATTGTTCGAGT
13689271 TTTACACATC
Statistics
Matches: 282, Mismatches: 35, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
99 30 0.11
100 14 0.05
101 1 0.00
105 4 0.01
106 135 0.48
107 6 0.02
108 1 0.00
109 1 0.00
110 90 0.32
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (107 bp):
GATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGAGACACGTTTGTTGAAGATCGAGTC
CTATACTCTCTGAAGAAATAGGGAACAGACACGTTTGTTGAA
Found at i:13689315 original size:106 final size:106
Alignment explanation
Indices: 13688888--13689316 Score: 267
Period size: 106 Copynumber: 4.0 Consensus size: 106
13688878 ACACGATTGT
* * * * * * *
13688888 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
1 TCGAGTCCTATACTCTCTGAAGGAATAGGAAGCGGACACGTTTGTTGAAGATTGTTCAAGTCCTA
* * * * * * * * * *
13688953 TACTATCTGAAGGAATAGGGAGC-AGACATGATTGTTGAATATTGT
66 CACTCTCTGAAGCAAGAAGGAGCGA-ACACGCTGGTCG-A-A--GA
* * ** * ** *
13688998 TTGAGTCTTATACTCTCTGAATAAATAGGGAG-GAGACACGTTTGTTGAAGATTGTTTGAGTCTT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGAAGCG-GACACGTTTGTTGAAGATTGTTCAAGTCCT
* * * * ** * *
13689062 ATACTCTCTGAAGGAATAAGAAG-GAGACACATTTGTTGAAGA
65 ACACTCTCTGAAGCAAGAAGGAGCGA-ACACGCTGGTCGAAGA
* *
13689104 TTGAGTCCTATACTCTCTGAAGGAATAGGAAGCGGACACGTTTGTTGAAGGTTGTTCAAGTCCTA
1 TCGAGTCCTATACTCTCTGAAGGAATAGGAAGCGGACACGTTTGTTGAAGATTGTTCAAGTCCTA
* * * * * *
13689169 TACTCTCTGAAGGAATAAGGAGCGAACACGTTTGTTGAAGA
66 CACTCTCTGAAGCAAGAAGGAGCGAACACGCTGGTCGAAGA
* * * ** **
13689210 TCGAGTCCTATACTCTCTGAAGGAATAGGGAA-CTGACCCGTTT-TATGAATATTGTTTGAGTTT
1 TCGAGTCCTATACTCTCTGAAGGAATA-GGAAGCGGACACGTTTGT-TGAAGATTGTTCAAGTCC
* * *
13689273 TACACATC-CTGAAGCAAGAGGGTGCGAACCCGCTGGTCGAAGA
64 TACAC-TCTCTGAAGCAAGAAGGAGCGAACACGCTGGTCGAAGA
13689316 T
1 T
13689317 TGTTCAAAAA
Statistics
Matches: 272, Mismatches: 40, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
105 1 0.00
106 171 0.63
107 9 0.03
108 1 0.00
109 1 0.00
110 89 0.33
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (106 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGGAAGCGGACACGTTTGTTGAAGATTGTTCAAGTCCTA
CACTCTCTGAAGCAAGAAGGAGCGAACACGCTGGTCGAAGA
Found at i:13689507 original size:3 final size:3
Alignment explanation
Indices: 13689501--13689662 Score: 254
Period size: 3 Copynumber: 53.7 Consensus size: 3
13689491 ATAATAATAC
13689501 TAT TAT TAT TAT 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 TAT TAT TAT TAT
13689549 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
13689595 AAC TAT TA- TAT TAT AAT ACAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
13689640 TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
13689663 ATGTTACATA
Statistics
Matches: 147, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
2 2 0.01
3 140 0.95
4 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13699855 original size:32 final size:32
Alignment explanation
Indices: 13699791--13699864 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
13699781 GATATTGATC
13699791 CGATATGATATTGACGAAACCCAAAAATCAAT
1 CGATATGATATTGACGAAACCCAAAAATCAAT
* *
13699823 CGATCTGATATTGATACG-AACCGAAAAA-CAAT
1 CGATATGATATTG--ACGAAACCCAAAAATCAAT
*
13699855 CGATTTGATA
1 CGATATGATA
13699865 ATCACCCGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 25 0.68
33 9 0.24
34 3 0.08
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (32 bp):
CGATATGATATTGACGAAACCCAAAAATCAAT
Found at i:13705054 original size:2 final size:2
Alignment explanation
Indices: 13705047--13705072 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13705037 AACTTTAGTA
13705047 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
13705073 GCATAAACAA
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:13706441 original size:21 final size:21
Alignment explanation
Indices: 13706408--13706447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13706398 TTCTACGTGG
*
13706408 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
13706429 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
13706448 GGTACTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:13709147 original size:14 final size:15
Alignment explanation
Indices: 13709130--13709159 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13709120 CTACATATAA
13709130 AAAACATAAAA-TTT
1 AAAACATAAAACTTT
13709144 AAAACATAAAACTTT
1 AAAACATAAAACTTT
13709159 A
1 A
13709160 TAATACGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAACATAAAACTTT
Found at i:13709222 original size:18 final size:18
Alignment explanation
Indices: 13709207--13709243 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13709197 TTATATAATC
13709207 AGAAAATAAAATATAAAA
1 AGAAAATAAAATATAAAA
*
13709225 ATAAAATAAAATTATAAAA
1 AGAAAATAAAA-TATAAAA
13709244 TTACCAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AGAAAATAAAATATAAAA
Found at i:13709273 original size:47 final size:47
Alignment explanation
Indices: 13709222--13709316 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
13709212 ATAAAATATA
*
13709222 AAAATAAAATAAAATTATAAAATTACCAGTAAACCGAAAATAATTTG
1 AAAATAAAATAAAATTATAAAATTACAAGTAAACCGAAAATAATTTG
* **
13709269 AAAATAAAGTAAAATTATAAAATTACAAGTAAATTGAAAATAATTTG
1 AAAATAAAATAAAATTATAAAATTACAAGTAAACCGAAAATAATTTG
13709316 A
1 A
13709317 GATGAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.27
Consensus pattern (47 bp):
AAAATAAAATAAAATTATAAAATTACAAGTAAACCGAAAATAATTTG
Found at i:13709858 original size:19 final size:19
Alignment explanation
Indices: 13709821--13709861 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13709811 ACATTTTCCC
13709821 ACTATAAAATAAAATAAAA
1 ACTATAAAATAAAATAAAA
*
13709840 ACTA-AAAATAACATCAAAA
1 ACTATAAAATAAAAT-AAAA
13709859 ACT
1 ACT
13709862 CAGAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (19 bp):
ACTATAAAATAAAATAAAA
Found at i:13710047 original size:54 final size:54
Alignment explanation
Indices: 13709988--13710096 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
13709978 TCAAAGGAAC
*
13709988 ATATATTTTAAATTAAAAAGAAAACGAAAATAGGAAAACTAAGGAAAAGTTGGA
1 ATATATTTTAAATTAAAAAGAAAACGAAAATAGGAAAAATAAGGAAAAGTTGGA
*
13710042 ATATATTTTAAATTAAAAAGAAAACGAAAATAGGAAAAATAAGGTAAAGTTGGA
1 ATATATTTTAAATTAAAAAGAAAACGAAAATAGGAAAAATAAGGAAAAGTTGGA
13710096 A
1 A
13710097 AAAGAATAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.58, C:0.03, G:0.17, T:0.23
Consensus pattern (54 bp):
ATATATTTTAAATTAAAAAGAAAACGAAAATAGGAAAAATAAGGAAAAGTTGGA
Found at i:13711218 original size:33 final size:29
Alignment explanation
Indices: 13711142--13711221 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 29
13711132 ATGCGTAAAT
*
13711142 TTAAACTTTTAAAATTTTAAGGGAACAAAT
1 TTAAA-TTTTAAAATTTTAAGGGAACAAAC
*
13711172 TTAAATTTTTAAAATTTTAAAAGGGATGCAAAC
1 TTAAA-TTTTAAAATTTT--AAGGGA-ACAAAC
13711205 TTAAATTTATAAAATTT
1 TTAAATTT-TAAAATTT
13711222 CAGGAGAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.40
32 9 0.21
33 17 0.40
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (29 bp):
TTAAATTTTAAAATTTTAAGGGAACAAAC
Found at i:13711714 original size:24 final size:23
Alignment explanation
Indices: 13711698--13711755 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
13711688 ATATTTATTG
13711698 ACAATTTTAATAATATAATATTAT
1 ACAATTTTAATAATAT-ATATTAT
**
13711722 ACTTTTTTAATAATATATA--AT
1 ACAATTTTAATAATATATATTAT
13711743 A-AATTATTAATAA
1 ACAATT-TTAATAA
13711756 AACTAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
23 3 0.10
24 14 0.48
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
ACAATTTTAATAATATATATTAT
Found at i:13712029 original size:15 final size:16
Alignment explanation
Indices: 13712009--13712047 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
13711999 AAATATAATA
13712009 TAATATTTTTA-TTTT
1 TAATATTTTTAGTTTT
*
13712024 TAATA-TTATAGTTTT
1 TAATATTTTTAGTTTT
13712039 TAATATTTT
1 TAATATTTT
13712048 AATAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.20
15 14 0.70
16 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TAATATTTTTAGTTTT
Found at i:13712029 original size:20 final size:23
Alignment explanation
Indices: 13712004--13712051 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
13711994 CTTTAAAATA
13712004 TAATATAATA-TTTTT-AT-TTT
1 TAATATAATAGTTTTTAATATTT
*
13712024 TAATATTATAGTTTTTAATATTT
1 TAATATAATAGTTTTTAATATTT
13712047 TAATA
1 TAATA
13712052 ATGTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 2 0.08
23 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATATAATAGTTTTTAATATTT
Found at i:13712049 original size:8 final size:8
Alignment explanation
Indices: 13712009--13712068 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
13711999 AAATATAATA
13712009 TAATATTT
1 TAATATTT
*
13712017 TTAT-TTT
1 TAATATTT
*
13712024 TAATATTA
1 TAATATTT
*
13712032 TAGT-TTT
1 TAATATTT
13712039 TAATATTT
1 TAATATTT
*
13712047 TAATAATGT
1 TAAT-ATTT
*
13712056 TATTATTT
1 TAATATTT
13712064 TAATA
1 TAATA
13712069 AGTAATTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 11 0.28
8 22 0.56
9 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:13712064 original size:17 final size:17
Alignment explanation
Indices: 13712042--13712100 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
13712032 TAGTTTTTAA
13712042 TATTTTAATAATGTTAT
1 TATTTTAATAATGTTAT
*
13712059 TATTTTAATAA-GTAAT
1 TATTTTAATAATGTTAT
* *
13712075 TAATATAATTAATAGTATAT
1 TATTTTAA-TAAT-GT-TAT
13712095 TATTTT
1 TATTTT
13712101 TATTTTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 10 0.31
17 14 0.44
19 2 0.06
20 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTTTAATAATGTTAT
Found at i:13712147 original size:32 final size:32
Alignment explanation
Indices: 13712061--13712159 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 32
13712051 AATGTTATTA
*
13712061 TTTTAATAAGTAATTAATATAATTAATAGTATATTAT
1 TTTTAATAA--AA-TAA-ATAATTAATA-TATTTTAT
* **
13712098 TTTTATTTTAATAAATAATTAATATATTTTA-
1 TTTTAATAAAATAAATAATTAATATATTTTAT
13712129 TTTTAATAAAATATAATAATCTAA-ATATTTT
1 TTTTAATAAAATA-AATAAT-TAATATATTTT
13712160 TATCTATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
31 10 0.19
32 19 0.36
33 13 0.25
34 3 0.06
35 2 0.04
37 6 0.11
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (32 bp):
TTTTAATAAAATAAATAATTAATATATTTTAT
Found at i:13712180 original size:27 final size:27
Alignment explanation
Indices: 13712150--13712201 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
13712140 TATAATAATC
13712150 TAAATATTTTTATCTATAAT-ATATTTT
1 TAAATATTTTTATCTA-AATAATATTTT
13712177 TAAATATTTTTATCTAAATAATATT
1 TAAATATTTTTATCTAAATAATATT
13712202 AAATAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TAAATATTTTTATCTAAATAATATTTT
Found at i:13712253 original size:24 final size:24
Alignment explanation
Indices: 13712222--13712271 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13712212 TTCTAATATT
13712222 TTAAAAATAATATT-ATTATTTTA
1 TTAAAAATAATATTAATTATTTTA
*
13712245 TTAATAAATAATATTAATTTTTTTA
1 TTAA-AAATAATATTAATTATTTTA
13712270 TT
1 TT
13712272 TAATGTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.17
24 10 0.42
25 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAAAAATAATATTAATTATTTTA
Found at i:13722542 original size:117 final size:117
Alignment explanation
Indices: 13722336--13722570 Score: 470
Period size: 117 Copynumber: 2.0 Consensus size: 117
13722326 GCCACTCCCA
13722336 ACTCTGCCCGGCTTTAAACCCCAACCTAGACCTAAACACCTAAAAAATAAACCTTACTTCCTCCT
1 ACTCTGCCCGGCTTTAAACCCCAACCTAGACCTAAACACCTAAAAAATAAACCTTACTTCCTCCT
13722401 TTCCTCCTCGTCCAAAAACAAACAACCCCTTTAACCATCATTATTTAGTCAT
66 TTCCTCCTCGTCCAAAAACAAACAACCCCTTTAACCATCATTATTTAGTCAT
13722453 ACTCTGCCCGGCTTTAAACCCCAACCTAGACCTAAACACCTAAAAAATAAACCTTACTTCCTCCT
1 ACTCTGCCCGGCTTTAAACCCCAACCTAGACCTAAACACCTAAAAAATAAACCTTACTTCCTCCT
13722518 TTCCTCCTCGTCCAAAAACAAACAACCCCTTTAACCATCATTATTTAGTCAT
66 TTCCTCCTCGTCCAAAAACAAACAACCCCTTTAACCATCATTATTTAGTCAT
13722570 A
1 A
13722571 AGTCGACCTT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.34, C:0.35, G:0.05, T:0.26
Consensus pattern (117 bp):
ACTCTGCCCGGCTTTAAACCCCAACCTAGACCTAAACACCTAAAAAATAAACCTTACTTCCTCCT
TTCCTCCTCGTCCAAAAACAAACAACCCCTTTAACCATCATTATTTAGTCAT
Found at i:13729707 original size:2 final size:2
Alignment explanation
Indices: 13729700--13729737 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13729690 CATTAAATAA
13729700 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13729738 ATCATTGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13731930 original size:21 final size:21
Alignment explanation
Indices: 13731906--13731950 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13731896 AATTAATGTG
* *
13731906 TTTAGTACTTAAACTATCAGT
1 TTTAGTACCTAAACTATCAAT
*
13731927 TTTAGTACCTAAACTTTCAAT
1 TTTAGTACCTAAACTATCAAT
13731948 TTT
1 TTT
13731951 TTTCAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:13738277 original size:20 final size:20
Alignment explanation
Indices: 13738252--13738319 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
13738242 GTACAGATAT
13738252 TTTTTAAAATAAAAAAAATA
1 TTTTTAAAATAAAAAAAATA
13738272 TTTTTAAAATAAAAAAAATA
1 TTTTTAAAATAAAAAAAATA
13738292 TTTTTAAAATAAAAAAAATA
1 TTTTTAAAATAAAAAAAATA
13738312 TTTTTAAA
1 TTTTTAAA
13738320 TAATATTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTTAAAATAAAAAAAATA
Found at i:13744578 original size:19 final size:20
Alignment explanation
Indices: 13744554--13744611 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
13744544 AAAGTCAACA
13744554 TCAACGAGTCGGGTCAAAGT
1 TCAACGAGTCGGGTCAAAGT
* *
13744574 T-AACGTGTAGGGTCAAA-T
1 TCAACGAGTCGGGTCAAAGT
*
13744592 TCAACGGGTCGGGTCAAAGT
1 TCAACGAGTCGGGTCAAAGT
13744612 CCATGTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.06
19 28 0.88
20 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (20 bp):
TCAACGAGTCGGGTCAAAGT
Found at i:13745335 original size:37 final size:36
Alignment explanation
Indices: 13745293--13745531 Score: 181
Period size: 39 Copynumber: 6.3 Consensus size: 36
13745283 ATTCTATTTA
13745293 ATATATACATA-A-TTTTGAAAACATTTTTTTTGAAATTAT
1 ATATATA-ATATAGTTTTGAAAACA--TTTTTTGAAA-T-T
13745332 ATATATAATATATAGTTTTGAAAAACATTTTTT-AAATT
1 ATATAT-A-ATATAGTTTTG-AAAACATTTTTTGAAATT
13745370 ATATATAATATATGGTTTTGAAAACA-TTTTTGAAATTAT
1 ATATATAATATA--GTTTTGAAAACATTTTTTGAAA-T-T
*
13745409 ATATATAATATGTAGTTTTGAAAAC-TTTTTTGAAAGT
1 ATATATAATA--TAGTTTTGAAAACATTTTTTGAAATT
* *
13745446 ATATATAATATATAGTCTTGAAAACA--TTTTGAAAAT
1 ATATAT-A-ATATAGTTTTGAAAACATTTTTTGAAATT
* *
13745482 ATATATAGTATATAGTTTTAAAAAAATATTTTTTGAAA--
1 ATATATA--ATATAGTTTT--GAAAACATTTTTTGAAATT
*
13745520 ATGTATAATATA
1 ATATATAATATA
13745532 TAATTTTTTT
Statistics
Matches: 172, Mismatches: 8, Indels: 43
0.77 0.04 0.19
Matches are distributed among these distances:
35 1 0.01
36 40 0.23
37 29 0.17
38 26 0.15
39 41 0.24
40 15 0.09
41 9 0.05
42 5 0.03
43 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (36 bp):
ATATATAATATAGTTTTGAAAACATTTTTTGAAATT
Found at i:13745382 original size:38 final size:38
Alignment explanation
Indices: 13745305--13745538 Score: 248
Period size: 38 Copynumber: 6.1 Consensus size: 38
13745295 ATATACATAA
13745305 TTTTGAAAACATTTTTTTTGAAATTATATATATAATATATAG
1 TTTTGAAAACA--TTTTTTGAAA-T-TATATATAATATATAG
*
13745347 TTTTGAAAAACATTTTTT-AAATTATATATAATATATGG
1 TTTTG-AAAACATTTTTTGAAATTATATATAATATATAG
*
13745385 TTTTGAAAACA-TTTTTGAAATTATATATATAATATGTAG
1 TTTTGAAAACATTTTTTGAAA-T-TATATATAATATATAG
*
13745424 TTTTGAAAAC-TTTTTTGAAAGTATATATAATATATAG
1 TTTTGAAAACATTTTTTGAAATTATATATAATATATAG
* * *
13745461 TCTTGAAAACA--TTTTGAAAATATATATAGTATATAG
1 TTTTGAAAACATTTTTTGAAATTATATATAATATATAG
* * * *
13745497 TTTTAAAAAAATATTTTTTGAAA--ATGTATAATATATAA
1 TTTT--GAAAACATTTTTTGAAATTATATATAATATATAG
13745535 TTTT
1 TTTT
13745539 TTTAAATGGT
Statistics
Matches: 168, Mismatches: 14, Indels: 24
0.82 0.07 0.12
Matches are distributed among these distances:
36 31 0.18
37 33 0.20
38 42 0.25
39 34 0.20
40 11 0.07
41 6 0.04
42 5 0.03
43 6 0.04
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (38 bp):
TTTTGAAAACATTTTTTGAAATTATATATAATATATAG
Found at i:13747585 original size:28 final size:28
Alignment explanation
Indices: 13747507--13747586 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
13747497 AATTAGGATT
* * *
13747507 GGGACTATGCCCATATAGAATTAGGACG
1 GGGACTATGCCCATACAGAATCAAGACG
* *
13747535 GGGA-TATAATCCCA-AGCAAAATCAAGACG
1 GGGACTAT--GCCCATA-CAGAATCAAGACG
13747564 GGGACTATGCCCATACAGAATCA
1 GGGACTATGCCCATACAGAATCA
13747587 GGTATGCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
27 3 0.08
28 16 0.40
29 18 0.45
30 3 0.08
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (28 bp):
GGGACTATGCCCATACAGAATCAAGACG
Found at i:13758995 original size:14 final size:14
Alignment explanation
Indices: 13758976--13759006 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13758966 CGAGAGCAAC
13758976 TATAATGATGATGG
1 TATAATGATGATGG
13758990 TATAATGATGATGG
1 TATAATGATGATGG
13759004 TAT
1 TAT
13759007 TGTTAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (14 bp):
TATAATGATGATGG
Found at i:13760841 original size:11 final size:12
Alignment explanation
Indices: 13760801--13760842 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
13760791 TTTATTTTTT
13760801 ATTATTATTAT-
1 ATTATTATTATA
13760812 ATTATTATTATTA
1 ATTATTATTA-TA
13760825 ATT-TATATTATA
1 ATTAT-TATTATA
13760837 ATTATT
1 ATTATT
13760843 TTGTAGGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 10 0.37
12 8 0.30
13 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:13761979 original size:19 final size:20
Alignment explanation
Indices: 13761904--13761979 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 20
13761894 TACGTGCATT
* *
13761904 TATATTTTT-TTAATTTTAT
1 TATATTTTTATTTATTTTAC
* *
13761923 TTTATTGCTTTA-TTATTTTAT
1 TATATT--TTTATTTATTTTAC
**
13761944 TATATTTTCCTTT-TTTTAC
1 TATATTTTTATTTATTTTAC
13761963 TA-ATTTTTATTTATTTT
1 TATATTTTTATTTATTTT
13761980 TGTTATCTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
18 8 0.18
19 18 0.41
20 2 0.05
21 16 0.36
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.72
Consensus pattern (20 bp):
TATATTTTTATTTATTTTAC
Found at i:13766007 original size:106 final size:106
Alignment explanation
Indices: 13765712--13766419 Score: 1184
Period size: 106 Copynumber: 6.7 Consensus size: 106
13765702 TGGTGGTTGT
*
13765712 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGTCAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
*
13765777 AACTTCACAACGAAGGATATTGAACTCAAGACAGCACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
13765818 TCAACTTCACAGCGAAGGGGCGGC-GACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
*
13765882 AACTTCACAACGAAAGATATTGGACTCAAGACAGCACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * * * *
13765923 TCAACTTCACAGCGAAGGGACGACTGATTGTCAACAAATATTTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
* *
13765988 AACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * *
13766029 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATGTCTCAATTTCAGAGACAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
** *
13766094 AACTTCACAGTGAAGGATATTGGACTCAAGACATCACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
*
13766135 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAAGTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
13766200 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
13766241 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATGTCTCAATTTCAGAGCCAATTTC
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
* *
13766306 AACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGC
66 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * *
13766347 TCAACTTCACAACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCCAGTTCCAGAGCCAATTT
1 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTT-CCCAATTTCAGAGCCAATTT
13766412 CAACTTCA
65 CAACTTCA
13766420 TGGTTTCAAC
Statistics
Matches: 562, Mismatches: 38, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
105 100 0.18
106 437 0.78
107 25 0.04
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (106 bp):
TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTC
AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
Found at i:13766837 original size:15 final size:15
Alignment explanation
Indices: 13766817--13766846 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13766807 CAAAGTTTTG
*
13766817 TTTCTCTTGAGACAA
1 TTTCTCTTGAAACAA
13766832 TTTCTCTTGAAACAA
1 TTTCTCTTGAAACAA
13766847 ATTTTGTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
TTTCTCTTGAAACAA
Found at i:13766852 original size:36 final size:37
Alignment explanation
Indices: 13766804--13766879 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 37
13766794 AATTTACTCA
* *
13766804 AAACAAAGTTTTGTTTCTCTTGAGACAATTTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCCCTTG
*
13766841 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCCCTTG
13766877 AAA
1 AAA
13766880 AAAAATCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (37 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAATTTCCCTTG
Found at i:13767401 original size:3 final size:3
Alignment explanation
Indices: 13767354--13767383 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13767344 ATATATTATG
*
13767354 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13767384 ATAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13768883 original size:27 final size:24
Alignment explanation
Indices: 13768848--13768908 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
13768838 TTTCTTCTTC
13768848 TTTTTTATTTAGTTTATTTTATCACTT
1 TTTTTTATTTA-TTTATTTT-TCA-TT
*
13768875 TTTTTTATTT-TTTATTTTTTATT
1 TTTTTTATTTATTTATTTTTCATT
*
13768898 TTATTTATTTA
1 TTTTTTATTTA
13768909 ATATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 11 0.35
24 2 0.06
25 8 0.26
27 10 0.32
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTATTTATTTATTTTTCATT
Found at i:13768887 original size:7 final size:7
Alignment explanation
Indices: 13768875--13768925 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
13768865 TTTATCACTT
13768875 TTTTTTA
1 TTTTTTA
13768882 TTTTTTA
1 TTTTTTA
13768889 TTTTTTA
1 TTTTTTA
13768896 --TTTTA
1 TTTTTTA
13768901 TTTATTTA
1 TTT-TTTA
* *
13768909 ATATTTA
1 TTTTTTA
*
13768916 TTTATTA
1 TTTTTTA
13768923 TTT
1 TTT
13768926 CTCATCTAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
5 5 0.14
7 26 0.72
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTA
Found at i:13768906 original size:4 final size:4
Alignment explanation
Indices: 13768878--13768925 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
13768868 ATCACTTTTT
*
13768878 TTTA TTT- TTTA TTT- TTTA TTTTA TTTA TTTA -ATA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13768923 TTT
1 TTT
13768926 CTCATCTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 11 0.30
4 22 0.59
5 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13776981 original size:18 final size:18
Alignment explanation
Indices: 13776960--13777020 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
13776950 TTCTATTTTA
13776960 ATTTTAATTATTGTTAAT
1 ATTTTAATTATTGTTAAT
*
13776978 ATTTTATTTA-T-TTAAT
1 ATTTTAATTATTGTTAAT
* * *
13776994 -TTTTTAGTATTAGTTTAT
1 ATTTTAATTATT-GTTAAT
13777012 ATTTTAATT
1 ATTTTAATT
13777021 TATATAATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
15 6 0.19
16 6 0.19
17 1 0.03
18 13 0.41
19 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTAATTATTGTTAAT
Found at i:13778186 original size:3 final size:3
Alignment explanation
Indices: 13778172--13778219 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
13778162 TCCGGGTCTT
* * * *
13778172 TTA TTAA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13778218 TT
1 TT
13778220 TACAAAGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13778394 original size:64 final size:64
Alignment explanation
Indices: 13778316--13778451 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
13778306 GCCAACCAGT
*
13778316 GACCCAACAACCAAGCTTACCTGGTTCGGGCCCCAAGATCCAACCCAAACCTAATAAATATCCA
1 GACCCAACAACCAAGCTTACCTAGTTCGGGCCCCAAGATCCAACCCAAACCTAATAAATATCCA
* *
13778380 GACCCAATAACCAAGCTTACCTAGTTCGGGCCCCAAGATCCAACCCAAGCCTAATAAATATCCA
1 GACCCAACAACCAAGCTTACCTAGTTCGGGCCCCAAGATCCAACCCAAACCTAATAAATATCCA
13778444 GACCCAAC
1 GACCCAAC
13778452 TGGACCCCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.15
Consensus pattern (64 bp):
GACCCAACAACCAAGCTTACCTAGTTCGGGCCCCAAGATCCAACCCAAACCTAATAAATATCCA
Found at i:13779020 original size:12 final size:13
Alignment explanation
Indices: 13778997--13779025 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13778987 AGAGGCCAGA
13778997 AAAACTAGAGAGG
1 AAAACTAGAGAGG
13779010 AAAAC-AGAGAGG
1 AAAACTAGAGAGG
13779022 AAAA
1 AAAA
13779026 GAAGAGAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.62, C:0.07, G:0.28, T:0.03
Consensus pattern (13 bp):
AAAACTAGAGAGG
Found at i:13780130 original size:20 final size:20
Alignment explanation
Indices: 13780063--13780148 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
13780053 TTCCAAATTT
13780063 GCAACGTGAATATGTAAATC
1 GCAACGTGAATATGTAAATC
** * * * * *
13780083 GCATTGCGATTCTCGGAATTC
1 GCAACGTGAATAT-GTAAATC
*
13780104 ACAACGTGAATATGTAAATC
1 GCAACGTGAATATGTAAATC
* *
13780124 GCAACGTGAATTTGTAATTC
1 GCAACGTGAATATGTAAATC
13780144 GCAAC
1 GCAAC
13780149 AAAGAAGTCA
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
20 35 0.74
21 12 0.26
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (20 bp):
GCAACGTGAATATGTAAATC
Found at i:13780188 original size:20 final size:20
Alignment explanation
Indices: 13780139--13780188 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
13780129 GTGAATTTGT
*
13780139 AATTCGCAACAAAGAAGTCA
1 AATTCGCAATAAAGAAGTCA
13780159 AATTCGCAATACAA-AAGTCA
1 AATTCGCAATA-AAGAAGTCA
13780179 AATTCGCAAT
1 AATTCGCAAT
13780189 GCGATTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (20 bp):
AATTCGCAATAAAGAAGTCA
Found at i:13780249 original size:20 final size:19
Alignment explanation
Indices: 13780176--13780249 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
13780166 AATACAAAAG
13780176 TCAAATTCGCAA-TGCGATT
1 TCAAATTCGCAACT-CGATT
*
13780195 TCCAAATTCGCAACACTGAATT
1 T-CAAATTCGCAACTC-G-ATT
13780217 TCAAATTCGCAACTCGATT
1 TCAAATTCGCAACTCGATT
*
13780236 TCTGAATTCGCAAC
1 TC-AAATTCGCAAC
13780250 AGGTTTTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 6 0.13
20 23 0.49
21 14 0.30
22 4 0.09
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTCGATT
Found at i:13781057 original size:12 final size:12
Alignment explanation
Indices: 13781036--13781069 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13781026 ACCACATTTC
*
13781036 CAATACCAAACA
1 CAATATCAAACA
13781048 CAATATCAAACA
1 CAATATCAAACA
*
13781060 CAATCTCAAA
1 CAATATCAAA
13781070 ACCCACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:13781246 original size:24 final size:24
Alignment explanation
Indices: 13781195--13781248 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
13781185 GTATTCAAAA
*
13781195 TTTGATCTTGGTCAATATCTGGAC
1 TTTGATCTTGGTCAATATCTAGAC
*
13781219 TTTGATCTTGGTCAATA-CTCAGAT
1 TTTGATCTTGGTCAATATCT-AGAC
13781243 TTTGAT
1 TTTGAT
13781249 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (24 bp):
TTTGATCTTGGTCAATATCTAGAC
Found at i:13782301 original size:16 final size:16
Alignment explanation
Indices: 13782280--13782314 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13782270 TGGAGCACAT
13782280 TTGAAAGGTCGATACC
1 TTGAAAGGTCGATACC
13782296 TTGAAAGGTCGATACC
1 TTGAAAGGTCGATACC
13782312 TTG
1 TTG
13782315 GAGTAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (16 bp):
TTGAAAGGTCGATACC
Found at i:13783542 original size:6 final size:6
Alignment explanation
Indices: 13783531--13783566 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
13783521 CAAGCAAAAG
**
13783531 AAAATC AAAATC GCAATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
13783567 CCAATCACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:13783550 original size:12 final size:12
Alignment explanation
Indices: 13783533--13783579 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
13783523 AGCAAAAGAA
13783533 AATCAAAATCGC
1 AATCAAAATCGC
**
13783545 AATCAAAATCAA
1 AATCAAAATCGC
*
13783557 AATCAAAATCCC
1 AATCAAAATCGC
*
13783569 AATCACAATCG
1 AATCAAAATCG
13783580 GCTTCACCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.53, C:0.26, G:0.04, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:13783811 original size:20 final size:21
Alignment explanation
Indices: 13783788--13783839 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
13783778 TTGCAATGGG
*
13783788 AAAGTCAAATTCATGTTGC-A
1 AAAGTCAAATTCATGTTACGA
*
13783808 AAAGTCAAATTCGTGTTACGA
1 AAAGTCAAATTCATGTTACGA
13783829 AAA-TCAAATTC
1 AAAGTCAAATTC
13783840 GAAACACGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (21 bp):
AAAGTCAAATTCATGTTACGA
Found at i:13783922 original size:20 final size:20
Alignment explanation
Indices: 13783897--13783938 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
13783887 TCGCAACGCA
13783897 AATTTGACTTTCACGTTGCG
1 AATTTGACTTTCACGTTGCG
**
13783917 AATTTGACTTTTGCGTTGCG
1 AATTTGACTTTCACGTTGCG
13783937 AA
1 AA
13783939 AGTGTACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
AATTTGACTTTCACGTTGCG
Found at i:13785379 original size:21 final size:19
Alignment explanation
Indices: 13785368--13785404 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13785358 GAACGGTGGG
*
13785368 AGGGGCCTCTTGAAAGATA
1 AGGGGCCTCTTGAACGATA
13785387 AGGGGCCTCTTGAACGAT
1 AGGGGCCTCTTGAACGAT
13785405 GACAGGTGAA
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:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (19 bp):
AGGGGCCTCTTGAACGATA
Found at i:13785838 original size:21 final size:21
Alignment explanation
Indices: 13785814--13785863 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
13785804 ATCATTGTCG
* *
13785814 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGCACCGACCTCA
* *
13785835 TCACGAAAAGCACTGACCTCA
1 TCACGTAAAGCACCGACCTCA
13785856 TCACGTAA
1 TCACGTAA
13785864 CTCCCTTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:13787536 original size:19 final size:19
Alignment explanation
Indices: 13787486--13787538 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
13787476 GTAGTTTCTC
13787486 AAACTTAAAATCGCAACGCG
1 AAAC-TAAAATCGCAACGCG
*
13787506 AAAATGAAAATCGCAACGCG
1 AAACT-AAAATCGCAACGCG
13787526 AAACTAAAATCGC
1 AAACTAAAATCGC
13787539 GTTGCGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.49, C:0.23, G:0.15, T:0.13
Consensus pattern (19 bp):
AAACTAAAATCGCAACGCG
Found at i:13787937 original size:22 final size:22
Alignment explanation
Indices: 13787909--13787966 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
13787899 GATGAAGATA
13787909 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* **
13787931 GATGGATTTCGTTGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
13787953 GACGGATGTCGCCG
1 GACGGATTTCGCCG
13787967 TAAAGAGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.16, G:0.45, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:13788235 original size:20 final size:20
Alignment explanation
Indices: 13788141--13788235 Score: 127
Period size: 20 Copynumber: 4.8 Consensus size: 20
13788131 GTGTTACGAA
* *
13788141 TTACAGATTTGTGTTGCGAT
1 TTACAGATTCGCGTTGCGAT
* *
13788161 TTACAGATTCGTGTTGTGAT
1 TTACAGATTCGCGTTGCGAT
*
13788181 TTACAAATTCGCGTTGCGAT
1 TTACAGATTCGCGTTGCGAT
* *
13788201 TTACATATTCACGTTGCGAT
1 TTACAGATTCGCGTTGCGAT
13788221 TTACAGATTCGCGTT
1 TTACAGATTCGCGTT
13788236 AAGAATTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (20 bp):
TTACAGATTCGCGTTGCGAT
Found at i:13788263 original size:20 final size:20
Alignment explanation
Indices: 13788153--13788259 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
13788143 ACAGATTTGT
* *
13788153 GTTGCGATTTACAGATTCGT
1 GTTGCGATTTACAAATTCGC
*
13788173 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
13788193 GTTGCGATTTACATATTCAC
1 GTTGCGATTTACAAATTCGC
*
13788213 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
** *
13788233 GTTAAGAATTTA-AAAATCGC
1 GTTGCG-ATTTACAAATTCGC
13788253 GTTGCGA
1 GTTGCGA
13788260 ATTTGGAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
19 1 0.01
20 66 0.92
21 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:13788271 original size:21 final size:21
Alignment explanation
Indices: 13788245--13788366 Score: 70
Period size: 20 Copynumber: 6.0 Consensus size: 21
13788235 TAAGAATTTA
13788245 AAAATCGCGTTGCGAATTTGG
1 AAAATCGCGTTGCGAATTTGG
*** *
13788266 AAAATCGCAACGCGAATTAGG
1 AAAATCGCGTTGCGAATTTGG
* *** **
13788287 AGAATCGTAATGCG-ATTTAC
1 AAAATCGCGTTGCGAATTTGG
* *
13788307 ATATTCGCGTTGCGAATTTGG
1 AAAATCGCGTTGCGAATTTGG
* * *
13788328 AAACT-GAGTTGCGAAATTGG
1 AAAATCGCGTTGCGAATTTGG
**
13788348 -AGTTCGCGTTGCGAATTTG
1 AAAATCGCGTTGCGAATTTG
13788367 TTGGTCATTT
Statistics
Matches: 74, Mismatches: 25, Indels: 5
0.71 0.24 0.05
Matches are distributed among these distances:
19 2 0.03
20 37 0.50
21 35 0.47
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
AAAATCGCGTTGCGAATTTGG
Found at i:13795469 original size:28 final size:28
Alignment explanation
Indices: 13795437--13795491 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13795427 AGTTTGTATT
13795437 ATTTATTATTTAATGAAAATATGATGTA
1 ATTTATTATTTAATGAAAATATGATGTA
* *
13795465 ATTTATTATTTACTGAAAATCTGATGT
1 ATTTATTATTTAATGAAAATATGATGT
13795492 GGCCAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (28 bp):
ATTTATTATTTAATGAAAATATGATGTA
Found at i:13798569 original size:42 final size:42
Alignment explanation
Indices: 13798520--13798633 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
13798510 TAGGGACATA
*
13798520 AATTATAAAAGTTAAAAGTTTGATTAAAAATTTAAGAGAT-TC
1 AATTATAAAAGTTAAAAGTTAGATTAAAAATTT-AGAGATCTC
* * *
13798562 AATTATAAAAG-TAGAAAGTGAGATTAAAAAATTTAGGGGTCTC
1 AATTATAAAAGTTA-AAAGTTAGATT-AAAAATTTAGAGATCTC
* * *
13798605 AATTATAAAGGTAAAAAG-TGGATTAAAAA
1 AATTATAAAAGTTAAAAGTTAGATTAAAAA
13798634 AAACTAGGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 7 0.12
42 28 0.47
43 24 0.40
44 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.30
Consensus pattern (42 bp):
AATTATAAAAGTTAAAAGTTAGATTAAAAATTTAGAGATCTC
Found at i:13798753 original size:130 final size:127
Alignment explanation
Indices: 13798587--13798827 Score: 299
Period size: 130 Copynumber: 1.9 Consensus size: 127
13798577 AAGTGAGATT
* * *
13798587 AAAAAATTTAGGGGTCTCAATTATAAAGGTAAAAAGT-GGATTAAAAAAAACTAGGGGCCTCAAA
1 AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTAAGATT--AAAAAACTA-GGGCCT-AAA
* * *
13798651 C-ATAAATCTAAAAAGTGAGATT-AAAACAATTATAGGCTTCAATTATAAAGGTGGAAATAAAAA
62 CTATAAATATAAAAAGTGAGATTGAAAA-AA-TATAGACCTCAATTATAAAGGTGGAAATAAAAA
13798714 TAG
125 TAG
* * * * *
13798717 AAAAAAATTAGTGGCCTCAATTATAAAGGTAGAAAGTAAGATTGAAAAATTAGGGCCTTAACTAT
1 AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTAAGATTAAAAAACTAGGGCCTAAACTAT
*
13798782 AAATATAAAAAGTGGGATTGAAAAAATATAGACCTCAATTATAAAG
66 AAATATAAAAAGTGAGATTGAAAAAATATAGACCTCAATTATAAAG
13798828 ATAAAAAGTG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
127 21 0.22
128 27 0.28
129 11 0.11
130 33 0.34
131 4 0.04
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.24
Consensus pattern (127 bp):
AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTAAGATTAAAAAACTAGGGCCTAAACTAT
AAATATAAAAAGTGAGATTGAAAAAATATAGACCTCAATTATAAAGGTGGAAATAAAAATAG
Found at i:13798764 original size:44 final size:44
Alignment explanation
Indices: 13798560--13798840 Score: 206
Period size: 43 Copynumber: 6.6 Consensus size: 44
13798550 TTTAAGAGAT
* * * * *
13798560 TCAATTATAAAAGTAGAAAGTGAGATT-AAAAAATTTAGGGGTC
1 TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGTGGCC
* * *
13798603 TCAATTATAAAGGTAAAAAGTG-GATTAAAAAAAACTAGGGGCC
1 TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGTGGCC
** ** * *
13798646 TCAAACATAAATCTAAAAAGTGAGATT-AAAACAATTA-TAGGCT
1 TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGT-GGCC
** * * *
13798689 TCAATTATAAAGGTGGAAA-TAAAAATAGAAAAAAATTAGTGGCC
1 TCAATTATAAAGGTAAAAAGT-GAGATTGAAAAAAATTAGTGGCC
* *
13798733 TCAATTATAAAGGTAGAAAGTAAGATTG--AAAAATTAG-GGCC
1 TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGTGGCC
* * ** * *
13798774 TTAACTATAAATATAAAAAGTGGGATTG-AAAAAA-TA-TAGACC
1 TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGT-GGCC
*
13798816 TCAATTATAAAGATAAAAAGTGAGA
1 TCAATTATAAAGGTAAAAAGTGAGA
13798841 CTATAAAAAC
Statistics
Matches: 189, Mismatches: 39, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
41 27 0.14
42 43 0.23
43 78 0.41
44 39 0.21
45 2 0.01
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (44 bp):
TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAGTGGCC
Found at i:13798794 original size:41 final size:42
Alignment explanation
Indices: 13798719--13798836 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
13798709 AAAAATAGAA
* * *
13798719 AAAAATTAGTGGCCTCAATTATAAAGGTAGAAAGTAAGATTG
1 AAAAATTAGTGGCCTCAACTATAAAGATAAAAAGTAAGATTG
* * **
13798761 AAAAATTAG-GGCCTTAACTATAAATATAAAAAGTGGGATTG
1 AAAAATTAGTGGCCTCAACTATAAAGATAAAAAGTAAGATTG
* * *
13798802 AAAAAATA-TAGACCTCAATTATAAAGATAAAAAGT
1 AAAAATTAGT-GGCCTCAACTATAAAGATAAAAAGT
13798837 GAGACTATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 32 0.52
42 30 0.48
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (42 bp):
AAAAATTAGTGGCCTCAACTATAAAGATAAAAAGTAAGATTG
Found at i:13798849 original size:42 final size:41
Alignment explanation
Indices: 13798719--13798849 Score: 106
Period size: 42 Copynumber: 3.1 Consensus size: 41
13798709 AAAAATAGAA
* * * *
13798719 AAAAATTAGTGGCCTCAATTATAAAGGTAGAAAGTAAGAT-T
1 AAAAATTAG-GACCTCAATTATAAAGATAAAAAGTGAGATAT
* * * * *
13798760 GAAAAATTAGGGCCTTAACTATAAATATAAAAAGTGGGAT-T
1 -AAAAATTAGGACCTCAATTATAAAGATAAAAAGTGAGATAT
13798801 GAAAAAATATA-GACCTCAATTATAAAGATAAAAAGTGAGACTAT
1 --AAAAAT-TAGGACCTCAATTATAAAGATAAAAAGTGAGA-TAT
13798845 AAAAA
1 AAAAA
13798850 CCATGGGTCT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.33
42 44 0.61
43 3 0.04
44 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAAATTAGGACCTCAATTATAAAGATAAAAAGTGAGATAT
Found at i:13798885 original size:10 final size:10
Alignment explanation
Indices: 13798866--13798898 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13798856 GTCTTAATTA
13798866 TAAATAAAAT
1 TAAATAAAAT
*
13798876 TAAATTAAAT
1 TAAATAAAAT
13798886 TAAA-AAAAT
1 TAAATAAAAT
13798895 TAAA
1 TAAA
13798899 GGTTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATAAAAT
Found at i:13799159 original size:11 final size:11
Alignment explanation
Indices: 13799143--13799167 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13799133 TAAAATTTTT
13799143 CTCGACTTGTG
1 CTCGACTTGTG
13799154 CTCGACTTGTG
1 CTCGACTTGTG
13799165 CTC
1 CTC
13799168 TTTAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.32, G:0.24, T:0.36
Consensus pattern (11 bp):
CTCGACTTGTG
Found at i:13801077 original size:8 final size:8
Alignment explanation
Indices: 13801064--13801155 Score: 68
Period size: 8 Copynumber: 11.5 Consensus size: 8
13801054 AACCCGACCC
13801064 GACCCGTT
1 GACCCGTT
13801072 GACCC---
1 GACCCGTT
13801077 GACCCGTT
1 GACCCGTT
**
13801085 GACCCGACC
1 GACCCG-TT
13801094 GACCCGTT
1 GACCCGTT
*
13801102 GACCTGTT
1 GACCCGTT
13801110 GA-CCGTT
1 GACCCGTT
*
13801117 GACCTGTT
1 GACCCGTT
13801125 GA-CCGTT
1 GACCCGTT
13801132 GACCCTCGTT
1 GA-CC-CGTT
13801142 GACCACTGTT
1 GACC-C-GTT
13801152 GACC
1 GACC
13801156 AAAACTTTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
5 5 0.08
7 12 0.18
8 26 0.39
9 10 0.15
10 13 0.20
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:13801077 original size:13 final size:13
Alignment explanation
Indices: 13801059--13801093 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
13801049 GTCACAACCC
13801059 GACCCGACCCGTT
1 GACCCGACCCGTT
13801072 GACCCGACCCGTT
1 GACCCGACCCGTT
13801085 GACCCGACC
1 GACCCGACC
13801094 GACCCGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:13801117 original size:15 final size:15
Alignment explanation
Indices: 13801097--13801145 Score: 80
Period size: 15 Copynumber: 3.1 Consensus size: 15
13801087 CCCGACCGAC
13801097 CCGTTGACCTGTTGA
1 CCGTTGACCTGTTGA
13801112 CCGTTGACCTGTTGA
1 CCGTTGACCTGTTGA
13801127 CCGTTGACCCTCGTTGA
1 CCGTTGA-CCT-GTTGA
13801144 CC
1 CC
13801146 ACTGTTGACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 22 0.69
16 3 0.09
17 7 0.22
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.31
Consensus pattern (15 bp):
CCGTTGACCTGTTGA
Found at i:13801119 original size:7 final size:7
Alignment explanation
Indices: 13801097--13801135 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
13801087 CCCGACCGAC
13801097 CCGTTGA
1 CCGTTGA
13801104 CCTGTTGA
1 CC-GTTGA
13801112 CCGTTGA
1 CCGTTGA
13801119 CCTGTTGA
1 CC-GTTGA
13801127 CCGTTGA
1 CCGTTGA
13801134 CC
1 CC
13801136 CTCGTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.13, C:0.31, G:0.26, T:0.31
Consensus pattern (7 bp):
CCGTTGA
Found at i:13802452 original size:18 final size:18
Alignment explanation
Indices: 13802426--13802461 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13802416 TCGAAAGGAC
*
13802426 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
13802444 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
13802462 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:13803631 original size:24 final size:24
Alignment explanation
Indices: 13803604--13803650 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13803594 ATTTCCGACA
*
13803604 TGGATTCTGATCTGATACATGACC
1 TGGATTCTGATATGATACATGACC
*
13803628 TGGATTCTGATATGATACTTGAC
1 TGGATTCTGATATGATACATGAC
13803651 TTGAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGGATTCTGATATGATACATGACC
Found at i:13804677 original size:22 final size:22
Alignment explanation
Indices: 13804652--13804698 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13804642 CCGATTACTT
*
13804652 TTTAAT-TTTTATATATATTATA
1 TTTAATATTTTAGATA-ATTATA
*
13804674 TTTAATATTTTAGATAATTTTA
1 TTTAATATTTTAGATAATTATA
13804696 TTT
1 TTT
13804699 TCTTATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAATATTTTAGATAATTATA
Found at i:13805864 original size:13 final size:13
Alignment explanation
Indices: 13805846--13805870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13805836 AATGTCTTAT
13805846 TTTAGTCATTGAC
1 TTTAGTCATTGAC
13805859 TTTAGTCATTGA
1 TTTAGTCATTGA
13805871 GTTCAGGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTAGTCATTGAC
Found at i:13806253 original size:2 final size:2
Alignment explanation
Indices: 13806242--13806288 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
13806232 ATTTCTTTTA
13806242 AT AT -T 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 AT AT AT
13806283 AT AT AT
1 AT AT AT
13806289 TTACACTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13806505 original size:13 final size:13
Alignment explanation
Indices: 13806487--13806516 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13806477 TGAATCGGGT
13806487 TTTTAACTTTTAA
1 TTTTAACTTTTAA
*
13806500 TTTTAATTTTTAA
1 TTTTAACTTTTAA
13806513 TTTT
1 TTTT
13806517 CACAATTAAG
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAACTTTTAA
Found at i:13811895 original size:86 final size:84
Alignment explanation
Indices: 13811766--13812154 Score: 431
Period size: 86 Copynumber: 4.6 Consensus size: 84
13811756 TAGCTCAATA
*
13811766 AAGGGCTATCTATCAACCCAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
1 AAGGGCTATCTGTCAA--CAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
* * * *
13811831 TACGGCATAGCTTAAGGCGGG
64 TACAGCATAACTCAAGGCGAG
* * *
13811852 AAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCATATCAAACT
1 AAGGGCTATCTGTCAAC-AAA-ACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
13811917 TACAGCATAACTCAAGGCGAG
64 TACAGCATAACTCAAGGCGAG
* * * * * *
13811938 AAGGGTTATCTGTCAGCAAAGACATTTGAGTTCGATTACGTTCAGCTCAAAGGCACATCAAATTT
1 AAGGGCTATCTGTCAACAAA-ACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
*
13812003 ACAGCATAACTCAAGGCGAT
65 ACAGCATAACTCAAGGCGAG
* * * * * * * *
13812023 AAGGGTTATATGTTAAC-AAACCTTCAAGTTTGATTTCATTCAGCTCATAGGCATGTCAAATTTA
1 AAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTA
* *
13812087 CAGCATAGCTCAAGGTGAG
66 CAGCATAACTCAAGGCGAG
* * * * * *
13812106 AATGACTATATGTCAACAAAA-TTGTTGAGTTCGATTCCATTCAGCTCAA
1 AAGGGCTATCTGTCAACAAAACCT-TCGAGTTCGATTACATTCAGCTCAA
13812155 TGACACATCA
Statistics
Matches: 256, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
83 66 0.26
84 26 0.10
85 78 0.30
86 86 0.34
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (84 bp):
AAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTA
CAGCATAACTCAAGGCGAG
Found at i:13814501 original size:24 final size:26
Alignment explanation
Indices: 13814474--13814527 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
13814464 CTTCATTTTA
13814474 TTTTCATT-TT-TTTCTCTTAACAT-T
1 TTTTCATTGTTATTT-TCTTAACATAT
*
13814498 TTTT-ATTGTTATTTTCTTAATATAT
1 TTTTCATTGTTATTTTCTTAACATAT
13814523 TTTTC
1 TTTTC
13814528 CCCTCTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.12
24 14 0.56
25 8 0.32
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTCATTGTTATTTTCTTAACATAT
Found at i:13821083 original size:42 final size:43
Alignment explanation
Indices: 13820846--13821240 Score: 440
Period size: 43 Copynumber: 9.2 Consensus size: 43
13820836 TGTGAAATAA
* * * *
13820846 AAACGCCGCAAAAAGTCAAGTTCTATAACGGCATTTTT-GAAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGATAC
* * * ***
13820889 AAATGCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTATTTCAC
1 AAACGCCGCAAAAGG-TCAGATCTATAGCGGCATTTTTGGAT-AC
* * * * *
13820934 AAACGCCGTAAAAGATCATATCTATAGCGGCGTTTTTGGATAA
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
* * * *
13820977 AAACGCCGCAAAAGCTCATATCTATAGTGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
* *
13821020 AAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTAGA-AC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
* * * * * *
13821062 AAACGCTGTAATAGGTAAGATCTATAGTGGCGTTTTT-GATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
*
13821104 AAACGCCGCAAAAGGTCATATCTATAGCGG-AGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCA-TTTTTGGATAC
* *
13821147 AAACGCCGCAAAAGGTCATATCTATAGCGGAATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
*
13821190 AAACGCCGCAAAA-GTCAGATCTATAGCAGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
13821232 AAACGCCGC
1 AAACGCCGC
13821241 TAATTACCAT
Statistics
Matches: 300, Mismatches: 45, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 98 0.33
43 163 0.54
44 23 0.08
45 14 0.05
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
Found at i:13821127 original size:170 final size:170
Alignment explanation
Indices: 13820846--13821240 Score: 526
Period size: 170 Copynumber: 2.3 Consensus size: 170
13820836 TGTGAAATAA
* * * *
13820846 AAACGCCGCAAAAAGTCAAGTTCTATAACGGCATTTTTGAAACAAATGCCGCAAAAGGTTGAGAT
1 AAACGCCGC-AAAAGTC-AGATCTATAGCGGCATTTTTG-AACAAACGCCGCAAAAGGTTAAGAT
* *
13820911 CTATAGCGGCGTTTTTATTTCACAAACGCCGTAAAAGATCATATCTATAGCGGCGTTTTTGGATA
63 CTATAGCGGCGTTTTTA-TTCACAAACGCCGCAAAAGATCATATCTATAGCGGAGTTTTTGGATA
* **
13820976 AAAACGCCGCAAAAGCTCATATCTATAGTGGCGTTTTTGGATAC
127 AAAACGCCGCAAAAGCTCATATCTATAGCGGAATTTTTGGATAC
* * * *
13821020 AAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTAGAACAAACGCTGTAATAGG-TAAGATC
1 AAACGCCGCAAAA-GTCAGATCTATAGCGGCATTTTT-GAACAAACGCCGCAAAAGGTTAAGATC
* * *
13821084 TATAGTGGCGTTTTTGA-T-ACAAACGCCGCAAAAGGTCATATCTATAGCGGAGTTTTTGGATAC
64 TATAGCGGCGTTTTT-ATTCACAAACGCCGCAAAAGATCATATCTATAGCGGAGTTTTTGGATAA
*
13821147 AAACGCCGCAAAAGGTCATATCTATAGCGGAATTTTTGGATAC
128 AAACGCCGCAAAAGCTCATATCTATAGCGGAATTTTTGGATAC
*
13821190 AAACGCCGCAAAAGTCAGATCTATAGCAGCATTTTTGGATACAAACGCCGC
1 AAACGCCGCAAAAGTCAGATCTATAGCGGCATTTTT-GA-ACAAACGCCGC
13821241 TAATTACCAT
Statistics
Matches: 195, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
169 24 0.12
170 101 0.52
171 1 0.01
172 20 0.10
173 37 0.19
174 12 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (170 bp):
AAACGCCGCAAAAGTCAGATCTATAGCGGCATTTTTGAACAAACGCCGCAAAAGGTTAAGATCTA
TAGCGGCGTTTTTATTCACAAACGCCGCAAAAGATCATATCTATAGCGGAGTTTTTGGATAAAAA
CGCCGCAAAAGCTCATATCTATAGCGGAATTTTTGGATAC
Found at i:13826129 original size:3 final size:3
Alignment explanation
Indices: 13826123--13826175 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
13826113 GGCCTAAAAA
* *
13826123 AAT AAT AA- AAT AAT AAA AAT AAT AAT ATT AAT AAT AAAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
13826167 AAT AA- AAT A
1 AAT AAT AAT A
13826176 TTTTTGTAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 6 0.14
3 33 0.79
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13826168 original size:9 final size:8
Alignment explanation
Indices: 13826121--13826175 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
13826111 GGGGCCTAAA
13826121 AAAATAAT
1 AAAATAAT
13826129 AAAATAAT
1 AAAATAAT
13826137 AAAAATAAT
1 -AAAATAAT
*
13826146 AATATTAAT
1 AA-AATAAT
*
13826155 AATA-AAT
1 AAAATAAT
*
13826162 AATATAAT
1 AAAATAAT
13826170 AAAATA
1 AAAATA
13826176 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 7 0.17
8 18 0.45
9 15 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATAAT
Found at i:13826628 original size:84 final size:84
Alignment explanation
Indices: 13826506--13826670 Score: 224
Period size: 84 Copynumber: 2.0 Consensus size: 84
13826496 TTAAGGTCTT
* * * *
13826506 TGGCAGATAACCCTTCTTACCTTGAGCTATGCTACAAATGATGTACCTTTGATCTGAGTGCAATC
1 TGGCAAATAACCCTTCTTACCTTGAGCTATGCTACAAATGATATACCTTAGAGCTGAGTGCAATC
13826571 GAACTCAAAGGTCTTTTGC
66 GAACTCAAAGGTCTTTTGC
* * * * *
13826590 TGGCAAATAACCCTTCTTGA-CTTGAGCTATGTTGCAAATGATATGCCTTAGAGCTGAGTGTAGT
1 TGGCAAATAACCCTTCTT-ACCTTGAGCTATGCTACAAATGATATACCTTAGAGCTGAGTGCAAT
*
13826654 CGAACTCGAAGGTCTTT
65 CGAACTCAAAGGTCTTT
13826671 GTGTTTCAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
84 69 0.99
85 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (84 bp):
TGGCAAATAACCCTTCTTACCTTGAGCTATGCTACAAATGATATACCTTAGAGCTGAGTGCAATC
GAACTCAAAGGTCTTTTGC
Found at i:13826742 original size:33 final size:33
Alignment explanation
Indices: 13826668--13826787 Score: 197
Period size: 33 Copynumber: 3.6 Consensus size: 33
13826658 CTCGAAGGTC
13826668 TTTGTGTTTCAAGAGAAAC-ATTTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACGA-TTTCAAAGG--TTT
*
13826703 TTTGTGTTTCAAGATAAACGATTTCAAAGGTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
13826736 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
13826769 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
13826788 TGTCTCTAGG
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
33 54 0.66
35 27 0.33
36 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (33 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
Found at i:13826873 original size:67 final size:68
Alignment explanation
Indices: 13826742--13826949 Score: 192
Period size: 67 Copynumber: 3.0 Consensus size: 68
13826732 GTTTTTTGTG
* * * *
13826742 TTTCAAGAGAAACGATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCTAGGGAGGCAAAA
1 TTTCAAGAGAAACGATTTCAAAGG--TTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
13826807 TTTTC
64 CTTTC
*
13826812 TTTCAAGAGAAAC-ATATTCAAAGG-TTGGTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAAC
1 TTTCAAGAGAAACGAT-TTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
*
13826875 TTTG
65 TTTC
* * *
13826879 TTTCAAGGGAAATTG-TCTCAAGAGAGATAAAATT--TGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTTCAAGAGAAA-CGATTTCAA-AG-G-T----TTGGTGTTTCAAGAGAAACTGTCTCAAGAGAG
13826941 ACAAAACTT
58 ACAAAACTT
13826950 AGTTCCAAGA
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
67 51 0.44
68 3 0.03
69 3 0.03
70 21 0.18
73 36 0.31
75 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (68 bp):
TTTCAAGAGAAACGATTTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
TTC
Found at i:13826920 original size:21 final size:20
Alignment explanation
Indices: 13826854--13826924 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
13826844 TCAAGAGAAA
13826854 TTGTCTCAAGAGAGACAAAACT
1 TTGTCTCAAGAGAGA-AAAA-T
*
13826876 TTGTTTCAAG-G-G--AAA-
1 TTGTCTCAAGAGAGAAAAAT
13826891 TTGTCTCAAGAGAGATAAAAT
1 TTGTCTCAAGAGAGA-AAAAT
*
13826912 TTGTTTCAAGAGA
1 TTGTCTCAAGAGA
13826925 AACTGTCTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 4 0.10
20 4 0.10
21 13 0.32
22 9 0.22
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (20 bp):
TTGTCTCAAGAGAGAAAAAT
Found at i:13826932 original size:36 final size:36
Alignment explanation
Indices: 13826840--13827126 Score: 299
Period size: 36 Copynumber: 8.1 Consensus size: 36
13826830 CAAAGGTTGG
*
13826840 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
13826877 TGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
13826913 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
13826950 AG-TTCCA-AGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
13826984 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* ** *
13827013 TGTTTCAAGGGAAGTTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
13827049 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
13827085 TGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
13827122 TGTTT
1 TGTTT
13827127 TGAGTAAATT
Statistics
Matches: 210, Mismatches: 25, Indels: 30
0.79 0.09 0.11
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 2 0.01
31 1 0.00
32 2 0.01
33 2 0.01
34 3 0.01
35 29 0.14
36 109 0.52
37 44 0.21
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:13827048 original size:136 final size:138
Alignment explanation
Indices: 13826875--13827126 Score: 384
Period size: 136 Copynumber: 1.8 Consensus size: 138
13826865 GAGACAAAAC
*
13826875 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* * * *
13826940 GACAAAACTTAG-TTCCA-AGAAACTGTCTCAAGGGAGACGAAA-TTTGTTTCAAGGAAAACATA
66 GA-AAAAATTAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACATA
13827002 TTCAAAGAT
130 TTCAAAGAT
* * *
13827011 TTTGTTTCAAGGGAAGTTGTCTCAAGAGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* *
13827076 GAAAAAATTTGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAACTTTGTTT
66 GAAAAAATTAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
13827127 TGAGTAAATT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
135 7 0.07
136 67 0.65
137 22 0.21
138 7 0.07
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (138 bp):
TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GAAAAAATTAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACATAT
TCAAAGAT
Done.