Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 146 of 147
Found at i:27548173 original size:22 final size:22
Alignment explanation
Indices: 27548121--27548173 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
27548111 TATCTATCCT
* * *
27548121 AATTTTAAGGATACAAATACTT
1 AATTATAAAGATACAAATACTA
*
27548143 AATTCTAAAGATACAAATA-TA
1 AATTATAAAGATACAAATACTA
27548164 AATATATAAA
1 AAT-TATAAA
27548174 TTACAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (22 bp):
AATTATAAAGATACAAATACTA
Found at i:27554650 original size:2 final size:2
Alignment explanation
Indices: 27554643--27554681 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27554633 TCCTGTTAAG
27554643 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27554682 AGCTGAGAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:27558285 original size:3 final size:3
Alignment explanation
Indices: 27558270--27558307 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
27558260 CCGTATTGAC
* *
27558270 ATA ATA ATG ATA ATA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27558308 TAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27561536 original size:2 final size:2
Alignment explanation
Indices: 27561524--27561571 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
27561514 TACTAAATTA
*
27561524 AT AT A- AT AT AT AT AT TT 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
27561565 AT AT AT A
1 AT AT AT A
27561572 AAATTAGTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27564209 original size:30 final size:30
Alignment explanation
Indices: 27564167--27564227 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
27564157 GCTCTGGGGA
*
27564167 ATTCCTAGCAATATCTACTAAACTAAAACT
1 ATTCCTAGCAATATATACTAAACTAAAACT
27564197 ATTCCT-GCCAATATATACTAAACTAAAACT
1 ATTCCTAG-CAATATATACTAAACTAAAACT
27564227 A
1 A
27564228 ACTTATTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.30
Consensus pattern (30 bp):
ATTCCTAGCAATATATACTAAACTAAAACT
Found at i:27569268 original size:26 final size:27
Alignment explanation
Indices: 27569187--27569254 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
27569177 TTGTGAAAGT
* * *
27569187 TGCTGTTATTGTTGCAGCTGCGAGAGG
1 TGCTGTTGTTGTTGCAGCTGGGAGAGC
27569214 TGCTGTTGTTGTTGCAGCTGGGAGAGC
1 TGCTGTTGTTGTTGCAGCTGGGAGAGC
27569241 TGCTGTT-TTGTTGC
1 TGCTGTTGTTGTTGC
27569255 CGCTCTGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 7 0.18
27 31 0.82
ACGTcount: A:0.10, C:0.15, G:0.37, T:0.38
Consensus pattern (27 bp):
TGCTGTTGTTGTTGCAGCTGGGAGAGC
Found at i:27580427 original size:31 final size:31
Alignment explanation
Indices: 27580369--27580427 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
27580359 AAAATTTACG
*
27580369 CATTAATGAGATGATATTATTGGATTCACTT
1 CATTAATGAGATGATATTATTCGATTCACTT
*
27580400 CATTAATGAGATGATATTATTCTATTCA
1 CATTAATGAGATGATATTATTCGATTCA
27580428 TTAACAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (31 bp):
CATTAATGAGATGATATTATTCGATTCACTT
Found at i:27587266 original size:2 final size:2
Alignment explanation
Indices: 27587219--27587251 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27587209 GTGAAGAAGA
27587219 AT AT AT AT AT AT 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 A
27587252 CACTCACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27591364 original size:3 final size:3
Alignment explanation
Indices: 27591358--27591386 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27591348 TGAAGAAGAA
27591358 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
27591387 AAATGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:27591392 original size:12 final size:12
Alignment explanation
Indices: 27591365--27591421 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
27591355 GAAGATGATG
**
27591365 ATGATGATGATG
1 ATGATGATGAAA
27591377 ATGATGATGAAA
1 ATGATGATGAAA
**
27591389 ATGAAAATGAAA
1 ATGATGATGAAA
* *
27591401 ATGATGAAGACA
1 ATGATGATGAAA
*
27591413 ATGAAGATG
1 ATGATGATG
27591422 GGAGTCATGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (12 bp):
ATGATGATGAAA
Found at i:27598758 original size:9 final size:9
Alignment explanation
Indices: 27598744--27598769 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27598734 ATTTTGAGTA
27598744 TGATGATGT
1 TGATGATGT
27598753 TGATGATGT
1 TGATGATGT
27598762 TGATGATG
1 TGATGATG
27598770 AAGACAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (9 bp):
TGATGATGT
Found at i:27600690 original size:2 final size:2
Alignment explanation
Indices: 27600645--27600675 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27600635 CTAATTACTT
27600645 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27600676 TGCCCTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27602479 original size:2 final size:2
Alignment explanation
Indices: 27602472--27602512 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27602462 AAGATTCATG
27602472 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
27602513 GGGAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27603170 original size:16 final size:16
Alignment explanation
Indices: 27603145--27603175 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27603135 AAATAAACCG
27603145 TATTTACTTTTTTATT
1 TATTTACTTTTTTATT
*
27603161 TATTTTCTTTTTTAT
1 TATTTACTTTTTTAT
27603176 AAGACATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTACTTTTTTATT
Found at i:27604731 original size:2 final size:2
Alignment explanation
Indices: 27604724--27604757 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27604714 AGTTTATTTT
27604724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27604758 CACACATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27608486 original size:17 final size:18
Alignment explanation
Indices: 27608439--27608486 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
27608429 TTTATTAAAA
*
27608439 TTTTAAATTAT-ATTATT
1 TTTTATATTATAATTATT
* *
27608456 TTTTATTTTTTAATTA-T
1 TTTTATATTATAATTATT
27608473 TTTTATATTATAAT
1 TTTTATATTATAAT
27608487 ATCGTATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATATTATAATTATT
Found at i:27612086 original size:12 final size:12
Alignment explanation
Indices: 27612069--27612100 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
27612059 TGCAAGCTTT
27612069 AGAGAGAGAGTG
1 AGAGAGAGAGTG
27612081 AGAGAGAGAGTG
1 AGAGAGAGAGTG
27612093 AGAGAGAG
1 AGAGAGAG
27612101 TTACTGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.50, T:0.06
Consensus pattern (12 bp):
AGAGAGAGAGTG
Found at i:27616087 original size:21 final size:21
Alignment explanation
Indices: 27616049--27616088 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27616039 ATTTATGCAT
*
27616049 GATAAGTTTTAAATTTGTTAG
1 GATAAGTTTTAAACTTGTTAG
**
27616070 GATAAGTTTTTTACTTGTT
1 GATAAGTTTTAAACTTGTT
27616089 TTAATAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (21 bp):
GATAAGTTTTAAACTTGTTAG
Found at i:27616453 original size:15 final size:16
Alignment explanation
Indices: 27616433--27616466 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27616423 CTTAATTTTT
27616433 AAAAT-CCTAAAATCC
1 AAAATCCCTAAAATCC
*
27616448 AAAATCCCTTAAATCC
1 AAAATCCCTAAAATCC
27616464 AAA
1 AAA
27616467 CCTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Found at i:27621584 original size:3 final size:3
Alignment explanation
Indices: 27621576--27621609 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
27621566 TTCTTGAGGT
*
27621576 CTA CTA CTA CTA CTA CTA CTA CTA CTA CAA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
27621610 CATATGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (3 bp):
CTA
Found at i:27627884 original size:2 final size:2
Alignment explanation
Indices: 27627877--27627908 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
27627867 GTTAACGTCC
27627877 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27627909 GTTCATACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27633427 original size:126 final size:127
Alignment explanation
Indices: 27633242--27633528 Score: 338
Period size: 126 Copynumber: 2.3 Consensus size: 127
27633232 TGCTTTTGTA
* ** *
27633242 CAAGAAAAAATTGATACTTTCAAC-TTTTCT--TAAAAAAAAAACTCTTTTTTTGGAAATTTATT
1 CAAG-AAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAAAAACTCTTTTTGGAAATTTATT
* * * * * * *
27633304 CTTAAGAAAAATTGATACTTTCAATTTTTTCT-TAAACATATTTTTTTTTGAAATTCTTAATT-T
65 CTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAAT-TT-ATTCT
* * *
27633367 CGAGGAAAATTGATACTTTTAACTTTTTCTCAAAAAAAAAAAAAAC-CTTTTT-GAAGATTTATT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAAAAACTCTTTTTGGAA-ATTTATT
27633430 CTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCT
65 CTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCT
*
27633493 TAAGAAAAATTGATACTTTCAA-TTTTTCCTCAAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTT-CTCAAAAA
27633529 TGTTTTTTTA
Statistics
Matches: 137, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
124 17 0.12
125 20 0.15
126 71 0.52
127 29 0.21
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (127 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAAAAACTCTTTTTGGAAATTTATTC
TTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCT
Found at i:27633470 original size:30 final size:30
Alignment explanation
Indices: 27633436--27633528 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 30
27633426 TATTCTTAAG
*
27633436 AAAAATTGATACTTTCAACTTTTCCTCAAA
1 AAAAATTGATACTTTCAAATTTTCCTCAAA
** * * * *
27633466 AAAAACTT--TTTTTTGAAAATTTATTCTTAAG
1 AAAAA-TTGATACTTT-CAAATTT-TCCTCAAA
*
27633497 AAAAATTGATACTTTCAATTTTTCCTCAAA
1 AAAAATTGATACTTTCAAATTTTCCTCAAA
27633527 AA
1 AA
27633529 TGTTTTTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
29 4 0.09
30 19 0.43
31 17 0.39
32 4 0.09
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (30 bp):
AAAAATTGATACTTTCAAATTTTCCTCAAA
Found at i:27633497 original size:61 final size:61
Alignment explanation
Indices: 27633247--27633528 Score: 289
Period size: 61 Copynumber: 4.5 Consensus size: 61
27633237 TTGTACAAGA
* * *
27633247 AAAAATTGATACTTTCAACTTTTCTTAAAAAAAAAACTCTTTTTTTGGAAATTTATTCTTAAG
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAAAAACT-TTTTTTTGAAAATTTATTCTTAAG
* * * * * * * **
27633310 AAAAATTGATACTTTCAATTTTTTCT-TAAACATATTTTTTTTTGAAATTCTTAATT-TCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAAT-TT-ATTCTTAAG
* * * **** *
27633371 GAAAATTGATACTTTTAACTTTTTCTCAAAAAAAAAAAAAACCTTTTTGAAGATTTATTCTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTC----AAAAAAAACTTTTTTTTGAAAATTTATTCTTAAG
27633436 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCTTAAG
*
27633497 AAAAATTGATACTTTCAATTTTTCCTCAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA
27633529 TGTTTTTTTA
Statistics
Matches: 177, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
60 11 0.06
61 94 0.53
62 3 0.02
63 23 0.13
64 3 0.02
65 29 0.16
66 14 0.08
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (61 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAATTTATTCTTAAG
Found at i:27633648 original size:5 final size:5
Alignment explanation
Indices: 27633561--27633684 Score: 87
Period size: 5 Copynumber: 24.8 Consensus size: 5
27633551 TTATTTAAAG
* * ** *
27633561 AAAAT GAAAT -AAAT AAAAT AAAA- AAATAT TAAAT AACCCT AATAT AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AA-AAT AAAAT AA-AAT
*
27633612 -AAAT -AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AATAAA AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT
* * *
27633662 AAAAA AAAAA AAAAC AAAA- AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA
27633685 ACCTGGAGCA
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
4 18 0.18
5 66 0.66
6 16 0.16
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27633660 original size:50 final size:49
Alignment explanation
Indices: 27633562--27633684 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 49
27633552 TATTTAAAGA
* ** *
27633562 AAATGAAAT-AAATAAAATAAAAAAATATTAAATAACCCTAATATAATAAT
1 AAAT-AAATAAAATAAAATAAAAAAA-ATAAAATAACAATAATAAAATAAT
27633612 AAATAAATAAAATAAAATAAAATAAAATAAAATAA-AATAATAAAAATAAT
1 AAATAAATAAAATAAAATAAAA-AAAATAAAATAACAATAAT-AAAATAAT
*
27633662 AAA-AAA-AAAA-AAAACAAAAAAAA
1 AAATAAATAAAATAAAATAAAAAAAA
27633685 ACCTGGAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
46 4 0.06
47 8 0.12
48 4 0.06
49 11 0.17
50 35 0.54
51 3 0.05
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (49 bp):
AAATAAATAAAATAAAATAAAAAAAATAAAATAACAATAATAAAATAAT
Found at i:27634550 original size:18 final size:18
Alignment explanation
Indices: 27634507--27634579 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 18
27634497 TAAATCAAAA
* *
27634507 AAATCAAATAAA-AATAT
1 AAATAAAATAAATAAGAT
*
27634524 TAATGAAAATAAATAAGAT
1 AAAT-AAAATAAATAAGAT
27634543 AAATAAAA-AAATTAACAGAT
1 AAATAAAATAAA-T-A-AGAT
27634563 AAATTAAAATTAAATAA
1 AAA-TAAAA-TAAATAA
27634580 CAGATAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
17 6 0.14
18 12 0.27
19 8 0.18
20 8 0.18
21 6 0.14
22 1 0.02
23 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (18 bp):
AAATAAAATAAATAAGAT
Found at i:27634562 original size:20 final size:20
Alignment explanation
Indices: 27634529--27634588 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 20
27634519 AATATTAATG
27634529 AAAATAAAT-A-AGATAAAT
1 AAAATAAATAACAGATAAAT
27634547 AAAA-AAATTAACAGATAAATT
1 AAAATAAA-TAACAGATAAA-T
27634568 AAAATTAAATAACAGATAAAT
1 AAAA-TAAATAACAGATAAAT
27634589 TATAACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 1 0.03
20 7 0.19
21 6 0.17
22 11 0.31
23 3 0.08
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATAAATAACAGATAAAT
Found at i:27634568 original size:12 final size:12
Alignment explanation
Indices: 27634551--27634590 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
27634541 ATAAATAAAA
27634551 AAATTAACAGAT
1 AAATTAACAGAT
27634563 AAATTAA-A-ATT
1 AAATTAACAGA-T
27634574 AAA-TAACAGAT
1 AAATTAACAGAT
27634585 AAATTA
1 AAATTA
27634591 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:27634683 original size:6 final size:6
Alignment explanation
Indices: 27634672--27634758 Score: 83
Period size: 6 Copynumber: 14.8 Consensus size: 6
27634662 AATACATAAG
* * * * *
27634672 ATAAAA AT-AAA AGAAAA ATATAT ATAAAA ACAATA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
27634719 A-AAAA ATAAAA ATATAAA ATACAAA A-AAAA A-AAAA ATAAA
1 ATAAAA ATAAAA ATA-AAA ATA-AAA ATAAAA ATAAAA ATAAA
27634759 CTTACCTATT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
5 18 0.27
6 38 0.58
7 10 0.15
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:27634748 original size:35 final size:35
Alignment explanation
Indices: 27634672--27634754 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
27634662 AATACATAAG
* *
27634672 ATAAAAATAAAAGAAAAATATATATAAAAACAATA
1 ATAAAAATAAAAAAAAAATAAATATAAAAACAATA
27634707 ATAAAAATAAAAAAAAAATAAAAATATAAAATACAA-A
1 ATAAAAATAAAAAAAAAAT--AAATATAAAA-ACAATA
27634744 A-AAAAA-AAAAA
1 ATAAAAATAAAAA
27634755 TAAACTTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
35 23 0.53
36 5 0.12
37 11 0.26
38 4 0.09
ACGTcount: A:0.81, C:0.02, G:0.01, T:0.16
Consensus pattern (35 bp):
ATAAAAATAAAAAAAAAATAAATATAAAAACAATA
Found at i:27634754 original size:41 final size:41
Alignment explanation
Indices: 27634672--27634758 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
27634662 AATACATAAG
* * *
27634672 ATAAAAATAAAAGAAAAATATATATAAAAACAATAATAAAA
1 ATAAAAAAAAAAGAAAAATATAAATAAAAACAATAAAAAAA
*
27634713 ATAAAAAAAAAATAAAAATATAAAATACAAAA-AA-AAAAAAA
1 ATAAAAAAAAAAGAAAAATAT-AAATA-AAAACAATAAAAAAA
27634754 ATAAA
1 ATAAA
27634759 CTTACCTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 30 0.75
42 6 0.15
43 4 0.10
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.16
Consensus pattern (41 bp):
ATAAAAAAAAAAGAAAAATATAAATAAAAACAATAAAAAAA
Found at i:27636746 original size:2 final size:2
Alignment explanation
Indices: 27636739--27636768 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27636729 GTTTACGTTA
27636739 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
27636769 GAATTAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27638440 original size:2 final size:2
Alignment explanation
Indices: 27638433--27638471 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27638423 CTTGACACCA
27638433 AT AT AT AT AT AT AT AT AT 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
27638472 GATGCAGCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27640841 original size:2 final size:2
Alignment explanation
Indices: 27640802--27640830 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27640792 ACCTATTCTG
27640802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27640831 TGTCCTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27650096 original size:21 final size:21
Alignment explanation
Indices: 27650067--27650115 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
27650057 ATGATGTAAT
*
27650067 TTTTG-TAATCATTGATACAA
1 TTTTGATAATCATTGATAAAA
* *
27650087 TTTTGATAATCTTTTATAAAA
1 TTTTGATAATCATTGATAAAA
*
27650108 TTGTGATA
1 TTTTGATA
27650116 GTCTCTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTGATAATCATTGATAAAA
Found at i:27650124 original size:21 final size:21
Alignment explanation
Indices: 27650085--27650124 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27650075 TCATTGATAC
* *
27650085 AATTTTGATAATCTTTTATAA
1 AATTGTGATAATCTCTTATAA
*
27650106 AATTGTGATAGTCTCTTAT
1 AATTGTGATAATCTCTTAT
27650125 GTAATTTTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (21 bp):
AATTGTGATAATCTCTTATAA
Found at i:27650293 original size:6 final size:6
Alignment explanation
Indices: 27650277--27650340 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
27650267 TTTTTCTTCA
* *
27650277 TTTTAT CTTTAT TTTTATTT TTTGTAT TTTATAT TTTTA- GTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA--T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
*
27650328 TTTTAT TATTAT T
1 TTTTAT TTTTAT T
27650341 ATTTTATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.08
6 28 0.58
7 10 0.21
8 4 0.08
9 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:27650306 original size:7 final size:7
Alignment explanation
Indices: 27650284--27650349 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 7
27650274 TCATTTTATC
27650284 TTTAT-T
1 TTTATAT
*
27650290 TTTATTT
1 TTTATAT
*
27650297 TTTGTAT
1 TTTATAT
27650304 TTTATAT
1 TTTATAT
*
27650311 TTT-TAG
1 TTTATAT
27650317 TTTAT-T
1 TTTATAT
27650323 TTTAT-T
1 TTTATAT
27650329 TTTAT-T
1 TTTATAT
*
27650335 ATTATTAT
1 TTTA-TAT
27650343 TTTATAT
1 TTTATAT
27650350 ATGTGTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
6 25 0.51
7 20 0.41
8 4 0.08
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTATAT
Found at i:27650519 original size:21 final size:21
Alignment explanation
Indices: 27650462--27650538 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 21
27650452 TTTTCTTTTC
*
27650462 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
27650484 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
27650506 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
*
27650527 CTGATTTATTTT
1 CTG-TTAATTTT
27650539 CGTTTGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 22 0.47
23 4 0.09
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:27651395 original size:4 final size:4
Alignment explanation
Indices: 27651388--27651455 Score: 66
Period size: 4 Copynumber: 16.2 Consensus size: 4
27651378 TTTTTTTTTA
* *
27651388 ATTT ATTT ATTT ATTT GTTT ATTT GTTT ATTTT ATTT ATTT -TATT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT AT-TT ATTT
*
27651437 ATTAT ATTA AGTTT ATTT A
1 ATT-T ATTT A-TTT ATTT A
27651456 ATATTCTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
3 1 0.02
4 40 0.75
5 12 0.23
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:27651408 original size:12 final size:11
Alignment explanation
Indices: 27651377--27651566 Score: 70
Period size: 12 Copynumber: 16.4 Consensus size: 11
27651367 GCTCCAGGTT
*
27651377 TTTTTTTTTTAA
1 TTTTTTATTT-A
27651389 TTTATTTATTTA
1 TTT-TTTATTTA
*
27651401 TTTGTTTATTTGT
1 TTT-TTTATTT-A
27651414 TTATTTTATTTA
1 TT-TTTTATTTA
27651426 TTTTATTATTTA
1 TTTT-TTATTTA
*
27651438 TTATATTAAGTTTA
1 TT-T-TTTA-TTTA
**
27651452 TTTAATATTCT-
1 TTTTTTATT-TA
* *
27651463 TTTTATCTTTA
1 TTTTTTATTTA
27651474 TTTTATT-TTTA
1 TTTT-TTATTTA
27651485 TTTTTGT-TTTA
1 TTTTT-TATTTA
* *
27651496 -CTTTTCTTTA
1 TTTTTTATTTA
*
27651506 TTTTAT-TTTA
1 TTTTTTATTTA
27651516 TTTTTTATTT-
1 TTTTTTATTTA
*
27651526 TTATTTATTT-
1 TTTTTTATTTA
*
27651536 TCACTTTTATTTTA
1 T--TTTTTA-TTTA
27651550 TTTTATTATTCTA
1 TTTT-TTATT-TA
27651563 TTTT
1 TTTT
27651567 CTTTAAATAA
Statistics
Matches: 139, Mismatches: 19, Indels: 39
0.71 0.10 0.20
Matches are distributed among these distances:
9 1 0.01
10 28 0.20
11 34 0.24
12 36 0.26
13 31 0.22
14 9 0.06
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:27651424 original size:25 final size:24
Alignment explanation
Indices: 27651389--27651536 Score: 79
Period size: 27 Copynumber: 5.7 Consensus size: 24
27651379 TTTTTTTTAA
27651389 TTTATTTATTTATTTGT-TTATTTG
1 TTTATTTATTTATTT-TATTATTTG
*
27651413 TTTATTTTATTTATTTTATTATTTA
1 TTTA-TTTATTTATTTTATTATTTG
* *
27651438 TTATATTAAGTTTATTTAATATTCTTT-
1 TT-TATTTA-TTTATTT--TATTATTTG
*
27651465 TTATCTTTATTTTATTTTTATT-TTTG
1 TT-TATTTA-TTTA-TTTTATTATTTG
*
27651491 TTTTACTTTTCTTTATTTTATTTTATTT-
1 -TTTA--TTTATTTATTTTA--TTATTTG
27651519 TTTATTTTTATTTATTTT
1 TTTA--TTTATTTATTTT
27651537 CACTTTTATT
Statistics
Matches: 100, Mismatches: 10, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
24 5 0.05
25 25 0.25
26 19 0.19
27 33 0.33
28 15 0.15
29 3 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTATTTATTTATTTTATTATTTG
Found at i:27651427 original size:17 final size:16
Alignment explanation
Indices: 27651376--27651565 Score: 93
Period size: 17 Copynumber: 10.9 Consensus size: 16
27651366 CGCTCCAGGT
*
27651376 TTTTTTTTTTTAATTTA
1 TTTTTTATTTT-ATTTA
*
27651393 TTTATTTA-TTTGTTTA
1 TTT-TTTATTTTATTTA
27651409 TTTGTTTATTTTATTTA
1 TTT-TTTATTTTATTTA
27651426 TTTTATTA-TTTATTATA
1 TTTT-TTATTTTATT-TA
* *
27651443 TTAAGTTTATTTAATATT-
1 TT--TTTTATTTTAT-TTA
*
27651461 CTTTTTATCTTTATTT-
1 TTTTTTAT-TTTATTTA
*
27651477 TATTTTTATTTTTGTTTTA
1 T-TTTTTA-TTTT-ATTTA
27651496 CTTTTCTTTATTTTATTTTA
1 --TTT-TTTATTTTA-TTTA
27651516 TTTTTTATTTTTATTTA
1 TTTTTTA-TTTTATTTA
*
27651533 -TTTTCACTTTTATTTTA
1 TTTTTTA-TTTTA-TTTA
*
27651550 TTTTATTATTCTATTT
1 TTTT-TTATTTTATTT
27651566 TCTTTAAATA
Statistics
Matches: 136, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
16 35 0.26
17 51 0.38
18 26 0.19
19 8 0.06
20 11 0.08
21 5 0.04
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTTATTTTATTTA
Found at i:27651437 original size:21 final size:20
Alignment explanation
Indices: 27651413--27651552 Score: 88
Period size: 21 Copynumber: 6.6 Consensus size: 20
27651403 TGTTTATTTG
27651413 TTTATTTTATTTATTTTATT
1 TTTATTTTATTTATTTTATT
* * *
27651433 ATTTATTATATTAAGTTTATT
1 -TTTATTTTATTTATTTTATT
*
27651454 TAATATTCTT-TTTATCTTTA-T
1 T-TTATT-TTATTTAT-TTTATT
* *
27651475 TTTATTTTTATTTTTGTTTTACT
1 TTTA-TTTTA--TTTATTTTATT
*
27651498 TTT-CTTTATTTTATTTTATTT
1 TTTATTTTA-TTTATTTTA-TT
*
27651519 TTTATTTTTATTTATTTTCACT
1 TTTA-TTTTATTTATTTT-ATT
27651541 TTTATTTTATTT
1 TTTATTTTATTT
27651553 TATTATTCTA
Statistics
Matches: 93, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
20 14 0.15
21 44 0.47
22 22 0.24
23 13 0.14
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (20 bp):
TTTATTTTATTTATTTTATT
Found at i:27651480 original size:5 final size:5
Alignment explanation
Indices: 27651413--27651556 Score: 86
Period size: 5 Copynumber: 28.2 Consensus size: 5
27651403 TGTTTATTTG
* * *
27651413 TTTAT TTTA- TTTAT TTTAT TATT-T ATTAT ATTAAG TTTAT TTAATAT
1 TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT -TTTAT TTTAT TT--TAT
* * *
27651460 TCT-T TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT TTT-C TTTAT
1 TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTAT TTTAT
*
27651507 TTTAT TTTAT TTT-T TAT-T TTTA- TTTAT TTTCACT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
27651556 T
1 T
27651557 ATTCTATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 30
0.71 0.09 0.19
Matches are distributed among these distances:
4 22 0.20
5 55 0.50
6 25 0.23
7 8 0.07
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:27651499 original size:27 final size:28
Alignment explanation
Indices: 27651463--27651566 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 28
27651453 TTAATATTCT
*
27651463 TTTTATCTTTAT-TTTATTTTTATTTTTG
1 TTTTA-CTTTATATTTATTTTTATTTTTA
* *
27651491 TTTTACTTT-TCTTTA-TTTTATTTTATT
1 TTTTACTTTATATTTATTTTTATTTT-TA
* * *
27651518 TTTTA-TTTTTATTTATTTTCACTTTTA
1 TTTTACTTTATATTTATTTTTATTTTTA
*
27651545 TTTTATTTTATTATTCTATTTT
1 TTTTACTTTA-TATT-TATTTT
27651567 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
26 13 0.21
27 25 0.40
28 15 0.24
29 4 0.06
30 6 0.10
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (28 bp):
TTTTACTTTATATTTATTTTTATTTTTA
Found at i:27651571 original size:22 final size:21
Alignment explanation
Indices: 27651481--27651571 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
27651471 TTATTTTATT
27651481 TTTATTTT-TGTTT-TACTTTTC
1 TTTATTTTAT-TTTCTA-TTTTC
* * *
27651502 TTTATTTTATTTTATTTTTTA
1 TTTATTTTATTTTCTATTTTC
* *
27651523 TTTTTATTTATTTTC-ACTTTTAT
1 TTTAT-TTTATTTTCTA-TTTT-C
27651546 TTTATTTTATTATTCTATTTTC
1 TTTATTTTATT-TTCTATTTTC
27651568 TTTA
1 TTTA
27651572 AATAAAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
21 19 0.35
22 24 0.44
23 11 0.20
24 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTATTTTATTTTCTATTTTC
Found at i:27651720 original size:117 final size:112
Alignment explanation
Indices: 27651583--27651911 Score: 353
Period size: 117 Copynumber: 2.8 Consensus size: 112
27651573 ATAAAAATAA
* *
27651583 AAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAAG
1 AAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAATTTTCAAAAAAAT
*
27651647 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA-
65 ATTTTTG-G-AAAAGTTAAAAGTATCAATTTTCCTT---AAT-AAAGTTTCCAG
*
27651700 AAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAAAGTTTTC-AAAAA
1 AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCT-TTGAAAAT-AAA-TTTTCAAAAAA
* * *
27651763 ATATTTTTGGGGAAAAGTTAAAAGTATAAATTTTCCTTAATAAATTTTTCAG
63 ATATTTTT--GGAAAAGTTAAAAGTATCAATTTTCCTTAATAAAGTTTCCAG
* * * * * * *
27651815 AAAAATAAATTTTTGAGG-AAAAGTTAAAAATATCAATTTTCCTCGAAATTAAAGTTTCAAAAGA
1 AAAAAT--ATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAATTTTCAAAAAA
27651879 ATATTTTTTGGAAAAGTTAAAAGTATCAATTTT
63 ATA-TTTTTGGAAAAGTTAAAAGTATCAATTTT
27651912 TCCTACAAAA
Statistics
Matches: 183, Mismatches: 16, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
114 8 0.04
115 35 0.19
116 11 0.06
117 78 0.43
118 44 0.24
119 6 0.03
120 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (112 bp):
AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAATTTTCAAAAAAATA
TTTTTGGAAAAGTTAAAAGTATCAATTTTCCTTAATAAAGTTTCCAG
Found at i:27651734 original size:59 final size:58
Alignment explanation
Indices: 27651582--27651911 Score: 359
Period size: 59 Copynumber: 5.7 Consensus size: 58
27651572 AATAAAAATA
* * * * *
27651582 AAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCA
1 AAAAAATATTTTTGGGA-AAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
* * *
27651640 AAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTCC
* * * *
27651699 AAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTTC
1 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTCC
* * * *
27651758 AAAAAATATTTTTGGGGAAAAGTTAAAAGTATAAATTTTCCTT---AATAAATTTTTC
1 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
* * *
27651813 AGAAAAATAAATTTTTGAGG-AAAAGTTAAAAATATCAATTTTCCTCGAAATTAAAGTTT-C
1 A-AAAAAT--ATTTTTG-GGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
*
27651873 AAAAGAATATTTTTTGG-AAAAGTTAAAAGTATCAATTTT
1 AAAA-AATATTTTTGGGAAAAAGTTAAAAGTATCAATTTT
27651912 TCCTACAAAA
Statistics
Matches: 237, Mismatches: 25, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
55 9 0.04
56 9 0.04
57 23 0.10
58 78 0.33
59 105 0.44
60 5 0.02
61 8 0.03
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAGTTTCC
Found at i:27655897 original size:29 final size:30
Alignment explanation
Indices: 27655838--27655900 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
27655828 AAATGAGAAA
*
27655838 AAAAAAAGAGAAAAAAAGAGAAAAAAAGAG
1 AAAAAAAGAGAAAAAAAAAGAAAAAAAGAG
* *
27655868 AAAAAAAG-GAAAAAAAAAGGAAAAATGAG
1 AAAAAAAGAGAAAAAAAAAGAAAAAAAGAG
27655897 AAAA
1 AAAA
27655901 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (30 bp):
AAAAAAAGAGAAAAAAAAAGAAAAAAAGAG
Found at i:27655910 original size:10 final size:10
Alignment explanation
Indices: 27655838--27655900 Score: 92
Period size: 10 Copynumber: 6.4 Consensus size: 10
27655828 AAATGAGAAA
27655838 AAAAAAAGAG
1 AAAAAAAGAG
27655848 AAAAAAAGAG
1 AAAAAAAGAG
27655858 AAAAAAAGAG
1 AAAAAAAGAG
27655868 AAAAAAAG-G
1 AAAAAAAGAG
*
27655877 AAAAAAAAAG
1 AAAAAAAGAG
* *
27655887 GAAAAATGAG
1 AAAAAAAGAG
27655897 AAAA
1 AAAA
27655901 TGAAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
9 8 0.17
10 39 0.83
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:27657225 original size:43 final size:43
Alignment explanation
Indices: 27657159--27657292 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
27657149 ATGATTGTCA
* * * *
27657159 AGGAGCAGTTTA-CTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTTCAAAGTCGTGGAGCCTCTGATTAG
* * * *
27657201 ATGAGCAATTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTTTCAAAGTCGTGGAGCCTCTGATTAG
* * * * * **
27657244 AGGAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCCTAG
1 AGGAGCAATTTATTTTTTTCAAAGTCGTGGAGCCTCTGATTAG
27657287 AGGAGC
1 AGGAGC
27657293 TTTGATCAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 10 0.14
43 64 0.86
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (43 bp):
AGGAGCAATTTATTTTTTTCAAAGTCGTGGAGCCTCTGATTAG
Found at i:27657514 original size:6 final size:6
Alignment explanation
Indices: 27657498--27657554 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
27657488 TTTTTCTTCA
* * *
27657498 TTTTAT CTTTAT TTTTATT TTTGTAT TTTACAT TTTTA- GTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
27657548 TTTTAT T
1 TTTTAT T
27657555 ATTTTATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 4 0.10
6 22 0.54
7 13 0.32
8 2 0.05
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:27657720 original size:22 final size:21
Alignment explanation
Indices: 27657677--27657788 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 21
27657667 CTTTTTTTTC
*
27657677 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
27657699 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
* *
27657721 TTGTTAATTTTTTTCATTTAT
1 CTGTTAATTTTTTTAATTTAT
* *
27657742 CTGATTTATTTTCGTTTGATTT-T
1 CTG-TTAATTTT--TTTAATTTAT
* * * *
27657765 TTTTTATTTTTTTTTATTTAT
1 CTGTTAATTTTTTTAATTTAT
27657786 CTG
1 CTG
27657789 GCTGGAAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
20 9 0.13
21 20 0.29
22 27 0.39
23 6 0.09
24 7 0.10
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:27658684 original size:4 final size:4
Alignment explanation
Indices: 27658618--27658668 Score: 84
Period size: 4 Copynumber: 12.8 Consensus size: 4
27658608 TTTTTTTTGA
* *
27658618 ATTT ATTT ATTT ATTT GTTT ATTT GTTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
27658666 ATT
1 ATT
27658669 AGATTAGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:27658728 original size:5 final size:5
Alignment explanation
Indices: 27658692--27658774 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
27658682 TTAATATTCT
* *
27658692 TTTTA TCTTTA TTTTTG TTTTA CTTTT- CTTTA TTTTA TTTTA TTTT-
1 TTTTA T-TTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
* *
27658738 TTAT- TTTTA -TTTA TTTTCA CTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TT
27658775 ATTCTATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 13 0.21
5 31 0.50
6 13 0.21
7 5 0.08
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:27658739 original size:27 final size:27
Alignment explanation
Indices: 27658693--27658766 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
27658683 TAATATTCTT
* *
27658693 TTTATCTTTATTTT-TGTTTTACTTTTC
1 TTTAT-TTTATTTTATTTTTTACTTTTA
*
27658720 TTTATTTTATTTTATTTTTTATTTTTA
1 TTTATTTTATTTTATTTTTTACTTTTA
27658747 TTTATTTTCACTTTTATTTT
1 TTTATTTT-A-TTTTATTTT
27658767 GTTTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 8 0.20
27 23 0.56
28 1 0.02
29 9 0.22
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (27 bp):
TTTATTTTATTTTATTTTTTACTTTTA
Found at i:27658742 original size:17 final size:17
Alignment explanation
Indices: 27658720--27658784 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
27658710 TTTACTTTTC
27658720 TTTATTTTATTTTATTT
1 TTTATTTTATTTTATTT
27658737 TTTATTTT-TATTTA-TT
1 TTTATTTTAT-TTTATTT
* *
27658753 TTCACTTTTATTTTGTTT
1 TTTA-TTTTATTTTATTT
*
27658771 TATTATTCTATTTT
1 T-TTATTTTATTTT
27658785 CTTTAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.15
17 19 0.49
18 12 0.31
19 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTTATTTTATTT
Found at i:27658941 original size:117 final size:115
Alignment explanation
Indices: 27658808--27659242 Score: 529
Period size: 117 Copynumber: 3.7 Consensus size: 115
27658798 AAAAAATTGG
* * *
27658808 GGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGTTTTTGAGAAAAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA-TTTTTGAGGAAAAG
*
27658873 TTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAGAATATTTTTG-
65 TTAAAAGTATCAATTTTCCTTG-AAATCAAAGTTTTCAAAAAATATTTTTGA
* **
27658924 GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGTTTTTGAGGAAAA
1 GG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-AATTTTTGAGGAAAA
* * * *
27658989 GTTGAAAGTATCAATTTTCTTTGATAATCAAGGTTTCCAAAAAATATTTTTGA
64 GTTAAAAGTATCAATTTTCCTTGA-AATCAAAGTTTTCAAAAAATATTTTTGA
27659042 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATCAACTTTTGAGGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAT----TTTTGAGGAA
* *
27659107 AAGTTGAAAGTATCAATTTTCCTT--AAT-AAATTTTTTCAGAAAAATAATTTTTTGA
62 AAGTTAAAAGTATCAATTTTCCTTGAAATCAAA-GTTTTCA-AAAAAT-A-TTTTTGA
* * ** * *
27659162 GGAAAAGTTGAAAATATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTTGA-GAAAAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA-ATTTTTGAGGAAAAG
*
27659226 TTAAAAGTATCAGTTTT
65 TTAAAAGTATCAATTTT
27659243 TCCTACAAAA
Statistics
Matches: 280, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
116 27 0.10
117 159 0.57
118 8 0.03
119 1 0.00
120 83 0.30
121 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (115 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATTTTTGAGGAAAAGT
TAAAAGTATCAATTTTCCTTGAAATCAAAGTTTTCAAAAAATATTTTTGA
Found at i:27658942 original size:59 final size:57
Alignment explanation
Indices: 27658808--27659242 Score: 473
Period size: 59 Copynumber: 7.4 Consensus size: 57
27658798 AAAAAATTGG
* *
27658808 GGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGTTTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA-TTTTTGA
* * * * *
27658866 GAAAAAATTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAGAATATTTTTG-
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAAATATTTTTGA
* **
27658924 GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGTTTTTGA
1 GG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-TATTTTTGA
* * * * *
27658983 GGAAAAGTTGAAAGTATCAATTTTCTTTGATAATCAAGGTTTCCAAAAAATATTTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AA-ATTTTCAAAAAATATTTTTGA
*
27659042 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATCAACTTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAAAAT--ATTTTTGA
*
27659103 GGAAAAGTTGAAAGTATCAATTTTCCTTAATAAAT--TTTTTCAGAAAAATAATTTTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAA-AAATAAATTTTCA-AAAAAT-A-TTTTTGA
* * ** * *
27659162 GGAAAAGTTGAAAATATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTTGA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAATATTTTTGA
* *
27659220 -GAAAAGTTAAAAGTATCAGTTTT
1 GGAAAAGTTGAAAGTATCAATTTT
27659243 TCCTACAAAA
Statistics
Matches: 319, Mismatches: 41, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
57 34 0.11
58 82 0.26
59 125 0.39
60 36 0.11
61 38 0.12
62 4 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATATTTTTGA
Found at i:27659997 original size:22 final size:22
Alignment explanation
Indices: 27659969--27660068 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
27659959 AGTAAAAATT
*
27659969 TAAATTATTATTAATTTACTAC
1 TAAATTATTAATAATTTACTAC
*
27659991 TAAATTATTAATAATTTATTA-
1 TAAATTATTAATAATTTACTAC
*
27660012 TAAATT-TATAATTAATTTTCTAC
1 TAAATTAT-TAA-TAATTTACTAC
* * * *
27660035 TTATTTATCAATAATTTAATAC
1 TAAATTATTAATAATTTACTAC
27660057 -AAATTTATTAAT
1 TAAA-TTATTAAT
27660069 GGATAGCTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
20 1 0.02
21 10 0.16
22 43 0.70
23 6 0.10
24 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATTATTAATAATTTACTAC
Found at i:27660011 original size:11 final size:11
Alignment explanation
Indices: 27659973--27660068 Score: 56
Period size: 11 Copynumber: 8.7 Consensus size: 11
27659963 AAAATTTAAA
*
27659973 TTATTATTAAT
1 TTATTAATAAT
* * *
27659984 TTACTACTAAA
1 TTATTAATAAT
27659995 TTATTAATAAT
1 TTATTAATAAT
27660006 TTATT-ATAAAT
1 TTATTAAT-AAT
27660017 TTA-TAATTAAT
1 TTATTAA-TAAT
* *
27660028 TT-TCTACTTAT
1 TTAT-TAATAAT
*
27660039 TTATCAATAAT
1 TTATTAATAAT
*
27660050 TTAATACA-AAT
1 TTATTA-ATAAT
27660061 TTATTAAT
1 TTATTAAT
27660069 GGATAGCTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
10 4 0.06
11 54 0.86
12 5 0.08
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (11 bp):
TTATTAATAAT
Found at i:27660035 original size:44 final size:44
Alignment explanation
Indices: 27659969--27660064 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
27659959 AGTAAAAATT
* * *
27659969 TAAA-TTATTATTAATTTACTACTAAATTATTAATAATTTATTA
1 TAAATTTATAATTAATTTACTACTAAATTATCAATAATTTAATA
* * *
27660012 TAAATTTATAATTAATTTTCTACTTATTTATCAATAATTTAATA
1 TAAATTTATAATTAATTTACTACTAAATTATCAATAATTTAATA
*
27660056 CAAATTTAT
1 TAAATTTAT
27660065 TAATGGATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.09
44 41 0.91
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (44 bp):
TAAATTTATAATTAATTTACTACTAAATTATCAATAATTTAATA
Found at i:27660858 original size:5 final size:5
Alignment explanation
Indices: 27660848--27660906 Score: 61
Period size: 5 Copynumber: 12.0 Consensus size: 5
27660838 TTCGATATTT
*
27660848 ATAAA ATAAA ATAAA ATAAA ATACAA TTAAA AT-AA AT-AA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA
*
27660896 ACAAA GATAAA
1 ATAAA -ATAAA
27660907 GAAATAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
4 12 0.26
5 27 0.57
6 8 0.17
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:27666859 original size:20 final size:20
Alignment explanation
Indices: 27666826--27666868 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
27666816 CTTAATAATT
27666826 ATTAAAAAAGGTGTGTT-TTG
1 ATTAAAAAAGGTGT-TTGTTG
27666846 ATTAAAAGAA-GTGTTTGTTG
1 ATTAAAA-AAGGTGTTTGTTG
27666866 ATT
1 ATT
27666869 GAAACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.10
20 17 0.81
21 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTAAAAAAGGTGTTTGTTG
Found at i:27667795 original size:192 final size:191
Alignment explanation
Indices: 27667450--27667811 Score: 618
Period size: 192 Copynumber: 1.9 Consensus size: 191
27667440 AAAAATCCTT
* *
27667450 TAATTCCACCAACACTAATGTATATGATGATTGTTGAAGCTATTCCTATATATTTCCAGAGTATA
1 TAATCCCACCAACACTAATGTATATGATGATTGTTGAAGCTATTCCTATATATTTCCAGACTATA
* *
27667515 GTAAAAAAAAAAGTTATTTTACAATAGTAGTAATAGTATTAGGTTCAAATATGAAATGGCCCCAA
66 GTAAAAAAAAAAGTTATTTTACAATAATAGTAATAGTATTAGGTTCAAATATGAAATGGCACCAA
*
27667580 AGTAGTACACGAAACTGAAATAAAATGAAAATATATATAATGTATATAATGAAAATATATA
131 AGTAGTACACGAAACTAAAATAAAATGAAAATATATATAATGTATATAATGAAAATATATA
27667641 TAATCCCACCAACACTAATGTATATGATGATTGTTGAAGCTATTCCTATATA-TTCTCAGACTAT
1 TAATCCCACCAACACTAATGTATATGATGATTGTTGAAGCTATTCCTATATATTTC-CAGACTAT
* * *
27667705 ATTAAAAAAAGAAAGTTATTTTACAATAATAGTATTAGTATTAGGTTCAAATATGAAATGGCACT
65 AGTAAAAAAA-AAAGTTATTTTACAATAATAGTAATAGTATTAGGTTCAAATATGAAATGGCACC
*
27667770 AAAGTAGTACATGAAACTAAAATAAAATGAAAATATATATAA
129 AAAGTAGTACACGAAACTAAAATAAAATGAAAATATATATAA
27667812 GAAATGAGAC
Statistics
Matches: 160, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
190 3 0.02
191 67 0.42
192 90 0.56
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (191 bp):
TAATCCCACCAACACTAATGTATATGATGATTGTTGAAGCTATTCCTATATATTTCCAGACTATA
GTAAAAAAAAAAGTTATTTTACAATAATAGTAATAGTATTAGGTTCAAATATGAAATGGCACCAA
AGTAGTACACGAAACTAAAATAAAATGAAAATATATATAATGTATATAATGAAAATATATA
Found at i:27672513 original size:26 final size:25
Alignment explanation
Indices: 27672462--27672515 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
27672452 TAAAATGGCT
* *
27672462 ATGAAGGCTATAATAGAGTTCGGCA
1 ATGAAGGCTAAAATAGAGTTCAGCA
27672487 ATGAAGGCCTAAAATAGAAG-TCAGCA
1 ATGAAGG-CTAAAATAG-AGTTCAGCA
27672513 ATG
1 ATG
27672516 GAAGCTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 16 0.64
27 2 0.08
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (25 bp):
ATGAAGGCTAAAATAGAGTTCAGCA
Found at i:27683514 original size:26 final size:26
Alignment explanation
Indices: 27683485--27683536 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27683475 AGTTTATCAA
27683485 TGCTAAAATTAAGGATATTCAAGCTT
1 TGCTAAAATTAAGGATATTCAAGCTT
27683511 TGCTAAAATTAAGGATATTCAAGCTT
1 TGCTAAAATTAAGGATATTCAAGCTT
27683537 AAGTCGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (26 bp):
TGCTAAAATTAAGGATATTCAAGCTT
Found at i:27684025 original size:13 final size:13
Alignment explanation
Indices: 27684007--27684040 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
27683997 CTAGGATGAC
*
27684007 ACATCTGTAGTTT
1 ACATCTGAAGTTT
27684020 ACATCTGAAGTTT
1 ACATCTGAAGTTT
27684033 ACATCTGA
1 ACATCTGA
27684041 CAAGGCTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (13 bp):
ACATCTGAAGTTT
Found at i:27692478 original size:30 final size:30
Alignment explanation
Indices: 27692421--27692478 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
27692411 TTGATAATTA
*
27692421 ATATTATCTTTTTTAACTAATTCATTTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTTT
27692451 ATATTAT-TGTTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
27692479 ATGAGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 21 0.84
31 3 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (30 bp):
ATATTATCTTTTTTAAATAATTCATTTTTT
Found at i:27693187 original size:63 final size:66
Alignment explanation
Indices: 27693120--27693243 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 66
27693110 TTTCCTCATA
*
27693120 AAAATTTATGA-GGGATTATTGAAG-GTATTTTTGAC-AAA-AAAAA-GCCTTCAATAATCCCTC
1 AAAATTTA-GAGGGGATTATTGAAGAGT-TTTTAGACAAAACAAAAATGCCTTCAATAATCCCTC
27693180 AAT
64 AAT
27693183 AAAATTTAGAGGGGATTATTGAAGACGTTTTTAGACAAAACAAAAATGCCTTCAATAATCC
1 AAAATTTAGAGGGGATTATTGAAGA-GTTTTTAGACAAAACAAAAATGCCTTCAATAATCC
27693244 ATATAAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
62 2 0.04
63 21 0.39
64 7 0.13
65 5 0.09
66 5 0.09
67 14 0.26
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (66 bp):
AAAATTTAGAGGGGATTATTGAAGAGTTTTTAGACAAAACAAAAATGCCTTCAATAATCCCTCAA
T
Found at i:27695380 original size:371 final size:371
Alignment explanation
Indices: 27694347--27695655 Score: 1980
Period size: 371 Copynumber: 3.5 Consensus size: 371
27694337 CTAGCACTTG
** **
27694347 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAAAAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
* * * *
27694412 -GAAAGGGTTTACACCATCTCCGCCTTGTGAGGTGCCTTTTGTAGGATAAAACCGTGAGGCCAGG
66 ATAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGG
* * * * *
27694476 GGGCCAAAGCGGACAATACTTCACAAAGGTGTGAACCGTAGCGGTTAGGCTGATCTAGGAGGTCG
131 GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGGCTGATCTGGGACGCCG
* *
27694541 GAAGGGTGAATGCCCGGGTCCCGAAGCCGCGCGGATTTGGAGCTTGAGTCTCGACCCGTGACAAG
196 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAG
* * * * * * * *
27694606 TGGTATCAAAGCCAACCCTAAACCGTTCGATCCACACCAAGCACCTCAAAGAGAGGCACGCAGAG
261 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTC-AAGGGAGGTAGGCAGGG
* *
27694671 TGGCCAACCTCCGTGACGAGGGCGTCACGAGGTTGGGTACGGGAGAA
325 TGGCCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
*
27694718 TGTCACGGACCTAAGGATGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
* * *
27694783 A-AAAGGGTTCACACCATCTCCGCCTTGTGAGACGCCTTTTGTAGGACAAAACCGTAAGGCTAGG
66 ATAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGG
* * * * *
27694847 GGGCCAAAGCAGACAATACCTCACAAGAGTGTGAACCGTGGCGG-AAGGTTGATCTGGGACGCCG
131 GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGGCTGATCTGGGACGCCG
27694911 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAG
196 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAG
* * *
27694976 TAGTATCAGAGCCAGCCCTAAACCATTCGATCCACGCCGAGCACCTCAAGGGAGGTAGGTAGGGT
261 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCAAGGGAGGTAGGCAGGGT
* * *
27695041 GGTCAGCCTCCGTGACGAGAGCGTCACGAGGTTGGATGCGGGAGAA
326 GGCCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
* *
27695087 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCATTAGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
* *
27695152 ATAAAGGGTTCACACCATCTCCGCTTTGTGAGGCGTCTTTTGTAGGACAAAACCGTGAGGCCAGG
66 ATAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGG
* * * * * *
27695217 GGGCTAAAGCGGACAATACCTCACAAGGGTATGAACCGTGGCGGTCAGGCTAATCTGGGACGTCG
131 GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGGCTGATCTGGGACGCCG
* * * *
27695282 GAAGGGTGAATGCTCGGGTCCTGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCTGTGACAAG
196 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAG
* * *
27695347 TGGTATCAGAGCCAGCCCTAAATCGTTCGATCCAAGCCGAGCACCTCGAGGGAGGTAGGCAGGGT
261 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCAAGGGAGGTAGGCAGGGT
*
27695412 GGCCAGCCTTCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
326 GGCCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
*
27695458 TGTCACGGACCTAAGGGAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACT-GGG-AT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
* * * * * *
27695521 ATAAAAGGTTCACACTATATCCGCCTTGTGAGGCGCCTTTTGTATGATAAAACCGTGAGGCCATG
66 ATAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGG
*
27695586 GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGACTGATCTGGGACGCCG
131 GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGGCTGATCTGGGACGCCG
27695651 GAAGG
196 GAAGG
27695656 ATAAATGTCC
Statistics
Matches: 850, Mismatches: 85, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
369 239 0.28
370 220 0.26
371 391 0.46
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.19
Consensus pattern (371 bp):
TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTAT
ATAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGG
GGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGGTTAGGCTGATCTGGGACGCCG
GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAG
TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCAAGGGAGGTAGGCAGGGT
GGCCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
Found at i:27696457 original size:3 final size:3
Alignment explanation
Indices: 27696451--27696478 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27696441 GTGGTACATA
27696451 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27696479 CCATAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27697740 original size:12 final size:12
Alignment explanation
Indices: 27697725--27697752 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27697715 TATAAAAATA
27697725 ATATAATTTTAT
1 ATATAATTTTAT
27697737 ATATAATTTTAT
1 ATATAATTTTAT
27697749 ATAT
1 ATAT
27697753 TTATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATAATTTTAT
Found at i:27698352 original size:613 final size:589
Alignment explanation
Indices: 27697199--27698406 Score: 1970
Period size: 613 Copynumber: 2.0 Consensus size: 589
27697189 ACACATCTTA
*
27697199 TATAAATATATAAAAGTTAAAATTTTTGACAAAAAAAGAAAATATTCAATGTGAATGGCTTATAT
1 TATAAATATATAAAAGTTAAAATTTTTGACAAAAAAAGAAAATATTCAATGTGAATGACTTATAT
*
27697264 ATTGACATATGAATACTCACATGTCATGTATTAATTATATTTATTCATATATATTTCTTTTTAAC
66 ATTGACATATGAATACTCACATGTCATGTATTAATTATATTTATTCATATATATTTCTCTTTAAC
27697329 TTGATATAAATTGATTTGATCTCATAAAAATTTTAAAATATTTTAATACATTAATTATATTTATT
131 TTGATATAAATTGATTTGATCTCATAAAAATTTTAAAATATTTTAATACATTAATTATATTTATT
* * *
27697394 TTTTTAAATTCTCAATTGATTTACCTTTTATTTCTAATAAAATATTTTAAATTATAAATCAAAAT
196 TTTTAAAATTCTCAATTGATTTACCTTTTATTTCTAATAAAATATTATAAATTACAAATCAAAAT
*
27697459 TAAATCAATGATACATTATAATCAAAGAATTTCTTAATGATTTAAAAAATTAATAAATACTATAA
261 TAAATCAATGATACATTATAATCAAAGAATTTCTTAATGATTTAAAAAATTAACAAATACTATAA
27697524 TTATAGCCATTAAAATTTTTTTAATGATTCAAAGAACGTATATTGAAATCTAATAAGAAATATTA
326 TTATAGCCATTAAAATTTTTTTAATGATTCAAAGAACGTATATTGAAATCTAATAAGAAATATTA
27697589 TAAAAAATTTAATAACTACTATAATTATGATCAAGAGTTGATTTCTTAATTAATTATTTGATATA
391 TAAAAAATTTAATAACTACTATAATTATGATCAAGAGTTGATTTCTTAATTAATTATTTGATATA
*
27697654 TTCACATTTGTTTGAATATGATATCCAACTAAGTAATAGATGTTATTCATGTATAAATATCTATA
456 TTCACATTTGTTTAAATATGATATCCAACTAAGTAATAGATGTTATTCATGTATAAATATC--T-
27697719 AAAATAATATAATTTTATATATAATTTTATATATTTATATAAAATTAATGATACATTATAATATT
518 ---ATAA-A-AA---TA-ATATAATTTTATATATTTATATAAAATTAATGATACATTATAATATT
*
27697784 AAATTTTTGTTTTTGT
574 AAAATTTTGTTTTTGT
* *
27697800 TATAAATATATAAAAGTTAAATTTTTTTACAAAAAAAGAAAATATTCAATGTGAATGACTTATAT
1 TATAAATATATAAAAGTTAAAATTTTTGACAAAAAAAGAAAATATTCAATGTGAATGAC-T-TAT
*
27697865 ATTAACATATGAACAACTTTTATGAATACTCACGTGTCATGTATTAATTATATTTATTCATATAT
64 A-T---AT-TG-AC-A----TATGAATACTCACATGTCATGTATTAATTATATTTATTCATATAT
*
27697930 ATTTCTCTTTAACTTGATATGAATTGATTTGATCTCATAAAAATTTTAAAATATTTTAATACATT
118 ATTTCTCTTTAACTTGATATAAATTGATTTGATCTCATAAAAATTTTAAAATATTTTAATACATT
27697995 AATTATATTTA-TTTTTAAAATTCTCAATTGATTTACCTTTTATTT-TCAATAAAATATTATAAA
183 AATTATATTTATTTTTTAAAATTCTCAATTGATTTACCTTTTATTTCT-AATAAAATATTATAAA
* *
27698058 TTACAAATCAAAGTTAAATCGATGATACATTATAATCAAAGAATTTCTTAATGATTTAAAAAATT
247 TTACAAATCAAAATTAAATCAATGATACATTATAATCAAAGAATTTCTTAATGATTTAAAAAATT
** * *
27698123 AACAAATACTATAATTATAGCCATTAATTTTTTTTTAATGATTCAAAGAACGTCTGTTGAAATCT
312 AACAAATACTATAATTATAGCCATTAAAATTTTTTTAATGATTCAAAGAACGTATATTGAAATCT
* *
27698188 AATAAGAAATATTATAAAAAATTTAGTAACTATTATAATTATGATCAAGAGTTGATTTCTTAATT
377 AATAAGAAATATTATAAAAAATTTAATAACTACTATAATTATGATCAAGAGTTGATTTCTTAATT
* *
27698253 AATTATTTGATATATTCACATTTGTTTAAATATGATATCCAATTGAGTAATAGATGTTATTCATG
442 AATTATTTGATATATTCACATTTGTTTAAATATGATATCCAACTAAGTAATAGATGTTATTCATG
27698318 TATAAATATCTATAAAAATAATATAATTTTATATATTTATATAAAATTAATGATACATTATAATA
507 TATAAATATCTATAAAAATAATATAATTTTATATATTTATATAAAATTAATGATACATTATAATA
27698383 TTAAAATTTTGTTTTTGT
572 TTAAAATTTTGTTTTTGT
27698401 TATAAA
1 TATAAA
27698407 ATCAAACATA
Statistics
Matches: 571, Mismatches: 22, Indels: 28
0.92 0.04 0.05
Matches are distributed among these distances:
601 124 0.22
602 3 0.01
603 4 0.01
604 1 0.00
605 2 0.00
606 1 0.00
607 6 0.01
608 2 0.00
609 2 0.00
610 1 0.00
611 1 0.00
612 1 0.00
613 305 0.53
614 118 0.21
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (589 bp):
TATAAATATATAAAAGTTAAAATTTTTGACAAAAAAAGAAAATATTCAATGTGAATGACTTATAT
ATTGACATATGAATACTCACATGTCATGTATTAATTATATTTATTCATATATATTTCTCTTTAAC
TTGATATAAATTGATTTGATCTCATAAAAATTTTAAAATATTTTAATACATTAATTATATTTATT
TTTTAAAATTCTCAATTGATTTACCTTTTATTTCTAATAAAATATTATAAATTACAAATCAAAAT
TAAATCAATGATACATTATAATCAAAGAATTTCTTAATGATTTAAAAAATTAACAAATACTATAA
TTATAGCCATTAAAATTTTTTTAATGATTCAAAGAACGTATATTGAAATCTAATAAGAAATATTA
TAAAAAATTTAATAACTACTATAATTATGATCAAGAGTTGATTTCTTAATTAATTATTTGATATA
TTCACATTTGTTTAAATATGATATCCAACTAAGTAATAGATGTTATTCATGTATAAATATCTATA
AAAATAATATAATTTTATATATTTATATAAAATTAATGATACATTATAATATTAAAATTTTGTTT
TTGT
Found at i:27698479 original size:44 final size:44
Alignment explanation
Indices: 27698357--27698479 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
27698347 TATATATTTA
* *
27698357 TATAAAATTAAT-GATACATTATAATATTAAAATTTTGTTTTTGT
1 TATAAAATCAATCG-TACATTATAATATTAAATTTTTGTTTTTGT
* * * * **
27698401 TATAAAATCAAACATACATCATAATGTTGGATTTTTGTTTTTGT
1 TATAAAATCAATCGTACATTATAATATTAAATTTTTGTTTTTGT
*
27698445 TATAAAATCAATCGTACATTATAATATTATATTTT
1 TATAAAATCAATCGTACATTATAATATTAAATTTT
27698480 ATATATACGG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (44 bp):
TATAAAATCAATCGTACATTATAATATTAAATTTTTGTTTTTGT
Found at i:27699122 original size:18 final size:18
Alignment explanation
Indices: 27699082--27699116 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27699072 AAATATTTTT
* *
27699082 ATATTTGTTTCTATATAG
1 ATATTTATTTATATATAG
27699100 ATATTTATTTATATATA
1 ATATTTATTTATATATA
27699117 ATTATTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
ATATTTATTTATATATAG
Found at i:27699233 original size:2 final size:2
Alignment explanation
Indices: 27699228--27699259 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
27699218 ATGCACACAC
*
27699228 AT AT AT AA 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
27699260 TGATCTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27703653 original size:217 final size:216
Alignment explanation
Indices: 27703253--27703685 Score: 717
Period size: 217 Copynumber: 2.0 Consensus size: 216
27703243 ATTTCTATCA
* *
27703253 CTACAATGACTTTAAAAGCTACTTTAGTGCTGGAGGTATAGTTATTAATACTTATTGTACTTTTT
1 CTACAATGACTTTAAAAACTACTTTAGTGCTGGAGGTATAATTATTAATACTTATTGTACTTTTT
* * * *
27703318 TAGCTCTTAACACAATGCAAACATTATTTTGAAGAGAAGATTGATGTCAGAATCTTCATAGATTG
66 TAACTCTCAACACAATGCAAACATTATTTTGAAGAGAAGATTAATGTCAAAATCTTCATAGATTG
* *
27703383 AAGAAGAAAAACAAAGTAAATTTTTTTCTTTATTATCATTTTGTTATTGGATGACTATCATTGCT
131 AAAAAGAAAAACAAAGTAAATTTTTTTCTTTATTATCATTTTGTTACTGGATGACTATCATTGCT
27703448 TTAATCTAATTTTTAACTATT
196 TTAATCTAATTTTTAACTATT
*
27703469 CTACAATGACTTTAAAAACTACCTTTAGTGCTGGAGGTATAATTATTGATACTT-TTCGTACTTT
1 CTACAATGACTTTAAAAACTA-CTTTAGTGCTGGAGGTATAATTATTAATACTTATT-GTACTTT
*
27703533 TTTAACT-TCCGACACAATGCAAACATTATTTTGAAGAGAAGATTAATGTCAAAATCTTCATAGA
64 TTTAACTCT-CAACACAATGCAAACATTATTTTGAAGAGAAGATTAATGTCAAAATCTTCATAGA
*
27703597 TTGAAAAAGAAAAACAAAGTAAGTTTTTTTCTTTATTATCATTTTGTTACTGGATGACTATCATT
128 TTGAAAAAGAAAAACAAAGTAAATTTTTTTCTTTATTATCATTTTGTTACTGGATGACTATCATT
*
27703662 GCTTTAATTTAATTTTTAACTATT
193 GCTTTAATCTAATTTTTAACTATT
27703686 AATTTTCTTT
Statistics
Matches: 202, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
216 23 0.11
217 179 0.89
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (216 bp):
CTACAATGACTTTAAAAACTACTTTAGTGCTGGAGGTATAATTATTAATACTTATTGTACTTTTT
TAACTCTCAACACAATGCAAACATTATTTTGAAGAGAAGATTAATGTCAAAATCTTCATAGATTG
AAAAAGAAAAACAAAGTAAATTTTTTTCTTTATTATCATTTTGTTACTGGATGACTATCATTGCT
TTAATCTAATTTTTAACTATT
Found at i:27705484 original size:1 final size:1
Alignment explanation
Indices: 27705478--27705514 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
27705468 GCCTTGCCCT
27705478 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
27705515 ACACCACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:27713234 original size:22 final size:22
Alignment explanation
Indices: 27713209--27713278 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
27713199 TAGAATGATG
27713209 TAGAGTAATACATAATTTTATT
1 TAGAGTAATACATAATTTTATT
* **
27713231 TAGACTAATAGGTAATTTTAATATT
1 TAGAGTAATACATAA-TTT--TATT
* *
27713256 TAGAGTAATACACAACTTTATT
1 TAGAGTAATACATAATTTTATT
27713278 T
1 T
27713279 TACTCTCAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
22 17 0.46
23 3 0.08
24 2 0.05
25 15 0.41
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (22 bp):
TAGAGTAATACATAATTTTATT
Found at i:27713275 original size:25 final size:23
Alignment explanation
Indices: 27713209--27713280 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 23
27713199 TAGAATGATG
27713209 TAGAGTAATACATAATTT-TATT
1 TAGAGTAATACATAATTTATATT
* **
27713231 TAGACTAATAGGTAATTTTAATATT
1 TAGAGTAATACATAA-TTT-ATATT
*
27713256 TAGAGTAATACACAACTTTAT-TT
1 TAGAGTAATACATAA-TTTATATT
27713279 TA
1 TA
27713281 CTCTCAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 12 0.31
23 7 0.18
24 2 0.05
25 18 0.46
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (23 bp):
TAGAGTAATACATAATTTATATT
Found at i:27714853 original size:59 final size:58
Alignment explanation
Indices: 27714715--27715401 Score: 793
Period size: 58 Copynumber: 11.6 Consensus size: 58
27714705 TTGTGCAGGG
* * * * *
27714715 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAA-TTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAACTTTGATTTTCAAGA
* *
27714773 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
*
27714832 AAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTTGAAA-TTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTGAAACTTTGATTTTCAAGA
* * *
27714890 AAAATTGATACTTTCAACTTTTCTCCAAAAATGTTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
* * * * *
27714949 AAAATTGATACTTTCAACTTTTCCTTAAAAACCT-TTTTTTTAAAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTGAAACTTTGATTTTCAAGA
* * * *
27715009 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTGAAACTTTGATTTTCAAGA
27715070 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGATTTT-AAGGAAAA
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATA-TTTTTTT-GAAACTTTGATTTTCAA-G---A
* * *
27715134 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTGAAACTTTGATTTTCAAGA
*
27715194 AAAATTGATACTTTCAACTTTTCCCAAAAAATAGTTTTTTGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAACTTTGATTTTCAAGA
*
27715253 AAAATTGATACTTTCAACTTTTCCCCAAAAA-A-TTCTTTGAAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTG-AAACTTTGATTTTCAAGA
* * * *
27715311 AAAATTAATACTTTCAACTTTTTCCAAAAA-ATTTTTTTTGAAAATTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTTGAAACTTTGATTTTCAAGA
27715368 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATAT
27715402 ATATTTTTTT
Statistics
Matches: 559, Mismatches: 38, Indels: 64
0.85 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 54 0.10
58 149 0.27
59 128 0.23
60 103 0.18
61 64 0.11
62 6 0.01
63 12 0.02
64 33 0.06
65 7 0.01
66 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
Found at i:27714919 original size:117 final size:115
Alignment explanation
Indices: 27714715--27715401 Score: 842
Period size: 117 Copynumber: 5.8 Consensus size: 115
27714705 TTGTGCAGGG
* * * * ** *
27714715 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAATTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAT-TTTTTTTGAAACTTTATTTTTAAGAAAAATTG
* *
27714780 ATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
65 ATACTTTCAACTTTTC-CCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
*
27714832 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAA-TTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-ATTTTTTTTGAAACTTTATTTTTAAGAAAAATT
* * *
27714896 GATACTTTCAACTTTTCTCCAAAAATGTTTTTTGGAAACTTTGATTTTCAAGG
64 GATACTTTCAACTTTTC-CCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
* * * *
27714949 AAAATTGATACTTTCAACTTTTCCTTAAAAACCTTTTTTTTAAAAATTTTATTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-ATTTTTTTT-GAAACTTTATTTTTAAGAAAAAT
* * * *
27715014 TGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTTTATTTTTAAGA
63 TGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTGAAAACTTTGATTTTCAAGA
27715070 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGA-TTTTAAGGAAAA
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAA-ATTTTTTTT-GAAACTTT-ATTTTTAA-G---A
* * *
27715134 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTT-ATTTTTAAGA
58 AAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTGAAAACTTTGATTTTCAAGA
* *
27715194 AAAATTGATACTTTCAACTTTTCCCAAAAAATAGTTTTTTGAAACTTTGATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAT-TTTTTTTGAAACTTT-ATTTTTAAGAAAAATT
*
27715259 GATACTTTCAACTTTTCCCCAAAAA-ATTCTTTGAAAACTTTGATTTTCAAGA
64 GATACTTTCAACTTTT-CCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
* * *
27715311 AAAATTAATACTTTCAACTTTTTCCAAAAAATTTTTTTTGAAAATTTATTTTTAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGAAACTTTATTTTTAAGAAAAATTGA
27715376 TACTTTCAACTTTTCCCCAAAAATAT
66 TACTTTCAACTTTT-CCCAAAAATAT
27715402 ATATTTTTTT
Statistics
Matches: 518, Mismatches: 34, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
115 40 0.08
116 28 0.05
117 170 0.33
118 19 0.04
119 72 0.14
120 2 0.00
121 64 0.12
122 21 0.04
123 23 0.04
124 28 0.05
125 51 0.10
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGAAACTTTATTTTTAAGAAAAATTGA
TACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
Found at i:27715196 original size:17 final size:16
Alignment explanation
Indices: 27715160--27715199 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27715150 ACTTTTCCTC
**
27715160 AAAAATTTATTTTTTT
1 AAAAATTTATTTTTAG
27715176 AAAAATTTATTTTTAAG
1 AAAAATTTATTTTT-AG
27715193 AAAAATT
1 AAAAATT
27715200 GATACTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AAAAATTTATTTTTAG
Found at i:27715439 original size:5 final size:5
Alignment explanation
Indices: 27715431--27715499 Score: 61
Period size: 5 Copynumber: 13.2 Consensus size: 5
27715421 AAAATAGAAT
*
27715431 AATAA AATAA AA-AA AATAA AAGTAA AACAAA AATAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AA-TAA AA-TAA AAT-AA AATAA AATAA
*
27715478 AGATAA AA-AA ATATTA AATAA A
1 A-ATAA AATAA A-ATAA AATAA A
27715500 CCTAATCTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 7 0.13
5 25 0.47
6 21 0.40
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:27715483 original size:11 final size:10
Alignment explanation
Indices: 27715431--27715499 Score: 61
Period size: 11 Copynumber: 6.6 Consensus size: 10
27715421 AAAATAGAAT
27715431 AATAAAATAA
1 AATAAAATAA
27715441 AA-AAAATAA
1 AATAAAATAA
*
27715450 AAGTAAAACAAA
1 AA-TAAAA-TAA
27715462 AATAAAAATAA
1 AAT-AAAATAA
27715473 AATAAAGATAA
1 AATAAA-ATAA
*
27715484 AA-AAATATTA
1 AATAAA-ATAA
27715494 AATAAA
1 AATAAA
27715500 CCTAATCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 9 0.18
10 13 0.27
11 19 0.39
12 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (10 bp):
AATAAAATAA
Found at i:27716432 original size:22 final size:20
Alignment explanation
Indices: 27716354--27716448 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 20
27716344 AATTTCCAAC
27716354 CAGATAAATAAAAAAAATAA
1 CAGATAAATAAAAAAAATAA
* *
27716374 AAGAAAAAATCAAACAAAAATAAA
1 CAG-ATAAAT-AAA-AAAAAT-AA
27716398 TCAGATAAATAAAAAAAATTAA
1 -CAGATAAATAAAAAAAA-TAA
*
27716420 CAGATAAATTAAAATTAAATAA
1 CAGATAAA-TAAAA-AAAATAA
27716442 CAGATAA
1 CAGATAA
27716449 TACACAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.03
21 13 0.21
22 25 0.40
23 13 0.21
24 7 0.11
25 2 0.03
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.18
Consensus pattern (20 bp):
CAGATAAATAAAAAAAATAA
Found at i:27716585 original size:14 final size:13
Alignment explanation
Indices: 27716566--27716625 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
27716556 AAAATATATA
27716566 AAAAATATAATAAT
1 AAAAATATAA-AAT
27716580 -AAAA-ATAAAAT
1 AAAAATATAAAAT
*
27716591 AAAAATGTAAAAT
1 AAAAATATAAAAT
*
27716604 ACAAAAAATAAAAAT
1 A-AAAATAT-AAAAT
27716619 AAAAATA
1 AAAAATA
27716626 AAATGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 3 0.08
12 8 0.21
13 11 0.29
14 10 0.26
15 6 0.16
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:27716595 original size:27 final size:28
Alignment explanation
Indices: 27716556--27716623 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
27716546 GAAAAGAGAA
*
27716556 AAAATATATAAAAAATATAATA-ATAAAAAT
1 AAAA-ATA-AAAAAATAAAATACA-AAAAAT
**
27716586 -AAAATAAAAATGTAAAATACAAAAAAT
1 AAAAATAAAAAAATAAAATACAAAAAAT
27716613 AAAAATAAAAA
1 AAAAATAAAAA
27716624 TAAAATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 16 0.48
28 14 0.42
29 3 0.09
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (28 bp):
AAAAATAAAAAAATAAAATACAAAAAAT
Found at i:27716619 original size:33 final size:31
Alignment explanation
Indices: 27716577--27716639 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
27716567 AAAATATAAT
27716577 AATAAAAAT-AAAATAAAAATGTAAAATACAAAA
1 AATAAAAATAAAAAT-AAAATG-AAAA-ACAAAA
27716610 AATAAAAATAAAAATAAAATGAAAAACAAA
1 AATAAAAATAAAAATAAAATGAAAAACAAA
27716640 TACACTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 5 0.17
32 4 0.14
33 15 0.52
34 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (31 bp):
AATAAAAATAAAAATAAAATGAAAAACAAAA
Found at i:27716634 original size:6 final size:6
Alignment explanation
Indices: 27716528--27716628 Score: 57
Period size: 6 Copynumber: 16.0 Consensus size: 6
27716518 AATACCCAAG
* * *
27716528 ATAAAA ATAATA ATAAAA GA-AAAGA GA-AAAA ATATATAA A-AAAT ATAATA
1 ATAAAA ATAAAA ATAAAA -ATAAA-A -ATAAAA ATA-A-AA ATAAAA ATAAAA
*
27716578 ATAAAA AT-AAA ATAAAA ATGTAAAA TACAAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA A--TAAAA -A-TAAAA ATAAAA ATAAAA ATAAAA
27716629 TGAAAAACAA
Statistics
Matches: 76, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
5 8 0.11
6 45 0.59
7 10 0.13
8 12 0.16
9 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:27716896 original size:43 final size:43
Alignment explanation
Indices: 27716835--27716938 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
27716825 TTTGATCAAA
** ** * *
27716835 GCTCCTCTAGGCAGAGGCTCAATGACTTTAAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAAATAAATG
*
27716878 GCTCCTCTAATA-AGAGGCTCAACAACTTTAAAAAAAATAAATT
1 GCTCCTCTAA-ACAGAGGCTCAACAACTTTAAAAAAAATAAATG
27716921 GCTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAGAGGC
27716939 ACCACGACTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAAATAAATG
Found at i:27716972 original size:41 final size:41
Alignment explanation
Indices: 27716915--27717091 Score: 275
Period size: 41 Copynumber: 4.3 Consensus size: 41
27716905 TTAAAAAAAA
27716915 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* * *
27716956 TAAATTGCTCCTCTAAATAAAGGCACCACGGCTTT-GAAATG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-G
* *
27716997 TAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* *
27717038 TAAATTGCTCCTTTAAACAGAGGCACTACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
27717079 TAAATTGCTCCTC
1 TAAATTGCTCCTC
27717092 AACAATCATG
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.03
41 114 0.94
42 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
Found at i:27718113 original size:10 final size:10
Alignment explanation
Indices: 27718095--27718146 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
27718085 TCCTTTTTCA
*
27718095 TTCACTTTTT
1 TTCATTTTTT
27718105 TTCA--TTTT
1 TTCATTTTTT
*
27718113 TTCATATTTT
1 TTCATTTTTT
27718123 TTCATTTTTT
1 TTCATTTTTT
27718133 CATTCATTTTTT
1 --TTCATTTTTT
27718145 TT
1 TT
27718147 AAGCATAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 8 0.22
10 19 0.51
12 10 0.27
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:27718122 original size:18 final size:18
Alignment explanation
Indices: 27718101--27718135 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27718091 TTCATTCACT
27718101 TTTTTTCATTTTTTCATA
1 TTTTTTCATTTTTTCATA
27718119 TTTTTTCATTTTTTCAT
1 TTTTTTCATTTTTTCAT
27718136 TCATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCATTTTTTCATA
Found at i:27718130 original size:7 final size:8
Alignment explanation
Indices: 27718101--27718136 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
27718091 TTCATTCACT
27718101 TTTTTTCA
1 TTTTTTCA
27718109 TTTTTTCATA
1 TTTTTTC--A
27718119 TTTTTTCA
1 TTTTTTCA
27718127 TTTTTTCA
1 TTTTTTCA
27718135 TT
1 TT
27718137 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:27723540 original size:20 final size:20
Alignment explanation
Indices: 27723515--27723573 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
27723505 CAGGTCCGGG
27723515 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
27723535 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
27723555 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
27723574 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:27723622 original size:7 final size:7
Alignment explanation
Indices: 27723610--27723650 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
27723600 TTTTTACCCG
27723610 TATTTTT
1 TATTTTT
27723617 TATTTTT
1 TATTTTT
27723624 TA-TTTT
1 TATTTTT
27723630 TA-TTTT
1 TATTTTT
27723636 TATTTTAT
1 TATTTT-T
27723644 T-TTTTT
1 TATTTTT
27723650 T
1 T
27723651 CTCTCTCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 14 0.44
7 16 0.50
8 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:27723629 original size:6 final size:6
Alignment explanation
Indices: 27723613--27723647 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
27723603 TTACCCGTAT
27723613 TTTTTA TTTTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
27723648 TTTCTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:27723903 original size:12 final size:12
Alignment explanation
Indices: 27723876--27723908 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27723866 AATTATCTAG
27723876 ATTTTT-TTTTA
1 ATTTTTATTTTA
27723887 A-TTTTATTTTA
1 ATTTTTATTTTA
27723898 ATTTTTATTTT
1 ATTTTTATTTT
27723909 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:27724258 original size:31 final size:31
Alignment explanation
Indices: 27724223--27724293 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
27724213 AATTTCCATA
*
27724223 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
27724254 TTCCGGTGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
27724285 TTCCGGCGA
1 TTCCGGCGA
27724294 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:27724381 original size:19 final size:19
Alignment explanation
Indices: 27724357--27724401 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
27724347 TCCGGCCAAT
27724357 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
27724376 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
27724395 ATCCGGC
1 TTCCGGC
27724402 ACCGGCGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:27725031 original size:151 final size:153
Alignment explanation
Indices: 27724727--27725166 Score: 796
Period size: 152 Copynumber: 2.9 Consensus size: 153
27724717 TTTTTCTTTA
*
27724727 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
27724792 AGGTGGGGGAA-TTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
27724856 ATTAATTGGATGATTTTGTATTT
131 ATTAATTGGATGATTTTGTATTT
*
27724879 TT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
27724943 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
27725008 ATTAATTGGATGATTTTGT-TTT
131 ATTAATTGGATGATTTTGTATTT
*
27725030 TTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
27725095 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAACA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
27725160 ACTAATT
131 ATTAATT
27725167 ACTTGGTAAA
Statistics
Matches: 277, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
151 75 0.27
152 202 0.73
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (153 bp):
TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
ATTAATTGGATGATTTTGTATTT
Found at i:27728399 original size:1 final size:1
Alignment explanation
Indices: 27728395--27728419 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
27728385 GTAATTTTTG
27728395 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
27728420 CCACAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27728842 original size:16 final size:16
Alignment explanation
Indices: 27728821--27728880 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
27728811 AAAAAAGATG
27728821 ATGAAAAAAAAAAAAA
1 ATGAAAAAAAAAAAAA
*
27728837 AAGAAAGAAAGAAGAAAAA
1 ATGAAA-AAA-AA-AAAAA
* **
27728856 ATGAGAAAATGAAAAA
1 ATGAAAAAAAAAAAAA
27728872 ATGAAAAAA
1 ATGAAAAAA
27728881 TGAAAAAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 18 0.51
17 3 0.09
18 5 0.14
19 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
ATGAAAAAAAAAAAAA
Found at i:27728864 original size:8 final size:8
Alignment explanation
Indices: 27728850--27728888 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
27728840 AAAGAAAGAA
27728850 GAAAAAAT
1 GAAAAAAT
*
27728858 GAGAAAAT
1 GAAAAAAT
27728866 GAAAAAAT
1 GAAAAAAT
27728874 GAAAAAAT
1 GAAAAAAT
27728882 GAAAAAA
1 GAAAAAA
27728889 GAGATCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:27730192 original size:83 final size:83
Alignment explanation
Indices: 27730083--27730547 Score: 728
Period size: 83 Copynumber: 5.7 Consensus size: 83
27730073 GAGTATTTAC
*
27730083 TTTCCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTG
1 TTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTG
27730146 TTTAGAGGAGCAATTTATT
65 TTTAGAGGAGCAATTTATT
*
27730165 TTTCCGAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGT
1 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGT
27730230 TTAGAGGAGCAATTTATT
66 TTAGAGGAGCAATTTATT
*
27730248 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCGGT
1 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGT
27730313 TTAGAGGAGCAATTTATT
66 TTAGAGGAGCAATTTATT
*
27730331 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGT
1 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGT
* *
27730396 TGAGAGGAGCAATTTA-C
66 TTAGAGGAGCAATTTATT
* * * *
27730413 TTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCT
1 TTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTACCTCT
*
27730474 GTTTAGAGGAGCAATTTATC
64 GTTTAGAGGAGCAATTTATT
* * *
27730494 TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT
1 TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGT
27730548 AGAGCCTCTG
Statistics
Matches: 362, Mismatches: 14, Indels: 15
0.93 0.04 0.04
Matches are distributed among these distances:
80 27 0.07
81 51 0.14
82 54 0.15
83 230 0.64
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (83 bp):
TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGT
TTAGAGGAGCAATTTATT
Found at i:27730568 original size:41 final size:41
Alignment explanation
Indices: 27730077--27730547 Score: 657
Period size: 41 Copynumber: 11.5 Consensus size: 41
27730067 GTCTAGGAGT
* * *
27730077 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
27730117 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* * *
27730158 ATTTATTTTTCCGAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
27730200 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730241 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
27730283 ATTTACTTTTCAAAGTCGTGGTACCTCGGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730324 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730366 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730407 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730447 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
* *
27730487 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
27730529 ATTTATTTTTCAAAGTCGT
1 ATTTACTTTTCAAAGTCGT
27730548 AGAGCCTCTG
Statistics
Matches: 399, Mismatches: 23, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
39 4 0.01
40 81 0.20
41 171 0.43
42 143 0.36
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
Found at i:27730718 original size:20 final size:20
Alignment explanation
Indices: 27730693--27730751 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
27730683 CAGGTCCGGG
27730693 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
27730713 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
27730733 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
27730752 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:27730805 original size:14 final size:13
Alignment explanation
Indices: 27730788--27730820 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
27730778 TTTTTACCCG
27730788 TATTTTTTATTTTT
1 TATTTTTTA-TTTT
27730802 TATTTTTTATTTT
1 TATTTTTTATTTT
27730815 TATTTT
1 TATTTT
27730821 ATTTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:27730827 original size:7 final size:7
Alignment explanation
Indices: 27730788--27730820 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
27730778 TTTTTACCCG
27730788 TATTTTT
1 TATTTTT
27730795 TATTTTT
1 TATTTTT
27730802 TATTTTT
1 TATTTTT
27730809 TA-TTTT
1 TATTTTT
27730815 TATTTT
1 TATTTT
27730821 ATTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:27730828 original size:14 final size:13
Alignment explanation
Indices: 27730788--27730828 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
27730778 TTTTTACCCG
27730788 TATTTTTTATTTTT
1 TATTTTTT-TTTTT
*
27730802 TATTTTTTATTTT
1 TATTTTTTTTTTT
*
27730815 TATTTTATTTTTT
1 TATTTTTTTTTTT
27730828 T
1 T
27730829 CTCTCTCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTTTTTT
Found at i:27731080 original size:12 final size:12
Alignment explanation
Indices: 27731053--27731085 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27731043 AATTATCTAG
27731053 ATTTTT-TTTTA
1 ATTTTTATTTTA
27731064 A-TTTTATTTTA
1 ATTTTTATTTTA
27731075 ATTTTTATTTT
1 ATTTTTATTTT
27731086 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:27731435 original size:31 final size:31
Alignment explanation
Indices: 27731400--27731466 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
27731390 AATTTCCATA
* *
27731400 TTCCGGCGAAAATTCCGGTG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
*
27731431 TTCCGGCGATAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
27731462 TTCCG
1 TTCCG
27731467 ACGACAGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:27731558 original size:19 final size:19
Alignment explanation
Indices: 27731534--27731576 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
27731524 TCCGGCCAAT
27731534 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
27731553 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
27731572 ATCCG
1 TTCCG
27731577 ACACCGGCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:27732193 original size:152 final size:152
Alignment explanation
Indices: 27731905--27732355 Score: 805
Period size: 152 Copynumber: 3.0 Consensus size: 152
27731895 CTTGATTTTT
* * *
27731905 TTTTCTTTATTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
27731970 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
27732035 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
27732057 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
* *
27732121 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
27732186 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
27732209 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTTCTTG
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTTCTTG
27732274 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
65 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
* *
27732339 ATTTCCAACAACTAATT
130 ATTTCCAATAATTAATT
27732356 ACTTGGTAAA
Statistics
Matches: 286, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
151 5 0.02
152 190 0.66
153 91 0.32
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:27734531 original size:15 final size:16
Alignment explanation
Indices: 27734511--27734542 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
27734501 TGTTAAGTGT
27734511 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
27734526 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
27734542 A
1 A
27734543 TGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:27737747 original size:59 final size:58
Alignment explanation
Indices: 27737682--27738117 Score: 557
Period size: 59 Copynumber: 7.5 Consensus size: 58
27737672 TTGTGCAGGA
27737682 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
** * * *
27737741 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAA-TTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
* * *
27737799 AAAATTGATACTTTTAACTTTTCTCCAAAAATGTTTTTTGGAACCTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
* ** ** * * *
27737858 AAAATTGATACTTTCAACTTTTCCTTAAAAACCCTTTTTTTTAAA-TTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTGGAAACTTTGATTTTCAAGG
*
27737917 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGGAAACTTTGATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATA--TTTTTTGGAAACTTTGATTTTCAAGG
27737978 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT-GAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
*
27738035 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTT-GAAA-TTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
*
27738090 -AAATTGATAC-TTCAACTTGTCCCAAAAA
1 AAAATTGATACTTTCAACTTTTCCCAAAAA
27738118 ATATATATTT
Statistics
Matches: 334, Mismatches: 33, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
52 6 0.02
53 11 0.03
54 10 0.03
55 9 0.03
56 3 0.01
57 53 0.16
58 68 0.20
59 114 0.34
60 24 0.07
61 36 0.11
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
Done.