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 133 of 147
Found at i:24063440 original size:16 final size:17
Alignment explanation
Indices: 24063419--24063454 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
24063409 TTTAAGAAAA
24063419 TTTAATTTTTGTAAA-T
1 TTTAATTTTTGTAAACT
*
24063435 TTTAATTTTTTTAAACT
1 TTTAATTTTTGTAAACT
24063452 TTT
1 TTT
24063455 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTAATTTTTGTAAACT
Found at i:24063462 original size:35 final size:35
Alignment explanation
Indices: 24063423--24063552 Score: 93
Period size: 35 Copynumber: 3.7 Consensus size: 35
24063413 AGAAAATTTA
* ** *
24063423 ATTTTTGTAAATTTTAATTTTTTTAAACTTTTTTT
1 ATTTTTGTAAATTTCAAAATTTTTAAAATTTTTTT
* **
24063458 ATTTTTTTAAATTTCAAAATTTTTAAAATTTTGAT
1 ATTTTTGTAAATTTCAAAATTTTTAAAATTTTTTT
* * * * *
24063493 AATTTTG-ATAATTTATAAAATATTTCATA-TTTTTT
1 ATTTTTGTA-AATTT-CAAAATTTTTAAAATTTTTTT
* *
24063528 ATTTTTTATAAATTTTAAAATTTTT
1 A-TTTTTGTAAATTTCAAAATTTTT
24063553 TATTATTTTT
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
34 1 0.01
35 52 0.71
36 19 0.26
37 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (35 bp):
ATTTTTGTAAATTTCAAAATTTTTAAAATTTTTTT
Found at i:24063487 original size:9 final size:9
Alignment explanation
Indices: 24063460--24063622 Score: 71
Period size: 9 Copynumber: 17.6 Consensus size: 9
24063450 CTTTTTTTAT
*
24063460 TTTTTTAAA
1 TTTTTAAAA
*
24063469 -TTTCAAAA
1 TTTTTAAAA
24063477 TTTTTAAAA
1 TTTTTAAAA
* *
24063486 TTTTGATAA
1 TTTTTAAAA
* *
24063495 TTTTGATAA
1 TTTTTAAAA
*
24063504 TTTATAAAA
1 TTTTTAAAA
* * *
24063513 TATTTCATA
1 TTTTTAAAA
* *
24063522 TTTTT-TAT
1 TTTTTAAAA
24063530 TTTTTATAAA
1 TTTTTA-AAA
24063540 -TTTTAAAA
1 TTTTTAAAA
* *
24063548 TTTTTTATTAT
1 -TTTTTA-AAA
24063559 TTTTTAAAAA
1 TTTTT-AAAA
* *
24063569 TTTCTAGAAT
1 TTTTTA-AAA
*
24063579 TTTTTAGAA
1 TTTTTAAAA
*
24063588 TTGTTTAGAA
1 TT-TTTAAAA
24063598 TTTTTAAGAA
1 TTTTTAA-AA
24063608 TTTTTCAAAA
1 TTTTT-AAAA
24063618 TTTTT
1 TTTTT
24063623 GAGAAACTGT
Statistics
Matches: 115, Mismatches: 28, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
8 14 0.12
9 51 0.44
10 46 0.40
11 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:24063536 original size:28 final size:29
Alignment explanation
Indices: 24063504--24063584 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 29
24063494 ATTTTGATAA
*
24063504 TTTATAAAATATTTCATATTTTTTATT-T
1 TTTATAAAATATTTCAAATTTTTTATTAT
*
24063532 TTTAT-AAAT-TTTAAAATTTTTTATTAT
1 TTTATAAAATATTTCAAATTTTTTATTAT
*
24063559 TTTTTAAAA-ATTTCTAGAATTTTTTA
1 TTTATAAAATATTTC-A-AATTTTTTA
24063585 GAATTGTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 14 0.32
27 9 0.20
28 11 0.25
29 1 0.02
30 9 0.20
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTATAAAATATTTCAAATTTTTTATTAT
Found at i:24063553 original size:10 final size:10
Alignment explanation
Indices: 24063528--24063622 Score: 70
Period size: 10 Copynumber: 9.6 Consensus size: 10
24063518 CATATTTTTT
24063528 ATTTTTTATAA
1 ATTTTTTA-AA
24063539 A--TTTTAAA
1 ATTTTTTAAA
**
24063547 ATTTTTTATT
1 ATTTTTTAAA
24063557 ATTTTTTAAA
1 ATTTTTTAAA
* * *
24063567 AATTTCTAGA
1 ATTTTTTAAA
*
24063577 ATTTTTTAGA
1 ATTTTTTAAA
* *
24063587 ATTGTTTAGA
1 ATTTTTTAAA
24063597 A-TTTTTAAGA
1 ATTTTTTAA-A
*
24063607 ATTTTTCAAA
1 ATTTTTTAAA
24063617 ATTTTT
1 ATTTTT
24063623 GAGAAACTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
8 3 0.04
9 10 0.15
10 47 0.70
11 7 0.10
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:24063608 original size:30 final size:31
Alignment explanation
Indices: 24063532--24063612 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
24063522 TTTTTTATTT
* ** *
24063532 TTTATAAA-TTTTAA-AATTTTTTATTATTT
1 TTTAAAAATTTTTAAGAATTTTTTAGAATTG
*
24063561 TTTAAAAATTTCT-AGAATTTTTTAGAATTG
1 TTTAAAAATTTTTAAGAATTTTTTAGAATTG
*
24063591 TTT-AGAATTTTTAAGAATTTTT
1 TTTAAAAATTTTTAAGAATTTTT
24063613 CAAAATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (31 bp):
TTTAAAAATTTTTAAGAATTTTTTAGAATTG
Found at i:24063691 original size:22 final size:23
Alignment explanation
Indices: 24063652--24063698 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
24063642 TGCATATTAA
24063652 AAAATATTTTAAGAATTTTTTAT
1 AAAATATTTTAAGAATTTTTTAT
* *
24063675 AAAA-ATTTTCAGTATTTTTTAT
1 AAAATATTTTAAGAATTTTTTAT
24063697 AA
1 AA
24063699 TTTTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
AAAATATTTTAAGAATTTTTTAT
Found at i:24063724 original size:17 final size:18
Alignment explanation
Indices: 24063699--24063741 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
24063689 TTTTTTATAA
*
24063699 TTTTT-TAAA-TTAAATT
1 TTTTTATAAATTTAAAAT
24063715 TTTTTATAAATTTTAAAAT
1 TTTTTATAAA-TTTAAAAT
24063734 TTTTTATA
1 TTTTTATA
24063742 TTTATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
19 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATAAATTTAAAAT
Found at i:24063748 original size:21 final size:20
Alignment explanation
Indices: 24063708--24063775 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
24063698 ATTTTTTAAA
24063708 TTAAATTTTTT-TATAAATT
1 TTAAATTTTTTATATAAATT
**
24063727 TTAAAATTTTTTATATTTATT
1 TT-AAATTTTTTATATAAATT
* *
24063748 TTGAA-TTTTTATAT--GTT
1 TTAAATTTTTTATATAAATT
24063765 TTAAATTTTTT
1 TTAAATTTTTT
24063776 TTGAAGTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 6 0.15
18 5 0.12
19 11 0.27
20 11 0.27
21 8 0.20
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTAAATTTTTTATATAAATT
Found at i:24063775 original size:19 final size:19
Alignment explanation
Indices: 24063708--24063776 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
24063698 ATTTTTTAAA
*
24063708 TTAAATTTTTTTATAAATT
1 TTAAATTTTTTTATATATT
*
24063727 TTAAAATTTTTTATATTTATT
1 TT-AAATTTTTT-TATATATT
* *
24063748 TTGAA--TTTTTATATGTT
1 TTAAATTTTTTTATATATT
24063765 TTAAATTTTTTT
1 TTAAATTTTTTT
24063777 TGAAGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 10 0.25
18 4 0.10
19 7 0.17
20 11 0.28
21 8 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTAAATTTTTTTATATATT
Found at i:24063874 original size:19 final size:18
Alignment explanation
Indices: 24063841--24063880 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
24063831 TTTAATATTC
24063841 TTTTAAGAATTTTTTAAA
1 TTTTAAGAATTTTTTAAA
* *
24063859 TTTTATAGATTTTTTTGAA
1 TTTTA-AGAATTTTTTAAA
24063878 TTT
1 TTT
24063881 GTTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTTAAGAATTTTTTAAA
Found at i:24063925 original size:20 final size:20
Alignment explanation
Indices: 24063882--24063924 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
24063872 TTTGAATTTG
24063882 TTTTATAATTTTTAAAAAAA
1 TTTTATAATTTTTAAAAAAA
* *
24063902 TTTTAT-ATTTTTTAGAAAA
1 TTTTATAATTTTTAAAAAAA
24063921 TTTT
1 TTTT
24063925 TTATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTATAATTTTTAAAAAAA
Found at i:24065905 original size:12 final size:11
Alignment explanation
Indices: 24065887--24065943 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
24065877 TTTAAATTTA
24065887 AATTTTATATAT
1 AATTTTA-ATAT
*
24065899 TATTTTAATAT
1 AATTTTAATAT
24065910 AATTTTTAATAT
1 AA-TTTTAATAT
*
24065922 -ATTTAAATA-
1 AATTTTAATAT
*
24065931 AATTTAAATAT
1 AATTTTAATAT
24065942 AA
1 AA
24065944 AATAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 16 0.41
11 8 0.21
12 15 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTTAATAT
Found at i:24065905 original size:25 final size:25
Alignment explanation
Indices: 24065876--24065924 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24065866 ATTTATTGAT
*
24065876 TTTTAAATTTAAATTTT-ATATATTA
1 TTTT-AATATAAATTTTAATATATTA
*
24065901 TTTTAATATAATTTTTAATATATT
1 TTTTAATATAAATTTTAATATATT
24065925 TAAATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTAATATAAATTTTAATATATTA
Found at i:24079042 original size:2 final size:2
Alignment explanation
Indices: 24079035--24079101 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
24079025 ACTTGAAACA
24079035 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24079077 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
24079102 AGTCCAGTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24080183 original size:27 final size:27
Alignment explanation
Indices: 24080145--24080225 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
24080135 ATCATATGTT
24080145 ATTCTTAA-ATTTGATAAAAATATCTTA
1 ATTC-TAATATTTGATAAAAATATCTTA
*
24080172 ATTCTAATATTT-A-AAATAATTTCCTTA
1 ATTCTAATATTTGATAAA-AATAT-CTTA
* * * *
24080199 ATTTTTATTTTTG-TAAAAATATTTTA
1 ATTCTAATATTTGATAAAAATATCTTA
24080225 A
1 A
24080226 AATTTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
25 3 0.07
26 12 0.28
27 25 0.58
28 3 0.07
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTCTAATATTTGATAAAAATATCTTA
Found at i:24087086 original size:24 final size:24
Alignment explanation
Indices: 24087059--24087104 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
24087049 TTTGAAAAAT
24087059 ATATCTAAAAATATTAAAATATTA
1 ATATCTAAAAATATTAAAATATTA
* * * *
24087083 ATATGTTAAAATTTTAATATAT
1 ATATCTAAAAATATTAAAATAT
24087105 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATCTAAAAATATTAAAATATTA
Found at i:24087093 original size:16 final size:16
Alignment explanation
Indices: 24087072--24087102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24087062 TCTAAAAATA
24087072 TTAAAATATTAATATG
1 TTAAAATATTAATATG
*
24087088 TTAAAATTTTAATAT
1 TTAAAATATTAATAT
24087103 ATATTTTTTA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAAATATTAATATG
Found at i:24093977 original size:7 final size:7
Alignment explanation
Indices: 24093965--24093998 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
24093955 ACTATTGTTA
*
24093965 TATTTTT
1 TATTTTG
24093972 TATTTTG
1 TATTTTG
24093979 TATTTTG
1 TATTTTG
24093986 TATTTTG
1 TATTTTG
*
24093993 CATTTT
1 TATTTT
24093999 TCCTTTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (7 bp):
TATTTTG
Found at i:24094020 original size:3 final size:3
Alignment explanation
Indices: 24094012--24094046 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
24094002 TTTCTAAGTG
24094012 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24094047 GAAAATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24094534 original size:3 final size:3
Alignment explanation
Indices: 24094526--24094559 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24094516 AAAATCAAAT
24094526 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24094560 AGTATTGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24094732 original size:3 final size:3
Alignment explanation
Indices: 24094724--24094750 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24094714 GAAAAGCAAA
24094724 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
24094751 AATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:24094758 original size:199 final size:200
Alignment explanation
Indices: 24094365--24094726 Score: 604
Period size: 199 Copynumber: 1.8 Consensus size: 200
24094355 AAAATGGTAC
*
24094365 TGGGGGAAGAAAATATGGTGGTCGTCGGTGACTTATTCCACCAAAATCTAGCATTTTGAAAATTT
1 TGGGGGAAGAAAATATGGTGGTCGCCGGTGACTTATTCCACCAAAATCTAGCATTTTGAAAATTT
* *
24094430 TGTTATAGAGTTTGATATTGCATTTAATGCATCAAAGACTTTGGGAGCAAACTAGAGAAGAAAGA
66 TGTTATAGAGTTTGATATTGCATTTAATGCATCAAAGACTTTAGGAGCAAACTAGAAAAGAAAGA
* * *
24094495 AAGAAAAGGCAATCATAAAAGAAAATCAAATATAATAATAATAATAATAATAATAATAATAATAA
131 AAGAAAAGGCAATCAGAAAAGAAAAGCAAAGATAATAATAATAATAATAATAATAATAATAATAA
24094560 AGTAT
196 AGTAT
* *
24094565 TGGGGGGA-AAAATATGGTGG-CTGCCGGTGACTTATTCCACCAAAATCTAGCTTTTTGAAAATT
1 TGGGGGAAGAAAATATGGTGGTC-GCCGGTGACTTATTCCACCAAAATCTAGCATTTTGAAAATT
*
24094628 TTGTTATAGAGTTTGATATTGCATTTAATGCATTAAAGACTTTAGGAGCAAACTAGAAAAGAAAG
65 TTGTTATAGAGTTTGATATTGCATTTAATGCATCAAAGACTTTAGGAGCAAACTAGAAAAGAAAG
24094693 AAAG-AAAGGCCAATCAGAAAAGAAAAGCAAAGAT
130 AAAGAAAAGG-CAATCAGAAAAGAAAAGCAAAGAT
24094727 GATGATGATG
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
198 6 0.04
199 138 0.91
200 7 0.05
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (200 bp):
TGGGGGAAGAAAATATGGTGGTCGCCGGTGACTTATTCCACCAAAATCTAGCATTTTGAAAATTT
TGTTATAGAGTTTGATATTGCATTTAATGCATCAAAGACTTTAGGAGCAAACTAGAAAAGAAAGA
AAGAAAAGGCAATCAGAAAAGAAAAGCAAAGATAATAATAATAATAATAATAATAATAATAATAA
AGTAT
Found at i:24095031 original size:42 final size:43
Alignment explanation
Indices: 24094928--24095049 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
24094918 TGAAAGGCTT
**
24094928 TTCTAAGTAGAAGTTCGACAACTTTTGAAAATTTAAAAACTCC
1 TTCTAAGTAGAAGTTTAACAACTTTTGAAAATTTAAAAACTCC
* *
24094971 TTCTAAGCAGAAGCTTAACAACTTTT-ACAAATTTAAAAACTCC
1 TTCTAAGTAGAAGTTTAACAACTTTTGA-AAATTTAAAAACTCC
* *
24095014 -TCTAAGTAGAGGTTTAACAAC-TTTGAAAAATTAAAA
1 TTCTAAGTAGAAGTTTAACAACTTTTGAAAATTTAAAA
24095050 TGTTCTACTT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.17
42 20 0.29
43 37 0.54
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.31
Consensus pattern (43 bp):
TTCTAAGTAGAAGTTTAACAACTTTTGAAAATTTAAAAACTCC
Found at i:24095149 original size:34 final size:33
Alignment explanation
Indices: 24095085--24095155 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
24095075 CTTAATAATG
* *
24095085 AAAACTCCTCTATGTAGTGGCTCAACAACTTTAA
1 AAAACTCCTCTAAGTAGAGGCTCAACAAC-TTAA
* * * *
24095119 AAAGCTCTTCTAAGTAGAGGCTCTATAACTTAA
1 AAAACTCCTCTAAGTAGAGGCTCAACAACTTAA
24095152 AAAA
1 AAAA
24095156 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (33 bp):
AAAACTCCTCTAAGTAGAGGCTCAACAACTTAA
Found at i:24095199 original size:113 final size:112
Alignment explanation
Indices: 24094997--24095199 Score: 257
Period size: 113 Copynumber: 1.8 Consensus size: 112
24094987 AACAACTTTT
* * * * *
24094997 ACAAATTTAAAAACTCCTCTAAGTAGAGGTTTAACAACTTTGAAAAATTAAAATGTTCTACTTGA
1 ACAAATTTAAAAACTCCTCTAAGTAGAGGTCTAACAACTTTAAAAAATTAAAATATTCTACCTAA
**
24095062 CGGACTAACGAATCTTAATAATGAAAACTCCTCTATGTAGTGGCTCA
66 AAGACTAACGAATCTTAATAATGAAAACTCCTCTATGTAGTGGCTCA
* * *
24095109 ACAACTTTAAAAAGCTCTTCTAAGTAGAGGCTCT-ATAAC-TTAAAAAATTTAAAATATTCTACC
1 ACAAATTTAAAAA-CTCCTCTAAGTAGAGG-TCTAACAACTTTAAAAAA-TTAAAATATTCTACC
* *
24095172 TAAAAGACTTATGAATCTTAATAATGAA
63 TAAAAGACTAACGAATCTTAATAATGAA
24095200 TGCTTATCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 19 0.25
113 55 0.72
114 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (112 bp):
ACAAATTTAAAAACTCCTCTAAGTAGAGGTCTAACAACTTTAAAAAATTAAAATATTCTACCTAA
AAGACTAACGAATCTTAATAATGAAAACTCCTCTATGTAGTGGCTCA
Found at i:24095260 original size:79 final size:80
Alignment explanation
Indices: 24095119--24095321 Score: 257
Period size: 79 Copynumber: 2.6 Consensus size: 80
24095109 ACAACTTTAA
* *
24095119 AAAGCTCTTCTAAGTAGAGGCTCTATAAC-TTAAAAAATTTAAAATATTCTACCTAAAAGACTTA
1 AAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAAAATTTAAAATATTCTACCTAAAAGACTTA
24095183 TGAATCTTAATAATG
66 TGAATCTTAATAATG
* * * * * * *
24095198 AATGCTTATCTAAGTAAAAGCTCAATAACTTTAAAAAA-TTAAAATGTTCTACCTGAAGGACTTA
1 AAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAAAATTTAAAATATTCTACCTAAAAGACTTA
* *
24095262 TGAATCTTGATAATT
66 TGAATCTTAATAATG
* * **
24095277 AAAGCTCCTTTAAACAGAGGCTCAATAACTTTAAAAAATTTAAAA
1 AAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAAAATTTAAAA
24095322 AAGCTCTTCT
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
79 89 0.86
80 14 0.14
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (80 bp):
AAAGCTCATCTAAGTAGAGGCTCAATAACTTTAAAAAATTTAAAATATTCTACCTAAAAGACTTA
TGAATCTTAATAATG
Found at i:24097318 original size:39 final size:40
Alignment explanation
Indices: 24097264--24097346 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 40
24097254 GCATCAATAC
*
24097264 ATCTTAGAAGCACTTGATCTTGGC-TCTTTTATAAAGGAT
1 ATCTTAGAAACACTTGATCTTGGCTTCTTTTATAAAGGAT
24097303 ATCTTAGAAACACTTGATCTTGGCTTCTTTTATAAAGGAT
1 ATCTTAGAAACACTTGATCTTGGCTTCTTTTATAAAGGAT
24097343 ATCT
1 ATCT
24097347 CTATCAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 23 0.55
40 19 0.45
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (40 bp):
ATCTTAGAAACACTTGATCTTGGCTTCTTTTATAAAGGAT
Found at i:24098881 original size:23 final size:22
Alignment explanation
Indices: 24098819--24098935 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 22
24098809 AAATAAAAAT
* *
24098819 AAAT-AAATAATAAAAGTAAGTA
1 AAATAAAATAATAAAA-AAACTA
24098841 AAATAAAATGAATAAAAAAACTA
1 AAATAAAAT-AATAAAAAAACTA
24098864 ATAATAAAATAAT-AAAAAACTTA
1 A-AATAAAATAATAAAAAAAC-TA
**
24098887 AAATATAAA-AATAAATCAA--A
1 AAATA-AAATAATAAAAAAACTA
* *
24098907 AAATAAAATCAAAAAATAAAATTA
1 AAATAAAAT-AATAAA-AAAACTA
24098931 AAATA
1 AAATA
24098936 GAAAACAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
19 3 0.04
20 6 0.08
21 5 0.06
22 20 0.26
23 22 0.29
24 21 0.27
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (22 bp):
AAATAAAATAATAAAAAAACTA
Found at i:24098891 original size:25 final size:26
Alignment explanation
Indices: 24098819--24098926 Score: 79
Period size: 25 Copynumber: 4.3 Consensus size: 26
24098809 AAATAAAAAT
* *
24098819 AAATAAATAATAAAAGTAAGTAA-AATA
1 AAATAAATAAAAAAACTAA--AATAATA
*
24098846 AAATGAATAAAAAAACT--AATAATA
1 AAATAAATAAAAAAACTAAAATAATA
24098870 AAAT-AAT-AAAAAACTTAAAAT-ATAA
1 AAATAAATAAAAAAAC-TAAAATAAT-A
*
24098895 AAATAAATCAAAAAA-TAAAATCAA-A
1 AAATAAATAAAAAAACTAAAAT-AATA
24098920 AAATAAA
1 AAATAAA
24098927 ATTAAAATAG
Statistics
Matches: 69, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
22 7 0.10
23 6 0.09
24 10 0.14
25 22 0.32
26 3 0.04
27 21 0.30
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (26 bp):
AAATAAATAAAAAAACTAAAATAATA
Found at i:24098894 original size:24 final size:24
Alignment explanation
Indices: 24098840--24098914 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
24098830 AAAAGTAAGT
24098840 AAAATAAAATGAATAAAAAAACTA
1 AAAATAAAATGAATAAAAAAACTA
*
24098864 ATAATAAAAT-AAT-AAAAAACTTA
1 AAAATAAAATGAATAAAAAAAC-TA
* *
24098887 AAATATAAAAATAAATCAAAAAA-TA
1 AAA-AT-AAAATGAATAAAAAAACTA
24098912 AAA
1 AAA
24098915 TCAAAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.16
23 7 0.16
24 11 0.25
25 10 0.23
26 3 0.07
27 6 0.14
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (24 bp):
AAAATAAAATGAATAAAAAAACTA
Found at i:24098927 original size:13 final size:13
Alignment explanation
Indices: 24098893--24098933 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
24098883 CTTAAAATAT
24098893 AAAAAT-AAATCA
1 AAAAATAAAATCA
24098905 AAAAATAAAATCA
1 AAAAATAAAATCA
*
24098918 AAAAATAAAATTA
1 AAAAATAAAATCA
24098931 AAA
1 AAA
24098934 TAGAAAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAATCA
Found at i:24098933 original size:12 final size:13
Alignment explanation
Indices: 24098866--24098933 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 13
24098856 AAAAACTAAT
24098866 AATAAAATAATAAAA
1 AATAAAAT-AT-AAA
24098881 AACTTAAAATATAAA
1 AA--TAAAATATAAA
24098896 AAT-AAATCA-AAA
1 AATAAAAT-ATAAA
24098908 AATAAAATCA-AAA
1 AATAAAAT-ATAAA
24098921 AATAAAAT-TAAA
1 AATAAAATATAAA
24098933 A
1 A
24098934 TAGAAAACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
12 14 0.29
13 19 0.40
15 7 0.15
16 2 0.04
17 6 0.12
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAATATAAA
Found at i:24099782 original size:5 final size:5
Alignment explanation
Indices: 24099772--24099811 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
24099762 TAGGAAAGAA
*
24099772 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT ATAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
24099812 ATATTTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:24099815 original size:11 final size:11
Alignment explanation
Indices: 24099772--24099814 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
24099762 TAGGAAAGAA
24099772 AAAAT-AAAAT
1 AAAATAAAAAT
24099782 AAAAT-AAAAT
1 AAAATAAAAAT
24099792 AAAATAAAAAT
1 AAAATAAAAAT
*
24099803 ATAATAAAAAT
1 AAAATAAAAAT
24099814 A
1 A
24099815 TTTCATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 15 0.48
11 16 0.52
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:24099832 original size:5 final size:5
Alignment explanation
Indices: 24099822--24099876 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
24099812 ATATTTCATA
* *
24099822 ATAAT ATAAT ATAAT ATAAT CACATT ATAAT ATAAT ATACTAT AGTAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATA--AT A-TAAT
24099871 ATAAT A
1 ATAAT A
24099877 CTAGTAACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 31 0.74
6 6 0.14
7 3 0.07
8 2 0.05
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:24100191 original size:54 final size:55
Alignment explanation
Indices: 24100037--24100254 Score: 163
Period size: 55 Copynumber: 4.0 Consensus size: 55
24100027 AATCAGCAAT
* * * * ** * * * * *
24100037 GATCAGGATTGAACCACAAGTCTGAAAGATGATCGGGGCTGAGCCGAGATTAAAT
1 GATCAGGATTGAACCATAAGTATAAAAAATGATCTAGACTAAGCCAAGATTGAAC
* ** * * *
24100092 TATCAGGATTGAATTACAAGTCA-AGAAAATGATTTAGACTAAGCCAAGATTGAAC
1 GATCAGGATTGAACCATAAGT-ATAAAAAATGATCTAGACTAAGCCAAGATTGAAC
* * * * **
24100147 GAT-TGAGATTGAACCAT-AGTCTAAAAAATGATCTGGACTGAGCCAAGATTGAGT
1 GATCAG-GATTGAACCATAAGTATAAAAAATGATCTAGACTAAGCCAAGATTGAAC
* * *
24100201 GATCAGGATTGAGCCATAAGTATGAAAAATGATCTAGATTAAGCCAAGATTGAA
1 GATCAGGATTGAACCATAAGTATAAAAAATGATCTAGACTAAGCCAAGATTGAA
24100255 AAGAGTGTAA
Statistics
Matches: 123, Mismatches: 35, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
54 43 0.35
55 80 0.65
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (55 bp):
GATCAGGATTGAACCATAAGTATAAAAAATGATCTAGACTAAGCCAAGATTGAAC
Found at i:24100206 original size:109 final size:110
Alignment explanation
Indices: 24100043--24100254 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 110
24100033 CAATGATCAG
* * * * * **
24100043 GATTGAACCACAAGTCTGAAAGATGATCGGGGCTGAGCCGAGATTAAATTATCAGGATTGAATTA
1 GATTGAACCACAAGTCTAAAAAATGATCGGGACTGAGCCAAGATTAAATGATCAGGATTGAACCA
*
24100108 CAAGTCAAG-AAAATGATTTAGACTAAGCCAAGATTGAACGATTGA
66 CAAGT-AAGAAAAATGATCTAGACTAAGCCAAGATTGAACGATTGA
* * * * *
24100153 GATTGAACCA-TAGTCTAAAAAATGATCTGGACTGAGCCAAGATTGAGTGATCAGGATTGAGCCA
1 GATTGAACCACAAGTCTAAAAAATGATCGGGACTGAGCCAAGATTAAATGATCAGGATTGAACCA
* * *
24100217 TAAGTATGAAAAATGATCTAGATTAAGCCAAGATTGAA
66 CAAGTAAGAAAAATGATCTAGACTAAGCCAAGATTGAA
24100255 AAGAGTGTAA
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
108 2 0.02
109 73 0.86
110 10 0.12
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (110 bp):
GATTGAACCACAAGTCTAAAAAATGATCGGGACTGAGCCAAGATTAAATGATCAGGATTGAACCA
CAAGTAAGAAAAATGATCTAGACTAAGCCAAGATTGAACGATTGA
Found at i:24100252 original size:55 final size:54
Alignment explanation
Indices: 24100117--24100254 Score: 161
Period size: 54 Copynumber: 2.5 Consensus size: 54
24100107 ACAAGTCAAG
* * *
24100117 AAAATGATTTAGACTAAGCCAAGATTGAACGATTGAGATTGAACCATAGTCTAA
1 AAAATGATCTAGACTAAGCCAAGATTGAACGATAGAGATTGAACCATAGTATAA
* * ** * *
24100171 AAAATGATCTGGACTGAGCCAAGATTGAGTGATCAG-GATTGAGCCATAAGTATGA
1 AAAATGATCTAGACTAAGCCAAGATTGAACGAT-AGAGATTGAACCAT-AGTATAA
*
24100226 AAAATGATCTAGATTAAGCCAAGATTGAA
1 AAAATGATCTAGACTAAGCCAAGATTGAA
24100255 AAGAGTGTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 38 0.55
55 31 0.45
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (54 bp):
AAAATGATCTAGACTAAGCCAAGATTGAACGATAGAGATTGAACCATAGTATAA
Found at i:24105775 original size:6 final size:6
Alignment explanation
Indices: 24105764--24105793 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
24105754 GAAAAGATTT
24105764 TTTTTA TTTTTA TTGTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TT-TTTA TTTTTA TTTTT
24105794 TTTACTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:24105784 original size:13 final size:13
Alignment explanation
Indices: 24105766--24105790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24105756 AAAGATTTTT
24105766 TTTATTTTTATTG
1 TTTATTTTTATTG
24105779 TTTATTTTTATT
1 TTTATTTTTATT
24105791 TTTTTTACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTATTTTTATTG
Found at i:24105795 original size:22 final size:22
Alignment explanation
Indices: 24105760--24105803 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24105750 ATTTGAAAAG
*
24105760 ATTTTTTTTATTTTTATTGTTT
1 ATTTTTTTTATTTTTACTGTTT
24105782 ATTTTTATTT-TTTTTACTGTTT
1 ATTTTT-TTTATTTTTACTGTTT
24105804 TTTCAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (22 bp):
ATTTTTTTTATTTTTACTGTTT
Found at i:24105873 original size:17 final size:17
Alignment explanation
Indices: 24105851--24105985 Score: 56
Period size: 17 Copynumber: 8.1 Consensus size: 17
24105841 TAAGTTACTA
24105851 AATAAAAATAAATAAAT
1 AATAAAAATAAATAAAT
* *
24105868 AATAAAAACAAGTAAAAT
1 AATAAAAATAAAT-AAAT
*
24105886 AA-AATGAATGAAA-AAAT
1 AATAA-AAAT-AAATAAAT
* *
24105903 ATTGAAAAT--A-AAAT
1 AATAAAAATAAATAAAT
**
24105917 AATAAAAA-ACTTAAA-
1 AATAAAAATAAATAAAT
24105932 ATATAAAAATAAATAAA-
1 A-ATAAAAATAAATAAAT
24105949 AAGT-AAAATAAA-AAAT
1 AA-TAAAAATAAATAAAT
* *
24105965 AAAATTAAAATAAAAAAAT
1 --AATAAAAATAAATAAAT
24105984 AA
1 AA
24105986 ACATGCGATT
Statistics
Matches: 90, Mismatches: 13, Indels: 30
0.68 0.10 0.23
Matches are distributed among these distances:
14 11 0.12
15 4 0.04
16 19 0.21
17 31 0.34
18 19 0.21
19 6 0.07
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAATAAAT
Found at i:24105888 original size:22 final size:21
Alignment explanation
Indices: 24105860--24105985 Score: 83
Period size: 23 Copynumber: 5.5 Consensus size: 21
24105850 AAATAAAAAT
24105860 AAATAAATAATAAAAACAAGTA
1 AAATAAATAATAAAAA-AAGTA
*
24105882 AAATAAAATGAATGAAAAAATATTGA
1 AAAT-AAAT-AAT-AAAAAA-AGT-A
**
24105908 AAATAAAATAATAAAAAACTTA
1 AAAT-AAATAATAAAAAAAGTA
*
24105930 AAATATAAAAATAAATAAAAAGTA
1 AAATA-AATAAT-AA-AAAAAGTA
* *
24105954 AAATAAAAAATAAAATTAAAATA
1 AAATAAATAATAAAA--AAAGTA
24105977 AAA-AAATAA
1 AAATAAATAA
24105986 ACATGCGATT
Statistics
Matches: 87, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.03
22 21 0.24
23 22 0.25
24 21 0.24
25 10 0.11
26 10 0.11
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (21 bp):
AAATAAATAATAAAAAAAGTA
Found at i:24105900 original size:26 final size:23
Alignment explanation
Indices: 24105860--24105968 Score: 100
Period size: 23 Copynumber: 4.7 Consensus size: 23
24105850 AAATAAAAAT
*
24105860 AAAT-AAATAATAAAAACAAGTA
1 AAATAAAATAATAAAAAAAAGTA
* *
24105882 AAATAAAATGAATGAAAAAATATTGA
1 AAATAAAAT-AAT-AAAAAAAAGT-A
**
24105908 AAATAAAATAAT-AAAAAACTTA
1 AAATAAAATAATAAAAAAAAGTA
24105930 AAATATAAA-AATAAATAAAAAGTA
1 AAATA-AAATAATAAA-AAAAAGTA
24105954 AAATAAAA-AATAAAA
1 AAATAAAATAATAAAA
24105969 TTAAAATAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 14 0.19
23 25 0.34
24 14 0.19
25 10 0.14
26 10 0.14
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AAATAAAATAATAAAAAAAAGTA
Found at i:24105957 original size:12 final size:12
Alignment explanation
Indices: 24105917--24105986 Score: 70
Period size: 12 Copynumber: 5.5 Consensus size: 12
24105907 AAAATAAAAT
24105917 AATAAAAAACTTAA
1 AATAAAAAA--TAA
24105931 AATATAAAAAT-A
1 AATA-AAAAATAA
*
24105943 AATAAAAAGTAA
1 AATAAAAAATAA
24105955 AATAAAAAATAA
1 AATAAAAAATAA
*
24105967 AATTAAAATAAAAA
1 AA-TAAAA-AATAA
24105981 AATAAA
1 AATAAA
24105987 CATGCGATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
11 5 0.10
12 19 0.39
13 10 0.20
14 10 0.20
15 5 0.10
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:24105966 original size:19 final size:20
Alignment explanation
Indices: 24105937--24105986 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
24105927 TTAAAATATA
24105937 AAAATAAATAAAAAGTAAAAT
1 AAAA-AAATAAAAAGTAAAAT
*
24105958 -AAAAAAT-AAAATTAAAAT
1 AAAAAAATAAAAAGTAAAAT
24105976 AAAAAAATAAA
1 AAAAAAATAAA
24105987 CATGCGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAAATAAAAAGTAAAAT
Found at i:24105982 original size:42 final size:40
Alignment explanation
Indices: 24105907--24105986 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 40
24105897 AAAAATATTG
* * *
24105907 AAAATAAAATAATAAAAAACTTAAAATATAAAAATAAATA
1 AAAATAAAATAAAAAAAAAATTAAAATAAAAAAATAAATA
24105947 AAAAGTAAAATAAAAAATAAAATTAAAATAAAAAAATAAA
1 AAAA-TAAAATAAAAAA-AAAATTAAAATAAAAAAATAAA
24105987 CATGCGATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 4 0.11
41 11 0.31
42 20 0.57
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (40 bp):
AAAATAAAATAAAAAAAAAATTAAAATAAAAAAATAAATA
Found at i:24106835 original size:16 final size:16
Alignment explanation
Indices: 24106801--24106860 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
24106791 AAGGAAAGAA
* *
24106801 AAAAATAAAATAAAAAT
1 AAAAATAATAT-AATAT
24106818 AAAAATAATATAATAT
1 AAAAATAATATAATAT
** *
24106834 AATCACAATATAATAT
1 AAAAATAATATAATAT
*
24106850 -AATATAATATA
1 AAAAATAATATA
24106861 CTACAATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 8 0.23
16 17 0.49
17 10 0.29
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATAATATAATAT
Found at i:24106871 original size:13 final size:13
Alignment explanation
Indices: 24106821--24106962 Score: 90
Period size: 13 Copynumber: 10.3 Consensus size: 13
24106811 TAAAAATAAA
*
24106821 AATAATATAATAT
1 AATAATATACTAT
*
24106834 AATCACAATATAATAT
1 AAT---AATATACTAT
*
24106850 AATATAATATACTAC
1 -A-ATAATATACTAT
24106865 AATAATATACTAT
1 AATAATATACTAT
*
24106878 ACTAATATACTAT
1 AATAATATACTAT
24106891 AATATATTATACTA-
1 AATA-A-TATACTAT
**
24106905 ATATACCATACTAT
1 A-ATAATATACTAT
**
24106919 AATAATA-AAAAT
1 AATAATATACTAT
*
24106931 AATAATATAATAT
1 AATAATATACTAT
*
24106944 AATATAATATAATAT
1 -A-ATAATATACTAT
24106959 AATA
1 AATA
24106963 TAATCGCACT
Statistics
Matches: 105, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.10
13 46 0.44
14 6 0.06
15 30 0.29
16 10 0.10
17 1 0.01
18 2 0.02
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATATACTAT
Found at i:24106871 original size:18 final size:17
Alignment explanation
Indices: 24106848--24106964 Score: 87
Period size: 18 Copynumber: 6.8 Consensus size: 17
24106838 ACAATATAAT
24106848 ATAATATAATATACTACA
1 ATAATATAATATACTA-A
*
24106866 ATAATATACTATACTAA
1 ATAATATAATATACTAA
* *
24106883 TATACTATAATATATTATA
1 -ATAATATAATATACTA-A
* **
24106902 CTAATATACCATACTATA
1 ATAATATAATATACTA-A
* *
24106920 ATAATA-AAAATAATAA
1 ATAATATAATATACTAA
*
24106936 TATAATATAATATA--AT
1 -ATAATATAATATACTAA
24106952 ATAATATAATATA
1 ATAATATAATATA
24106965 ATCGCACTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
15 13 0.16
16 2 0.03
17 13 0.16
18 51 0.64
19 1 0.01
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATATAATATACTAA
Found at i:24106873 original size:23 final size:23
Alignment explanation
Indices: 24106822--24107012 Score: 111
Period size: 26 Copynumber: 7.7 Consensus size: 23
24106812 AAAAATAAAA
*
24106822 ATAATATAATATAATCACAATATAAT
1 ATAATATAATATACT-AC-A-ATAAT
24106848 ATAATATAATATACTACAATAAT
1 ATAATATAATATACTACAATAAT
*
24106871 ATACTATACTAATATACTATAAT-AT
1 ATA--ATA-TAATATACTACAATAAT
* *
24106896 ATTATACTAATATACCATACTATAAT
1 ATAATA-TAATATA-C-TACAATAAT
*
24106922 AATAAAAATAATAATA-TA-ATATAAT
1 -AT-AATATAAT-ATACTACA-ATAAT
* * *
24106947 ATAATATAATATAATATAATCGCACT
1 ATAATATAATATACTACAAT---AAT
*
24106973 ATAATATAATATACTACACT-AT
1 ATAATATAATATACTACAATAAT
24106995 AGTAATATAATACTACTA
1 A-TAATATAATA-TACTA
24107013 ACAAAAAATA
Statistics
Matches: 134, Mismatches: 14, Indels: 36
0.73 0.08 0.20
Matches are distributed among these distances:
22 5 0.04
23 40 0.30
24 10 0.07
25 20 0.15
26 48 0.36
27 6 0.04
28 5 0.04
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (23 bp):
ATAATATAATATACTACAATAAT
Found at i:24106934 original size:12 final size:13
Alignment explanation
Indices: 24106917--24106965 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
24106907 ATACCATACT
24106917 ATAATAATA-AAA
1 ATAATAATATAAA
*
24106929 ATAATAATATAAT
1 ATAATAATATAAA
*
24106942 ATAAT-ATAATATA
1 ATAATAAT-ATAAA
24106955 AT-ATAATATAA
1 ATAATAATATAA
24106966 TCGCACTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 16 0.53
13 14 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:24107005 original size:5 final size:5
Alignment explanation
Indices: 24106822--24106985 Score: 120
Period size: 5 Copynumber: 31.6 Consensus size: 5
24106812 AAAAATAAAA
* * *
24106822 ATAAT ATAAT ATAAT CACAAT ATAAT ATAAT ATAAT ATACT A-CA- ATAAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* ** *
24106871 ATACTAT ACTAAT ATACT ATAAT ATATTAT ACTAAT ATACC ATACT ATAAT
1 ATA--AT A-TAAT ATAAT ATAAT ATA--AT A-TAAT ATAAT ATAAT ATAAT
** *
24106922 AATAA- A-AAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT CGCACT
1 -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
24106973 ATAAT ATAAT ATA
1 ATAAT ATAAT ATA
24106986 CTACACTATA
Statistics
Matches: 127, Mismatches: 18, Indels: 28
0.73 0.10 0.16
Matches are distributed among these distances:
3 3 0.02
4 2 0.02
5 93 0.73
6 19 0.15
7 6 0.05
8 4 0.03
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:24112957 original size:17 final size:18
Alignment explanation
Indices: 24112935--24112974 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
24112925 AAATTTTTAA
24112935 TTTTTATAATTTA-AATT
1 TTTTTATAATTTATAATT
*
24112952 TTTTTATATTTTATTAATT
1 TTTTTATAATTTA-TAATT
24112971 TTTT
1 TTTT
24112975 ATTGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATAATTTATAATT
Found at i:24113599 original size:18 final size:20
Alignment explanation
Indices: 24113560--24113601 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
24113550 AAATATTTAT
*
24113560 TTTTATAGATTAATTAATTA
1 TTTTATAGATAAATTAATTA
24113580 TTTTATA-ATAAATT-ATTA
1 TTTTATAGATAAATTAATTA
24113598 TTTT
1 TTTT
24113602 TTTAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 6 0.29
20 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTATAGATAAATTAATTA
Found at i:24113602 original size:19 final size:20
Alignment explanation
Indices: 24113556--24113618 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
24113546 TAGTAAATAT
*
24113556 TTATTTTTATAGATTAATTAA
1 TTATTTTTATA-ATAAATTAA
24113577 TTA-TTTTATAATAAATT-A
1 TTATTTTTATAATAAATTAA
*
24113595 TTATTTTTTTAAT-AATATAA
1 TTATTTTTATAATAAAT-TAA
24113615 TTAT
1 TTAT
24113619 ATAATATGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 7 0.19
19 15 0.41
20 12 0.32
21 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATTTTTATAATAAATTAA
Found at i:24113764 original size:16 final size:15
Alignment explanation
Indices: 24113743--24113782 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
24113733 TTTTATTTAT
*
24113743 AAAAAATTAATTATTA
1 AAAAAATTAA-AATTA
24113759 AAAAAATATAAAATTA
1 AAAAAAT-TAAAATTA
24113775 AAAAAATT
1 AAAAAATT
24113783 TTACACTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATTAAAATTA
Found at i:24116749 original size:19 final size:18
Alignment explanation
Indices: 24116722--24116757 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24116712 CCTATACAAT
24116722 ATTAAATTATAAATAATTA
1 ATTAAATTAT-AATAATTA
*
24116741 ATTATATTATAATAATT
1 ATTAAATTATAATAATT
24116758 GTAATTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATTATAATAATTA
Found at i:24126485 original size:26 final size:26
Alignment explanation
Indices: 24126454--24126505 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
24126444 CACAAGAAAA
*
24126454 TCTAAGAAGATCTGAGATTTGAAATC
1 TCTAAGAAGATCTAAGATTTGAAATC
*
24126480 TCTAAGGAGATCTAAGATTTGAAATC
1 TCTAAGAAGATCTAAGATTTGAAATC
24126506 CCAAAAGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
TCTAAGAAGATCTAAGATTTGAAATC
Found at i:24126734 original size:10 final size:10
Alignment explanation
Indices: 24126719--24126749 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
24126709 GAATCATTTG
24126719 GAAAATTTTT
1 GAAAATTTTT
24126729 GAAAATTTTT
1 GAAAATTTTT
24126739 GAAAATATTTT
1 GAAAAT-TTTT
24126750 TGAGTCGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (10 bp):
GAAAATTTTT
Found at i:24126750 original size:12 final size:11
Alignment explanation
Indices: 24126715--24126752 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
24126705 AAAAGAATCA
*
24126715 TTTGGAAAATT
1 TTTGAAAAATT
24126726 TTTG-AAAATT
1 TTTGAAAAATT
24126736 TTTGAAAATATT
1 TTTGAAAA-ATT
24126748 TTTGA
1 TTTGA
24126753 GTCGTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 7 0.28
12 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (11 bp):
TTTGAAAAATT
Found at i:24127794 original size:39 final size:38
Alignment explanation
Indices: 24127751--24127826 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
24127741 CTAAATTTCT
24127751 TTTTATAAAAAAAAT-ATAATTAAAGAA-TAAATAATAAAA
1 TTTTA-AAAAAAAATCATAA-TAAA-AATTAAATAATAAAA
* *
24127790 TTTTAAAAAATAATCATAATAAAAATTAATTAATAAA
1 TTTTAAAAAAAAATCATAATAAAAATTAAATAATAAA
24127827 TTCCTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 2 0.06
38 22 0.67
39 9 0.27
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (38 bp):
TTTTAAAAAAAAATCATAATAAAAATTAAATAATAAAA
Found at i:24127874 original size:13 final size:14
Alignment explanation
Indices: 24127856--24127884 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24127846 AATGATTTTA
24127856 TTTAAATG-AATCT
1 TTTAAATGCAATCT
24127869 TTTAAATGCAATCT
1 TTTAAATGCAATCT
24127883 TT
1 TT
24127885 AGAGAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTAAATGCAATCT
Found at i:24128288 original size:13 final size:14
Alignment explanation
Indices: 24128270--24128298 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24128260 AATGATTTTA
24128270 TTTAAATG-AATCT
1 TTTAAATGCAATCT
24128283 TTTAAATGCAATCT
1 TTTAAATGCAATCT
24128297 TT
1 TT
24128299 AGAGAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTAAATGCAATCT
Found at i:24128488 original size:414 final size:413
Alignment explanation
Indices: 24127444--24128687 Score: 2131
Period size: 412 Copynumber: 3.0 Consensus size: 413
24127434 AAATAAATTG
* *
24127444 TTTAAATGAATCTTTTAAATACAATCTTTAGTGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
1 TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
* *
24127509 TGCAAATAAAAATAATTTTTTGGATTTCACCTTAGAGTTGGGGTAATCCAAAATTACTTTCACTA
66 TGCAAATAAAAATAATTTTTTGGATTTCACCTTAGAGTTGGGATAATCCAAAATTATTTTCACTA
* *
24127574 AAATAAAGATTGAATTAAACAATGTAAAACAATAATAAAAAAATAATAAAAAATGAACTTAATAA
131 AAATAAAGATTGATTTAAACAATGTAAAACAATAATAAAAAAATAATAAAAAATGAAATTAATAA
* * *
24127639 TATTTTATATTTTTAATTTTTTTTAAAATATAGAAAATTAAAAAAGTTCAATTTT-TTTAAATAA
196 TATTTTATATTTTGAATTTTTTTTAAAATATAAAAAATTAAAAAAGTTCAATTTTCTTTAAACAA
24127703 GAGATTAATATTTAGATTTCACCGATGAGTCGGATAATCTAAATTTCTTTTTATAAAAAAAATAT
261 GAGATTAATATTTAGATTTCACCGATGAGTCGGATAATCTAAATTTCTTTTTATAAAAAAAA-AT
24127768 AATTAAAGAATAAATAATAAAATTTTAAAAAATAATCATAATAAAAATTAATTAATAAATTCCTT
325 AATTAAAGAATAAATAATAAAATTTTAAAAAATAATCATAATAAAAATTAATTAATAAATTCCTT
24127833 T-ATTATAATAAAAAATGATTTTA
390 TAATTATAATAAAAAATGATTTTA
24127856 TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
1 TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
* * * *
24127921 TGCAAATAAAAATAATTTTTTGAATTTCATCTTAGAGTTGGGATAAACTAAAATTATTTTCACTA
66 TGCAAATAAAAATAATTTTTTGGATTTCACCTTAGAGTTGGGATAATCCAAAATTATTTTCACTA
*
24127986 AAATAAAGATTGATTTAAACAATGTAAAACAATAACAAAAAAATAATAAAAAATGAAATTAATAA
131 AAATAAAGATTGATTTAAACAATGTAAAACAATAATAAAAAAATAATAAAAAATGAAATTAATAA
24128051 TATTTTATATTTTGAATTTTTTTTAAAATATAAAAAATT-AAAAAGTTCAATTTTCTTTAAACAA
196 TATTTTATATTTTGAATTTTTTTTAAAATATAAAAAATTAAAAAAGTTCAATTTTCTTTAAACAA
*
24128115 GAGATTAATATTTAGATTTCACTGATGAGTCGGGATAATCTAAAATTT-TTTTTATAAAAAAAAA
261 GAGATTAATATTTAGATTTCACCGATGAGTC-GGATAATCT-AAATTTCTTTTTATAAAAAAAAA
24128179 TAATTAAAGAATAAATAATAAAATTTTAAAAAAATAATCATAATAAAAATTAATTAATAAATTCC
324 TAATTAAAGAATAAATAATAAAATTTT-AAAAAATAATCATAATAAAAATTAATTAATAAATTCC
24128244 TTTAATTATAATAAAAAATGATTTTA
388 TTTAATTATAATAAAAAATGATTTTA
24128270 TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
1 TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
* **
24128335 TGCAAATAAAAATAATTTTTTGGATTTCACCTTGGAGTTAAGATAATTCCAAAATTATTTTCACT
66 TGCAAATAAAAATAATTTTTTGGATTTCACCTTAGAGTTGGGATAA-TCCAAAATTATTTTCACT
* *
24128400 AAAATAAAGATTGATTTAAACAATGTAAAACAATAATAATAAAATAATAAAAAATAAAATTAATA
130 AAAATAAAGATTGATTTAAACAATGTAAAACAATAATAAAAAAATAATAAAAAATGAAATTAATA
* * *
24128465 ATATTTTATATTTTGAATTTTTTTTAAAATAT-AAAAATTGAAAAAGTTTAATTTTCTTTAGACA
195 ATATTTTATATTTTGAATTTTTTTTAAAATATAAAAAATTAAAAAAGTTCAATTTTCTTTAAACA
* * * *
24128529 AGAGATTAATATTTATATTTCACCGATAAGCCAGGATAATCTAAATTTCTTTTTATAAAAAAATA
260 AGAGATTAATATTTAGATTTCACCGATGAGTC-GGATAATCTAAATTTCTTTTTATAAAAAAAAA
*
24128594 TAATTAAAGAATAAATAATAAAATTTTTAAAAAA-AATCATAATAAAAATTAATTAATAAATTCT
324 TAATTAAAGAATAAATAATAAAA-TTTTAAAAAATAATCATAATAAAAATTAATTAATAAATTCC
24128658 TTTAATTATAATAAAAAATGATTTTA
388 TTTAATTATAATAAAAAATGATTTTA
24128684 TTTA
1 TTTA
24128688 GGATCTTGTC
Statistics
Matches: 789, Mismatches: 34, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
411 15 0.02
412 287 0.36
413 64 0.08
414 206 0.26
415 213 0.27
416 4 0.01
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (413 bp):
TTTAAATGAATCTTTTAAATGCAATCTTTAGAGAAAGTTAAAAGAGTTTAATTTTCTTTAAGTAT
TGCAAATAAAAATAATTTTTTGGATTTCACCTTAGAGTTGGGATAATCCAAAATTATTTTCACTA
AAATAAAGATTGATTTAAACAATGTAAAACAATAATAAAAAAATAATAAAAAATGAAATTAATAA
TATTTTATATTTTGAATTTTTTTTAAAATATAAAAAATTAAAAAAGTTCAATTTTCTTTAAACAA
GAGATTAATATTTAGATTTCACCGATGAGTCGGATAATCTAAATTTCTTTTTATAAAAAAAAATA
ATTAAAGAATAAATAATAAAATTTTAAAAAATAATCATAATAAAAATTAATTAATAAATTCCTTT
AATTATAATAAAAAATGATTTTA
Found at i:24128651 original size:38 final size:38
Alignment explanation
Indices: 24128578--24128662 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
24128568 TCTAAATTTC
24128578 TTTTTATAAAAAAATATAATTAAAGAATAAATAATAAAA
1 TTTTTA-AAAAAAATATAATTAAAGAATAAATAATAAAA
* *
24128617 TTTTTAAAAAAAATCATAA-TAAA-AATTAATTAATAAAT
1 TTTTTAAAAAAAAT-ATAATTAAAGAA-TAAATAATAAAA
24128655 TCTTTTAA
1 T-TTTTAA
24128663 TTATAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
37 2 0.05
38 23 0.56
39 16 0.39
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (38 bp):
TTTTTAAAAAAAATATAATTAAAGAATAAATAATAAAA
Found at i:24128655 original size:37 final size:39
Alignment explanation
Indices: 24128578--24128653 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
24128568 TCTAAATTTC
24128578 TTTTTATAAAAAAATATAATTAAAGAATAAATAATAAAA
1 TTTTTATAAAAAAATATAATTAAAGAATAAATAATAAAA
*
24128617 TTTTTA-AAAAAAATCATAA-TAAA-AATTAATTAATAAA
1 TTTTTATAAAAAAAT-ATAATTAAAGAA-TAAATAATAAA
24128654 TTCTTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 2 0.06
38 22 0.65
39 10 0.29
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (39 bp):
TTTTTATAAAAAAATATAATTAAAGAATAAATAATAAAA
Found at i:24140657 original size:40 final size:40
Alignment explanation
Indices: 24140577--24140993 Score: 427
Period size: 40 Copynumber: 10.6 Consensus size: 40
24140567 TTAAATTTTT
* * * * * *
24140577 AACATTTAAAGTTCGTTGTCTCTGGTCAAATGAGCTTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
**
24140617 AACATTTAAAGTTCATTGCCTCTAGTCAGAGGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
24140657 AACATTTAAAGTTTGTTGCCTCTTA-TCAGAGGAGCCTTT-
1 AACATTTAAAGTTTGTTGCCTC-TAGTCAGAGGAGCCTTTC
* ** * *
24140696 TA-ATTTAAAGTTCATTGCCTCT-GATCAAAAGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAG-TCAGAGGAGCCTTTC
* * ** *
24140735 AACATTTAAAGTTCGCTATCTCTAGTCAGAAGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * * * * *
24140775 AACATTTAAAGTTTGTTGTCTTTGGTTAAAAGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * *
24140815 AACA-TTAAAGTTTGTTACCTCTAGTCAGAAGAGCCTTTT
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * *
24140854 GA-ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
*
24140893 AACATTTAAAGTTTATTGCCTCTAGTCAGAGGAGCCTTTC
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * * *
24140933 AACATTTAAAGTTTGTTGTCTTTGGTCAGAGGAGCCTTTT
1 AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* *
24140973 GA-A-TTAAAGTTCGTTGCCTCT
1 AACATTTAAAGTTTGTTGCCTCT
24140994 GATTAGATGA
Statistics
Matches: 319, Mismatches: 50, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.00
38 45 0.14
39 65 0.20
40 205 0.64
41 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (40 bp):
AACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
Found at i:24140865 original size:158 final size:156
Alignment explanation
Indices: 24140577--24141015 Score: 540
Period size: 158 Copynumber: 2.8 Consensus size: 156
24140567 TTAAATTTTT
* * ** * * *
24140577 AACATTTAAAGTTCGTTGTCTCTGGTCA-AATGAGCTTTTCAACATTTAAAGTTCATTGCCTCTA
1 AACATTTAAAGTTCGTTGTCTCTAGTCAGAA-GAGCCTTTCAACATTTAAAGTTTGTTGTCTTTG
*
24140641 GTCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTCTTATCAGAGGAGCCTTTTAATTTAAAG
65 GTCAGAGGAGCCTTTCAACA-TTAAAGTTTGTTGCCTC-TATCAGAAGAGCCTTTTAATTTAAAG
*
24140706 TTCATTGCCTCTGATCAAAAGAGCCTTTC
128 TTCATTACCTCTGATCAAAAGAGCCTTTC
* *
24140735 AACATTTAAAGTTCGCTATCTCTAGTCAGAAGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGG
1 AACATTTAAAGTTCGTTGTCTCTAGTCAGAAGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGG
* * * *
24140800 TTAAAAGAGCCTTTCAACATTAAAGTTTGTTACCTCTAGTCAGAAGAGCCTTTTGAATTTAAAGT
66 TCAGAGGAGCCTTTCAACATTAAAGTTTGTTGCCTCTA-TCAGAAGAGCCTTTT-AATTTAAAGT
** * * *
24140865 TTGTTACCTCTGGTCAGAGGAGCCTTTC
129 TCATTACCTCTGATCAAAAGAGCCTTTC
** * *
24140893 AACATTTAAAGTTTATTGCCTCTAGTCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGG
1 AACATTTAAAGTTCGTTGTCTCTAGTCAGAAGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGG
** * * * *
24140958 TCAGAGGAGCCTTTTGA-ATTAAAGTTCGTTGCCTCTGATTAGATGAGCTTTTTAATTT
66 TCAGAGGAGCCTTTCAACATTAAAGTTTGTTGCCTCT-ATCAGAAGAGCCTTTTAATTT
24141016 CAAGAGCCTC
Statistics
Matches: 241, Mismatches: 36, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
156 7 0.03
157 59 0.24
158 173 0.72
159 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (156 bp):
AACATTTAAAGTTCGTTGTCTCTAGTCAGAAGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGG
TCAGAGGAGCCTTTCAACATTAAAGTTTGTTGCCTCTATCAGAAGAGCCTTTTAATTTAAAGTTC
ATTACCTCTGATCAAAAGAGCCTTTC
Found at i:24140994 original size:118 final size:120
Alignment explanation
Indices: 24140577--24140993 Score: 472
Period size: 118 Copynumber: 3.5 Consensus size: 120
24140567 TTAAATTTTT
* * * *
24140577 AACATTTAAAGTTCGTTGTCTCTGGTCAAATGAG-CTTTTCAACATTTAAAGTTCATTGCCTCTA
1 AACATTTAAAGTTCGTTGCCTCTGGTCAAAAGAGCCTTTT-AACATTTAAAGTTCGTTACCTCTA
24140641 GTCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTCTTA-TCAGAGGAGCCTTT-
65 GTCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTC-TAGTCAGAGGAGCCTTTC
* * * * * *
24140696 TA-ATTTAAAGTTCATTGCCTCTGATCAAAAGAGCCTTTCAACATTTAAAGTTCGCTATCTCTAG
1 AACATTTAAAGTTCGTTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTCGTTACCTCTAG
* * * * * * *
24140760 TCAGAAGAGCCTTTCAACATTTAAAGTTTGTTGTCTTTGGTTAAAAGAGCCTTTC
66 TCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * * * * * *
24140815 AACA-TTAAAGTTTGTTACCTCTAGTCAGAAGAGCCTTTTGA-ATTTAAAGTTTGTTACCTCTGG
1 AACATTTAAAGTTCGTTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTCGTTACCTCTAG
*
24140878 TCAGAGGAGCCTTTCAACATTTAAAGTTTATTGCCTCTAGTCAGAGGAGCCTTTC
66 TCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
* * * * * * *
24140933 AACATTTAAAGTTTGTTGTCTTTGGTCAGAGGAGCCTTTTGA-A-TTAAAGTTCGTTGCCTCT
1 AACATTTAAAGTTCGTTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTCGTTACCTCT
24140994 GATTAGATGA
Statistics
Matches: 248, Mismatches: 45, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
117 1 0.00
118 178 0.72
119 68 0.27
120 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (120 bp):
AACATTTAAAGTTCGTTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTCGTTACCTCTAG
TCAGAGGAGCCTTTCAACATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCCTTTC
Found at i:24141157 original size:38 final size:38
Alignment explanation
Indices: 24141103--24141422 Score: 250
Period size: 38 Copynumber: 8.2 Consensus size: 38
24141093 TCAGATCTTT
*
24141103 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTA
* * * *
24141141 AATTTAAAGTTCGTTGCCTCTGGTCAGA-GAAGCTTTTCA
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAA-CTTTT-A
* * *
24141180 ACATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTG
1 A-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTA
* * * *
24141219 AATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTTCA
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTT-A
* *
24141258 ACATTTAAAGTTTGTTACCTTTGGTTAAA-GAAGCTTTTG
1 A-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAA-CTTTTA
* * * * *
24141297 AATTTAATGTTTGTTGTCTTTGATGAGAA-GAGCTTTTTA
1 AATTTAAAGTTTGTTGCCTTTGGTTA-AAGGAAC-TTTTA
* ** * * *
24141336 ACATCTAAAGTTTGTTGCCTTTGCCTAAAAGAGCCTTTTG
1 A-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGA-ACTTTTA
** * * *
24141376 AATTTAAAGTTCATTGCCTTTGGTGAGAGGAGCCTTTTA
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGA-ACTTTTA
24141415 AATTTAAA
1 AATTTAAA
24141423 ATTTTCATAA
Statistics
Matches: 223, Mismatches: 47, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
37 3 0.01
38 82 0.37
39 54 0.24
40 81 0.36
41 3 0.01
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (38 bp):
AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTA
Found at i:24141235 original size:78 final size:78
Alignment explanation
Indices: 24141104--24141422 Score: 392
Period size: 78 Copynumber: 4.1 Consensus size: 78
24141094 CAGATCTTTA
* * * *
24141104 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTGAATTTAAAGTTCGTTGCCTCTGGTCAGA
1 ATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTCGTTGCCTCTGATGAGA
24141169 GAAGCTTTTCAAC
66 GAAGCTTTTCAAC
* *
24141182 ATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGATGAAA
1 ATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTCGTTGCCTCTGATGAGA
*
24141247 GGAGCTTTTCAAC
66 GAAGCTTTTCAAC
* * * * *
24141260 ATTTAAAGTTTGTTACCTTTGGTTAAAGAAGCTTTTGAATTTAATGTTTGTTGTCTTTGATGAGA
1 ATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTCGTTGCCTCTGATGAGA
*
24141325 -AGAGCTTTTTAAC
66 GA-AGCTTTTCAAC
* * ** * * * *
24141338 ATCTAAAGTTTGTTGCCTTTGCCTAAAAGAGCCTTTTGAATTTAAAGTTCATTGCCTTTGGTGAG
1 ATTTAAAGTTTGTTACCTTTGGTTAAAGGAG-CTTTTGAATTTAAAGTTCGTTGCCTCTGATGAG
*
24141403 AGGAGCCTTTT-AA-
65 AGAAG-CTTTTCAAC
24141416 ATTTAAA
1 ATTTAAA
24141423 ATTTTCATAA
Statistics
Matches: 210, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
78 172 0.82
79 33 0.16
80 5 0.02
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (78 bp):
ATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTCGTTGCCTCTGATGAGA
GAAGCTTTTCAAC
Found at i:24142048 original size:9 final size:10
Alignment explanation
Indices: 24142030--24142059 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24142020 GAATCATTTG
24142030 GAGAATTTTT
1 GAGAATTTTT
24142040 GAGAATTTTT
1 GAGAATTTTT
*
24142050 GAAAATTTTT
1 GAGAATTTTT
24142060 TTAAGTCGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (10 bp):
GAGAATTTTT
Found at i:24143132 original size:38 final size:38
Alignment explanation
Indices: 24143058--24143143 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 38
24143048 AATCTAAATT
24143058 TTTTTTATAAAAAAATATAATTAAAGAATAAATAATAAA
1 TTTTTTA-AAAAAAATATAATTAAAGAATAAATAATAAA
* *
24143097 TTTTTTAAAAATAATCATAA-TAAA-AATTAATTAATAAA
1 TTTTTTAAAAAAAAT-ATAATTAAAGAA-TAAATAATAAA
24143135 TTCTTTTAA
1 TT-TTTTAA
24143144 TTATAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
37 2 0.05
38 23 0.55
39 17 0.40
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (38 bp):
TTTTTTAAAAAAAATATAATTAAAGAATAAATAATAAA
Found at i:24143282 original size:20 final size:19
Alignment explanation
Indices: 24143242--24143281 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24143232 GAGTCGGGAT
*
24143242 AATTTTAAAATTTATTCAA
1 AATTTTAAAATTCATTCAA
24143261 AATTTTAAGAATTCA-TCAA
1 AATTTTAA-AATTCATTCAA
24143280 AA
1 AA
24143282 AGTTAGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTTTAAAATTCATTCAA
Found at i:24143301 original size:49 final size:51
Alignment explanation
Indices: 24143194--24143301 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 51
24143184 CTTGAAATGA
* * * * * *
24143194 TCCTAAAACTTATTCAAAATTCTTAGGATTTCATCGAAGAGTCGGGATAAT
1 TCCTAAAATTTATTCAAAATTCTTAAGAATTCATCAAAAAGTCAGGATAAT
* * *
24143245 T-TTAAAATTTATTCAAAATT-TTAAGAATTCATCAAAAAGTTAGGAT-GT
1 TCCTAAAATTTATTCAAAATTCTTAAGAATTCATCAAAAAGTCAGGATAAT
24143293 TCCTAAAAT
1 TCCTAAAAT
24143302 CTTTTTTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
48 2 0.04
49 26 0.57
50 17 0.37
51 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (51 bp):
TCCTAAAATTTATTCAAAATTCTTAAGAATTCATCAAAAAGTCAGGATAAT
Found at i:24158758 original size:223 final size:225
Alignment explanation
Indices: 24158368--24158820 Score: 865
Period size: 223 Copynumber: 2.0 Consensus size: 225
24158358 AATATTACAT
*
24158368 AAATACAGCTTTTTGATGTAATTATAATAAGCAGTCTATTCGTATCTTGGAGTGTTCATAATTCA
1 AAATACAACTTTTTGATGTAATTATAATAAGCAGTCTATTCGTATCTTGGAGTGTTCATAATTCA
24158433 GTTTTAGCTGAATTAATCAATTTAACTAATTTAATTCGATTAATCGATCAGCCACCGAATTAATT
66 GTTTTAGCTGAATTAATCAATTTAACTAATTTAATTCGATTAATCGATCAGCCACCGAATTAATT
24158498 TTGGTCGGTTAATGAAAATAATTTTAAAAGAATTTTGATTTTCAGTTAATTCGGTTCAAAAACTG
131 TTGGTCGGTTAATGAAAATAATTTTAAAAGAATTTTGATTTTCAGTTAATTCGGTTCAAAAACTG
*
24158563 AATTAATCGAATTAACCAAAATTTTAATGA
196 AATTAATCGAATTAACCAAAATTTTAATAA
24158593 AAATACAACTTTTTGATGTAATTATAATAAGCAGTCTATTCGTATCTTGG-G-GTTCATAATTCA
1 AAATACAACTTTTTGATGTAATTATAATAAGCAGTCTATTCGTATCTTGGAGTGTTCATAATTCA
*
24158656 GTTTTAGTTGAATTAATCAATTTAACTAATTTAATTCGATTAATCGATCAGCCACCGAATTAATT
66 GTTTTAGCTGAATTAATCAATTTAACTAATTTAATTCGATTAATCGATCAGCCACCGAATTAATT
24158721 TTGGTCGGTTAATGAAAATAATTTTAAAAGAATTTTGATTTTCAGTTAATTCGGTTCAAAAACTG
131 TTGGTCGGTTAATGAAAATAATTTTAAAAGAATTTTGATTTTCAGTTAATTCGGTTCAAAAACTG
24158786 AATTAATCGAATTAACCAAAATTTTAATAA
196 AATTAATCGAATTAACCAAAATTTTAATAA
24158816 AAATA
1 AAATA
24158821 TAATATAACT
Statistics
Matches: 225, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
223 175 0.78
224 1 0.00
225 49 0.22
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (225 bp):
AAATACAACTTTTTGATGTAATTATAATAAGCAGTCTATTCGTATCTTGGAGTGTTCATAATTCA
GTTTTAGCTGAATTAATCAATTTAACTAATTTAATTCGATTAATCGATCAGCCACCGAATTAATT
TTGGTCGGTTAATGAAAATAATTTTAAAAGAATTTTGATTTTCAGTTAATTCGGTTCAAAAACTG
AATTAATCGAATTAACCAAAATTTTAATAA
Found at i:24159039 original size:14 final size:15
Alignment explanation
Indices: 24159019--24159069 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
24159009 AATAAAAATA
24159019 AAATAATTTAATTT-
1 AAATAATTTAATTTC
*
24159033 AATTAATTTAATTTC
1 AAATAATTTAATTTC
* *
24159048 AAATAATTCAATTTG
1 AAATAATTTAATTTC
24159063 AAATAAT
1 AAATAAT
24159070 CAAACTGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (15 bp):
AAATAATTTAATTTC
Found at i:24159247 original size:71 final size:72
Alignment explanation
Indices: 24159123--24159262 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 72
24159113 AATTAGGCGG
*
24159123 TGGTGCAATATACAAAGACATTATCTTTATCTAATAGTTAATTACGACATTGACTAATTGACTCA
1 TGGTGCAATATACAAAGACATTATCTTTATCTAATAGTTAATTACGACATTGACTAATTGACTAA
24159188 TTTGCAT
66 TTTGCAT
* * *
24159195 TGGTGCAATA-GCAATAGACATTATC-TTATCTAATAGTTGATTATGACATTGACTAATTGACTA
1 TGGTGCAATATACAA-AGACATTATCTTTATCTAATAGTTAATTACGACATTGACTAATTGACTA
24159258 ATTTG
65 ATTTG
24159263 TGTTTTAGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 43 0.68
72 20 0.32
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (72 bp):
TGGTGCAATATACAAAGACATTATCTTTATCTAATAGTTAATTACGACATTGACTAATTGACTAA
TTTGCAT
Found at i:24159338 original size:2 final size:2
Alignment explanation
Indices: 24159331--24159358 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24159321 GCAATATAAA
24159331 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
24159359 GTGATTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24160810 original size:13 final size:13
Alignment explanation
Indices: 24160792--24160821 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24160782 ATTTTTATTC
24160792 ATTTTTATTTCAT
1 ATTTTTATTTCAT
*
24160805 ATTTTTATTTCGT
1 ATTTTTATTTCAT
24160818 ATTT
1 ATTT
24160822 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:24165924 original size:13 final size:13
Alignment explanation
Indices: 24165906--24165930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24165896 CATTTTTTTG
24165906 AAAAAAAAAAGAC
1 AAAAAAAAAAGAC
24165919 AAAAAAAAAAGA
1 AAAAAAAAAAGA
24165931 ATCGTAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAC
Found at i:24166384 original size:23 final size:23
Alignment explanation
Indices: 24166356--24166417 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
24166346 TCACTAATGG
*
24166356 ATGAAAAAGAAAAAAAAGAGA-AAG
1 ATGAAAAA-AAAAAAAAG-GATAAA
24166380 A-GAAAAAAATAAAAAAGGATAAA
1 ATGAAAAAAA-AAAAAAGGATAAA
24166403 ATGAAAAAAAAAAAA
1 ATGAAAAAAAAAAAA
24166418 GAAAAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 4 0.12
23 21 0.62
24 9 0.26
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (23 bp):
ATGAAAAAAAAAAAAAGGATAAA
Found at i:24166386 original size:24 final size:24
Alignment explanation
Indices: 24166359--24166417 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
24166349 CTAATGGATG
*
24166359 AAAAAGAAAAAAAAGAGA-AAGA-GA
1 AAAAA-AAAAAAAAG-GATAAAATGA
*
24166383 AAAAAATAAAAAAGGATAAAATGA
1 AAAAAAAAAAAAAGGATAAAATGA
24166407 AAAAAAAAAAA
1 AAAAAAAAAAA
24166418 GAAAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 11 0.37
24 17 0.57
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAAAAAGGATAAAATGA
Found at i:24167604 original size:25 final size:25
Alignment explanation
Indices: 24167576--24167687 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
24167566 TAAAAAATCC
**
24167576 TCAAATGAGAATCTTTAAGACATTT
1 TCAAATGAGAATCTTTAAGATGTTT
*
24167601 TCAAATGAGAGTCTTTAAGATGTTT
1 TCAAATGAGAATCTTTAAGATGTTT
* * *
24167626 TCAACTAAGAATCTTT-A-A-GTCT
1 TCAAATGAGAATCTTTAAGATGTTT
* *
24167648 T-AAATGAGAATATTTAAGATGTTG
1 TCAAATGAGAATCTTTAAGATGTTT
*
24167672 TCAAATGAAAATCTTT
1 TCAAATGAGAATCTTT
24167688 GAGGTGTGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
21 11 0.16
22 5 0.07
23 2 0.03
24 4 0.06
25 47 0.68
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (25 bp):
TCAAATGAGAATCTTTAAGATGTTT
Found at i:24167685 original size:46 final size:48
Alignment explanation
Indices: 24167576--24167687 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 48
24167566 TAAAAAATCC
* * * * *
24167576 TCAAATGAGAATCTTTAAGACATTTTCAAATGAGAGTCTTTAAGATGTTT
1 TCAAATGAAAATCTTTAAG--ATCTTCAAATGAGAATATTTAAGATGTTG
*
24167626 TCAACT-AAGAATCTTTAAG-TCTT-AAATGAGAATATTTAAGATGTTG
1 TCAAATGAA-AATCTTTAAGATCTTCAAATGAGAATATTTAAGATGTTG
24167672 TCAAATGAAAATCTTT
1 TCAAATGAAAATCTTT
24167688 GAGGTGTGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
46 32 0.60
47 5 0.09
49 1 0.02
50 15 0.28
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (48 bp):
TCAAATGAAAATCTTTAAGATCTTCAAATGAGAATATTTAAGATGTTG
Found at i:24167745 original size:58 final size:58
Alignment explanation
Indices: 24167672--24167869 Score: 143
Period size: 58 Copynumber: 3.3 Consensus size: 58
24167662 TAAGATGTTG
*
24167672 TCAAATGAA-AATCTTTGAGGTGTGAAACTCAAAATTTGTCAAATGTGAATCTTCAAAC
1 TCAAAT-AAGAATCTTTGAGGTATGAAACTCAAAATTTGTCAAATGTGAATCTTCAAAC
* * * * * *
24167730 TCAAATAAGAATCTTTGA-ATCCTCAAA-TGAGAATCTTTGAGTGTCAAATGAGAATCTT-AGAA
1 TCAAATAAGAATCTTTGAGGT-ATGAAACTCA-AA--ATT---TGTCAAATGTGAATCTTCA-AA
*
24167792 TT
58 -C
* * * * *
24167794 TCAAATGAGAATCTTTGAGGTATGAAACCCAAAATTTATCGAATGTGAATCTTCGAAC
1 TCAAATAAGAATCTTTGAGGTATGAAACTCAAAATTTGTCAAATGTGAATCTTCAAAC
* *
24167852 TCATATGAGAATCTTTGA
1 TCAAATAAGAATCTTTGA
24167870 ATCCTCAAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
57 5 0.05
58 38 0.36
59 16 0.15
60 2 0.02
62 3 0.03
63 18 0.17
64 23 0.21
65 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (58 bp):
TCAAATAAGAATCTTTGAGGTATGAAACTCAAAATTTGTCAAATGTGAATCTTCAAAC
Found at i:24167778 original size:21 final size:21
Alignment explanation
Indices: 24167710--24167811 Score: 116
Period size: 21 Copynumber: 4.9 Consensus size: 21
24167700 TCAAAATTTG
* * *
24167710 TCAAATGTGAATC-TTCAAAC
1 TCAAATGAGAATCTTTGAATC
*
24167730 TCAAATAAGAATCTTTGAATCC
1 TCAAATGAGAATCTTTGAAT-C
* *
24167752 TCAAATGAGAATCTTTGAGTG
1 TCAAATGAGAATCTTTGAATC
* *
24167773 TCAAATGAGAATCTTAGAATT
1 TCAAATGAGAATCTTTGAATC
24167794 TCAAATGAGAATCTTTGA
1 TCAAATGAGAATCTTTGA
24167812 GGTATGAAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.16
21 39 0.57
22 19 0.28
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATC
Found at i:24167798 original size:42 final size:43
Alignment explanation
Indices: 24167730--24167812 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
24167720 ATCTTCAAAC
*
24167730 TCAAATAAGAATCTTTGAATCCTCAAATGAGAATCTTTGAGTG
1 TCAAATAAGAATCTTAGAATCCTCAAATGAGAATCTTTGAGTG
* *
24167773 TCAAATGAGAATCTTAGAAT-TTCAAATGAGAATCTTTGAG
1 TCAAATAAGAATCTTAGAATCCTCAAATGAGAATCTTTGAG
24167813 GTATGAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 19 0.51
43 18 0.49
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (43 bp):
TCAAATAAGAATCTTAGAATCCTCAAATGAGAATCTTTGAGTG
Found at i:24168285 original size:16 final size:16
Alignment explanation
Indices: 24168260--24168316 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
24168250 TTTGCAAAAA
24168260 TGAA-TCTTGCAAATT
1 TGAATTCTTGCAAATT
** *
24168275 TGAATTCTTGCGTACT
1 TGAATTCTTGCAAATT
* * *
24168291 TGAAATCTTACAAGTT
1 TGAATTCTTGCAAATT
24168307 TGAATTCTTG
1 TGAATTCTTG
24168317 TGAAACTGAA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (16 bp):
TGAATTCTTGCAAATT
Found at i:24168566 original size:44 final size:44
Alignment explanation
Indices: 24168481--24168631 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
24168471 GATCATCAAG
* * *
24168481 GAGCTTTATTTGTTTTTTCAAAGTCGTTGAGCGT-TTGATTAGAA
1 GAGCTTTATTTATTTTTTCAAAGTCGTTGAACATCTT-ATTAGAA
* *
24168525 GAGCTTTATTTATTTTTTCAAAGTCGTTGAACCTCTTATTAGAG
1 GAGCTTTATTTATTTTTTCAAAGTCGTTGAACATCTTATTAGAA
* * * * *
24168569 GATCTTTGTTTATTTCTTTTCAAAGTTGTTAAACATCTTTTTA-AA
1 GAGCTTTATTTA-TT-TTTTCAAAGTCGTTGAACATCTTATTAGAA
* *
24168614 GGAGCTTTAGTTAATTTT
1 -GAGCTTTATTTATTTTT
24168632 AAAAAAAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
44 50 0.57
45 6 0.07
46 32 0.36
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.48
Consensus pattern (44 bp):
GAGCTTTATTTATTTTTTCAAAGTCGTTGAACATCTTATTAGAA
Found at i:24168820 original size:13 final size:13
Alignment explanation
Indices: 24168802--24168831 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24168792 ATTTTTATTC
24168802 ATTTTTATTTCAT
1 ATTTTTATTTCAT
*
24168815 ATTTTTATTTCGT
1 ATTTTTATTTCAT
24168828 ATTT
1 ATTT
24168832 ATCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:24169252 original size:54 final size:54
Alignment explanation
Indices: 24169189--24169301 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
24169179 CGCTTACCAC
* * * *
24169189 ACCATTACCTTGTGGCTAGAAATAATTCACTGATCTCTGCCATCCCCCATTTAG
1 ACCACTACCTTGTGGCCAGAAACAATCCACTGATCTCTGCCATCCCCCATTTAG
*
24169243 ACCACTACCTTGTGGCCAGAAACAATCCATTGATCTCTGCCATCCCCCATTTAG
1 ACCACTACCTTGTGGCCAGAAACAATCCACTGATCTCTGCCATCCCCCATTTAG
*
24169297 GCCAC
1 ACCAC
24169302 CCATTACCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (54 bp):
ACCACTACCTTGTGGCCAGAAACAATCCACTGATCTCTGCCATCCCCCATTTAG
Found at i:24170501 original size:59 final size:57
Alignment explanation
Indices: 24170410--24170750 Score: 334
Period size: 59 Copynumber: 5.8 Consensus size: 57
24170400 AAATAAAATT
*
24170410 AAAAAAATATATTTTTGAGGAAAAG-TGAAAAGTATCAATTTTTCTTATAATTAAATTATC
1 AAAAAAA-ATA-TTTTGAGGAAAAGTTG-AAAGTATCAATTTTTCTTAAAATTAAATT-TC
* * * *
24170470 AAGAAAAATATTTTGAGGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 AAAAAAAATATTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTC
* * * *
24170528 AAAAAAAAGCATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAA
1 AAAAAAAA-TA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAATTT--C
24170590 AAAAAAAGATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTC
1 AAAAAAA-ATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATT-AAATTTC
* * * *
24170649 AGAAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACCTTC
1 --AAAAAAAAT-A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT-TAAA-TTTC
* * *
24170712 -----AAACACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
24170751 GTATAAAAGT
Statistics
Matches: 243, Mismatches: 23, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
54 32 0.13
55 1 0.00
56 3 0.01
58 16 0.07
59 60 0.25
60 32 0.13
61 47 0.19
62 48 0.20
63 4 0.02
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (57 bp):
AAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTC
Found at i:24170705 original size:61 final size:58
Alignment explanation
Indices: 24170399--24170705 Score: 368
Period size: 59 Copynumber: 5.2 Consensus size: 58
24170389 TATTTAAAAA
* *
24170399 AAAATAAAA-TTAAAAAAATATATTTTTGAGGAAAAG-TGAAAAGTATCAATTTTTCTT
1 AAAATAAAATTTAAAAAAAAATATTTTTAAGGAAAAGTTG-AAAGTATCAATTTTTCTT
* * * * * *
24170456 ATAATTAAATTATCAAGAAAAATA-TTTTGAGGAAAAAATTGAAAGTATCAATTTTTCTT
1 AAAATAAAATT-TAAAAAAAAATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTT
* **
24170515 AAAAATAAATTTTAAAAAAAAGCATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 -AAAATAAAATTTAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
* *
24170574 GAAAATAAAATTTAAAAAAAAAAGATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 -AAAATAAAATTT-AAAAAAAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
*
24170635 AAAATTAAAATTTCAGAAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAA-TAAAATTT-A-AAAAAAAAT-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
24170697 AAAATAAAA
1 AAAATAAAA
24170706 ACCTTCAAAC
Statistics
Matches: 215, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
57 7 0.03
58 9 0.04
59 75 0.35
60 31 0.14
61 47 0.22
62 44 0.20
63 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.35
Consensus pattern (58 bp):
AAAATAAAATTTAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:24172097 original size:26 final size:25
Alignment explanation
Indices: 24172068--24172125 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
24172058 AATTTAAGCC
* *
24172068 AATTATAATATGAGAGATATTTTTGT
1 AATTATAATAAGA-AGATATTTTCGT
* *
24172094 AATTATGATAAGAAGGTATTTTCGT
1 AATTATAATAAGAAGATATTTTCGT
24172119 AATTATA
1 AATTATA
24172126 GTTAAAGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.43
Consensus pattern (25 bp):
AATTATAATAAGAAGATATTTTCGT
Found at i:24172098 original size:86 final size:85
Alignment explanation
Indices: 24172021--24172206 Score: 207
Period size: 86 Copynumber: 2.2 Consensus size: 85
24172011 TAATCAAAAG
* * *
24172021 GGCATTTTTTGTAA-TAAAGGTTAAAAGGTATTATAGTAATTTA-AGCCAATTATAATATGAGAG
1 GGCA-TTTTCGTAATTAAA-GTTAAAAGGTATTAAAGTAATTTAGA-CAAATTATAATATGAGAG
24172084 ATATTTTTGTAATTATGATAAGAA
63 ATATTTTTGTAATTA-GATAAGAA
* * * * *
24172108 GGTATTTTCGTAATTATAGTTAAAGGGTATTAAAGTAATTTTGATAAATTATAATATGAGAGATA
1 GGCATTTTCGTAATTAAAGTTAAAAGGTATTAAAGTAATTTAGACAAATTATAATATGAGAGATA
**
24172173 TTTTTGTAATTATG-TTTGAA
66 TTTTTGTAATTA-GATAAGAA
24172193 GGGCATTTTCGTAA
1 -GGCATTTTCGTAA
24172207 CTATGATTGT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
85 4 0.05
86 74 0.87
87 7 0.08
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (85 bp):
GGCATTTTCGTAATTAAAGTTAAAAGGTATTAAAGTAATTTAGACAAATTATAATATGAGAGATA
TTTTTGTAATTAGATAAGAA
Found at i:24174988 original size:6 final size:6
Alignment explanation
Indices: 24174973--24175011 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
24174963 TTTTTTAATA
24174973 TTTTCTT TTTTCT TTTTCT TTTTC- -TTTCT TTTTCT TTTT
1 TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
24175012 ACGTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.13
6 21 0.70
7 5 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:24175000 original size:16 final size:16
Alignment explanation
Indices: 24174981--24175011 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24174971 TATTTTCTTT
24174981 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
24174997 TTTCTTTTTCTTTTT
1 TTTCTTTTTCTTTTT
24175012 ACGTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:24175002 original size:10 final size:10
Alignment explanation
Indices: 24174973--24175009 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
24174963 TTTTTTAATA
24174973 TTTTCTTT-T
1 TTTTCTTTCT
24174982 TTCTT-TTTCT
1 TT-TTCTTTCT
24174992 TTTTCTTTCT
1 TTTTCTTTCT
24175002 TTTTCTTT
1 TTTTCTTT
24175010 TTACGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:24175578 original size:2 final size:2
Alignment explanation
Indices: 24175571--24175608 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
24175561 GATAACTAAG
*
24175571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24175609 TACACGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24177359 original size:157 final size:157
Alignment explanation
Indices: 24177073--24177387 Score: 504
Period size: 157 Copynumber: 2.0 Consensus size: 157
24177063 ACCCCTTTGA
* * *
24177073 TCATCTGGAATTTTATAAAACTAACATGATGATGCAAGGTAGGATGAAGCTATGATGTGTAAGGG
1 TCATCTGAAACTTTATAAAACTAACATGATAATGCAAGGTAGGATGAAGCTATGATGTGTAAGGG
* * * *
24177138 TTTTGCTACTACCCTTAATGGTGCAGCTCGATTATGGTATAGTACTCTAAAATAAAGGTCAATCA
66 TTTTGCTACTACCCTTAATGGTACAACTCGATTATGATATAGTACTATAAAATAAAGGTCAATCA
24177203 TAACATTTAAAGAGCTTAACCACTTCT
131 TAACATTTAAAGAGCTTAACCACTTCT
* *
24177230 TCATCTGAAACTTTATAAAACTAACATGATAATGTAGGGTAGGATGAAGCTATGATGTGTAAGGG
1 TCATCTGAAACTTTATAAAACTAACATGATAATGCAAGGTAGGATGAAGCTATGATGTGTAAGGG
* * * *
24177295 TTTTGTTACTACCCTTAATGGTACAACTCGATTCTGATATAGTAGTATAAAATAGAGGTCAATCA
66 TTTTGCTACTACCCTTAATGGTACAACTCGATTATGATATAGTACTATAAAATAAAGGTCAATCA
*
24177360 TAACATTTAAAGAGCTTAGCCACTTCT
131 TAACATTTAAAGAGCTTAACCACTTCT
24177387 T
1 T
24177388 TCTATCTCGA
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (157 bp):
TCATCTGAAACTTTATAAAACTAACATGATAATGCAAGGTAGGATGAAGCTATGATGTGTAAGGG
TTTTGCTACTACCCTTAATGGTACAACTCGATTATGATATAGTACTATAAAATAAAGGTCAATCA
TAACATTTAAAGAGCTTAACCACTTCT
Found at i:24178303 original size:8 final size:8
Alignment explanation
Indices: 24178243--24178331 Score: 57
Period size: 8 Copynumber: 11.6 Consensus size: 8
24178233 AATATTATAA
*
24178243 TAATATAT
1 TAATAAAT
24178251 TAAT--AT
1 TAATAAAT
24178257 TAATAAA-
1 TAATAAAT
24178264 TAATATTATAT
1 TAATA--A-AT
24178275 TAATAAAT
1 TAATAAAT
*
24178283 AAAT-AA-
1 TAATAAAT
*
24178289 TATTAAAT
1 TAATAAAT
24178297 TAATAAA-
1 TAATAAAT
*
24178304 TAATATAT
1 TAATAAAT
*
24178312 TAATATAT
1 TAATAAAT
24178320 TAATAAA-
1 TAATAAAT
24178327 TAATA
1 TAATA
24178332 TAAAGAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
6 8 0.12
7 20 0.30
8 30 0.45
9 2 0.03
10 1 0.02
11 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATAAAT
Found at i:24178468 original size:28 final size:26
Alignment explanation
Indices: 24178437--24178491 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
24178427 ATTAATAATT
24178437 TAATAATACAAATTTTAATATATTTTAA
1 TAATAA-ACAAATTTTAA-ATATTTTAA
* * *
24178465 TAATAAATAACTTTTTAATATTTTAA
1 TAATAAACAAATTTTAAATATTTTAA
24178491 T
1 T
24178492 GGTTATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.42
27 8 0.33
28 6 0.25
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATAAACAAATTTTAAATATTTTAA
Found at i:24178648 original size:15 final size:14
Alignment explanation
Indices: 24178608--24178647 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
24178598 TTTAAAAAAT
24178608 AAAAA-CATTTTTC
1 AAAAATCATTTTTC
24178621 AAAAATCATTTTTC
1 AAAAATCATTTTTC
*
24178635 AAAAGTCATTTTT
1 AAAAATCATTTTT
24178648 TGTGAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (14 bp):
AAAAATCATTTTTC
Found at i:24180344 original size:143 final size:143
Alignment explanation
Indices: 24180086--24180372 Score: 459
Period size: 143 Copynumber: 2.0 Consensus size: 143
24180076 ACAGGTTGCA
* * * * *
24180086 TACCAACCATGACATGAAACTAATTCGATAGAAAAAAAAGACCTTTGTCTCGGAAAGACAAAAGG
1 TACCAACCATGACATGAAACCAATTCAACAGAAAAAAAAGACCTTTGCCTCAGAAAGACAAAAGG
*
24180151 CTATCGAATAAGAGGTCAATAGATTATTATAAGTGGGCTTCATCAAGGAAGTTTGTTACCCTAAA
66 CTATCGAATAAGAGGTCAATAGATTATTATAAGTGGGCTTCATCAAGGAAGTTTGCTACCCTAAA
24180216 CGAATAGCCAATG
131 CGAATAGCCAATG
* *
24180229 TACCAACCATGACGTGAAACCAATTCAACA-AAAAAAAAGGACTTTTGCCTCAGAAAGACAAAAG
1 TACCAACCATGACATGAAACCAATTCAACAGAAAAAAAA-GACCTTTGCCTCAGAAAGACAAAAG
* *
24180293 GCTATCGAATATGAGGTCAATAGATTATTATAGGTGGGCTTCATCAAGGAAGTTTGCTACCCTAA
65 GCTATCGAATAAGAGGTCAATAGATTATTATAAGTGGGCTTCATCAAGGAAGTTTGCTACCCTAA
*
24180358 ATGAATAGCCAATG
130 ACGAATAGCCAATG
24180372 T
1 T
24180373 GGTCATGGTC
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
142 8 0.06
143 124 0.94
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (143 bp):
TACCAACCATGACATGAAACCAATTCAACAGAAAAAAAAGACCTTTGCCTCAGAAAGACAAAAGG
CTATCGAATAAGAGGTCAATAGATTATTATAAGTGGGCTTCATCAAGGAAGTTTGCTACCCTAAA
CGAATAGCCAATG
Found at i:24189666 original size:20 final size:19
Alignment explanation
Indices: 24189641--24189691 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
24189631 AATTACTTTA
* *
24189641 AAAATAAATTTAAAGAAACT
1 AAAATAAAATGAAA-AAACT
24189661 AAAATAAAATGAAAAAACT
1 AAAATAAAATGAAAAAACT
24189680 ATAAATAAAATG
1 A-AAATAAAATG
24189692 CAATTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (19 bp):
AAAATAAAATGAAAAAACT
Found at i:24190882 original size:34 final size:34
Alignment explanation
Indices: 24190842--24190909 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
24190832 TTTAATATTA
* * *
24190842 TATTTATTTGA-AACGTAAGATGATTTTTATTTTT
1 TATTTATTTGACAA-GTAAAATAAGTTTTATTTTT
24190876 TATTTATTTGACAAGTAAAATAAGTTTTATTTTT
1 TATTTATTTGACAAGTAAAATAAGTTTTATTTTT
24190910 ATGTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (34 bp):
TATTTATTTGACAAGTAAAATAAGTTTTATTTTT
Found at i:24191890 original size:12 final size:13
Alignment explanation
Indices: 24191873--24191931 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 13
24191863 AAAATAATTT
24191873 TTTAATTATT-TA
1 TTTAATTATTATA
24191885 TTTAATT-TTATA
1 TTTAATTATTATA
* *
24191897 ATTATTTATATATA
1 TTTAATTAT-TATA
24191911 TTTAATT-TTATA
1 TTTAATTATTATA
24191923 TTTATATTA
1 TTTA-ATTA
24191932 AAAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.05
12 22 0.58
13 5 0.13
14 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTATTATA
Found at i:24191914 original size:20 final size:20
Alignment explanation
Indices: 24191866--24191913 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24191856 TATATATAAA
*
24191866 ATAATTTTTTAATTATTTAT
1 ATAATTTTATAATTATTTAT
*
24191886 TTAATTTTATAATTATTTAT
1 ATAATTTTATAATTATTTAT
24191906 ATATATTT
1 ATA-ATTT
24191914 AATTTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATAATTTTATAATTATTTAT
Found at i:24194383 original size:21 final size:21
Alignment explanation
Indices: 24194359--24194410 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
24194349 CATTTTTAAT
*
24194359 TTTAATTTTATCGATATAACA
1 TTTAATTTTATCAATATAACA
* * *
24194380 TTTAATTTCATTAATATAATA
1 TTTAATTTTATCAATATAACA
*
24194401 ATTAATTTTA
1 TTTAATTTTA
24194411 ATATTATCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAATTTTATCAATATAACA
Found at i:24194851 original size:22 final size:21
Alignment explanation
Indices: 24194821--24194892 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
24194811 TATTCGTTTG
24194821 TTTATTTTAAAAATTATTTGTA
1 TTTA-TTTAAAAATTATTTGTA
***
24194843 TTTAATTT-ATGTTTGATTTGTA
1 TTT-ATTTAAAAATT-ATTTGTA
*
24194865 TTTATTAAAAAATTATTT-TA
1 TTTATTTAAAAATTATTTGTA
24194885 TTTATTTA
1 TTTATTTA
24194893 TATTTATTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 9 0.23
21 10 0.26
22 19 0.49
23 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTATTTAAAAATTATTTGTA
Found at i:24194983 original size:12 final size:12
Alignment explanation
Indices: 24194955--24195046 Score: 57
Period size: 11 Copynumber: 7.6 Consensus size: 12
24194945 AAACTCGTTC
*
24194955 ATAAATAT-TAA
1 ATAAATATATTA
*
24194966 ATAAATATATTT
1 ATAAATATATTA
24194978 ATAAATATATATAA
1 ATAAATATAT-T-A
* *
24194992 ATAATTATATTC
1 ATAAATATATTA
*
24195004 ATAAATA-ATAA
1 ATAAATATATTA
24195015 ATAAAT-TA-TA
1 ATAAATATATTA
*
24195025 ATCAAATAAATTTAA
1 AT-AAATATA-TT-A
24195040 ATAAATA
1 ATAAATA
24195047 AATCTTTAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
10 3 0.05
11 21 0.34
12 18 0.29
13 2 0.03
14 15 0.24
15 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATATATTA
Found at i:24195000 original size:26 final size:27
Alignment explanation
Indices: 24194958--24195020 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
24194948 CTCGTTCATA
*
24194958 AATAT-TAAATAAATATATTTATAAAT
1 AATATATAAATAAATATATTCATAAAT
*
24194984 -ATATATAAATAATTATATTCATAAAT
1 AATATATAAATAAATATATTCATAAAT
*
24195010 AATAAATAAAT
1 AATATATAAAT
24195021 TATAATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 9 0.28
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AATATATAAATAAATATATTCATAAAT
Found at i:24195033 original size:26 final size:25
Alignment explanation
Indices: 24194955--24195045 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 25
24194945 AAACTCGTTC
*
24194955 ATAAATATTAAATAAATATATTTAT-AA
1 ATAAATA-TAAATAAAT-TA-TAATCAA
* *
24194982 ATATATATAAAT-AATTATATTC--
1 ATAAATATAAATAAATTATAATCAA
24195004 ATAAATAATAAATAAATTATAATCAA
1 ATAAAT-ATAAATAAATTATAATCAA
*
24195030 ATAAATTTAAATAAAT
1 ATAAATATAAATAAAT
24195046 AAATCTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 5 0.09
23 8 0.15
24 11 0.21
25 12 0.23
26 11 0.21
27 6 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAAATATAAATAAATTATAATCAA
Found at i:24195045 original size:14 final size:15
Alignment explanation
Indices: 24195008--24195049 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
24194998 ATATTCATAA
24195008 ATAATAAATAAA-TT
1 ATAATAAATAAATTT
24195022 ATAATCAAATAAATTT
1 ATAAT-AAATAAATTT
24195038 A-AATAAATAAAT
1 ATAATAAATAAAT
24195050 CTTTAACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.50
15 10 0.38
16 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAAATAAATTT
Found at i:24197491 original size:1 final size:1
Alignment explanation
Indices: 24197487--24197516 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
24197477 TCAAAAACAG
*
24197487 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24197517 CAGACACGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:24201136 original size:32 final size:32
Alignment explanation
Indices: 24201070--24201144 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
24201060 TAAATCTGTT
*
24201070 AATTTATATATTTTTATCATATAAAATATTAA
1 AATTTATATATTTTTATCATATAAAATATAAA
** ***
24201102 AATTTATATATTTTTATTTTATTTTATATAAA
1 AATTTATATATTTTTATCATATAAAATATAAA
24201134 AA-TTATATATT
1 AATTTATATATT
24201145 ATAATTCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
AATTTATATATTTTTATCATATAAAATATAAA
Found at i:24201223 original size:24 final size:23
Alignment explanation
Indices: 24201183--24201233 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
24201173 ATTTTATTTT
24201183 TTATT-TTATTA-AATTTATAAA
1 TTATTATTATTATAATTTATAAA
24201204 TTATTATTATTATAATTT-TAAA
1 TTATTATTATTATAATTTATAAA
24201226 TTA-TATTA
1 TTATTATTA
24201234 ATTTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATAATTTATAAA
Done.