Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 33 of 133
Found at i:7501706 original size:33 final size:34
Alignment explanation
Indices: 7501664--7501751 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 34
7501654 AAAAATAAAT
* **
7501664 AATATTATATTAATAAATAGTATGCTATTA-ATA
1 AATATTATATTAATAAATACTATAATATTATATA
*
7501697 AATAATATATTAATAAATACTATAATATTATTATA
1 AATATTATATTAATAAATACTATAATATTA-TATA
7501732 ATATATTATATTAATAAATA
1 A-ATATTATATTAATAAATA
7501752 ATAAAAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
33 26 0.55
35 4 0.09
36 17 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
AATATTATATTAATAAATACTATAATATTATATA
Found at i:7501712 original size:51 final size:51
Alignment explanation
Indices: 7501657--7501754 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
7501647 TATATTAAAA
* *
7501657 AATAAATAATATTATATTAATA-AATAGTATGCTATTAATAAATAATATATT
1 AATAAATAATATAATATTAATATAATA-TATGATATTAATAAATAATATATT
* * *
7501708 AATAAATACTATAATATTATTATAATATATTATATTAATAAATAATA
1 AATAAATAATATAATATTAATATAATATATGATATTAATAAATAATA
7501755 AAAGAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (51 bp):
AATAAATAATATAATATTAATATAATATATGATATTAATAAATAATATATT
Found at i:7501763 original size:51 final size:50
Alignment explanation
Indices: 7501652--7501763 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 50
7501642 AATATTATAT
* *
7501652 TAAAAAATAAATAATATTATATTAATAAATAGTATGCTATTAATAAATAA
1 TAAAAAATAAATAATATAATATTAATAAATAGTATGATATTAATAAATAA
** * * *
7501702 TATATTAATAAATACTATAATATTATTATAATA-TATTATATTAATAAATAA
1 TA-AAAAATAAATAATATAATATTAATA-AATAGTATGATATTAATAAATAA
7501753 TAAAAGAATAA
1 TAAAA-AATAA
7501764 TAAATAGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
50 3 0.06
51 43 0.86
52 4 0.08
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (50 bp):
TAAAAAATAAATAATATAATATTAATAAATAGTATGATATTAATAAATAA
Found at i:7501849 original size:16 final size:16
Alignment explanation
Indices: 7501807--7501883 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 16
7501797 TATAATATTT
*
7501807 TAATATTAAATATTA-
1 TAATTTTAAATATTAG
* * *
7501822 TGA-TTAAAATATTAT
1 TAATTTTAAATATTAG
*
7501837 TATTTTTAAATATTAG
1 TAATTTTAAATATTAG
* *
7501853 TAATTTT-AATAATAAA
1 TAATTTTAAAT-ATTAG
7501869 TAATTTTAATATATT
1 TAATTTTAA-ATATT
7501884 TTAATAATCA
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 9 0.20
15 6 0.13
16 26 0.57
17 3 0.07
18 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTTTAAATATTAG
Found at i:7501888 original size:16 final size:17
Alignment explanation
Indices: 7501825--7501888 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 17
7501815 AATATTATGA
* *
7501825 TTAAAATATTATTATTT
1 TTAATATATTATTAATT
*
7501842 TTAA-ATATTAGTAATT
1 TTAATATATTATTAATT
* *
7501858 TTAATA-ATAAATAATT
1 TTAATATATTATTAATT
7501874 TTAATATATT-TTAAT
1 TTAATATATTATTAAT
7501889 AATCATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 32 0.82
17 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAATATATTATTAATT
Found at i:7504097 original size:26 final size:26
Alignment explanation
Indices: 7504082--7504141 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
7504072 TCTTGATTTA
*
7504082 GGATTTGAGGTTTAGGTTTAGAGTTT
1 GGATTTAAGGTTTAGGTTTAGAGTTT
* *
7504108 GGTTTTAAGGTTTAGGGTTT-TAGTTT
1 GGATTTAAGGTTTA-GGTTTAGAGTTT
7504134 GGGATTTA
1 -GGATTTA
7504142 GATAGTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (26 bp):
GGATTTAAGGTTTAGGTTTAGAGTTT
Found at i:7504101 original size:20 final size:21
Alignment explanation
Indices: 7504078--7504127 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
7504068 TAGGTCTTGA
7504078 TTTAGGA-TTTGAGGTTT-AGG
1 TTTAGGAGTTTG-GGTTTAAGG
*
7504098 TTTA-GAGTTTGGTTTTAAGG
1 TTTAGGAGTTTGGGTTTAAGG
7504118 TTTAGG-GTTT
1 TTTAGGAGTTT
7504128 TAGTTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.23
20 19 0.73
21 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (21 bp):
TTTAGGAGTTTGGGTTTAAGG
Found at i:7509031 original size:22 final size:20
Alignment explanation
Indices: 7508990--7509042 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
7508980 AAGATTATCA
*
7508990 TTTA-AAAAAAATATAAATT
1 TTTAGAAAAAAAGATAAATT
7509009 TTTAGAAAAATAAGATAATATT
1 TTTAGAAAAA-AAGATAA-ATT
7509031 TTTAAGAAAAAA
1 TTT-AGAAAAAA
7509043 TAACTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.14
20 5 0.17
21 6 0.21
22 7 0.24
23 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
TTTAGAAAAAAAGATAAATT
Found at i:7509038 original size:23 final size:21
Alignment explanation
Indices: 7508993--7509042 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
7508983 ATTATCATTT
*
7508993 AAAAAAAATATAAATTTTTAG
1 AAAAAAAAGATAAATTTTTAG
*
7509014 AAAAATAAGATAATATTTTTAAG
1 AAAAAAAAGATAA-ATTTTT-AG
7509037 AAAAAA
1 AAAAAA
7509043 TAACTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 6 0.25
23 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
AAAAAAAAGATAAATTTTTAG
Found at i:7510510 original size:7 final size:7
Alignment explanation
Indices: 7510482--7510566 Score: 66
Period size: 8 Copynumber: 11.6 Consensus size: 7
7510472 AATATTTAGT
7510482 AAAAATA
1 AAAAATA
*
7510489 AATAATTTA
1 AA-AA-ATA
*
7510498 AAAAATT
1 AAAAATA
*
7510505 AAAAATC
1 AAAAATA
*
7510512 AAAAATC
1 AAAAATA
7510519 AAAAA-A
1 AAAAATA
7510525 AAAAATAA
1 AAAAAT-A
7510533 AAAAATTA
1 AAAAA-TA
7510541 AAAAATA
1 AAAAATA
7510548 GAAAAATA
1 -AAAAATA
7510556 GAAAAA-A
1 -AAAAATA
7510563 AAAA
1 AAAA
7510567 CTGTGATTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
6 9 0.13
7 24 0.36
8 29 0.43
9 5 0.07
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (7 bp):
AAAAATA
Found at i:7510934 original size:20 final size:20
Alignment explanation
Indices: 7510902--7510940 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
7510892 CCCATCAAAA
7510902 ATTCAATCGAAAAATTCATC
1 ATTCAATCGAAAAATTCATC
7510922 ATTC-ATCGAAAAATTCATC
1 ATTCAATCGAAAAATTCATC
7510941 CTAGACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.31
Consensus pattern (20 bp):
ATTCAATCGAAAAATTCATC
Found at i:7512076 original size:66 final size:66
Alignment explanation
Indices: 7511994--7512157 Score: 229
Period size: 66 Copynumber: 2.5 Consensus size: 66
7511984 AAGCTATGAT
* * * * **
7511994 TGAATGATCGAGATAAAATCACGAGTCTAAAAGATAAAGTGACAAGGATCGAGTCGAGGTCGAAA
1 TGAATGATCGAGATAAAATCACGAGTCTAAAAGATAAAATGACAAGGACCAAGTCGAGATAAAAA
7512059 A
66 A
* * *
7512060 TGAATGATCGAGATAAAATCATGAGTCTAAAAGATAAAATGACCAGGACCAAGTCGATATAAAAA
1 TGAATGATCGAGATAAAATCACGAGTCTAAAAGATAAAATGACAAGGACCAAGTCGAGATAAAAA
7512125 A
66 A
* *
7512126 TGAATAATCGAGATAAAATCACGAGTCAAAAA
1 TGAATGATCGAGATAAAATCACGAGTCTAAAA
7512158 AATGATCTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (66 bp):
TGAATGATCGAGATAAAATCACGAGTCTAAAAGATAAAATGACAAGGACCAAGTCGAGATAAAAA
A
Found at i:7513044 original size:82 final size:82
Alignment explanation
Indices: 7512890--7513048 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 82
7512880 AAAGAACCAC
* ** * * * * *
7512890 AAGATTTCAAGTTTTGCAAAAGTTCTAGATTCATAAAGATTTCAGGTTCATAAAGACTTTTAGAT
1 AAGATTCCAAGTTTCACAAAAGTTCTAGATTCACAAAGATTTCAAGTTCACAAAGACTTTCAAAT
**
7512955 TTGCAAGAAAAATTCGT
66 TCACAAGAAAAATTCGT
* ** *
7512972 AAGATTCCAAGTTTCACAAAAGTTTTAGATTCACAAAGATTTCAAGTTTGCAAGGACTTTCAAAT
1 AAGATTCCAAGTTTCACAAAAGTTCTAGATTCACAAAGATTTCAAGTTCACAAAGACTTTCAAAT
7513037 TCACAAGAAAAA
66 TCACAAGAAAAA
7513049 AAGATTTGCA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (82 bp):
AAGATTCCAAGTTTCACAAAAGTTCTAGATTCACAAAGATTTCAAGTTCACAAAGACTTTCAAAT
TCACAAGAAAAATTCGT
Found at i:7518600 original size:15 final size:15
Alignment explanation
Indices: 7518572--7518649 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
7518562 AATATTCTAT
* *
7518572 AAAAATGAATAATTA
1 AAAAATAAAAAATTA
7518587 AAAAATAAAAAATTGA
1 AAAAATAAAAAATT-A
* *
7518603 AAATAA-AATAAACTA
1 AAA-AATAAAAAATTA
7518618 AAAAAT--AAAATTA
1 AAAAATAAAAAATTA
*
7518631 ATAAAATTAAAAA-TA
1 A-AAAATAAAAAATTA
7518646 AAAA
1 AAAA
7518650 GAAAATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
13 6 0.12
14 10 0.20
15 19 0.37
16 14 0.27
17 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAAATAAAAAATTA
Found at i:7518627 original size:22 final size:23
Alignment explanation
Indices: 7518588--7518659 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 23
7518578 GAATAATTAA
*
7518588 AAAATAAAAAATTGAAAATAAAAT
1 AAAATAAAAAA-TAAAAATAAAAT
* *
7518612 AAACTAAAAAAT-AAAAT-TAAT
1 AAAATAAAAAATAAAAATAAAAT
* *
7518633 AAAATTAAAAATAAAAAGAAAAT
1 AAAATAAAAAATAAAAATAAAAT
7518656 AAAA
1 AAAA
7518660 AAGAAAAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 13 0.32
22 9 0.22
23 8 0.20
24 10 0.25
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAATAAAAATAAAAT
Found at i:7518631 original size:44 final size:46
Alignment explanation
Indices: 7518572--7518658 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 46
7518562 AATATTCTAT
* *
7518572 AAAAATGAATAATTAA-AAAATAAAAAATTGAAAATAAAATAAACTA
1 AAAAATGAATAATTAATAAAATAAAAAA-TAAAAAGAAAATAAACTA
*
7518618 AAAAAT-AA-AATTAATAAAATTAAAAATAAAAAGAAAATAAA
1 AAAAATGAATAATTAATAAAATAAAAAATAAAAAGAAAATAAA
7518659 AAAGAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 19 0.51
45 12 0.32
46 6 0.16
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (46 bp):
AAAAATGAATAATTAATAAAATAAAAAATAAAAAGAAAATAAACTA
Found at i:7518637 original size:31 final size:32
Alignment explanation
Indices: 7518586--7518661 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 32
7518576 ATGAATAATT
7518586 AAAAAATAAAAAATTGAAAA-T-AAAATAAACT
1 AAAAAATAAAAAATTGAAAATTAAAAATAAA-T
7518617 AAAAAATAAAATTAA-T-AAAATTAAAAATAAA-
1 AAAAAATAAAA--AATTGAAAATTAAAAATAAAT
7518648 AAGAAAATAAAAAA
1 AA-AAAATAAAAAA
7518662 GAAAAACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
30 2 0.05
31 17 0.43
32 11 0.28
33 10 0.25
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (32 bp):
AAAAAATAAAAAATTGAAAATTAAAAATAAAT
Found at i:7519516 original size:5 final size:5
Alignment explanation
Indices: 7519484--7519564 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
7519474 AAATAAAAAA
* * *
7519484 ATAAT AATAAT ATGAT ATAAT ACT-AT ATAAT ATACT AATAAT AAGAAT
1 ATAAT -ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT -ATAAT -ATAAT
* *
7519532 ATGAT -T-AT AATACT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAA
7519565 CAAAAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 40 0.67
6 16 0.27
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:7524455 original size:16 final size:16
Alignment explanation
Indices: 7524430--7524576 Score: 83
Period size: 16 Copynumber: 8.9 Consensus size: 16
7524420 TCTTTTGTAT
7524430 TTTATGTATTTTTATTA
1 TTTAT-TATTTTTATTA
*
7524447 TTTATTATTATTA-TA
1 TTTATTATTTTTATTA
*
7524462 TGTA-TATTTTTACTTA
1 TTTATTATTTTTA-TTA
*
7524478 TTTATT-TATTTATTTA
1 TTTATTATTTTTA-TTA
*
7524494 TTTATT-TTTGTTAATA
1 TTTATTATTT-TTATTA
*
7524510 TTTA-TATGTATT-TTA
1 TTTATTAT-TTTTATTA
* *
7524525 TTTATATAGTTCTA-TA
1 TTTAT-TATTTTTATTA
7524541 TTTATTATATATTATAATTTA
1 TTTATTAT-T-TT-T-A-TTA
7524562 TTTATTATTTTTATT
1 TTTATTATTTTTATT
7524577 TTTTTTTTCT
Statistics
Matches: 100, Mismatches: 15, Indels: 31
0.68 0.10 0.21
Matches are distributed among these distances:
14 7 0.07
15 14 0.14
16 49 0.49
17 14 0.14
18 2 0.02
19 3 0.03
20 1 0.01
21 10 0.10
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATTATTTTTATTA
Found at i:7524458 original size:28 final size:30
Alignment explanation
Indices: 7524427--7524502 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
7524417 TTTTCTTTTG
7524427 TATTTTATGTATTTTTA-TTATTTA-TTAT
1 TATTTTATGTATTTTTACTTATTTATTTAT
*
7524455 TATTATATGTATATTTTTACTTATTTATTTAT
1 TATTTTATG--TATTTTTACTTATTTATTTAT
*
7524487 T-TATTTATTTATTTTT
1 TAT-TTTATGTATTTTT
7524503 GTTAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 8 0.20
30 15 0.38
31 8 0.20
32 9 0.22
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (30 bp):
TATTTTATGTATTTTTACTTATTTATTTAT
Found at i:7524484 original size:4 final size:4
Alignment explanation
Indices: 7524430--7524617 Score: 66
Period size: 4 Copynumber: 45.5 Consensus size: 4
7524420 TCTTTTGTAT
* * * *
7524430 TTTA TGTA TTTT TATTA TTTA -TTA -TTA TTATA TGTA TATT- TTTA CTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT-TA TTTA T-TTA TTTA TTTA
* *
7524478 TTTA TTTA TTTA TTTA TTTA TTTT TGTTA -ATA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-T-TA -TTTA
* * * * * *
7524525 TTTA TATA GTTC TATA TTTA TTATA TATTA -TAA TTTA TTTA TTATT TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TT-TA TTTA
* * * *
7524575 TTT- TTTT TTTC TTGTA -ATA TTTT TTTA TTTA TCTTA TTGTA TT
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA T-TTA TT-TA TT
7524618 ATCTGTTAAT
Statistics
Matches: 135, Mismatches: 30, Indels: 37
0.67 0.15 0.18
Matches are distributed among these distances:
3 17 0.13
4 84 0.62
5 29 0.21
6 4 0.03
7 1 0.01
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:7524560 original size:17 final size:19
Alignment explanation
Indices: 7524521--7524563 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
7524511 TTATATGTAT
*
7524521 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTATATA
7524541 TTTATTATATA-TTATA-A
1 TTTATTATATAGTTATATA
7524558 TTTATT
1 TTTATT
7524564 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTATATA
Found at i:7525201 original size:20 final size:20
Alignment explanation
Indices: 7525178--7525219 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7525168 GGTGAACTTT
* *
7525178 CGACGAAAAAACTCAGATTC
1 CGACGAAAAAACCCAGAATC
*
7525198 CGACGATAAAACCCAGAATC
1 CGACGAAAAAACCCAGAATC
7525218 CG
1 CG
7525220 GTGAATCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.29, G:0.17, T:0.12
Consensus pattern (20 bp):
CGACGAAAAAACCCAGAATC
Found at i:7525619 original size:23 final size:23
Alignment explanation
Indices: 7525554--7525627 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
7525544 GCTCCAGGTT
*
7525554 TTTTTTTTTTTA-ATT-TTTTTCA
1 TTTTTTTTATTAGATTATTTTT-A
* *
7525576 TTTCTTTGTTTATTTGTTTATTTTTA
1 -TT-TTT-TTTATTAGATTATTTTTA
*
7525602 TTTTTTTTATTAGATTATGTTTA
1 TTTTTTTTATTAGATTATTTTTA
7525625 TTT
1 TTT
7525628 AATATTCTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 20 0.49
24 6 0.15
25 7 0.17
26 3 0.07
27 5 0.12
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTTTATTAGATTATTTTTA
Found at i:7525652 original size:11 final size:10
Alignment explanation
Indices: 7525636--7525711 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 10
7525626 TTAATATTCT
7525636 TTTTATCTTTA
1 TTTT-TCTTTA
*
7525647 TTTTATTTTTA
1 TTTT-TCTTTA
*
7525658 TTTTTGTTTTA
1 TTTTT-CTTTA
*
7525669 CTTTTCTTTA
1 TTTTTCTTTA
7525679 --TTT-TTTA
1 TTTTTCTTTA
*
7525686 TTTTTATTTA
1 TTTTTCTTTA
7525696 TTTTT-TTTA
1 TTTTTCTTTA
*
7525705 TTATTCT
1 TTTTTCT
7525712 ATTTTCTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 11 0.20
10 15 0.27
11 23 0.41
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:7525656 original size:6 final size:6
Alignment explanation
Indices: 7525635--7525716 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
7525625 TTTAATATTC
* * * * *
7525635 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
7525680 TTTTTA TTTTTA TTTATTT TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
7525717 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 12 0.20
6 35 0.58
7 9 0.15
8 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:7525672 original size:27 final size:27
Alignment explanation
Indices: 7525592--7525716 Score: 80
Period size: 28 Copynumber: 4.5 Consensus size: 27
7525582 TGTTTATTTG
** *
7525592 TTTATTTTTATTTTTTTTATTAGATTATG
1 TTTATTTTTA-TTTTTTT-TTACTTTATC
* *
7525621 TTTA-TTTAATATTCTTTTTATCTTTAT-
1 TTTATTTTTAT-TTTTTTTTA-CTTTATC
7525648 TTTATTTTTATTTTTGTTTTACTTT-TC
1 TTTATTTTTATTTTT-TTTTACTTTATC
* *
7525675 TTTATTTTTTATTTTTATTTA-TTT-TT
1 TTTA-TTTTTATTTTTTTTTACTTTATC
7525701 TTTATTATTCTATTTT
1 TTTATT-TT-TATTTT
7525717 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
25 2 0.03
26 11 0.14
27 29 0.36
28 34 0.43
29 4 0.05
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTATTTTTATTTTTTTTTACTTTATC
Found at i:7525714 original size:17 final size:16
Alignment explanation
Indices: 7525592--7525721 Score: 62
Period size: 17 Copynumber: 8.2 Consensus size: 16
7525582 TGTTTATTTG
7525592 TTTATT-TTTATTTTT
1 TTTATTATTTATTTTT
* *
7525607 TTTATTAGATTATGTTTA
1 TTTATTA-TTTAT-TTTT
*
7525625 TTTA--A--TATTCTT
1 TTTATTATTTATTTTT
* *
7525637 TTTA-TCTTTATTTTA
1 TTTATTATTTATTTTT
7525652 TTT-TTATTT-TTGTTT
1 TTTATTATTTATT-TTT
*
7525667 TACTT-TTCTTTATTTTT
1 T--TTATTATTTATTTTT
*
7525684 TATTTTTATTTATTTTT
1 T-TTATTATTTATTTTT
*
7525701 TTTATTATTCTATTTTC
1 TTTATTATT-TATTTTT
7525718 TTTA
1 TTTA
7525722 AATAAAAATC
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
12 6 0.07
13 3 0.03
14 2 0.02
15 21 0.24
16 10 0.11
17 37 0.42
18 9 0.10
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTATTTATTTTT
Found at i:7525855 original size:118 final size:117
Alignment explanation
Indices: 7525726--7526134 Score: 587
Period size: 118 Copynumber: 3.5 Consensus size: 117
7525716 TCTTTAAATA
7525726 AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAATTTTC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
7525791 AAATTTCCAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
65 AAATTTCCAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
* *
7525844 AAAATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAATTTTC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
7525909 AAATTTCC-AAAAAATATCTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTG
65 AAATTTCCAAAAAAAAATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTCCTTG
* * * **
7525961 AAAATCAAAATTTTCGAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC
1 AAAATCAAAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-
*
7526026 AAAGTTT-CATAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-
65 AAA-TTTCCA-AAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
* *
7526078 AAAA-AAATAGATTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATCAA-A-ATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
7526135 CTACACAAGA
Statistics
Matches: 264, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
116 46 0.17
117 63 0.24
118 118 0.45
119 36 0.14
120 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (117 bp):
AAAATCAAAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
AATTTCCAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:7525864 original size:60 final size:60
Alignment explanation
Indices: 7525726--7526134 Score: 513
Period size: 58 Copynumber: 7.0 Consensus size: 60
7525716 TCTTTAAATA
* *
7525726 AAAATCAAAATTTTCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
7525786 AAAAT--AAATTTCCAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
7525844 AAAATCAAAATTTCCAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAAATTTCCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTG
* *
7525904 AAAAT--AAATTTCC-AAAAAATATCTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
7525961 AAAATCAAAATTTTC-GAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
7526020 GAAATCAAAGTTT-CATAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-
1 AAAATCAAAATTTCCA-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
7526078 AAAA-AAATAGATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATCAA-A-ATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
7526135 CTACACAAGA
Statistics
Matches: 309, Mismatches: 26, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
57 46 0.15
58 104 0.34
59 62 0.20
60 97 0.31
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (60 bp):
AAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:7530027 original size:15 final size:15
Alignment explanation
Indices: 7530004--7530039 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
7529994 AACAATAGAT
7530004 AAAAAATGA-GAAAA
1 AAAAAATGATGAAAA
7530018 AAAAAGATGATGAAAA
1 AAAAA-ATGATGAAAA
7530034 AAAAAA
1 AAAAAA
7530040 AAGAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 5 0.25
16 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAAATGATGAAAA
Found at i:7530047 original size:17 final size:18
Alignment explanation
Indices: 7530014--7530048 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7530004 AAAAAATGAG
7530014 AAAAAAAAAGATGATGAAA
1 AAAAAAAAAGA-GATGAAA
7530033 AAAAAAAAAGA-ATGAA
1 AAAAAAAAAGAGATGAA
7530049 TGAGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
19 11 0.69
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAGAGATGAAA
Found at i:7531440 original size:41 final size:41
Alignment explanation
Indices: 7531324--7531659 Score: 475
Period size: 41 Copynumber: 8.1 Consensus size: 41
7531314 ATGATTGTCA
7531324 AGGAGCAATTTA-TTTTCCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAG-T-CGTGGTGCCTCTGTTTAG
7531365 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* *
7531407 ATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
**
7531448 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTATCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
*
7531489 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
7531530 AGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
7531572 ATGAGCAATTTATTTTTCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
7531613 AGGAGCAATTTA-TTTTCAAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
7531654 AGGAGC
1 AGGAGC
7531660 TTTGGTAAAA
Statistics
Matches: 269, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
40 12 0.04
41 178 0.66
42 79 0.29
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:7531548 original size:124 final size:123
Alignment explanation
Indices: 7531324--7531659 Score: 514
Period size: 124 Copynumber: 2.7 Consensus size: 123
7531314 ATGATTGTCA
7531324 AGGAGCAATTTATTTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAA
1 AGGAGCAATTTATTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAA
* *
7531387 GTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
63 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAG
**
7531448 AGGAGCAATTTATTTTCCAAAGTCGTGGTATCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
*
7531513 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTACCTCTATTTAG
* * * * *
7531572 ATGAGCAATTTATTTTTCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTCAAAAGTC
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* *
7531637 GTTGAGCCTCTGTTTAGAGGAGC
66 GTGGTGCCTCTGTTTAGAGGAGC
7531660 TTTGGTAAAA
Statistics
Matches: 195, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
122 3 0.02
123 41 0.21
124 151 0.77
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (123 bp):
AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAG
Found at i:7531596 original size:165 final size:165
Alignment explanation
Indices: 7531324--7531659 Score: 543
Period size: 165 Copynumber: 2.0 Consensus size: 165
7531314 ATGATTGTCA
*
7531324 AGGAGCAATTTATTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
*
7531389 CGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
66 CGTGGTACCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
* *
7531454 AATTTATTTTCCAAAGTCGTGGTA-TCTCTGTTTAG
131 AATTTATTTTCAAAAGTCGTGG-AGCCTCTGTTTAG
*
7531489 AGGAGCAATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAA
1 AGGAGCAATTTACTTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAA
* * *
7531552 GTCGTGGTACCTCTGTTTAGATGAGCAATTTATTTTTCAAAGTCGTGGTGCCTTTGTTTAGAGGA
64 GTCGTGGTACCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGA
*
7531617 GCAATTTATTTTCAAAAGTCGTTGAGCCTCTGTTTAG
129 GCAATTTATTTTCAAAAGTCGTGGAGCCTCTGTTTAG
7531654 AGGAGC
1 AGGAGC
7531660 TTTGGTAAAA
Statistics
Matches: 159, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
163 3 0.02
164 2 0.01
165 154 0.97
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (165 bp):
AGGAGCAATTTACTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
CGTGGTACCTCTGTTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
AATTTATTTTCAAAAGTCGTGGAGCCTCTGTTTAG
Found at i:7531677 original size:1 final size:1
Alignment explanation
Indices: 7531666--7531741 Score: 71
Period size: 1 Copynumber: 76.0 Consensus size: 1
7531656 GAGCTTTGGT
* * * * * * * *
7531666 AAAAAATAAAAAAAAAAAAAAAAACACAAAAAAACAAAAAACAAAAAAAAACACAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
7531731 AAAACAAAAAA
1 AAAAAAAAAAA
7531742 TGACAATGTT
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:7531696 original size:19 final size:18
Alignment explanation
Indices: 7531666--7531741 Score: 91
Period size: 19 Copynumber: 4.2 Consensus size: 18
7531656 GAGCTTTGGT
*
7531666 AAAAAATAAAAAAAAAAA
1 AAAAAACAAAAAAAAAAA
* *
7531684 AAAAAAC-ACAAAAAAAC
1 AAAAAACAAAAAAAAAAA
*
7531701 AAAAAACAAAAAAAAACAC
1 AAAAAACAAAAAAAAA-AA
7531720 AAAAAACAAAAAAAACAAA
1 AAAAAACAAAAAAAA-AAA
7531739 AAA
1 AAA
7531742 TGACAATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.30
18 13 0.26
19 21 0.42
20 1 0.02
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAAA
Found at i:7531704 original size:27 final size:27
Alignment explanation
Indices: 7531666--7531741 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
7531656 GAGCTTTGGT
7531666 AAAAAATA-AAAAAAAAAAAAAAAACAC
1 AAAAAA-ACAAAAAAAAAAAAAAAACAC
*
7531693 AAAAAAACAAAAAACAAAAAAAAACAC
1 AAAAAAACAAAAAAAAAAAAAAAACAC
*
7531720 -AAAAAACAAAAAAAACAAAAAA
1 AAAAAAACAAAAAAAAAAAAAAA
7531742 TGACAATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (27 bp):
AAAAAAACAAAAAAAAAAAAAAAACAC
Found at i:7531747 original size:10 final size:9
Alignment explanation
Indices: 7531666--7531741 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
7531656 GAGCTTTGGT
*
7531666 AAAAAATAA
1 AAAAAACAA
*
7531675 AAAAAAAAA
1 AAAAAACAA
7531684 AAAAAACACA
1 AAAAAACA-A
7531694 AAAAAACAA
1 AAAAAACAA
*
7531703 AAAACA-AA
1 AAAAAACAA
*
7531711 AAAAAACAC
1 AAAAAACAA
7531720 AAAAAACAA
1 AAAAAACAA
7531729 AAAAAACAA
1 AAAAAACAA
7531738 AAAA
1 AAAA
7531742 TGACAATGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 7 0.12
9 43 0.73
10 9 0.15
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (9 bp):
AAAAAACAA
Found at i:7531939 original size:17 final size:16
Alignment explanation
Indices: 7531913--7531944 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7531903 TGTATTATTA
7531913 TTTTTTTTCTTTTCTC
1 TTTTTTTTCTTTTCTC
7531929 TTTTCTTTTCTTTTCT
1 TTTT-TTTTCTTTTCT
7531945 TTTGTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTTTTCTC
Found at i:7531954 original size:17 final size:17
Alignment explanation
Indices: 7531913--7531954 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7531903 TGTATTATTA
7531913 TTTT-TTTTCTTTTCTC
1 TTTTATTTTCTTTTCTC
*
7531929 TTTTCTTTTCTTTTCT-
1 TTTTATTTTCTTTTCTC
7531945 TTTGTATTTT
1 TTT-TATTTT
7531955 ATGTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTATTTTCTTTTCTC
Found at i:7531954 original size:22 final size:21
Alignment explanation
Indices: 7531901--7531956 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
7531891 CAATTTTTAC
7531901 TTTGTATTATTATTTTTTTTCT
1 TTTGTATT-TTATTTTTTTTCT
* * *
7531923 TTTCTCTTTTCTTTTCTTTTCT
1 TTTGTATTTTATTTT-TTTTCT
7531945 TTTGTATTTTAT
1 TTTGTATTTTAT
7531957 GTATTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTGTATTTTATTTTTTTTCT
Found at i:7531990 original size:21 final size:21
Alignment explanation
Indices: 7531966--7532085 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 21
7531956 TGTATTTTAT
7531966 TATTTATTATTATTATATGTA
1 TATTTATTATTATTATATGTA
*
7531987 TATTT-TTACTTATT-TATTTA
1 TATTTATTA-TTATTATATGTA
* * *
7532007 T-TTTATTTTTTGTTAATATTTA
1 TATTTA-TTATTATT-ATATGTA
*
7532029 TATGTATT-TTATTTATATAGTTCTA
1 TATTTATTATTA-TTATAT-G---TA
7532054 TATTTATTATATATTATAAT-T-
1 TATTTATTAT-TATTAT-ATGTA
7532075 TATTTATTATT
1 TATTTATTATT
7532086 TTTTTTCTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 29
0.68 0.06 0.25
Matches are distributed among these distances:
19 3 0.04
20 14 0.18
21 28 0.36
22 12 0.15
23 3 0.04
25 9 0.12
26 5 0.06
27 4 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
TATTTATTATTATTATATGTA
Found at i:7532075 original size:17 final size:19
Alignment explanation
Indices: 7532036--7532078 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
7532026 TTATATGTAT
*
7532036 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTATATA
7532056 TTTATTATATA-TTATA-A
1 TTTATTATATAGTTATATA
7532073 TTTATT
1 TTTATT
7532079 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTATATA
Found at i:7533034 original size:5 final size:5
Alignment explanation
Indices: 7533024--7533049 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7533014 TTTCTTCCTT
7533024 GAGCC GAGCC GAGCC GAGCC GAGCC G
1 GAGCC GAGCC GAGCC GAGCC GAGCC G
7533050 CAATCCGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.42, T:0.00
Consensus pattern (5 bp):
GAGCC
Found at i:7533086 original size:12 final size:11
Alignment explanation
Indices: 7533069--7533224 Score: 80
Period size: 11 Copynumber: 13.4 Consensus size: 11
7533059 CCGCTCCGAG
7533069 TTTTTTTTTTA
1 TTTTTTTTTTA
* *
7533080 ATTTTTTTTCA
1 TTTTTTTTTTA
*
7533091 TTTCTTTATTTA
1 TTT-TTTTTTTA
7533103 TTTTTTTATTTA
1 TTTTTTT-TTTA
*
7533115 TTTTTTTATTAGA
1 TTTTTTT-TT-TA
* *
7533128 TTAGGTTTATTTAA
1 TT---TTTTTTTTA
* *
7533142 TATTCTTTTTA
1 TTTTTTTTTTA
* *
7533153 TCTTTATTTTA
1 TTTTTTTTTTA
*
7533164 TTTTTATTTTTG
1 TTTTT-TTTTTA
**
7533176 TTTTACTTTTA
1 TTTTTTTTTTA
*
7533187 TTTATTTTTTA
1 TTTTTTTTTTA
*
7533198 -TTTTTATTTA
1 TTTTTTTTTTA
7533208 TTTATTTTTATTA
1 TTT-TTTTT-TTA
7533221 TTTT
1 TTTT
7533225 AATTTCTTTA
Statistics
Matches: 107, Mismatches: 28, Indels: 19
0.69 0.18 0.12
Matches are distributed among these distances:
10 8 0.07
11 46 0.43
12 36 0.34
13 9 0.08
14 2 0.02
15 2 0.02
16 4 0.04
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:7533168 original size:6 final size:6
Alignment explanation
Indices: 7533147--7533219 Score: 71
Period size: 6 Copynumber: 12.3 Consensus size: 6
7533137 TTTAATATTC
* * * *
7533147 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTA TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
7533192 TTTTTA TTTTTA TTTATTTA TTTTTA TT
1 TTTTTA TTTTTA -TT-TTTA TTTTTA TT
7533220 ATTTTAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
5 12 0.22
6 35 0.64
7 4 0.07
8 4 0.07
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:7533169 original size:17 final size:16
Alignment explanation
Indices: 7533133--7533219 Score: 79
Period size: 17 Copynumber: 5.4 Consensus size: 16
7533123 TTAGATTAGG
* * *
7533133 TTTATTTAATATTCTT
1 TTTATTTTATTTTATT
7533149 TTTATCTTTATTTTATT
1 TTTAT-TTTATTTTATT
* *
7533166 TTTATTTTTGTTTTACT
1 TTTA-TTTTATTTTATT
*
7533183 TTTATTTATTTTTTATT
1 TTTATTT-TATTTTATT
7533200 TTTA-TTTA-TTTATT
1 TTTATTTTATTTTATT
7533214 TTTATT
1 TTTATT
7533220 ATTTTAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
14 10 0.17
15 2 0.03
16 10 0.17
17 36 0.61
18 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:7533221 original size:17 final size:17
Alignment explanation
Indices: 7533095--7533223 Score: 63
Period size: 17 Copynumber: 7.2 Consensus size: 17
7533085 TTTTCATTTC
7533095 TTTATTTATTTTT-TTA
1 TTTATTTATTTTTATTA
*
7533111 TTTATTTTTTTATTAGATTA
1 TTTATTTATTT-TT--ATTA
*
7533131 GGTTTATTTAATATTCTTTTTA
1 --TTTATTT-AT-TT-TTATTA
7533153 TCTTTATTTTATTTTTATT-
1 --TTTA-TTTATTTTTATTA
* *
7533172 TTTGTTTTACTTTTATTTA
1 TTT-ATTTATTTTTA-TTA
7533191 TTT-TTTA--TTT-TTA
1 TTTATTTATTTTTATTA
7533204 TTTATTTATTTTTATTA
1 TTTATTTATTTTTATTA
7533221 TTT
1 TTT
7533224 TAATTTCTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
13 6 0.07
14 4 0.05
15 3 0.03
16 13 0.15
17 24 0.27
18 2 0.02
19 3 0.03
20 7 0.08
21 2 0.02
22 16 0.18
23 4 0.05
24 4 0.05
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTATTTATTTTTATTA
Found at i:7533225 original size:14 final size:13
Alignment explanation
Indices: 7533155--7533225 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 13
7533145 TCTTTTTATC
7533155 TTTA-TTTTA-TT
1 TTTATTTTTATTT
*
7533166 TTTATTTTTGTTT
1 TTTATTTTTATTT
7533179 TACTT-TTATTTATTT
1 T--TTATT-TTTATTT
7533194 TTTATTTTTATTT
1 TTTATTTTTATTT
7533207 ATTTATTTTTATTAT
1 -TTTATTTTTATT-T
7533222 TTTA
1 TTTA
7533226 ATTTCTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
11 4 0.08
12 4 0.08
13 12 0.24
14 20 0.40
15 10 0.20
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:7533310 original size:58 final size:58
Alignment explanation
Indices: 7533237--7533648 Score: 519
Period size: 58 Copynumber: 7.0 Consensus size: 58
7533227 TTTCTTTAAA
7533237 TAAAAATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
** *
7533297 TAAAAATAAATTTCCAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
7533355 TGAAAATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATATTCCT
1 TAAAAAT--AAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
* ** *
7533415 TAAAAATAAATTTTCAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * ***
7533474 TATAAATAAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
7533532 TAAAAATAAATTTCC-AAAAAATATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
* * * * * *
7533589 AAAAAAATAGATTT-CTAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCT
1 -TAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
7533647 TA
1 TA
7533649 TACAAGAACA
Statistics
Matches: 310, Mismatches: 32, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.00
57 38 0.12
58 160 0.52
59 52 0.17
60 59 0.19
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.34
Consensus pattern (58 bp):
TAAAAATAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:7533376 original size:118 final size:117
Alignment explanation
Indices: 7533239--7533648 Score: 550
Period size: 115 Copynumber: 3.5 Consensus size: 117
7533229 TCTTTAAATA
7533239 AAAATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAAATCAAAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
7533303 TAAATTTCCAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
65 TAAATTTCCAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
*
7533356 GAAAATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATATTCCTTAAAA
1 -AAAATCAAAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
* *
7533420 ATAAATTTTCAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
64 ATAAA-TTTCCAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
* ***
7533475 ATAAAT--AAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 A-AAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* * *
7533538 TAAATTTCCAAAAAA-TATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTCC-T
65 TAAATTTCCAAAAAAGGATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTT
* * * * *
7533589 AAAA-AAATAGATTT-CTAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTA
1 AAAATCAA-A-ATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
7533649 TACAAGAACA
Statistics
Matches: 264, Mismatches: 20, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
113 3 0.01
114 4 0.02
115 69 0.26
116 14 0.05
117 54 0.20
118 69 0.26
119 51 0.19
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.34
Consensus pattern (117 bp):
AAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
AAATTTCCAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:7536855 original size:22 final size:22
Alignment explanation
Indices: 7536830--7536871 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7536820 AAACCACTAG
*
7536830 GCATGATTTATAAGATCTTCCA
1 GCATGATTTATAAGACCTTCCA
*
7536852 GCATGATTTGTAAGACCTTC
1 GCATGATTTATAAGACCTTC
7536872 GAGTATAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (22 bp):
GCATGATTTATAAGACCTTCCA
Found at i:7536904 original size:23 final size:22
Alignment explanation
Indices: 7536878--7536927 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
7536868 CTTCGAGTAT
*
7536878 AACCTCTAAAGTATGATTCATAA
1 AACCTCT-AAGCATGATTCATAA
* *
7536901 AACCTCTCAGCATGATTTATAA
1 AACCTCTAAGCATGATTCATAA
7536923 AACCT
1 AACCT
7536928 TCGAACATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (22 bp):
AACCTCTAAGCATGATTCATAA
Found at i:7536922 original size:22 final size:22
Alignment explanation
Indices: 7536890--7536950 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
7536880 CCTCTAAAGT
* *
7536890 ATGATTCATAAAACCTCTC-AGC
1 ATGATTTATAAAACCT-TCGAAC
7536912 ATGATTTATAAAACCTTCGAAC
1 ATGATTTATAAAACCTTCGAAC
7536934 ATGATTTA-AAAGACCTT
1 ATGATTTATAAA-ACCTT
7536951 TGTGTATGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (22 bp):
ATGATTTATAAAACCTTCGAAC
Found at i:7538990 original size:13 final size:12
Alignment explanation
Indices: 7538968--7539023 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
7538958 TCATTTTTCC
7538968 TTTTTTTC-TTT
1 TTTTTTTCTTTT
*
7538979 TTTTTTTCTCTT
1 TTTTTTTCTTTT
** *
7538991 TCCTTATCTTTCT
1 TTTTTTTCTTT-T
7539004 TTTTCTTTCTTTT
1 TTTT-TTTCTTTT
7539017 TTTTTTT
1 TTTTTTT
7539024 TTGCATATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
11 8 0.24
12 12 0.35
13 8 0.24
14 6 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:7539012 original size:26 final size:26
Alignment explanation
Indices: 7538963--7539013 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7538953 AGTCTTCATT
* *
7538963 TTTCCTTTTTTTCTTTTTTTTTTCTC
1 TTTCCTTTCTTTCTTTTTTCTTTCTC
7538989 TTTCCTTATCTTTC-TTTTTCTTTCT
1 TTTCCTT-TCTTTCTTTTTTCTTTCT
7539014 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTCCTTTCTTTCTTTTTTCTTTCTC
Found at i:7539347 original size:25 final size:23
Alignment explanation
Indices: 7539319--7539373 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
7539309 ATTTCTCTTT
* *
7539319 TTTTTTTCTTCACGTTTTTCTTTCA
1 TTTTTTTCTT-ACATTTTTC-ATCA
*
7539344 TTTTTAATCTTACATTTTTCATCA
1 TTTTT-TTCTTACATTTTTCATCA
7539368 TTTTTT
1 TTTTTT
7539374 CAAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.15, C:0.16, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTTTCTTACATTTTTCATCA
Found at i:7541695 original size:2 final size:2
Alignment explanation
Indices: 7541688--7541717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7541678 GCACAACCAC
7541688 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
7541718 GAAAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7542063 original size:62 final size:62
Alignment explanation
Indices: 7541997--7542117 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 62
7541987 TTTTTAAACG
*
7541997 TTTTTCAATAAAAACG-TCATAAATAAT-TCAATTCTATTTTTTAAAAAGGATTATTTAAGATA
1 TTTTTCAACAAAAACGCT-ATAAATAATCT-AATTCTATTTTTTAAAAAGGATTATTTAAGATA
* * * * ** *
7542059 TTTTTCACCCAAAATGCTTTAAATAATCTTGTTCTATTTTTTAAAGAGGATTATTTAAG
1 TTTTTCAACAAAAACGCTATAAATAATCTAATTCTATTTTTTAAAAAGGATTATTTAAG
7542118 GCATTTCTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
62 47 0.96
63 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (62 bp):
TTTTTCAACAAAAACGCTATAAATAATCTAATTCTATTTTTTAAAAAGGATTATTTAAGATA
Found at i:7542260 original size:127 final size:127
Alignment explanation
Indices: 7542077--7542315 Score: 331
Period size: 127 Copynumber: 1.9 Consensus size: 127
7542067 CCAAAATGCT
*
7542077 TTAAATAATCTTGTTCTATTTTTTAAAGAGGATTATTTAAGGCATTTCTGGTTGAAAAATGCCTA
1 TTAAATAATCTTGTTCTATTTTTTAAAGAGGATTATTTAAGACATTTCTGGTTGAAAAATGCCTA
* * * *
7542142 AAATAATTCTCTTAGATTTTTTT-AA-GAAGATTACTTAAGGTGTTTTCCATAAAAAAACACA
66 AAATAATTATATTACATTTTTTTAAAGGAA-ATTACTTAAGGAGTTTTCCATAAAAAAACACA
* * * *
7542203 TTAAATAATCTTGTTCTATTTTTTTAAA-AGGGATTATTTAATACGTTTTTGGTTGAAAAATGTC
1 TTAAATAATCTTGTTCTA-TTTTTTAAAGA-GGATTATTTAAGACATTTCTGGTTGAAAAATGCC
* *
7542267 TTAAATAATTATATTACATTTTTTTAAAGGAAATTATTTAAGGAGTTTT
64 TAAAATAATTATATTACATTTTTTTAAAGGAAATTACTTAAGGAGTTTT
7542316 TTGTTGGTAA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
126 19 0.19
127 59 0.60
128 17 0.17
129 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (127 bp):
TTAAATAATCTTGTTCTATTTTTTAAAGAGGATTATTTAAGACATTTCTGGTTGAAAAATGCCTA
AAATAATTATATTACATTTTTTTAAAGGAAATTACTTAAGGAGTTTTCCATAAAAAAACACA
Found at i:7543564 original size:21 final size:21
Alignment explanation
Indices: 7543530--7543606 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
7543520 TATCATGCAA
*
7543530 ATAAATA-TTTAATAAATCAC
1 ATAAATACATTAATAAATCAC
7543550 ATAAATACATTAAT-AA-C-C
1 ATAAATACATTAATAAATCAC
* *
7543568 ATGCAAATATATTAATAAATTAC
1 AT--AAATACATTAATAAATCAC
*
7543591 ACAAATACATTAATAA
1 ATAAATACATTAATAA
7543607 TCATGCAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 20 0.43
21 20 0.43
23 2 0.04
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (21 bp):
ATAAATACATTAATAAATCAC
Found at i:7543597 original size:41 final size:41
Alignment explanation
Indices: 7543532--7543625 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
7543522 TCATGCAAAT
*
7543532 AAATAT-TTAATAAATCACATAAATACATTAATAACCATGC
1 AAATATATTAATAAATCACACAAATACATTAATAACCATGC
* *
7543572 AAATATATTAATAAATTACACAAATACATTAATAATCATGC
1 AAATATATTAATAAATCACACAAATACATTAATAACCATGC
*
7543613 AATTA-ATTAATAA
1 AAATATATTAATAA
7543626 TCAAGCAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 14 0.29
41 35 0.71
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (41 bp):
AAATATATTAATAAATCACACAAATACATTAATAACCATGC
Found at i:7543623 original size:19 final size:19
Alignment explanation
Indices: 7543552--7543667 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 19
7543542 TAAATCACAT
*
7543552 AAATACATTAATAACCATGC
1 AAATA-ATTAATAATCATGC
* **
7543572 AAATATATTAATAAATTACAC
1 AAATA-ATTAAT-AATCATGC
7543593 AAATACATTAATAATCATGC
1 AAATA-ATTAATAATCATGC
* *
7543613 AATTAATTAATAATCAAGC
1 AAATAATTAATAATCATGC
* *
7543632 AAATAA-TAATTAATTATGT
1 AAATAATTAA-TAATCATGC
*
7543651 AAATAATAAATAATCAT
1 AAATAATTAATAATCAT
7543668 ACCATAAAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
18 3 0.04
19 36 0.47
20 22 0.29
21 15 0.20
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATTAATAATCATGC
Found at i:7544881 original size:16 final size:16
Alignment explanation
Indices: 7544860--7544915 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
7544850 GAAATATGCT
7544860 AATTGCTTTTTTGTTG
1 AATTGCTTTTTTGTTG
* *
7544876 AATTGCTTATTTATT-
1 AATTGCTTTTTTGTTG
*
7544891 AA-TGCTTATTACTGTTG
1 AATTGCTT-TT-TTGTTG
7544908 AATTGCTT
1 AATTGCTT
7544916 GATGCTGGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 16 0.52
17 2 0.06
18 5 0.16
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.55
Consensus pattern (16 bp):
AATTGCTTTTTTGTTG
Found at i:7546115 original size:13 final size:13
Alignment explanation
Indices: 7546093--7546138 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
7546083 TTTGATTTGA
*
7546093 ATTAAGTTTAGAT
1 ATTAAATTTAGAT
*
7546106 ATTAAATTTATAT
1 ATTAAATTTAGAT
7546119 ATTAAATTT-GA-
1 ATTAAATTTAGAT
7546130 ATTAAATTT
1 ATTAAATTT
7546139 TGGATCGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 20 0.67
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
ATTAAATTTAGAT
Found at i:7546321 original size:13 final size:13
Alignment explanation
Indices: 7546305--7546330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7546295 TAAAATTTAA
7546305 AAACTAATAAATT
1 AAACTAATAAATT
7546318 AAACTAATAAATT
1 AAACTAATAAATT
7546331 TGATTCGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAACTAATAAATT
Found at i:7554063 original size:22 final size:22
Alignment explanation
Indices: 7554035--7554079 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7554025 CCATAGGTGG
*
7554035 CTAGTGGACGGCCTGTCTGTGC
1 CTAGTGGAAGGCCTGTCTGTGC
7554057 CTAGTGGAAGGCCTGTCTGTGC
1 CTAGTGGAAGGCCTGTCTGTGC
7554079 C
1 C
7554080 ATCCTGTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.27, G:0.36, T:0.27
Consensus pattern (22 bp):
CTAGTGGAAGGCCTGTCTGTGC
Found at i:7554786 original size:77 final size:76
Alignment explanation
Indices: 7554660--7554809 Score: 219
Period size: 77 Copynumber: 2.0 Consensus size: 76
7554650 TTTGCCCGGG
** * *
7554660 CATTTACAAGATACCCGTGTTAATAATTAAGTTACGTATATCATTCCGAACATACTCACCTTCAA
1 CATTTACAAGATACCCGCATTAATAATTAAATTACATATATCATTCCGAACATACTCACCTTCAA
7554725 TTTTCACTGGA
66 TTTTCACTGGA
** *
7554736 CATTTACAAGATACCCGACATTAATAATTAAATTACATATATCATTCCGAATGTATTCACCTTCA
1 CATTTACAAGATACCCG-CATTAATAATTAAATTACATATATCATTCCGAACATACTCACCTTCA
*
7554801 TTTTTCACT
65 ATTTTCACT
7554810 TTCATTGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 17 0.26
77 48 0.74
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (76 bp):
CATTTACAAGATACCCGCATTAATAATTAAATTACATATATCATTCCGAACATACTCACCTTCAA
TTTTCACTGGA
Found at i:7558672 original size:62 final size:62
Alignment explanation
Indices: 7558575--7558699 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
7558565 ATGATATTTC
*
7558575 TGGTGTTAACTTAAAATGTGTTATGATGTCCTTGATATTTTGCTCTGAGCCCTTTTTTTCTT
1 TGGTGTTAACTTAAAATGTGTTATGATCTCCTTGATATTTTGCTCTGAGCCCTTTTTTTCTT
7558637 TGGTGTTAACTTAAAATGTGTTATGATCTCCTTGATATTTTGCTCTGAGCCCTTTTTTTCTT
1 TGGTGTTAACTTAAAATGTGTTATGATCTCCTTGATATTTTGCTCTGAGCCCTTTTTTTCTT
7558699 T
1 T
7558700 CTTTTTTTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (62 bp):
TGGTGTTAACTTAAAATGTGTTATGATCTCCTTGATATTTTGCTCTGAGCCCTTTTTTTCTT
Found at i:7565685 original size:16 final size:16
Alignment explanation
Indices: 7565664--7565696 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7565654 AAAATCATCG
7565664 TAAATCATCATTATCA
1 TAAATCATCATTATCA
7565680 TAAATCATCATTATCA
1 TAAATCATCATTATCA
7565696 T
1 T
7565697 TTAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:7574548 original size:224 final size:224
Alignment explanation
Indices: 7574153--7574590 Score: 707
Period size: 224 Copynumber: 2.0 Consensus size: 224
7574143 TAGCATTCGC
* *
7574153 TATGCCTATTGATTTCCCTTCATTGAGCTGAAAAGATCATAACATGGTGTTTGCATAGGATGGGT
1 TATGCCTATTGATTTCCCTTCATTGAGCTGAAAAGATCATAACATGGTGTTTACATAGGATAGGT
* *
7574218 ACCATCGAGCCTGAGGAATGAGCAGGCTAACAGGCAGGCACGCTACTAGACCCTTATGGCTAATC
66 ACCATCGAGCCTGAGGAATGAGCAGGCTAACAGACAGGCACACTACTAGACCCTTATGGCTAATC
* ** * *
7574283 GGTAAGGAGGTGTTGTAGCTGAGGTAACACACCTTAGTTCTTGAGGTGGGACAAGCATAATGTTG
131 GGTAAAGAGGTGTTGTAGCTGAGGTAACACACCCGAGTTCTTGAGGCGGGACAAGCATAACGTTG
7574348 AGTGTTAATCATATATGCGGGGTACCATA
196 AGTGTTAATCATATATGCGGGGTACCATA
*
7574377 TATGCCT-TTCGATTTCCCTTCATTGAGCTGAAAGGATCATAACATGGTGTTTACATAGGATAGG
1 TATGCCTATT-GATTTCCCTTCATTGAGCTGAAAAGATCATAACATGGTGTTTACATAGGATAGG
* * *
7574441 TACCATCGAGCCTGAGGGATGAGCAGGCTAACAGACAGGCACACTGCTAGACCCTTGTGGCTAAT
65 TACCATCGAGCCTGAGGAATGAGCAGGCTAACAGACAGGCACACTACTAGACCCTTATGGCTAAT
* * *
7574506 CGGTAAAGAGGTGTTGTAGCTGAGGTAGCACACCCGAGTTCTTGAGGCGGGATAAGCATGACGTT
130 CGGTAAAGAGGTGTTGTAGCTGAGGTAACACACCCGAGTTCTTGAGGCGGGACAAGCATAACGTT
*
7574571 GAGTGTTAATCATATGTGCG
195 GAGTGTTAATCATATATGCG
7574591 AGTAGCCTAA
Statistics
Matches: 196, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
223 2 0.01
224 194 0.99
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (224 bp):
TATGCCTATTGATTTCCCTTCATTGAGCTGAAAAGATCATAACATGGTGTTTACATAGGATAGGT
ACCATCGAGCCTGAGGAATGAGCAGGCTAACAGACAGGCACACTACTAGACCCTTATGGCTAATC
GGTAAAGAGGTGTTGTAGCTGAGGTAACACACCCGAGTTCTTGAGGCGGGACAAGCATAACGTTG
AGTGTTAATCATATATGCGGGGTACCATA
Found at i:7582013 original size:32 final size:31
Alignment explanation
Indices: 7581963--7582054 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
7581953 CTTCAATCTA
* *
7581963 ATTATATTA-TTTTTATTTTTATTTAAAAATT
1 ATTAAATTATTTTTTA-TTTTAATTAAAAATT
7581994 ATTAAATTATTTTTTATTTTAATTAAAAATT
1 ATTAAATTATTTTTTATTTTAATTAAAAATT
* *
7582025 ATGAAATTATTTTTTAAATTTAA-TAAAAAT
1 ATTAAATTATTTTTT-ATTTTAATTAAAAAT
7582055 CAATAATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 43 0.78
32 12 0.22
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
ATTAAATTATTTTTTATTTTAATTAAAAATT
Found at i:7582127 original size:16 final size:16
Alignment explanation
Indices: 7582094--7582142 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7582084 GTTTCTTATT
* * *
7582094 ATATTATTAATAAAAA
1 ATATTATTATTTATAA
7582110 ATATTATTATTTATAA
1 ATATTATTATTTATAA
*
7582126 ATTTTATTATTTTATAA
1 ATATTATTA-TTTATAA
7582143 TAAATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATTATTTATAA
Found at i:7582557 original size:24 final size:21
Alignment explanation
Indices: 7582511--7582554 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7582501 TTTCAACGGC
7582511 ATAATAATCAATTTAATTATT
1 ATAATAATCAATTTAATTATT
*
7582532 ATAATAATTAATCTTAATT-TT
1 ATAATAATCAAT-TTAATTATT
7582553 AT
1 AT
7582555 TATTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATAATCAATTTAATTATT
Found at i:7582731 original size:20 final size:19
Alignment explanation
Indices: 7582706--7582758 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
7582696 AAATGATCAC
7582706 CTTTTTTCTAGTTTCATTTT
1 CTTTTTTCTAGTTTCA-TTT
7582726 CTTTTTTC-ATGTTT-A-TT
1 CTTTTTTCTA-GTTTCATTT
7582743 -TTTTTTCTAGTTTCAT
1 CTTTTTTCTAGTTTCAT
7582759 GTTAGCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 11 0.38
17 4 0.14
19 2 0.07
20 12 0.41
ACGTcount: A:0.11, C:0.13, G:0.06, T:0.70
Consensus pattern (19 bp):
CTTTTTTCTAGTTTCATTT
Found at i:7584291 original size:19 final size:19
Alignment explanation
Indices: 7584253--7584288 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7584243 AAAATCAAAA
*
7584253 TTCTTTTCTATTATTTTTC
1 TTCTTTTATATTATTTTTC
7584272 TTCTTTTAT-TTATTTTT
1 TTCTTTTATATTATTTTT
7584289 TCTAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTTATATTATTTTTC
Found at i:7585684 original size:39 final size:39
Alignment explanation
Indices: 7585626--7585705 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
7585616 ACATATAAAA
* *
7585626 AAGATATAAACTATGGAGATAAAATATCATCATCCAATT
1 AAGATATAAACTATAGAGATAAAATACCATCATCCAATT
** * *
7585665 AAGATATGGACTATAGAGATAGAATGCCATCATCCAATT
1 AAGATATAAACTATAGAGATAAAATACCATCATCCAATT
7585704 AA
1 AA
7585706 TACATTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (39 bp):
AAGATATAAACTATAGAGATAAAATACCATCATCCAATT
Found at i:7588368 original size:17 final size:18
Alignment explanation
Indices: 7588343--7588376 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7588333 CAAAATTAAA
*
7588343 TTTTTTTTTA-TTATTTC
1 TTTTCTTTTATTTATTTC
7588360 TTTTCTTTTATTTATTT
1 TTTTCTTTTATTTATTT
7588377 TTTCTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTATTTATTTC
Found at i:7592632 original size:12 final size:12
Alignment explanation
Indices: 7592610--7592645 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7592600 AATATAAAAA
*
7592610 TAAATATATAAT
1 TAAATAAATAAT
7592622 TAAATAAATAAT
1 TAAATAAATAAT
7592634 TAAA-AAATAAT
1 TAAATAAATAAT
7592645 T
1 T
7592646 TTTTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:7593007 original size:21 final size:20
Alignment explanation
Indices: 7592977--7593015 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7592967 ATTATAATTT
*
7592977 AAAATTATATAAACTTTATA
1 AAAATTATATAAAATTTATA
7592997 AAAATTTATATAAAATTTA
1 AAAA-TTATATAAAATTTA
7593016 AAATCGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATTATATAAAATTTATA
Found at i:7593010 original size:12 final size:11
Alignment explanation
Indices: 7592976--7593015 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
7592966 AATTATAATT
7592976 TAAAA-TTATA
1 TAAAATTTATA
*
7592986 TAAACTTTATA
1 TAAAATTTATA
7592997 -AAAATTTATA
1 TAAAATTTATA
7593007 TAAAATTTA
1 TAAAATTTA
7593016 AAATCGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 13 0.50
11 13 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:7609709 original size:21 final size:21
Alignment explanation
Indices: 7609664--7609709 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7609654 CACAAGAAGG
* *
7609664 GATCGATCACCTTACATGAAG
1 GATCGATCACCTTAAATGAAA
7609685 GATCGATCACC-TAAATGACAA
1 GATCGATCACCTTAAATGA-AA
7609706 GATC
1 GATC
7609710 AATCCCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (21 bp):
GATCGATCACCTTAAATGAAA
Found at i:7612556 original size:26 final size:24
Alignment explanation
Indices: 7612527--7612580 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7612517 GAGAGAAATA
7612527 TTTTATGAATATATTTGCTCATACCT
1 TTTTATG--TATATTTGCTCATACCT
*
7612553 TTTTATGTTTATTTGCTCATACCT
1 TTTTATGTATATTTGCTCATACCT
7612577 TTTT
1 TTTT
7612581 GCTATGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 20 0.74
26 7 0.26
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTATGTATATTTGCTCATACCT
Found at i:7612732 original size:2 final size:2
Alignment explanation
Indices: 7612727--7612862 Score: 118
Period size: 2 Copynumber: 69.0 Consensus size: 2
7612717 TATATATATA
*
7612727 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG -G AG T-
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* ** **
7612767 TT TG CCA TG CA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG -TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * ** **
7612810 TG TG TG -G AG T- TT TG CCA TG CA TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG -TG TG TG TG TG TG TG TG TG TG TG TG TG
7612851 TG TG TG TG TG TG
1 TG TG TG TG TG TG
7612863 GGGAAGTTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
1 4 0.04
2 104 0.96
ACGTcount: A:0.04, C:0.04, G:0.45, T:0.46
Consensus pattern (2 bp):
TG
Found at i:7612807 original size:53 final size:53
Alignment explanation
Indices: 7612727--7612862 Score: 272
Period size: 53 Copynumber: 2.6 Consensus size: 53
7612717 TATATATATA
7612727 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGTTTTGCCATGCATG
1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGTTTTGCCATGCATG
7612780 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGTTTTGCCATGCATG
1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGTTTTGCCATGCATG
7612833 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
7612863 GGGAAGTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 83 1.00
ACGTcount: A:0.04, C:0.04, G:0.45, T:0.46
Consensus pattern (53 bp):
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGTTTTGCCATGCATG
Found at i:7625595 original size:122 final size:122
Alignment explanation
Indices: 7625371--7625607 Score: 291
Period size: 122 Copynumber: 1.9 Consensus size: 122
7625361 ATCCATTACA
* * ** * *
7625371 AAAAATTTAATGGGGTTATTCAAGGTGTTTCTAATCAAAAACACCTTGAATAATCCCTTGCCATT
1 AAAAATTAAATGAGGTTATTCAAGGCATTTCTAAGCAAAAACACCTTGAATAATCCCCTGCCATT
* **
7625436 TTTTTAGGGATTATTCAAGGAGTTTTTAGCAAAAAACATTTTGAATAATCTTCTCGT
66 TTTTTAGGGATTATTCAAAGAGTTTTTAGCAAAAAACACCTTGAATAATCTTCTCGT
* * *
7625493 AAAAATTAAATGAGGTTATTCAAGGCATTTCT-GGCGAAAAACACTTTGAATAATCCCCTGCCCT
1 AAAAATTAAATGAGGTTATTCAAGGCATTTCTAAGC-AAAAACACCTTGAATAATCCCCTGCCAT
* * *
7625557 TTTTTT-GGAGATTATTCAAAGTGTTTTT-GACCAGAAACACCTTGAATAATC
65 TTTTTTAGG-GATTATTCAAAGAGTTTTTAG-CAAAAAACACCTTGAATAATC
7625608 CCTTAAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
121 4 0.04
122 93 0.96
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (122 bp):
AAAAATTAAATGAGGTTATTCAAGGCATTTCTAAGCAAAAACACCTTGAATAATCCCCTGCCATT
TTTTTAGGGATTATTCAAAGAGTTTTTAGCAAAAAACACCTTGAATAATCTTCTCGT
Found at i:7625714 original size:62 final size:63
Alignment explanation
Indices: 7625642--7625795 Score: 168
Period size: 63 Copynumber: 2.4 Consensus size: 63
7625632 TTTAAAGTAT
* * * *
7625642 TTTTGACT-AAAATCGCCTTCAATGATCTC-CTACAAAATTTTTTATATGGATTATTGAAAGCC
1 TTTTGACTAAAAAT-GCCTTCAATAATCCCTCTACAAAATTTTGTAAATGGATTATTGAAAGCC
* * * * * *
7625704 TTTTGGCTAAAAATGTCTTTAATAATCCCTCTTCAAAATTTTGTAAATGGATTATTGAATGCGT
1 TTTTGACTAAAAATGCCTTCAATAATCCCTCTACAAAATTTTGTAAATGGATTATTGAAAGC-C
* *
7625768 TTTTGACCAAAAATGCCTTTAATAATCC
1 TTTTGACTAAAAATGCCTTCAATAATCC
7625796 TATTCAATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
62 18 0.24
63 33 0.43
64 25 0.33
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (63 bp):
TTTTGACTAAAAATGCCTTCAATAATCCCTCTACAAAATTTTGTAAATGGATTATTGAAAGCC
Found at i:7625793 original size:64 final size:63
Alignment explanation
Indices: 7625674--7625795 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
7625664 TGATCTCCTA
* * * * *
7625674 CAAAATTTTTTATATGGATTATTGAAAGCCTTTTGGCTAAAAATGTCTTTAATAATCCCTCTT
1 CAAAATTTTGTAAATGGATTATTGAAAGCCTTTTGACCAAAAATGCCTTTAATAATCCCTCTT
* *
7625737 CAAAATTTTGTAAATGGATTATTGAATGCGTTTTTGACCAAAAATGCCTTTAATAATCC
1 CAAAATTTTGTAAATGGATTATTGAAAGC-CTTTTGACCAAAAATGCCTTTAATAATCC
7625796 TATTCAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 26 0.51
64 25 0.49
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (63 bp):
CAAAATTTTGTAAATGGATTATTGAAAGCCTTTTGACCAAAAATGCCTTTAATAATCCCTCTT
Found at i:7627571 original size:55 final size:56
Alignment explanation
Indices: 7627503--7627769 Score: 231
Period size: 55 Copynumber: 4.7 Consensus size: 56
7627493 AAAAAATCAC
* * * * *
7627503 AAACCTTCTAATATGTTGGTAAGGTTTTATTACTCAAAATTTA-TTGCTAAAGTTT
1 AAACCTTCCAATATGTTGGTAAGGTTTTATTATTCAAAATTCATTTTCTAAAATTT
* * * * * *
7627558 TAACCTTCCAATATGTTGATAA-GATTTATTTATTAAAAATTTATTTTATAAAAAAATTT
1 AAACCTTCCAATATGTTGGTAAGGTTTTA-TTATTCAAAATTCATTTTCT---AAAATTT
* * ** * *
7627617 AAACCTTCTAATATATTGGTAAAATTTT-TTGTTCAAAAATTCAGTTT-TAAAATTT
1 AAACCTTCCAATATGTTGGTAAGGTTTTATTATTC-AAAATTCATTTTCTAAAATTT
* *
7627672 AAACTTTCCAATATATTGGTAAGG-TTTATTTATTCAAAATTCATTTTC-AAAAGTTT
1 AAACCTTCCAATATGTTGGTAAGGTTTTA-TTATTCAAAATTCATTTTCTAAAA-TTT
* *
7627728 AAACCTTCCAATATGTTGATAAGGTTTTATTTATTTAAAATT
1 AAACCTTCCAATATGTTGGTAAGGTTTTA-TTATTCAAAATT
7627770 TTATTTATTT
Statistics
Matches: 171, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
54 8 0.05
55 73 0.43
56 32 0.19
57 16 0.09
58 5 0.03
59 34 0.20
60 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (56 bp):
AAACCTTCCAATATGTTGGTAAGGTTTTATTATTCAAAATTCATTTTCTAAAATTT
Found at i:7627627 original size:114 final size:112
Alignment explanation
Indices: 7627503--7627758 Score: 284
Period size: 114 Copynumber: 2.3 Consensus size: 112
7627493 AAAAAATCAC
* * *
7627503 AAACCTTCTAATATGTTGGTAAGGTTTTATTACTC-AAAATTTA-TTGCTAAAGTTTTAACCTTC
1 AAACCTTCTAATATGTTGGTAAGGTTTTATTACTCAAAAATTCAGTT-CTAAAATTTAAACCTTC
* *
7627566 CAATATGTTGATAAGATTTATTTATTAAAAATTTATTTTATAAAAAAATTT
65 CAATATATTGATAAGATTTATTTATTAAAAATTCA-TTT-T-AAAAAATTT
* ** ** * *
7627617 AAACCTTCTAATATATTGGTAAAATTTT-TTGTTCAAAAATTCAGTTTTAAAATTTAAACTTTCC
1 AAACCTTCTAATATGTTGGTAAGGTTTTATTACTCAAAAATTCAGTTCTAAAATTTAAACCTTCC
* * * * *
7627681 AATATATTGGTAAGGTTTATTTATTCAAAATTCATTTTCAAAAGTTT
66 AATATATTGATAAGATTTATTTATTAAAAATTCATTTTAAAAAATTT
* *
7627728 AAACCTTCCAATATGTTGATAAGGTTTTATT
1 AAACCTTCTAATATGTTGGTAAGGTTTTATT
7627759 TATTTAAAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
111 30 0.26
112 3 0.03
113 7 0.06
114 75 0.64
115 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.45
Consensus pattern (112 bp):
AAACCTTCTAATATGTTGGTAAGGTTTTATTACTCAAAAATTCAGTTCTAAAATTTAAACCTTCC
AATATATTGATAAGATTTATTTATTAAAAATTCATTTTAAAAAATTT
Found at i:7629320 original size:40 final size:40
Alignment explanation
Indices: 7629182--7629330 Score: 154
Period size: 40 Copynumber: 3.7 Consensus size: 40
7629172 CCTTGAAAAT
* * *
7629182 AAAGGCAAACCACTATTAAAAATCAAGAGCTCTTTCAACAC
1 AAAGGCAAACAACT-TTAAAAATTAAGGGCTCTTTCAACAC
* * ** *
7629223 GAGGGCACTCAACTTTAAAAATTAAGGGGCTCTTTCAACAT
1 AAAGGCAAACAACTTTAAAAATTAA-GGGCTCTTTCAACAC
* * * * * *
7629264 AAAAGTATACATCTTTAAAAATTAAGGGCTTTTTCAATAC
1 AAAGGCAAACAACTTTAAAAATTAAGGGCTCTTTCAACAC
7629304 AAAGGCAAACAACTTTAAAAATTAAGG
1 AAAGGCAAACAACTTTAAAAATTAAGG
7629331 ACGATACCTA
Statistics
Matches: 85, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
40 45 0.53
41 40 0.47
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (40 bp):
AAAGGCAAACAACTTTAAAAATTAAGGGCTCTTTCAACAC
Found at i:7639202 original size:23 final size:23
Alignment explanation
Indices: 7639158--7639203 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7639148 GGTAAAGAAA
*
7639158 ACATGGCTCTACCTGCAGGTTAG
1 ACATGGCTCTACCTACAGGTTAG
* *
7639181 ACATGGCTCTGCCTACATGTTAG
1 ACATGGCTCTACCTACAGGTTAG
7639204 GCTCATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (23 bp):
ACATGGCTCTACCTACAGGTTAG
Found at i:7640494 original size:55 final size:56
Alignment explanation
Indices: 7640421--7640551 Score: 149
Period size: 55 Copynumber: 2.3 Consensus size: 56
7640411 TTAGTAAAGT
* *
7640421 TTTATTTCTCAAAATTTATTGCTAAAATTTAAACCTTCCAATATGTTTGTAAGATTT-
1 TTTATTT-T-AAAATTTATTGCTAAAATTTAAACCTTCCAATATGATGGTAAGATTTA
** * * *
7640478 TTTA-TTTAAAATTTTATTTTTAAAATTTAAACCTTCTAGTATGATGGTAAGGTTTA
1 TTTATTTTAAAA-TTTATTGCTAAAATTTAAACCTTCCAATATGATGGTAAGATTTA
*
7640534 TTTATTTTAAAAATTATT
1 TTTATTTTAAAATTTATT
7640552 TTTTGTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.06
55 37 0.59
56 11 0.17
57 11 0.17
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (56 bp):
TTTATTTTAAAATTTATTGCTAAAATTTAAACCTTCCAATATGATGGTAAGATTTA
Found at i:7641788 original size:18 final size:17
Alignment explanation
Indices: 7641767--7641800 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7641757 TTTAGCAATA
7641767 AAATAAAATGAAAAAATG
1 AAATAAAAT-AAAAAATG
*
7641785 AAATGAAATAAAAAAT
1 AAATAAAATAAAAAAT
7641801 CAATCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAATAAAATAAAAAATG
Found at i:7643439 original size:21 final size:22
Alignment explanation
Indices: 7643413--7643462 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
7643403 TCAACAAAAC
*
7643413 TAACATATAATTGAA-TAAATT
1 TAACATATAATTGAACCAAATT
*
7643434 TAACATAAAATTGAACCAAATT
1 TAACATATAATTGAACCAAATT
7643456 T-ACATAT
1 TAACATAT
7643463 GATGAGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (22 bp):
TAACATATAATTGAACCAAATT
Found at i:7646328 original size:20 final size:21
Alignment explanation
Indices: 7646303--7646343 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
7646293 ACATGTTCAA
7646303 AATAT-ATGTAAAATAT-AAAT
1 AATATAAT-TAAAATATCAAAT
7646323 AATATAATTAAAATATCAAAT
1 AATATAATTAAAATATCAAAT
7646344 TCTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATAATTAAAATATCAAAT
Found at i:7646371 original size:19 final size:20
Alignment explanation
Indices: 7646312--7646373 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
7646302 AAATATATGT
* *
7646312 AAAATATAAATAATATAATT-
1 AAAATATAAA-ATTCTAATTA
*
7646332 AAAATATCAAATTCTAA-TA
1 AAAATATAAAATTCTAATTA
*
7646351 AAAATA-AAAATTTTAATTA
1 AAAATATAAAATTCTAATTA
7646370 AAAA
1 AAAA
7646374 ATTAACAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 17 0.49
20 9 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATAAAATTCTAATTA
Found at i:7653568 original size:24 final size:24
Alignment explanation
Indices: 7653541--7653588 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7653531 CTTTTTCTGT
*
7653541 TTTGTTTTATT-TTTATTTAGTTTA
1 TTTGATTTATTATTTATTTA-TTTA
7653565 TTTGATTTATTATTTATTTATTTA
1 TTTGATTTATTATTTATTTATTTA
7653589 ACTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTGATTTATTATTTATTTATTTA
Found at i:7653584 original size:20 final size:20
Alignment explanation
Indices: 7653549--7653587 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7653539 GTTTTGTTTT
7653549 ATTTTTATTTAGTTTATTTG
1 ATTTTTATTTAGTTTATTTG
7653569 ATTTATTATTTA-TTTATTT
1 ATTT-TTATTTAGTTTATTT
7653588 AACTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTTTATTTAGTTTATTTG
Found at i:7654767 original size:2 final size:2
Alignment explanation
Indices: 7654719--7654753 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7654709 TCCTGCCTTA
*
7654719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7654754 CTGCCCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7661249 original size:15 final size:15
Alignment explanation
Indices: 7661229--7661258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7661219 CAAATTTTAA
*
7661229 TTTAAATATATATTT
1 TTTAAAAATATATTT
7661244 TTTAAAAATATATTT
1 TTTAAAAATATATTT
7661259 CCAAATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAAAATATATTT
Found at i:7662354 original size:19 final size:20
Alignment explanation
Indices: 7662329--7662385 Score: 98
Period size: 19 Copynumber: 2.9 Consensus size: 20
7662319 AAATTATTGT
7662329 TTAAAATTTAAAACTATTAC
1 TTAAAATTTAAAACTATTAC
7662349 TT-AAATTTAAAACTATTAC
1 TTAAAATTTAAAACTATTAC
*
7662368 TTAAAATTTAAAAATATT
1 TTAAAATTTAAAACTATT
7662386 TCATTTCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAATTTAAAACTATTAC
Found at i:7662583 original size:21 final size:21
Alignment explanation
Indices: 7662559--7662601 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7662549 ATCATTTCTT
*
7662559 TTTTCAAA-TAAATAAAACTTA
1 TTTTAAAATTAAATAAAA-TTA
*
7662580 TTTTAAAATTATATAAAATTA
1 TTTTAAAATTAAATAAAATTA
7662601 T
1 T
7662602 AGATGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAAAATTAAATAAAATTA
Found at i:7667428 original size:89 final size:89
Alignment explanation
Indices: 7667277--7667457 Score: 344
Period size: 89 Copynumber: 2.0 Consensus size: 89
7667267 CCAAGCTAAA
7667277 CATCTCATTTGTCTCGGCAGGACTAGTAGCCAGTCAACGTCATTTCAATGTTTCTCCCATCCTTA
1 CATCTCATTTGTCTCGGCAGGACTAGTAGCCAGTCAACGTCATTTCAATGTTTCTCCCATCCTTA
7667342 TTTTCTTCCTCATTTTTCCTACCT
66 TTTTCTTCCTCATTTTTCCTACCT
* *
7667366 CATCTCATTTGTCTCGGCAGGACTAGTAGCCCGTCACCGTCATTTCAATGTTTCTCCCATCCTTA
1 CATCTCATTTGTCTCGGCAGGACTAGTAGCCAGTCAACGTCATTTCAATGTTTCTCCCATCCTTA
7667431 TTTTCTTCCTCATTTTTCCTACCT
66 TTTTCTTCCTCATTTTTCCTACCT
7667455 CAT
1 CAT
7667458 TTCCTAAGAG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.40
Consensus pattern (89 bp):
CATCTCATTTGTCTCGGCAGGACTAGTAGCCAGTCAACGTCATTTCAATGTTTCTCCCATCCTTA
TTTTCTTCCTCATTTTTCCTACCT
Found at i:7667850 original size:24 final size:26
Alignment explanation
Indices: 7667809--7667856 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
7667799 TTTGAATTCA
7667809 AATATAAATAATTAAATTT-TTATCG
1 AATATAAATAATTAAATTTATTATCG
7667834 AATATAAA-AATTAAATTTATTAT
1 AATATAAATAATTAAATTTATTAT
7667857 TATATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AATATAAATAATTAAATTTATTATCG
Found at i:7667958 original size:6 final size:6
Alignment explanation
Indices: 7667949--7667999 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
7667939 AAATTTGATC
*
7667949 AAATTT AAA-TT AAATTTT AAATCTC AAATTTT AAA-TT AAATTT AAATTT
1 AAATTT AAATTT AAA-TTT AAAT-TT AAA-TTT AAATTT AAATTT AAATTT
7667998 AA
1 AA
7668000 TACTATATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 10 0.26
6 14 0.37
7 13 0.34
8 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:7667992 original size:25 final size:25
Alignment explanation
Indices: 7667947--7667995 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7667937 TAAAATTTGA
7667947 TCAAATTTAAATTAAATTTTAAATC
1 TCAAATTTAAATTAAATTTTAAATC
7667972 TCAAATTTTAAATTAAA-TTTAAAT
1 TCAAA-TTTAAATTAAATTTTAAAT
7667996 TTAATACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (25 bp):
TCAAATTTAAATTAAATTTTAAATC
Found at i:7667999 original size:12 final size:12
Alignment explanation
Indices: 7667952--7667996 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 12
7667942 TTTGATCAAA
7667952 TTTAAATTAAAT
1 TTTAAATTAAAT
7667964 TTTAAATCTCAAAT
1 TTTAAAT-T-AAAT
7667978 TTTAAATTAAA-
1 TTTAAATTAAAT
7667989 TTTAAATT
1 TTTAAATT
7667997 TAATACTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.26
12 10 0.32
13 2 0.06
14 11 0.35
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAAATTAAAT
Found at i:7670438 original size:15 final size:16
Alignment explanation
Indices: 7670410--7670448 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7670400 AAATTTTAGA
*
7670410 AAATTTTTTGTTTTTG
1 AAATTTTTTGTTTTGG
*
7670426 CAATTTTTT-TTTTGG
1 AAATTTTTTGTTTTGG
7670441 AAATTTTT
1 AAATTTTT
7670449 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (16 bp):
AAATTTTTTGTTTTGG
Found at i:7671224 original size:12 final size:12
Alignment explanation
Indices: 7671207--7671238 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7671197 CAATTTAAAA
7671207 AATAAAAATAAT
1 AATAAAAATAAT
7671219 AATAAAAATAAT
1 AATAAAAATAAT
7671231 AA-AAAAAT
1 AATAAAAAT
7671239 TTTTGTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:7675258 original size:8 final size:7
Alignment explanation
Indices: 7675241--7675339 Score: 71
Period size: 7 Copynumber: 14.3 Consensus size: 7
7675231 TCAATAATGG
7675241 ATAAAAA
1 ATAAAAA
7675248 ATAAGAAA
1 ATAA-AAA
*
7675256 AT-ACAA
1 ATAAAAA
7675262 ATATAAAA
1 ATA-AAAA
7675270 ATACAAAA
1 ATA-AAAA
* *
7675278 ATGAGAA
1 ATAAAAA
7675285 ATAAAAA
1 ATAAAAA
*
7675292 AGAAAAA
1 ATAAAAA
**
7675299 AT-TTAA
1 ATAAAAA
*
7675305 A-AAAAG
1 ATAAAAA
*
7675311 AGAAAAA
1 ATAAAAA
7675318 AT-AAAA
1 ATAAAAA
7675324 ATAAAAA
1 ATAAAAA
7675331 ATAAAAA
1 ATAAAAA
7675338 AT
1 AT
7675340 GTAAAATAAG
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
6 15 0.21
7 38 0.54
8 17 0.24
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:7675278 original size:22 final size:21
Alignment explanation
Indices: 7675241--7675348 Score: 82
Period size: 22 Copynumber: 5.2 Consensus size: 21
7675231 TCAATAATGG
7675241 ATAAAAAATAAGAAAAT-ACAA
1 ATAAAAAATAA-AAAATGACAA
*
7675262 ATATAAAAATACAAAAATGAGAA
1 ATA-AAAAATA-AAAAATGACAA
* **
7675285 ATAAAAAAGAAAAAAT-TTAA
1 ATAAAAAATAAAAAATGACAA
* * *
7675305 A-AAAAGAGAAAAAAT-AAAA
1 ATAAAAAATAAAAAATGACAA
7675324 ATAAAAAATAAAAAATGTA-AA
1 ATAAAAAATAAAAAATG-ACAA
7675345 ATAA
1 ATAA
7675349 GAGAAAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
19 16 0.22
20 15 0.21
21 15 0.21
22 19 0.26
23 7 0.10
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (21 bp):
ATAAAAAATAAAAAATGACAA
Found at i:7675322 original size:17 final size:16
Alignment explanation
Indices: 7675283--7675324 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
7675273 CAAAAATGAG
7675283 AAAT-AAAAAAGAAAA
1 AAATAAAAAAAGAAAA
*
7675298 AATTTAAAAAAAGAGAAA
1 AA-ATAAAAAAAGA-AAA
7675316 AAATAAAAA
1 AAATAAAAA
7675325 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 1 0.05
17 14 0.64
18 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAAGAAAA
Found at i:7675357 original size:21 final size:19
Alignment explanation
Indices: 7675283--7675359 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 19
7675273 CAAAAATGAG
*
7675283 AAATAAAAAAGAAAAAATTTA
1 AAATAAAGAA-AAAAAA-TTA
* *
7675304 AAA-AAAGAGAAAAAATAA
1 AAATAAAGAAAAAAAATTA
*
7675322 AAATAAAAAATAAAAAATGTA
1 AAATAAAGAA-AAAAAAT-TA
7675343 AAATAAGAGAAAAAAAA
1 AAATAA-AGAAAAAAAA
7675360 ACTCAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 5 0.11
19 10 0.22
20 11 0.24
21 16 0.36
22 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (19 bp):
AAATAAAGAAAAAAAATTA
Found at i:7676937 original size:44 final size:43
Alignment explanation
Indices: 7676797--7677029 Score: 236
Period size: 43 Copynumber: 5.4 Consensus size: 43
7676787 ACTATCGAAA
* * * * * *
7676797 AGCCTTATTTACTTTTTAAAAGTTGTTGAGCTTCTGTTTAGAGG
1 AGCCTTATTTA-TTTTTCAAAGTCGTTAATCCTCTATTTAGAGG
* * *
7676841 AGCCTTATTTATTTTTCAAAGTCATTAAGT-CTCTACTTATAGG
1 AGCCTTATTTATTTTTCAAAGTCGTTAA-TCCTCTATTTAGAGG
* * * *
7676884 AACCTTATTTAATTTTCAGAAGTTGTTAATCCTCTGTTTAGAGG
1 AGCCTTATTTATTTTTCA-AAGTCGTTAATCCTCTATTTAGAGG
*
7676928 AGCTTTATTTATTTTTCAAAGTCGTTGAA-CCTCTATTTAGAGG
1 AGCCTTATTTATTTTTCAAAGTCGTT-AATCCTCTATTTAGAGG
** * * * *
7676971 AGCCTTATTTATTTTTTGAAGTCGTTGAGCTTCTATTTAAAGG
1 AGCCTTATTTATTTTTCAAAGTCGTTAATCCTCTATTTAGAGG
7677014 AGCCTTATTTATTTTT
1 AGCCTTATTTATTTTT
7677030 TGCTTTTGCT
Statistics
Matches: 157, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 110 0.70
44 46 0.29
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (43 bp):
AGCCTTATTTATTTTTCAAAGTCGTTAATCCTCTATTTAGAGG
Found at i:7677030 original size:87 final size:86
Alignment explanation
Indices: 7676797--7677029 Score: 297
Period size: 87 Copynumber: 2.7 Consensus size: 86
7676787 ACTATCGAAA
*
7676797 AGCCTTATTTACTTTTTAAAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAG
1 AGCCTTATTTA-TTTTTAGAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAG
* *
7676862 TCATTAAGTCTCTACTTATAGG
65 TCATTAAGCCTCTACTTAGAGG
* * * * * *
7676884 AACCTTATTTAATTTTCAGAAGTTGTTAATCCTCTGTTTAGAGGAGCTTTATTTATTTTTCAAAG
1 AGCCTTATTT-ATTTTTAGAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAG
* *
7676949 TCGTTGAA-CCTCTATTTAGAGG
65 TCATT-AAGCCTCTACTTAGAGG
* * * *
7676971 AGCCTTATTTATTTTTTGAAGTCGTTGAGCTTCTATTTAAAGGAGCCTTATTTATTTTT
1 AGCCTTATTTATTTTTAGAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATTTTT
7677030 TGCTTTTGCT
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
86 40 0.33
87 80 0.65
88 3 0.02
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (86 bp):
AGCCTTATTTATTTTTAGAAGTTGTTGAGCTTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAGT
CATTAAGCCTCTACTTAGAGG
Found at i:7677085 original size:118 final size:118
Alignment explanation
Indices: 7676921--7677147 Score: 294
Period size: 118 Copynumber: 1.9 Consensus size: 118
7676911 AATCCTCTGT
*
7676921 TTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAACCTCTATTTAGAGGAGCCTTATTTATTTT
1 TTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAACCTCTATTTAGAGGAACCTTATTTATTTT
** * * *
7676986 TTGAAGTCGTTGAGCTTCTATTTAAAGGAGCCTTATTTATTTTTTGCTTTTGC
66 TCAAAGTCATTGAGCATCTATTTAAAGGAGCCTTATTTAATTTTTGCTTTTGC
*** * * **
7677039 TTAGAGGAGCTTTATTTATTTTTCAAAGTCAG-TGAGTGTTTGTTTAGATTAACCTTATTTATTT
1 TTAGAGGAGCTTTATTTATTTTTCAAAGTC-GTTGAACCTCTATTTAGAGGAACCTTATTTATTT
* * *
7677103 TTCAAAGTTATTGAGCATCTGTTTAAAGGAGTCTTATTTAATTTT
65 TTCAAAGTCATTGAGCATCTATTTAAAGGAGCCTTATTTAATTTT
7677148 CAAAAGTCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
118 91 0.99
119 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (118 bp):
TTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAACCTCTATTTAGAGGAACCTTATTTATTTT
TCAAAGTCATTGAGCATCTATTTAAAGGAGCCTTATTTAATTTTTGCTTTTGC
Found at i:7677139 original size:43 final size:41
Alignment explanation
Indices: 7677043--7677197 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 41
7677033 TTTTGCTTAG
* *
7677043 AGGAGCTTTATTTATTTTTCAAAGTCAGTGAGTGTTTGT-TTAGA
1 AGGAGC-TTATTTATTTTTCAAAGTCATTGA--GCTTGTATTA-A
*** * *
7677087 TTAACCTTATTTATTTTTCAAAGTTATTGAGCATCTGT-TTAA
1 AGGAGCTTATTTATTTTTCAAAGTCATTGAGC-T-TGTATTAA
* *
7677129 AGGAGTCTTATTTAATTTTCAAAAGTCATTGAGCTTTTATTAA
1 AGGAG-CTTATTTATTTTTC-AAAGTCATTGAGCTTGTATTAA
*
7677172 ATGAGCTTTATTTATTTTTCAAAGTC
1 AGGAGC-TTATTTATTTTTCAAAGTC
7677198 GTGAAGCCTC
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 12 0.13
43 62 0.70
44 14 0.16
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (41 bp):
AGGAGCTTATTTATTTTTCAAAGTCATTGAGCTTGTATTAA
Found at i:7678297 original size:25 final size:26
Alignment explanation
Indices: 7678260--7678325 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
7678250 ATAATTATTT
*
7678260 AATGATGAAATTTTTA-AGAAATTTC-A
1 AATGAT-AAATTTTTATA-AAATTCCTA
*
7678286 AATGATAAATTTCTATAAAATTCCTA
1 AATGATAAATTTTTATAAAATTCCTA
*
7678312 GATGATAAATTTTT
1 AATGATAAATTTTT
7678326 TTTAATTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (26 bp):
AATGATAAATTTTTATAAAATTCCTA
Done.