Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 30 of 425
Found at i:7559570 original size:20 final size:22
Alignment explanation
Indices: 7559533--7559572 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
7559523 ATTTAATCAT
7559533 ATATTAATTTAGAAATAAATTA
1 ATATTAATTTAGAAATAAATTA
7559555 ATATT-ATTTA-AAATAAAT
1 ATATTAATTTAGAAATAAAT
7559573 AGACAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
ATATTAATTTAGAAATAAATTA
Found at i:7565594 original size:27 final size:28
Alignment explanation
Indices: 7565563--7565623 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
7565553 ATTTTTGGGG
7565563 AAATTAAAAAAT-ATTTTTA-GAGAGTCA
1 AAATTAAAAAATAATTTTTATGAGAGT-A
** *
7565590 AAATTAAATTATAATTTTTATGATAGTA
1 AAATTAAAAAATAATTTTTATGAGAGTA
7565618 AAATTA
1 AAATTA
7565624 TAATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 14 0.48
29 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (28 bp):
AAATTAAAAAATAATTTTTATGAGAGTA
Found at i:7565643 original size:22 final size:23
Alignment explanation
Indices: 7565591--7565652 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
7565581 AGAGAGTCAA
*
7565591 AATTAAATTATAATTTTTATGAT
1 AATTAAATTATAATTTTTATAAT
* *
7565614 AGTAAAATTATAATTTTTA-AAT
1 AATTAAATTATAATTTTTATAAT
*
7565636 AATTAAATTAAAATTTT
1 AATTAAATTATAATTTT
7565653 ATCATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
AATTAAATTATAATTTTTATAAT
Found at i:7566581 original size:14 final size:15
Alignment explanation
Indices: 7566562--7566591 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7566552 TAAGTCATTC
7566562 TCCAAAAAC-ATTTT
1 TCCAAAAACTATTTT
7566576 TCCAAAAACTATTTT
1 TCCAAAAACTATTTT
7566591 T
1 T
7566592 AATGAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
TCCAAAAACTATTTT
Found at i:7566976 original size:2 final size:2
Alignment explanation
Indices: 7566969--7567010 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7566959 CAATAAGACA
7566969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7567011 GAAAGTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7569085 original size:24 final size:27
Alignment explanation
Indices: 7569037--7569095 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
7569027 TATACTTATA
*
7569037 TTATATTATTTTAATATTTAAT-AAA-T
1 TTATATAATTTT-ATATTTAATAAAATT
*
7569063 TTATATAATTTT-TATTTATTAAAATT
1 TTATATAATTTTATATTTAATAAAATT
7569089 TTATATA
1 TTATATA
7569096 CAGTCATCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 3 0.10
26 19 0.66
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTATATAATTTTATATTTAATAAAATT
Found at i:7571216 original size:27 final size:28
Alignment explanation
Indices: 7571163--7571216 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7571153 AAATTGCTCT
7571163 ATCTTTAGGGATGATTTACTCAATATCC
1 ATCTTTAGGGATGATTTACTCAATATCC
*
7571191 ATCTTTAGGGCTGA-TTACTCAATATC
1 ATCTTTAGGGATGATTTACTCAATATC
7571217 AAATTTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (28 bp):
ATCTTTAGGGATGATTTACTCAATATCC
Found at i:7576094 original size:66 final size:67
Alignment explanation
Indices: 7575965--7576098 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
7575955 TTGAATTCTC
7575965 ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
1 ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
7576030 GA
66 GA
*
7576032 ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTT-CAATGACGTCCTTCAAAGT
1 ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
7576096 GA
66 GA
7576098 A
1 A
7576099 GTGTATAGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 21 0.32
67 45 0.68
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (67 bp):
ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
GA
Found at i:7576118 original size:66 final size:66
Alignment explanation
Indices: 7575981--7576118 Score: 181
Period size: 66 Copynumber: 2.1 Consensus size: 66
7575971 TTGATTTCTG
* *
7575981 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACCGGTTTGATTTC
1 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAA-CGGTTAGAATTC
**
7576046 TG
65 AA
*
7576048 ATTTGGTTTTTTTACAAATTGCAATGGTT-CAATGACGTCCTTCAAAGTGAA-GTGTATAGAATT
1 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACG-GT-TAGAATT
*
7576111 GAA
64 CAA
7576114 ATTTG
1 ATTTG
7576119 TGCAGGGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 1 0.02
65 2 0.03
66 31 0.49
67 29 0.46
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (66 bp):
ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACGGTTAGAATTCA
A
Found at i:7577061 original size:16 final size:16
Alignment explanation
Indices: 7577040--7577072 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7577030 CTTAAGGCTT
7577040 GGTCCGAGTGTGACTC
1 GGTCCGAGTGTGACTC
7577056 GGTCCGAGTGTGACTC
1 GGTCCGAGTGTGACTC
7577072 G
1 G
7577073 AATTGTTAAA
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:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (16 bp):
GGTCCGAGTGTGACTC
Found at i:7577697 original size:34 final size:34
Alignment explanation
Indices: 7577659--7577770 Score: 95
Period size: 34 Copynumber: 3.3 Consensus size: 34
7577649 GACAGTTTTT
*
7577659 AAAGAAAACAATGTGAAGAAAAACATAAATTACA
1 AAAGAAAACAATGTGAAGAAAAACATAAATTATA
* * * * * *
7577693 AAAGAATA-GA-GTGAATAAGAATGACGAT-AGTTTTT
1 AAAGAAAACAATGTGAAGAA-AA--AC-ATAAATTATA
*
7577728 AAAGAAAACAATGTGAAGAAAAATATAAATTATA
1 AAAGAAAACAATGTGAAGAAAAACATAAATTATA
7577762 AAAGAAAAC
1 AAAGAAAAC
7577771 TAGAGAATAT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
32 7 0.12
33 5 0.09
34 21 0.37
35 12 0.21
36 5 0.09
37 7 0.12
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (34 bp):
AAAGAAAACAATGTGAAGAAAAACATAAATTATA
Found at i:7577711 original size:69 final size:69
Alignment explanation
Indices: 7577628--7577767 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
7577618 TTTAAACGAA
7577628 AATAGAATGAATAAGAATGACGACAGTTTTTAAAGAAAACAATGTGAAGAAAAACATAAATTACA
1 AATAGAATGAATAAGAATGACGACAGTTTTTAAAGAAAACAATGTGAAGAAAAACATAAATTACA
7577693 AAAG
66 AAAG
* * * *
7577697 AATAGAGTGAATAAGAATGACGATAGTTTTTAAAGAAAACAATGTGAAGAAAAATATAAATTATA
1 AATAGAATGAATAAGAATGACGACAGTTTTTAAAGAAAACAATGTGAAGAAAAACATAAATTACA
7577762 AAAG
66 AAAG
7577766 AA
1 AA
7577768 AACTAGAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.22
Consensus pattern (69 bp):
AATAGAATGAATAAGAATGACGACAGTTTTTAAAGAAAACAATGTGAAGAAAAACATAAATTACA
AAAG
Found at i:7586015 original size:22 final size:22
Alignment explanation
Indices: 7585983--7586028 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7585973 TTTCTAGTTT
*
7585983 ATCATCGACTTTTTGGAAGAAA
1 ATCATCAACTTTTTGGAAGAAA
7586005 ATCATCAACTTTTTGGAAGAAA
1 ATCATCAACTTTTTGGAAGAAA
7586027 AT
1 AT
7586029 TTGCCTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCATCAACTTTTTGGAAGAAA
Found at i:7593606 original size:29 final size:31
Alignment explanation
Indices: 7593567--7593626 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
7593557 GCATAGTTTA
*
7593567 AATTACCTTTTGATCATTAA-ATT-TTAATT
1 AATTACCTTTTGATCACTAATATTATTAATT
*
7593596 AATTACGTTTTGATCACTAATATTATTAATT
1 AATTACCTTTTGATCACTAATATTATTAATT
7593627 TATAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 18 0.67
30 3 0.11
31 6 0.22
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (31 bp):
AATTACCTTTTGATCACTAATATTATTAATT
Found at i:7597143 original size:17 final size:17
Alignment explanation
Indices: 7597120--7597158 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
7597110 TAATCTTTTA
7597120 AAAATTA-TAAAAT-AT
1 AAAATTATTAAAATAAT
7597135 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
7597151 AAAATTAT
1 AAAATTAT
7597159 ATTTTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 2 0.10
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:7597187 original size:25 final size:24
Alignment explanation
Indices: 7597108--7597187 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 24
7597098 TTTAATCTTT
*
7597108 TATAATCTTTTAAAAATTATAAAATA
1 TATAAT-TTTT-AAAATAATAAAATA
*
7597134 TA-AATTATTAAAATAATAAAAT-
1 TATAATTTTTAAAATAATAAAATA
**
7597156 TAT-ATTTTTACTATAATAAAAATA
1 TATAATTTTTAAAATAAT-AAAATA
7597180 TATAATTT
1 TATAATTT
7597188 GATTCCGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 13 0.29
23 17 0.38
24 6 0.13
25 7 0.16
26 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAATTTTTAAAATAATAAAATA
Found at i:7606638 original size:45 final size:45
Alignment explanation
Indices: 7606574--7606701 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 45
7606564 CATGTTTTCA
* *
7606574 CATGATGTCATAACGTCTTTCAACTATAATCTTACTCATTTCTAT
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
* * * * *
7606619 CGTGATGCCATAGCATCTTTAAACTATCATCTTACTCATTTTTAT
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
*
7606664 CATGATGCCATAACATCTTTCAGCTATAATCTTACTCA
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCA
7606702 ATTTTAGGTG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
Found at i:7611275 original size:12 final size:12
Alignment explanation
Indices: 7611260--7611286 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7611250 AAAAATTTAT
7611260 AATATATAAAAA
1 AATATATAAAAA
7611272 AATATATAAAAA
1 AATATATAAAAA
7611284 AAT
1 AAT
7611287 TCAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:7611339 original size:19 final size:18
Alignment explanation
Indices: 7611317--7611388 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
7611307 TCAAAATATT
7611317 ATAAAAACTTAAAAAATAC
1 ATAAAAA-TTAAAAAATAC
* *
7611336 ATAAAAGTTAAAAAA-ATT
1 ATAAAAATTAAAAAATA-C
*
7611354 ATAAATATTAAAATAATAC
1 ATAAAAATTAAAA-AATAC
*
7611373 ATGAAAATTATAAAAA
1 ATAAAAATTA-AAAAA
7611389 AAAAATTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 1 0.02
18 19 0.45
19 18 0.43
20 4 0.10
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAAAAATTAAAAAATAC
Found at i:7611341 original size:18 final size:17
Alignment explanation
Indices: 7611320--7611399 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 17
7611310 AAATATTATA
7611320 AAAACTTAAAAAATACAT
1 AAAA-TTAAAAAATACAT
*
7611338 AAAAGTTAAAAAA-ATTAT
1 AAAA-TTAAAAAATA-CAT
7611356 AAATATTAAAATAATACAT
1 AAA-ATTAAAA-AATACAT
*
7611375 GAAAATTATAAAA-A-A-
1 -AAAATTAAAAAATACAT
7611390 AAAATTAAAA
1 AAAATTAAAA
7611400 TGTTGTTGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 9 0.17
16 1 0.02
17 2 0.04
18 25 0.48
19 11 0.21
20 4 0.08
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATTAAAAAATACAT
Found at i:7611372 original size:37 final size:39
Alignment explanation
Indices: 7611309--7611390 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 39
7611299 TTAGAAACTC
*
7611309 AAAATATTATAAAAACTTAAAAAATACAT-AAAAGT-TA
1 AAAAAATTATAAAAACTTAAAAAATACATGAAAAGTATA
* *
7611346 AAAAAATTATAAATA-TTAAAATAATACATGAAAATTATA
1 AAAAAATTATAAAAACTTAAAA-AATACATGAAAAGTATA
7611385 AAAAAA
1 AAAAAA
7611391 AAATTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 6 0.15
37 20 0.51
38 5 0.13
39 8 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (39 bp):
AAAAAATTATAAAAACTTAAAAAATACATGAAAAGTATA
Found at i:7611955 original size:2 final size:2
Alignment explanation
Indices: 7611948--7611976 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7611938 ACATTTCGAT
7611948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7611977 GTAGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7613109 original size:22 final size:22
Alignment explanation
Indices: 7613078--7613122 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7613068 TTTTGCGTAG
7613078 GTTAGGTTATTTAAAATATCAA
1 GTTAGGTTATTTAAAATATCAA
*
7613100 GTTAGTTTATTTAAAATATCAA
1 GTTAGGTTATTTAAAATATCAA
7613122 G
1 G
7613123 ATGATTATAT
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:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (22 bp):
GTTAGGTTATTTAAAATATCAA
Found at i:7617866 original size:21 final size:21
Alignment explanation
Indices: 7617840--7617895 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
7617830 AGATATTTAT
7617840 TATTTATTATTAAGTAAAAGA
1 TATTTATTATTAAGTAAAAGA
7617861 TATTTATTATTAAGTAAAAGA
1 TATTTATTATTAAGTAAAAGA
7617882 TATTTATTAATTAA
1 TATTTATT-ATTAA
7617896 ATAATTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TATTTATTATTAAGTAAAAGA
Found at i:7619210 original size:18 final size:18
Alignment explanation
Indices: 7619187--7619251 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
7619177 TAAACTACTG
7619187 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
7619205 TACTGAATAACTAAATTATT
1 TACTGAATAA-TTGA-TAGT
*
7619225 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
7619244 TATTGAAT
1 TACTGAAT
7619252 TACTAAACTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 18 0.49
19 5 0.14
20 5 0.14
21 9 0.24
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:7619233 original size:39 final size:39
Alignment explanation
Indices: 7619177--7619327 Score: 167
Period size: 39 Copynumber: 3.9 Consensus size: 39
7619167 TTAGTAGGGG
*
7619177 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
7619216 TAAATTATTGTATTGAATAATTGATAGTTATTGAATTAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * ** *
7619255 TAAACTACTGCACTGAATATTTGATAAATACTGAATGAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
7619294 TAAATTACTATATTGAATAACTGATTGTTACTGA
1 TAAATTACTGTACTGAATAATTGATAGTTACTGA
7619328 TTGCGATTCT
Statistics
Matches: 89, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (39 bp):
TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:7619308 original size:78 final size:78
Alignment explanation
Indices: 7619177--7619323 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
7619167 TTAGTAGGGG
* ** * * *
7619177 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAACTAAATTATTGTATTGAATAATTGATA
1 TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATATTGAATAACTGATA
7619242 GTTATTGAATTAC
66 GTTATTGAATTAC
* * *
7619255 TAAACTACTGCACTGAATATTTGATAAATACTGAATGACTAAATTACTATATTGAATAACTGATT
1 TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATATTGAATAACTGATA
7619320 GTTA
66 GTTA
7619324 CTGATTGCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (78 bp):
TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATATTGAATAACTGATA
GTTATTGAATTAC
Found at i:7622771 original size:15 final size:15
Alignment explanation
Indices: 7622753--7622782 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7622743 TAAAATTTTT
7622753 AAAAAATATATTTAA
1 AAAAAATATATTTAA
7622768 AAAAAATATATTTAA
1 AAAAAATATATTTAA
7622783 CAAGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAATATATTTAA
Found at i:7625361 original size:23 final size:21
Alignment explanation
Indices: 7625331--7625373 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7625321 GGATAATTTT
7625331 AAATATTATATCATTAAAAAAAC
1 AAATATTA-AT-ATTAAAAAAAC
*
7625354 AAATATTAATATTAAGAAAA
1 AAATATTAATATTAAAAAAA
7625374 GATTAGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATTAATATTAAAAAAAC
Found at i:7631799 original size:7 final size:7
Alignment explanation
Indices: 7631783--7631813 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7631773 TATAAAAGTT
7631783 TAAAAAA
1 TAAAAAA
*
7631790 TAAGAAA
1 TAAAAAA
7631797 TAAAAAA
1 TAAAAAA
7631804 TAAAAAA
1 TAAAAAA
7631811 TAA
1 TAA
7631814 CTTGACTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:7641274 original size:23 final size:22
Alignment explanation
Indices: 7641244--7641298 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
7641234 ATTAGTTAAT
7641244 TTTATTATTTTCTTTTACTATTA
1 TTTATTATTTT-TTTTACTATTA
*
7641267 TTTATTA-TATTTTTACTATTA
1 TTTATTATTTTTTTTACTATTA
*
7641288 -TTGTTATTTTT
1 TTTATTATTTTT
7641299 ATTTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 2 0.07
23 7 0.25
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATTATTTTTTTTACTATTA
Found at i:7641329 original size:11 final size:10
Alignment explanation
Indices: 7641257--7641341 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 10
7641247 ATTATTTTCT
*
7641257 TTTACTATTA
1 TTTATTATTA
7641267 TTTATTA-TA
1 TTTATTATTA
*
7641276 TTT-TTACTA
1 TTTATTATTA
*
7641285 -TTATTGTTA
1 TTTATTATTA
7641294 TTT-TTATT-
1 TTTATTATTA
* *
7641302 TTCATTACTA
1 TTTATTATTA
7641312 CTTTATTATTA
1 -TTTATTATTA
7641323 TTGTATTATT-
1 TT-TATTATTA
*
7641333 GTTATTATT
1 TTTATTATT
7641342 TTCCTTATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
8 7 0.12
9 26 0.44
10 11 0.19
11 15 0.25
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (10 bp):
TTTATTATTA
Found at i:7641402 original size:3 final size:3
Alignment explanation
Indices: 7641394--7641487 Score: 52
Period size: 3 Copynumber: 31.3 Consensus size: 3
7641384 TATTTATTTG
* * * *
7641394 TTA TTA TTA -TA TTT TGTA TTA TTA TCA CTA TTA CTA TTA TTA -TA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7641438 TTTA TTA TTA TTA TTG TT- TTT TTA TCTA TGTA -TA TTC CTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA
7641484 TTA T
1 TTA T
7641488 ATTTCTTATA
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
2 8 0.12
3 52 0.75
4 9 0.13
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7642680 original size:21 final size:21
Alignment explanation
Indices: 7642647--7642686 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7642637 TTTGATTTTT
* *
7642647 TTTATTATGAAAATACTGAAA
1 TTTATGATAAAAATACTGAAA
*
7642668 TTTATGATAAAAATTCTGA
1 TTTATGATAAAAATACTGA
7642687 TACGATACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTATGATAAAAATACTGAAA
Found at i:7644100 original size:19 final size:20
Alignment explanation
Indices: 7644056--7644105 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
7644046 AAAAATTACA
7644056 AAAACATTCAAAATAATTTTC
1 AAAA-ATTCAAAATAATTTTC
*
7644077 GAAAATTCAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
7644096 AAAAATTCAA
1 AAAAATTCAA
7644106 TTTTTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 13 0.50
20 10 0.38
21 3 0.12
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:7644146 original size:21 final size:19
Alignment explanation
Indices: 7644119--7644173 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
7644109 TTATATTTTT
7644119 TTAAAAAATTATAAAAATAAA
1 TTAAAAAA-TATAAAAAT-AA
7644140 TCTAAAAAATATAAAAATAA
1 T-TAAAAAATATAAAAATAA
7644160 TTAAAAAAT-TAAAA
1 TTAAAAAATATAAAA
7644174 GACTCCTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 3 0.09
21 10 0.30
22 7 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAAAAAATATAAAAATAA
Found at i:7645295 original size:12 final size:12
Alignment explanation
Indices: 7645276--7645305 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7645266 AAAATGTTAT
7645276 AAAATTTATACA
1 AAAATTTATACA
*
7645288 ATAATTTATACA
1 AAAATTTATACA
7645300 AAAATT
1 AAAATT
7645306 GAGTGATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATTTATACA
Found at i:7645834 original size:24 final size:24
Alignment explanation
Indices: 7645807--7645854 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7645797 TGGTTGTATA
7645807 CAAGATTTTATTGCCTTTTGTGAG
1 CAAGATTTTATTGCCTTTTGTGAG
7645831 CAAGATTTTATTGCCTTTTGTGAG
1 CAAGATTTTATTGCCTTTTGTGAG
7645855 ACATACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (24 bp):
CAAGATTTTATTGCCTTTTGTGAG
Found at i:7647731 original size:29 final size:29
Alignment explanation
Indices: 7647698--7647755 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7647688 TTGAAAAAAG
7647698 TACAAAGAATGAGCAAAACAACAAACTAA
1 TACAAAGAATGAGCAAAACAACAAACTAA
7647727 TACAAAGAATGAGCAAAACAACAAACTAA
1 TACAAAGAATGAGCAAAACAACAAACTAA
7647756 CTTCCGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.10
Consensus pattern (29 bp):
TACAAAGAATGAGCAAAACAACAAACTAA
Found at i:7647857 original size:17 final size:17
Alignment explanation
Indices: 7647835--7647868 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7647825 AGTAAAAGCA
7647835 AGTAAACACATGGTCGG
1 AGTAAACACATGGTCGG
7647852 AGTAAACACATGGTCGG
1 AGTAAACACATGGTCGG
7647869 CGAAGAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
AGTAAACACATGGTCGG
Found at i:7651628 original size:16 final size:16
Alignment explanation
Indices: 7651591--7651621 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7651581 AAGGTCTATG
7651591 ATATGATTGCATGATA
1 ATATGATTGCATGATA
7651607 ATATGATTGCATGAT
1 ATATGATTGCATGAT
7651622 TGTATGAAAA
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:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (16 bp):
ATATGATTGCATGATA
Found at i:7652862 original size:46 final size:45
Alignment explanation
Indices: 7652806--7652981 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
7652796 TGGTTGAGCA
7652806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAA-G
* ** * *
7652852 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-AGTTATG-GA-T-GCGAAG
** * *
7652899 TCCGAGTTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAA-G
* *
7652945 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAG-TTATGG
7652982 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAAG
Found at i:7652962 original size:93 final size:93
Alignment explanation
Indices: 7652803--7652974 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
7652793 GGATGGTTGA
* * *
7652803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
7652868 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
** * *
7652896 GCATCCGAGTTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7652961 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
7652975 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:7658018 original size:33 final size:35
Alignment explanation
Indices: 7657980--7658049 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 35
7657970 ATTTATTATT
*
7657980 ATAAATTATTAAAAAACA-TAT-TTAAATTA-AATA
1 ATAAA-TAATAAAAAACATTATGTTAAATTATAATA
*
7658013 ATAAATAATAAATAACATTTATGTTAAATTATAATA
1 ATAAATAATAAAAAACA-TTATGTTAAATTATAATA
7658049 A
1 A
7658050 AACATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 10 0.32
33 5 0.16
34 3 0.10
35 8 0.26
36 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (35 bp):
ATAAATAATAAAAAACATTATGTTAAATTATAATA
Found at i:7661964 original size:17 final size:18
Alignment explanation
Indices: 7661942--7661980 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7661932 AAATTAATAA
7661942 AATAAAAATAAAT-AAAT
1 AATAAAAATAAATAAAAT
*
7661959 AATAAAACTAAATAAAAT
1 AATAAAAATAAATAAAAT
7661977 AATA
1 AATA
7661981 TCTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAATAAATAAAAT
Found at i:7661964 original size:22 final size:23
Alignment explanation
Indices: 7661931--7661978 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
7661921 TAGCCTATTC
7661931 TAAATTAATAAAA-TAAAAATAAA
1 TAAATTAATAAAACTAAAAA-AAA
*
7661954 TAAA-TAATAAAACTAAATAAAA
1 TAAATTAATAAAACTAAAAAAAA
7661976 TAA
1 TAA
7661979 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAATTAATAAAACTAAAAAAAA
Found at i:7665483 original size:17 final size:18
Alignment explanation
Indices: 7665461--7665494 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7665451 GATTGGGCCT
7665461 TGGGTATTGGGT-TTGTG
1 TGGGTATTGGGTGTTGTG
7665478 TGGGTATTGGGTGTTGT
1 TGGGTATTGGGTGTTGT
7665495 TGGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (18 bp):
TGGGTATTGGGTGTTGTG
Found at i:7672597 original size:17 final size:18
Alignment explanation
Indices: 7672575--7672613 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7672565 AAATTAATAA
7672575 AATAAAAATAAAT-AAAT
1 AATAAAAATAAATAAAAT
*
7672592 AATAAAACTAAATAAAAT
1 AATAAAAATAAATAAAAT
7672610 AATA
1 AATA
7672614 TCTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAATAAATAAAAT
Found at i:7672597 original size:22 final size:23
Alignment explanation
Indices: 7672564--7672611 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
7672554 TAGCCTATTC
7672564 TAAATTAATAAAA-TAAAAATAAA
1 TAAATTAATAAAACTAAAAA-AAA
*
7672587 TAAA-TAATAAAACTAAATAAAA
1 TAAATTAATAAAACTAAAAAAAA
7672609 TAA
1 TAA
7672612 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAATTAATAAAACTAAAAAAAA
Found at i:7673527 original size:2 final size:2
Alignment explanation
Indices: 7673520--7673546 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7673510 TGTATGGGAT
7673520 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7673547 GAGAATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7674898 original size:79 final size:79
Alignment explanation
Indices: 7674745--7674906 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 79
7674735 TAAAAACTAG
* * * *
7674745 CTTATGTTTTGTAATATTGTTGCTAGTATATTGTTGCTTATGTTGTTATACATGGCTACCGGTAT
1 CTTACGTTTTGTAATATTGTTACTAGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
* *
7674810 GCATGGCTAACCAA
66 ACATAGCTAACCAA
* * * *
7674824 CTTACGTTTTGTAATATTGTTACTGGTGTATTGTTGCTTATGTTCTTATACATGGCTGCTAGTAT
1 CTTACGTTTTGTAATATTGTTACTAGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
* *
7674889 ACCTAGCTAACCAG
66 ACATAGCTAACCAA
7674903 CTTA
1 CTTA
7674907 TGTTGTTGCT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (79 bp):
CTTACGTTTTGTAATATTGTTACTAGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
ACATAGCTAACCAA
Found at i:7675768 original size:77 final size:78
Alignment explanation
Indices: 7675641--7675818 Score: 232
Period size: 77 Copynumber: 2.3 Consensus size: 78
7675631 AAAAAGCAGT
* * *
7675641 TACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCCCCACCAACAATCATACACAGA
1 TACTGCATGCATATTAAAAAACAATCAACAACATATGACCAACCCCACCAACAATCATACACAGA
* *
7675706 CAAATT-AAAAAG
66 AAAATTAAAAAAA
* * * * * *
7675718 TACTGCATGCATATTAAAAAACAATCAACAGCATGTTAGCAACCCTACCAACAATTATACACAGA
1 TACTGCATGCATATTAAAAAACAATCAACAACATATGACCAACCCCACCAACAATCATACACAGA
7675783 AAAATTAAAAAAA
66 AAAATTAAAAAAA
* *
7675796 TGCTACATGCATATTAAAAAACA
1 TACTGCATGCATATTAAAAAACA
7675819 CTCACTAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
77 61 0.70
78 26 0.30
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.21
Consensus pattern (78 bp):
TACTGCATGCATATTAAAAAACAATCAACAACATATGACCAACCCCACCAACAATCATACACAGA
AAAATTAAAAAAA
Found at i:7677513 original size:15 final size:15
Alignment explanation
Indices: 7677489--7677538 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
7677479 TTATCCTATT
7677489 AGACACATCACTTTC
1 AGACACATCACTTTC
* **
7677504 AGATACATCACTACC
1 AGACACATCACTTTC
*
7677519 AGACACATCAGTTTC
1 AGACACATCACTTTC
7677534 AGACA
1 AGACA
7677539 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (15 bp):
AGACACATCACTTTC
Found at i:7683395 original size:14 final size:14
Alignment explanation
Indices: 7683359--7683397 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7683349 TCATTTGATT
*
7683359 AAAAATGACTTCTA
1 AAAAATGATTTCTA
*
7683373 AAAAATGATTTCTG
1 AAAAATGATTTCTA
7683387 AAAAATGATTT
1 AAAAATGATTT
7683398 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (14 bp):
AAAAATGATTTCTA
Found at i:7683873 original size:15 final size:15
Alignment explanation
Indices: 7683853--7683906 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
7683843 ATACTACAAA
7683853 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
7683868 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
7683885 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
7683902 ATATT
1 ATATT
7683907 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:7683970 original size:16 final size:16
Alignment explanation
Indices: 7683939--7683975 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
7683929 ATGTGAATAA
7683939 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
7683955 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
7683971 TATTA
1 TATTA
7683976 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:7684027 original size:22 final size:22
Alignment explanation
Indices: 7683983--7684042 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
7683973 TTAAAATAAA
*
7683983 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
7684003 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
7684025 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
7684043 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:7684302 original size:19 final size:19
Alignment explanation
Indices: 7684278--7684315 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7684268 ACCTATAAAT
*
7684278 TATTTTCTATTAACCAAAC
1 TATTTTCTATTAAACAAAC
*
7684297 TATTTTCTGTTAAACAAAC
1 TATTTTCTATTAAACAAAC
7684316 ATAAGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (19 bp):
TATTTTCTATTAAACAAAC
Found at i:7692712 original size:44 final size:44
Alignment explanation
Indices: 7692662--7692750 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
7692652 GCAAAAGTGT
7692662 AAATAAGTGAATATATGTATTGAATTGAATAGTTTATGAATTAA
1 AAATAAGTGAATATATGTATTGAATTGAATAGTTTATGAATTAA
7692706 AAATAAGTGAATATATGTATTGAATTGAATAGTTTATGAATTAA
1 AAATAAGTGAATATATGTATTGAATTGAATAGTTTATGAATTAA
7692750 A
1 A
7692751 GGTTAATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (44 bp):
AAATAAGTGAATATATGTATTGAATTGAATAGTTTATGAATTAA
Found at i:7695376 original size:54 final size:53
Alignment explanation
Indices: 7695295--7695456 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 53
7695285 CCATGGCAAC
7695295 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * *
7695348 ATGTGATCATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
7695402 ATGTGATTATGTG-CTTCCGTATAAGACCATATCTGGGATATGACATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
7695455 AT
1 AT
7695457 ATATGCTACT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 42 0.43
54 54 0.56
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:7695449 original size:53 final size:51
Alignment explanation
Indices: 7695295--7695559 Score: 210
Period size: 54 Copynumber: 5.3 Consensus size: 51
7695285 CCATGGCAAC
* *
7695295 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGG-G-G
* * *
7695348 ATGTGATCATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGAT-ATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGG-G-G
* *
7695402 ATGTGATTATGTG-CTTCCGTATAAGACCATATCTGGGATATGACATC--GG
1 ATGTGA-TATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGGG
* * * * * **
7695451 -TGTGATATATG-CTACTGTATAAGTCCATATCTGGGATATGGCAT--TAG
1 ATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGGG
* * * * * *
7695498 -TGTGATATGTGA--TCCATGTAAGACCATGGCTGGGCTATGGCTTCGGTG
1 ATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGGG
*
7695546 -TGTAATATGTGACT
1 ATGTGATATGTGACT
7695560 ATGTGCAAGA
Statistics
Matches: 177, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
46 22 0.12
47 45 0.25
48 17 0.10
49 1 0.01
50 1 0.01
53 36 0.20
54 54 0.31
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGATATGGCATCGGGG
Found at i:7697467 original size:40 final size:40
Alignment explanation
Indices: 7697403--7697506 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
7697393 AAAATTGAAT
* * * *
7697403 AGATAGAGTATTAGCGGTGTTTTTATGAAATCGCCGCTAA
1 AGATAGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* *
7697443 AGATCGAGCATTAGCGGCGTTTTTAAGGAAGCGCCGCTAA
1 AGATAGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* *
7697483 AGATTGA-CCTATAGCGGCGTTTTT
1 AGATAGAGCAT-TAGCGGCGTTTTT
7697507 TTAGATTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.04
40 53 0.96
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (40 bp):
AGATAGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:7698967 original size:26 final size:26
Alignment explanation
Indices: 7698930--7699064 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
7698920 TGATACAAAT
*
7698930 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7698956 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7698982 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7699008 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7699033 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7699059 TGATAA
1 TGATAA
7699065 GAATATCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 25 0.24
26 78 0.76
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7704777 original size:26 final size:26
Alignment explanation
Indices: 7704740--7704875 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
7704730 TGATACAAAT
* *
7704740 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7704766 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
7704792 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7704818 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7704844 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7704870 TGATAA
1 TGATAA
7704876 GAATTCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:7706892 original size:136 final size:136
Alignment explanation
Indices: 7706648--7706906 Score: 509
Period size: 136 Copynumber: 1.9 Consensus size: 136
7706638 GAGTAGTCTC
*
7706648 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
7706713 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
7706778 CTGTTA
131 CTGTTA
7706784 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
7706849 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
7706907 CAGTTACCTG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 122 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
CTGTTA
Found at i:7707667 original size:18 final size:18
Alignment explanation
Indices: 7707644--7707716 Score: 112
Period size: 18 Copynumber: 4.1 Consensus size: 18
7707634 GCTACATTAA
*
7707644 ATATGATTGCAATCTTAG
1 ATATGATTACAATCTTAG
7707662 ATATGA-TACAATCTTAG
1 ATATGATTACAATCTTAG
*
7707679 ATATGATTGCAATCTTAG
1 ATATGATTACAATCTTAG
7707697 ATATGATATACAATCTTAG
1 ATATGAT-TACAATCTTAG
7707716 A
1 A
7707717 AGATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
17 16 0.32
18 23 0.46
19 11 0.22
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATATGATTACAATCTTAG
Found at i:7707675 original size:17 final size:17
Alignment explanation
Indices: 7707653--7707716 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
7707643 AATATGATTG
7707653 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
7707670 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
7707688 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
7707707 CAATCTTAGA
1 CAATCTTAGA
7707717 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:7707690 original size:35 final size:36
Alignment explanation
Indices: 7707644--7707716 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 36
7707634 GCTACATTAA
7707644 ATATGATTGCAATCTTAGATATG-ATACAATCTTAG
1 ATATGATTGCAATCTTAGATATGAATACAATCTTAG
7707679 ATATGATTGCAATCTTAGATATGATATACAATCTTAG
1 ATATGATTGCAATCTTAGATATGA-ATACAATCTTAG
7707716 A
1 A
7707717 AGATATGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 23 0.64
37 13 0.36
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
ATATGATTGCAATCTTAGATATGAATACAATCTTAG
Found at i:7708038 original size:12 final size:11
Alignment explanation
Indices: 7708023--7708056 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
7708013 AATTTTTAAT
7708023 TTATTATATATA
1 TTATT-TATATA
7708035 TTATTTATTATA
1 TTATTTA-TATA
7708047 TTATTTATAT
1 TTATTTATAT
7708057 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:7708048 original size:21 final size:21
Alignment explanation
Indices: 7708024--7708132 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
7708014 ATTTTTAATT
7708024 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
7708045 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
7708063 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
7708082 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
7708105 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
7708126 TATTATA
1 TATTATA
7708133 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:7708054 original size:16 final size:16
Alignment explanation
Indices: 7708021--7708051 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7708011 CTAATTTTTA
7708021 ATTTATTATATATATT
1 ATTTATTATATATATT
7708037 ATTTATTATAT-TATT
1 ATTTATTATATATATT
7708052 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:7708265 original size:25 final size:24
Alignment explanation
Indices: 7708233--7708303 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
7708223 TAAAATTCAC
7708233 TATTAAATATTATATTTTTATG-TA
1 TATTAAATATTATATTTTT-TGATA
* *
7708257 TTATTAAATGTTTATATTATTTGATA
1 -TATTAAAT-ATTATATTTTTTGATA
*
7708283 TAATACAATATTATATTTTTT
1 TATTA-AATATTATATTTTTT
7708304 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTAAATATTATATTTTTTGATA
Found at i:7708520 original size:3 final size:3
Alignment explanation
Indices: 7708512--7708576 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
7708502 TATGTTACTA
7708512 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7708560 TAT TAT TAT ATAT TAT T
1 TAT TAT TAT -TAT TAT T
7708577 GTATTTGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7709666 original size:21 final size:21
Alignment explanation
Indices: 7709623--7709722 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 21
7709613 CCTTAAATTA
* * *
7709623 TAAAACTTAAAACTATAAGCCC
1 TAAATCTTAAATC-ATAAACCC
7709645 TAAATCTTAAATCATAAACCC
1 TAAATCTTAAATCATAAACCC
** * *
7709666 TAAATCCAAAACCATAAAACCT
1 TAAATCTTAAATCAT-AAACCC
7709688 TAAA-CTATAAA-CAGTAAACCC
1 TAAATCT-TAAATCA-TAAACCC
7709709 TTAAATACTTAAAT
1 -TAAAT-CTTAAAT
7709723 ACTAAGTCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
21 27 0.44
22 28 0.46
23 4 0.07
24 2 0.03
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAATCTTAAATCATAAACCC
Found at i:7710045 original size:3 final size:3
Alignment explanation
Indices: 7710037--7710082 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
7710027 ATTAATAGTA
7710037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7710083 GAGAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7713220 original size:18 final size:18
Alignment explanation
Indices: 7713197--7713233 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7713187 AGAAAAGATG
7713197 ACTTGTAAAACATAAATT
1 ACTTGTAAAACATAAATT
7713215 ACTTGTAAAACATAAATT
1 ACTTGTAAAACATAAATT
7713233 A
1 A
7713234 AATTAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ACTTGTAAAACATAAATT
Found at i:7713376 original size:15 final size:15
Alignment explanation
Indices: 7713358--7713412 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
7713348 ATTTGGATTA
*
7713358 ATTTATTTAAATATT
1 ATTTAATTAAATATT
7713373 ATTTAATTAATATAATT
1 ATTTAATTAA-AT-ATT
7713390 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
7713402 ATTTAATTAAA
1 ATTTAATTAAA
7713413 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 4 0.12
15 14 0.41
16 5 0.15
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:7713388 original size:29 final size:29
Alignment explanation
Indices: 7713356--7713421 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
7713346 TAATTTGGAT
*
7713356 TAATTTATT-TAAATATTATTTAATTAATA
1 TAATTT-TTATAAATATTATTTAATTAAAA
7713385 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
7713414 TAATTTTT
1 TAATTTTT
7713422 TTTCATGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:7713394 original size:20 final size:20
Alignment explanation
Indices: 7713335--7713394 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
7713325 TCAATGTTAT
**
7713335 TTTAATTAATATAATTTGGA
1 TTTAATTAATATAATTTTTA
* * * *
7713355 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTTTA
7713374 TTTAATTAATATAATTTTTA
1 TTTAATTAATATAATTTTTA
7713394 T
1 T
7713395 AAATATTATT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAATTAATATAATTTTTA
Found at i:7713703 original size:9 final size:9
Alignment explanation
Indices: 7713691--7713904 Score: 225
Period size: 9 Copynumber: 24.9 Consensus size: 9
7713681 TTGAACTCAT
7713691 ATAACTTAC
1 ATAACTTAC
7713700 ATAACTTAC
1 ATAACTTAC
7713709 ATAACTTAC
1 ATAACTTAC
*
7713718 ATAACTCAC
1 ATAACTTAC
7713727 ATAAC-T--
1 ATAACTTAC
7713733 -T-ACTTAC
1 ATAACTTAC
*
7713740 ATAACTCAC
1 ATAACTTAC
7713749 ATAACTTAC
1 ATAACTTAC
*
7713758 ATAACTTAT
1 ATAACTTAC
7713767 ATAACTTAC
1 ATAACTTAC
*
7713776 ATAACTCAC
1 ATAACTTAC
7713785 ATAACTTAC
1 ATAACTTAC
7713794 ATAACTT--
1 ATAACTTAC
*
7713801 AT-ATTTAC
1 ATAACTTAC
*
7713809 ATAACTCAC
1 ATAACTTAC
*
7713818 ATAACTCAC
1 ATAACTTAC
7713827 ATAACTTAC
1 ATAACTTAC
*
7713836 AGAACTTAC
1 ATAACTTAC
*
7713845 ATAATTTAC
1 ATAACTTAC
7713854 ATAACTTAC
1 ATAACTTAC
7713863 ATAA--TAC
1 ATAACTTAC
* *
7713870 ATAA-ATAT
1 ATAACTTAC
* *
7713878 ATATCATATC
1 ATAACTTA-C
7713888 ATAACTTAC
1 ATAACTTAC
7713897 ATAACTTA
1 ATAACTTA
7713905 ATTAGAGTTA
Statistics
Matches: 173, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.02
7 9 0.05
8 8 0.05
9 143 0.83
10 6 0.03
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:7717342 original size:12 final size:12
Alignment explanation
Indices: 7717325--7717351 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7717315 GAAGATCGAG
7717325 TGATGAATCTGA
1 TGATGAATCTGA
7717337 TGATGAATCTGA
1 TGATGAATCTGA
7717349 TGA
1 TGA
7717352 AGAGGATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (12 bp):
TGATGAATCTGA
Found at i:7721138 original size:21 final size:21
Alignment explanation
Indices: 7721114--7721169 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
7721104 CGGAGGCAAC
*
7721114 AGCGAGGGAGGCAGCGGCAGT
1 AGCGAGGGAGGCAGCGGCAGG
7721135 AGCGAGGGAGGCAGCGGCAGG
1 AGCGAGGGAGGCAGCGGCAGG
*
7721156 AGTGAGGGAGGCAG
1 AGCGAGGGAGGCAG
7721170 AGCAGAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.55, T:0.04
Consensus pattern (21 bp):
AGCGAGGGAGGCAGCGGCAGG
Found at i:7721592 original size:43 final size:43
Alignment explanation
Indices: 7721532--7721732 Score: 278
Period size: 43 Copynumber: 4.7 Consensus size: 43
7721522 GTTTGTGAAA
* **
7721532 ACAAGCGCCGCTAAAAGCCATGACTTTTAGCGGTGCTT-CCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
* * *
7721574 AACAAATGTCGCTAAAAGCCATGACTTTTAGCGGCATTTCCCCT
1 -ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
* *
7721618 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
**
7721661 ACAAACATCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
*
7721704 ACAAACGCCGTTAAAAGCCATGATCTTTT
1 ACAAACGCCGCTAAAAGCCATGA-CTTTT
7721733 GTGGCGTTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
43 129 0.93
44 9 0.07
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
Found at i:7721682 original size:86 final size:86
Alignment explanation
Indices: 7721532--7721732 Score: 323
Period size: 86 Copynumber: 2.3 Consensus size: 86
7721522 GTTTGTGAAA
* * **
7721532 ACAAGCGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTCCCTAACAAATGTCGCTAAAAGCCATG
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCTAACAAACATCGCTAAAAGCCATG
*
7721597 ACTTTTAGCGGCATTTCCCCT
66 ACTTTTAGCGGCACTTCCCCT
7721618 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCCT-ACAAACATCGCTAAAAGCCAT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTC-CCTAACAAACATCGCTAAAAGCCAT
7721682 GACTTTTAGCGGCACTTCCCCT
65 GACTTTTAGCGGCACTTCCCCT
*
7721704 ACAAACGCCGTTAAAAGCCATGATCTTTT
1 ACAAACGCCGCTAAAAGCCATGA-CTTTT
7721733 GTGGCGTTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
86 99 0.93
87 8 0.07
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (86 bp):
ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCTAACAAACATCGCTAAAAGCCATG
ACTTTTAGCGGCACTTCCCCT
Found at i:7722605 original size:33 final size:29
Alignment explanation
Indices: 7722525--7722586 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
7722515 AGAATATTTG
*
7722525 TATTATGAATGAAATTATTTATTGTATGT
1 TATTATGAATGAAATTGTTTATTGTATGT
7722554 TATTATGAATGAAATTGTTTATTGTATGT
1 TATTATGAATGAAATTGTTTATTGTATGT
7722583 TATT
1 TATT
7722587 GAATAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (29 bp):
TATTATGAATGAAATTGTTTATTGTATGT
Found at i:7735857 original size:7 final size:7
Alignment explanation
Indices: 7735847--7735872 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7735837 AAAAAATTCA
7735847 AAATTTT
1 AAATTTT
7735854 AAATTTT
1 AAATTTT
7735861 AAATTTT
1 AAATTTT
7735868 AAATT
1 AAATT
7735873 CATGTTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:7735857 original size:14 final size:14
Alignment explanation
Indices: 7735840--7735874 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7735830 AATAAAAAAA
7735840 AAATTCAAAATTTT
1 AAATTCAAAATTTT
**
7735854 AAATTTTAAATTTT
1 AAATTCAAAATTTT
7735868 AAATTCA
1 AAATTCA
7735875 TGTTGTCAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTCAAAATTTT
Found at i:7737909 original size:24 final size:22
Alignment explanation
Indices: 7737882--7737940 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
7737872 AGCCCCCCTT
*
7737882 TTTTTTGTTTTGAGTAATTTTTTC
1 TTTTTTGTTTTGA--AATTTCTTC
* *
7737906 TTTTATGTCTTTGAACTTTCTTC
1 TTTTTTGT-TTTGAAATTTCTTC
7737929 TTTTTATGTTTT
1 TTTTT-TGTTTT
7737941 TATTTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.48
24 10 0.34
25 5 0.17
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (22 bp):
TTTTTTGTTTTGAAATTTCTTC
Found at i:7755629 original size:22 final size:22
Alignment explanation
Indices: 7755604--7755657 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
7755594 AAAATGGTTT
7755604 TTTTTTTTTTTGAAAATCTATA
1 TTTTTTTTTTTGAAAATCTATA
7755626 TTTTTTTTTTTGAAAATCTATA
1 TTTTTTTTTTTGAAAATCTATA
7755648 TTTTTTTTTT
1 TTTTTTTTTT
7755658 CAAATGGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTTTGAAAATCTATA
Found at i:7761703 original size:34 final size:34
Alignment explanation
Indices: 7761665--7761782 Score: 130
Period size: 34 Copynumber: 3.5 Consensus size: 34
7761655 TTATAGTACT
*
7761665 ATTTGGTGT-CTTGGATGGTTTAGCTCATACGAGC
1 ATTTGGTGTGC-TGGATGGATTAGCTCATACGAGC
* *
7761699 ATTTGGTGTGCTAGATGGATTAGCTCATACAAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* * * *
7761733 ATCTAGTGTGCTGGATGGATTAGCTTATACGATC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
***
7761767 ATCCAGTGTGCTGGAT
1 ATTTGGTGTGCTGGAT
7761783 AGTTAACGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 72 0.99
35 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
Found at i:7762836 original size:19 final size:20
Alignment explanation
Indices: 7762812--7762854 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7762802 CTATTTTGGA
7762812 AAATTTTCAT-TTTTGTCCT
1 AAATTTTCATGTTTTGTCCT
* *
7762831 AAA-TTTCTTGTTTTGTTCT
1 AAATTTTCATGTTTTGTCCT
7762850 AAATT
1 AAATT
7762855 GGTCCCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 14 0.70
20 1 0.05
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (20 bp):
AAATTTTCATGTTTTGTCCT
Found at i:7766617 original size:11 final size:11
Alignment explanation
Indices: 7766603--7766643 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
7766593 TGTTTTCTCC
7766603 CTATTTTGCTA
1 CTATTTTGCTA
*
7766614 CTATTTTACTA
1 CTATTTTGCTA
* *
7766625 TTATGTTGCTA
1 CTATTTTGCTA
7766636 CTATTTTG
1 CTATTTTG
7766644 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:7766880 original size:11 final size:11
Alignment explanation
Indices: 7766860--7766894 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7766850 AGTTTATATA
*
7766860 TATATTAAAAT
1 TATATAAAAAT
7766871 TATATAAAAAT
1 TATATAAAAAT
*
7766882 AATATAAAAAT
1 TATATAAAAAT
7766893 TA
1 TA
7766895 AATATGAGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TATATAAAAAT
Found at i:7767459 original size:13 final size:13
Alignment explanation
Indices: 7767441--7767465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7767431 TTAAAATTTA
7767441 TATTTATATTTTC
1 TATTTATATTTTC
7767454 TATTTATATTTT
1 TATTTATATTTT
7767466 ATTATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATATTTTC
Found at i:7769120 original size:13 final size:13
Alignment explanation
Indices: 7769104--7769131 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7769094 TATGACAAAC
7769104 TGATAATCTAAAG
1 TGATAATCTAAAG
7769117 TGATAATCTAAAG
1 TGATAATCTAAAG
7769130 TG
1 TG
7769132 CTTTATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (13 bp):
TGATAATCTAAAG
Found at i:7779263 original size:25 final size:25
Alignment explanation
Indices: 7779235--7779284 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7779225 ATAGTATGTA
7779235 CATATAAATAAGTTATGTTCATATT
1 CATATAAATAAGTTATGTTCATATT
*
7779260 CATATAAATAAGTTATGTTTATATT
1 CATATAAATAAGTTATGTTCATATT
7779285 TGACCATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (25 bp):
CATATAAATAAGTTATGTTCATATT
Found at i:7782265 original size:28 final size:28
Alignment explanation
Indices: 7782232--7782304 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
7782222 GGTTTTAGAT
7782232 ATTAAATGTAGGAAAAATGCATTAAGAC
1 ATTAAATGTAGGAAAAATGCATTAAGAC
* *
7782260 ATTAAATGTAAGG-AAAATGTATTAAGGC
1 ATTAAATGT-AGGAAAAATGCATTAAGAC
7782288 ATTAAATGTAGAGAAAA
1 ATTAAATGTAG-GAAAA
7782305 GATTATTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 32 0.80
29 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (28 bp):
ATTAAATGTAGGAAAAATGCATTAAGAC
Found at i:7784392 original size:46 final size:44
Alignment explanation
Indices: 7784328--7784442 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
7784318 ACAGGACAGA
* * *
7784328 ACAAAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAAGAATGAGTCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
7784374 ACAGGATTGAGTCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAAGAATGAGTCATGTAAGTCCATATTAAATATGGCATTGGAG
* *
7784418 ACAAGAATAATTCATGTAAGTCCAT
1 ACAAGAATGAGTCATGTAAGTCCAT
7784443 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 35 0.59
46 24 0.41
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAGAATGAGTCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:7784433 original size:44 final size:45
Alignment explanation
Indices: 7784340--7784461 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 45
7784330 AAAAATGAGC
* * * *
7784340 CATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGAGT
1 CATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATAAGT
* *
7784386 CATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATAATT
1 CATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATAAGT
* * *
7784430 CATGTAAGTCCATGTCAAAGACATGGCATTGG
1 CATGTAAGTCCATATTAAA-ATATGGCATTGG
7784462 CAGGATATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.56
45 1 0.02
46 27 0.42
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (45 bp):
CATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATAAGT
Found at i:7802351 original size:28 final size:28
Alignment explanation
Indices: 7802292--7802353 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
7802282 GCTTAACCAG
* ** * * *
7802292 AACAGAACAACATCGTAGTACTTATTAG
1 AACAGAACAACACCACAGTACATATCAA
7802320 AACAGAACAACACCACAGTACATATCAA
1 AACAGAACAACACCACAGTACATATCAA
7802348 AACAGA
1 AACAGA
7802354 GAGCACACTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.23, G:0.11, T:0.16
Consensus pattern (28 bp):
AACAGAACAACACCACAGTACATATCAA
Found at i:7803254 original size:11 final size:11
Alignment explanation
Indices: 7803238--7803266 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
7803228 GGCATATTAG
7803238 TTCTAATCAAA
1 TTCTAATCAAA
7803249 TTCTAATCAAA
1 TTCTAATCAAA
7803260 TTCTAAT
1 TTCTAAT
7803267 TAAGCCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTAATCAAA
Found at i:7818325 original size:2 final size:2
Alignment explanation
Indices: 7818318--7818344 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7818308 GAACGCACTC
7818318 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7818345 AAGAAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7818501 original size:22 final size:21
Alignment explanation
Indices: 7818467--7818510 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
7818457 AAGCCATGTT
7818467 ATGAGAGATTATATAATAAAAG
1 ATGAGAGATTATAT-ATAAAAG
*
7818489 ATGAGA-ATATATATTTAAAAG
1 ATGAGAGAT-TATATATAAAAG
7818510 A
1 A
7818511 AACTATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (21 bp):
ATGAGAGATTATATATAAAAG
Found at i:7820390 original size:2 final size:2
Alignment explanation
Indices: 7820385--7820411 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7820375 CTAAAAAAAG
7820385 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7820412 GTAATAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7820947 original size:15 final size:15
Alignment explanation
Indices: 7820923--7820953 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7820913 CTAAAGGTGA
*
7820923 TTTTCTTTTTTTCAT
1 TTTTCATTTTTTCAT
7820938 TTTTCATTTTTTCAT
1 TTTTCATTTTTTCAT
7820953 T
1 T
7820954 ACTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTTTTCAT
Found at i:7822067 original size:50 final size:50
Alignment explanation
Indices: 7821989--7822165 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
7821979 CCATGGCAAC
*
7821989 AAGTGATAAGTGATAGCTTCGGCCACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
7822039 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
7822089 AAGTGATAAGTGATAGCTTCGGCTACACCTATCTGATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
7822139 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
7822166 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 1 0.01
50 91 0.78
51 24 0.21
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:7822179 original size:31 final size:31
Alignment explanation
Indices: 7822141--7822247 Score: 169
Period size: 31 Copynumber: 3.5 Consensus size: 31
7822131 ACAAATGACA
* *
7822141 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
*
7822172 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
*
7822203 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
*
7822234 AGTGAATAGTGGTA
1 AGTGAAAAGTGGTA
7822248 ACTTCGACTA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
Found at i:7822346 original size:47 final size:46
Alignment explanation
Indices: 7822276--7822398 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
7822266 AAGTAATTTC
* *
7822276 CGTATAAGACCATATTTGGGATATGGCATCAGTGTGATATATGCTATT
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG--ATT
*
7822324 -GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATT
* * *
7822369 CGCATAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
7822399 GATATATGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 3 0.04
46 26 0.38
47 39 0.57
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATT
Found at i:7822428 original size:42 final size:43
Alignment explanation
Indices: 7822373--7822484 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 43
7822363 GTGATTCGCA
*
7822373 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTG
*
7822415 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTG
* **
7822457 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
7822485 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTG
Found at i:7827277 original size:8 final size:7
Alignment explanation
Indices: 7827256--7827309 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 7
7827246 ATGTTTAGCA
7827256 TTTA-TT
1 TTTATTT
7827262 TTTATTT
1 TTTATTT
7827269 TTCTATTT
1 TT-TATTT
7827277 TTTA--T
1 TTTATTT
7827282 TTTATTT
1 TTTATTT
*
7827289 TTT-GTT
1 TTTATTT
7827295 TTTATTT
1 TTTATTT
7827302 ATTTATTT
1 -TTTATTT
7827310 ATTTTCTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.12
6 9 0.22
7 12 0.30
8 14 0.35
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTATTT
Found at i:7827291 original size:21 final size:22
Alignment explanation
Indices: 7827255--7827309 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
7827245 AATGTTTAGC
7827255 ATTTATTTT-TATTTTTCTATTT
1 ATTTATTTTAT-TTTTTCTATTT
* *
7827277 -TTTATTTTATTTTTTGTTTTT
1 ATTTATTTTATTTTTTCTATTT
7827298 ATTTA-TTTATTT
1 ATTTATTTTATTT
7827310 ATTTTCTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (22 bp):
ATTTATTTTATTTTTTCTATTT
Found at i:7827897 original size:17 final size:17
Alignment explanation
Indices: 7827875--7827909 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7827865 AATTTTTTTA
7827875 GGCAATGTTCTGCATTT
1 GGCAATGTTCTGCATTT
*
7827892 GGCAATGTTTTGCATTT
1 GGCAATGTTCTGCATTT
7827909 G
1 G
7827910 AAAATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (17 bp):
GGCAATGTTCTGCATTT
Found at i:7829734 original size:3 final size:3
Alignment explanation
Indices: 7829721--7829825 Score: 65
Period size: 3 Copynumber: 35.7 Consensus size: 3
7829711 ATTAATTGGA
* * * * *
7829721 TAT TTT TAT TAT TAT T-G TATT TAT TAT TAT TGT TGT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * **
7829766 T-T T-T TAT TGT TAC TAT TAT TAT TACA TAT TAT TAT TCG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
*
7829810 TAT TTT TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TA
7829826 CCAGTATTAA
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 7 0.09
3 66 0.86
4 4 0.05
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7830067 original size:20 final size:22
Alignment explanation
Indices: 7830025--7830077 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
7830015 ATCGTTAACA
*
7830025 TATTATTATGCTTATTAATTTAC
1 TATTATTAT-TTTATTAATTTAC
7830048 TATTATTATTTTATT-A-TTAC
1 TATTATTATTTTATTAATTTAC
7830068 TATTATTATT
1 TATTATTATT
7830078 GTCGTATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.48
21 1 0.03
22 5 0.17
23 9 0.31
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATTATTTTATTAATTTAC
Found at i:7830085 original size:20 final size:20
Alignment explanation
Indices: 7830044--7830087 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7830034 GCTTATTAAT
* *
7830044 TTACTATTATTATTTTATTA
1 TTACTATTATTATTGTAGTA
*
7830064 TTACTATTATTATTGTCGTA
1 TTACTATTATTATTGTAGTA
7830084 TTAC
1 TTAC
7830088 AAAACTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (20 bp):
TTACTATTATTATTGTAGTA
Found at i:7831423 original size:24 final size:23
Alignment explanation
Indices: 7831385--7831431 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
7831375 TAAAAAAATA
*
7831385 TATAAATTTAATTATATTAATTTT
1 TATAAATCTAATTAT-TTAATTTT
*
7831409 TATAAATCTATTTATTTAATTTT
1 TATAAATCTAATTATTTAATTTT
7831432 AAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATAAATCTAATTATTTAATTTT
Found at i:7833667 original size:102 final size:102
Alignment explanation
Indices: 7833483--7833687 Score: 270
Period size: 102 Copynumber: 2.0 Consensus size: 102
7833473 AGAGTGTCAC
*
7833483 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAATATTAAAATAAAACTAATTTTCAACGTCAAA
1 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAAACTAATTTTCAACGTCAAA
** * * *
7833548 TACTGAAGTGGATAAAAGAATATAGGTACCAAACTAG
66 TACCAAAGTAGACAAAAGAATATAGGAACCAAACTAG
* * * * *
7833585 ATCATTGAATTTTGATTATTTTTGGAAGTTTAAAGATTAAAATGAATA-TAATTGTT-AACTTCA
1 ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAAT-AAAACTAATT-TTCAACGTCA
*
7833648 AATACCAAAGTAGACAAAAGAATATAGGAACTAAACTAG
64 AATACCAAAGTAGACAAAAGAATATAGGAACCAAACTAG
7833687 A
1 A
7833688 CTTAAGGTGG
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 84 0.94
103 5 0.06
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (102 bp):
ATCATTGAACTTTGATTATTTTTCGAAGTTCAAAGATTAAAATAAAACTAATTTTCAACGTCAAA
TACCAAAGTAGACAAAAGAATATAGGAACCAAACTAG
Found at i:7838007 original size:24 final size:25
Alignment explanation
Indices: 7837949--7838014 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
7837939 TAACCTCCCA
*
7837949 AAAATAATAAAAATTTTAATCCTTT
1 AAAATAATAAAAATTATAATCCTTT
*
7837974 AAAA-ATATAAAGA-TATAAT-CTATT
1 AAAATA-ATAAAAATTATAATCCT-TT
7837998 AAAATAAT-AAAATTATA
1 AAAATAATAAAAATTATA
7838015 TTTTTACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 5 0.15
24 18 0.53
25 11 0.32
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAATAATAAAAATTATAATCCTTT
Found at i:7850222 original size:52 final size:52
Alignment explanation
Indices: 7850133--7850270 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 52
7850123 GGACCATGGC
* *
7850133 AACAAGTGATAAGTGATATCTGTATAAGACTATAGCTGGGCTATGACATCAGAA
1 AACAAGTGATAAGTG--ATCCGTATAAGACCATAGCTGGGCTATGACATCAGAA
* * *
7850187 AACAAGTAATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAG
1 AACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGACATCAGAA
* *
7850239 AA-AAGTGATAAGTGCTCCCGTGTAAGACCATA
1 AACAAGTGATAAGTGAT-CCGTATAAGACCATA
7850271 TCCGAGATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 12 0.16
52 49 0.65
54 14 0.19
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (52 bp):
AACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGACATCAGAA
Found at i:7850282 original size:52 final size:52
Alignment explanation
Indices: 7850133--7850286 Score: 139
Period size: 52 Copynumber: 2.9 Consensus size: 52
7850123 GGACCATGGC
* * * * * * *
7850133 AACAAGTGATAAGTGATATCTGTATAAGACTATAGCTGGGCTATGACATCAGAA
1 AACAAGTAATAAGTG--ATCCGTATAAGACCATAGCCGAGATATGGCATCAGAA
* * * *
7850187 AACAAGTAATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAG
1 AACAAGTAATAAGTGATCCGTATAAGACCATAGCCGAGATATGGCATCAGAA
* * * *
7850239 AA-AAGTGATAAGTGCTCCCGTGTAAGACCATATCCGAGATATGGCATC
1 AACAAGTAATAAGTGAT-CCGTATAAGACCATAGCCGAGATATGGCATC
7850287 GGTATGATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 12 0.14
52 61 0.70
54 14 0.16
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
AACAAGTAATAAGTGATCCGTATAAGACCATAGCCGAGATATGGCATCAGAA
Done.