Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 58 of 125
Found at i:17679972 original size:34 final size:34
Alignment explanation
Indices: 17679934--17680000 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
17679924 TACAATTCAT
17679934 CACAAATAAATTGAGTAACTGAATTAAAACCCAG
1 CACAAATAAATTGAGTAACTGAATTAAAACCCAG
17679968 CACAAATAAATTGAGTAACTGAATTAAAACCCA
1 CACAAATAAATTGAGTAACTGAATTAAAACCCA
17680001 CGACAACAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (34 bp):
CACAAATAAATTGAGTAACTGAATTAAAACCCAG
Found at i:17681369 original size:18 final size:18
Alignment explanation
Indices: 17681348--17681385 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17681338 TGAATTTTCG
17681348 AATTCAAAT-AACTCGAAT
1 AATTCAAATAAAC-CGAAT
*
17681366 AATTCGAATAAACCGAAT
1 AATTCAAATAAACCGAAT
17681384 AA
1 AA
17681386 AACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:17681595 original size:33 final size:34
Alignment explanation
Indices: 17681522--17681596 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
17681512 CATAAACTAA
* * *
17681522 ACCCTAATTTTTTTAATTTTTTTCCTTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
*
17681556 ATCCAAATATTTTTAA-TTTTTACCTTTTA-CGTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTATC-TT
17681589 ACCCAAAT
1 ACCCAAAT
17681597 GTTGTTTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 1 0.03
33 21 0.60
34 13 0.37
ACGTcount: A:0.25, C:0.19, G:0.01, T:0.55
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
Found at i:17683367 original size:21 final size:22
Alignment explanation
Indices: 17683343--17683390 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
17683333 TTTTTTCTAA
17683343 TTTTTAGAAT-AATTTT-AATAG
1 TTTTTA-AATAAATTTTAAATAG
*
17683364 TTTTT-AATAAATTTTAAATAT
1 TTTTTAAATAAATTTTAAATAG
17683385 TTTTTA
1 TTTTTA
17683391 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTTAAATAAATTTTAAATAG
Found at i:17690759 original size:57 final size:57
Alignment explanation
Indices: 17690671--17690785 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
17690661 CTTAGGATGA
*
17690671 ATAACATCCTCTTTTTCACTAGAGCCACTTGTTGGATTCAATGGTTTTGGTAGAATT
1 ATAACATCCTCTTTTCCACTAGAGCCACTTGTTGGATTCAATGGTTTTGGTAGAATT
17690728 ATAACATCCTCTTTTCCACTAGAGCCACTTGTTGGATTCAATGGTTTTGGTAGAATT
1 ATAACATCCTCTTTTCCACTAGAGCCACTTGTTGGATTCAATGGTTTTGGTAGAATT
17690785 A
1 A
17690786 ATTTCACCGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (57 bp):
ATAACATCCTCTTTTCCACTAGAGCCACTTGTTGGATTCAATGGTTTTGGTAGAATT
Found at i:17690907 original size:30 final size:31
Alignment explanation
Indices: 17690864--17690931 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
17690854 ATAAAATTTT
* *
17690864 TAATTCAGTGACTTAAAT-AAAACTTTCAAA
1 TAATTTAGCGACTTAAATAAAAACTTTCAAA
17690894 TAATTTAGCGACTTAAATAAAAACTTTCAAA
1 TAATTTAGCGACTTAAATAAAAACTTTCAAA
*
17690925 TAGTTTA
1 TAATTTA
17690932 AAGATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (31 bp):
TAATTTAGCGACTTAAATAAAAACTTTCAAA
Found at i:17700624 original size:24 final size:24
Alignment explanation
Indices: 17700576--17700622 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17700566 AAGAATTAAT
17700576 TTGTCAATGCAAATATAAAATAAA
1 TTGTCAATGCAAATATAAAATAAA
*
17700600 TTGTCAGA-GCAAAT-TAAGATAAA
1 TTGTCA-ATGCAAATATAAAATAAA
17700623 ATGAATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (24 bp):
TTGTCAATGCAAATATAAAATAAA
Found at i:17708143 original size:18 final size:18
Alignment explanation
Indices: 17708082--17708147 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
17708072 AAAATAATAT
**
17708082 AATAATTTTATATTTCAA
1 AATAATTTTATATTAAAA
** * *
17708100 AATAATAATATAATAATATT
1 AATAATTTTATATTAA-A-A
17708120 AATAATTTTATATTAAAA
1 AATAATTTTATATTAAAA
17708138 AATAATTTTA
1 AATAATTTTA
17708148 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
18 21 0.58
19 2 0.06
20 13 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAATTTTATATTAAAA
Found at i:17708143 original size:38 final size:38
Alignment explanation
Indices: 17708057--17708143 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
17708047 AAAAAAATTA
*
17708057 TAAAAAATAAAAATTAAAATAATATAATAATTTTATAT
1 TAAAAAATAATAATTAAAATAATATAATAATTTTATAT
** *
17708095 TTCAAAATAATAA-TATAATAATATTAATAATTTTATAT
1 TAAAAAATAATAATTAAAATAATA-TAATAATTTTATAT
17708133 TAAAAAATAAT
1 TAAAAAATAAT
17708144 TTTAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 9 0.21
38 33 0.79
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (38 bp):
TAAAAAATAATAATTAAAATAATATAATAATTTTATAT
Found at i:17711609 original size:17 final size:17
Alignment explanation
Indices: 17711587--17711622 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
17711577 CGTATTATTT
17711587 TTTATTTT-TTTTAAATA
1 TTTATTTTATTTT-AATA
17711604 TTTATTTTATTTTAATA
1 TTTATTTTATTTTAATA
17711621 TT
1 TT
17711623 GAATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTTAATA
Found at i:17719697 original size:51 final size:51
Alignment explanation
Indices: 17719531--17719870 Score: 407
Period size: 51 Copynumber: 6.6 Consensus size: 51
17719521 GCTATAAACG
* *
17719531 AAAGAGTCCGATGACTAAGTGTCATCATGAGTAAACGAATCC-TTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
17719582 AAAGGTCTGATGACTAAGTCTCATCGTGAGTAAATGAAT-CTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
** *
17719632 AAAGGTTTGATGACTAAGTGTCATCGTAAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
17719683 AAAAGTCCGATGACTAAGTGTCAACGTGAGTAAATGAATTCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
17719734 AAAGGTTCGATGACTAAGTATCATCGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * * * **
17719785 AAGGGTCCGATGACTCAGTGCCATCGTGAGTATATAAATTCCTATACGGAAC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
17719837 AAAGGGGTCCGATGACTATA-TGTCATCGTGAGTA
1 AAA--GGTCCGATGACTA-AGTGTCATCGTGAGTA
17719871 TTAAATGAAA
Statistics
Matches: 246, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.00
50 76 0.31
51 134 0.54
52 9 0.04
54 25 0.10
55 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:17726008 original size:2 final size:2
Alignment explanation
Indices: 17726001--17726025 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17725991 AATTACCATT
17726001 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 T
17726026 GTGAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17727016 original size:51 final size:51
Alignment explanation
Indices: 17726857--17727135 Score: 348
Period size: 51 Copynumber: 5.5 Consensus size: 51
17726847 GACAGAGTCT
* *
17726857 GATGACTAAGTGTCATTGTGAGTAAATGAATCC-TTACGGATTAAAGGTTC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
17726907 GATGACTAAGTGTCATCGTGAGTAAATGAAT-CTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* *
17726957 GATAACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * * * *
17727008 GATGACTAAGTATCATCGTGAGTAAATGAATCCATGACGAATTAAGGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * * * * **
17727059 GATGACTCAGTGTCATCGTGAGTATATAAATTCCTATACAGAACAAAGGGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAAA--GGTCC
**
17727113 GATGACT-TTTGTCATCGTGAGTA
1 GATGACTAAGTGTCATCGTGAGTA
17727136 TTAAATGAAA
Statistics
Matches: 199, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 75 0.38
51 89 0.45
52 8 0.04
53 14 0.07
54 12 0.06
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
Found at i:17727035 original size:101 final size:101
Alignment explanation
Indices: 17726861--17727082 Score: 338
Period size: 101 Copynumber: 2.2 Consensus size: 101
17726851 GAGTCTGATG
* * *
17726861 ACTAAGTGTCATTGTGAGTAAATGAATCCTTACGGATTAAAGGTTCGATGACTAAGTGTCATCGT
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTACGGATTAAAGGTCCGATGACTAAGTATCATCGT
* * *
17726926 GAGTAAATGAAT-CTTTACGGATTAAAGGTCCGATA
66 GAGTAAATGAATCCATGACGAATTAAAGGTCCGATA
*
17726961 ACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTATCATCG
1 ACTAAGTGTCATCGTGAGTAAATGAATCC-TTACGGATTAAAGGTCCGATGACTAAGTATCATCG
* *
17727026 TGAGTAAATGAATCCATGACGAATTAAGGGTCCGATG
65 TGAGTAAATGAATCCATGACGAATTAAAGGTCCGATA
*
17727063 ACTCAGTGTCATCGTGAGTA
1 ACTAAGTGTCATCGTGAGTA
17727083 TATAAATTCC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 27 0.25
101 46 0.42
102 36 0.33
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
ACTAAGTGTCATCGTGAGTAAATGAATCCTTACGGATTAAAGGTCCGATGACTAAGTATCATCGT
GAGTAAATGAATCCATGACGAATTAAAGGTCCGATA
Found at i:17733964 original size:17 final size:18
Alignment explanation
Indices: 17733942--17733982 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17733932 TTAGTTTTCA
17733942 TGCATTCTT-ATTGTGC-C
1 TGCATTCTTAATTGT-CAC
17733959 TGCATT-TTAATTGTCAC
1 TGCATTCTTAATTGTCAC
17733976 TGCATTC
1 TGCATTC
17733983 CTTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAC
Found at i:17738562 original size:30 final size:30
Alignment explanation
Indices: 17738517--17738595 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
17738507 AAATTAACAG
* *
17738517 AAAAAGTTCGGTTCGATTATTTTTTTTTGA
1 AAAAATTTCGATTCGATTATTTTTTTTTGA
17738547 AAAAATTTCGATTCGATTATTTTTTTTTGA
1 AAAAATTTCGATTCGATTATTTTTTTTTGA
17738577 AAAAATTTCGATTCGATTA
1 AAAAATTTCGATTCGATTA
17738596 ACGATTAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
AAAAATTTCGATTCGATTATTTTTTTTTGA
Found at i:17739327 original size:3 final size:3
Alignment explanation
Indices: 17739314--17739359 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
17739304 ATATAATATT
*
17739314 TCA TAA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
17739360 AATAAGTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:17743227 original size:20 final size:20
Alignment explanation
Indices: 17743199--17743277 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
17743189 CCACCTCATC
*
17743199 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
17743219 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
* *
17743239 AACTTA--TTGAAATTATTATA
1 AAATTATTTTAAAATTA-T-TA
*
17743259 AAATTAATTTAAAATTATT
1 AAATTATTTTAAAATTATT
17743278 TTTTTGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.11
17 2 0.04
20 20 0.43
21 3 0.07
22 16 0.35
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:17743264 original size:49 final size:52
Alignment explanation
Indices: 17743199--17743303 Score: 137
Period size: 49 Copynumber: 2.1 Consensus size: 52
17743189 CCACCTCATC
*
17743199 AAATGATTTTAAAATT-A-TTAAAATTA-TTTTTTAAAAT-ATAAACTTATT
1 AAATGATTATAAAATTAATTTAAAATTATTTTTTTAAAATAATAAACTTATT
* * *
17743247 GAAATTATTATAAAATTAATTTAAAATTATTTTTTTGAAATAATAAATTTATT
1 -AAATGATTATAAAATTAATTTAAAATTATTTTTTTAAAATAATAAACTTATT
17743300 AAAT
1 AAAT
17743304 AATTTTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 14 0.29
50 1 0.02
51 9 0.19
52 14 0.29
53 10 0.21
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (52 bp):
AAATGATTATAAAATTAATTTAAAATTATTTTTTTAAAATAATAAACTTATT
Found at i:17743321 original size:53 final size:51
Alignment explanation
Indices: 17743199--17743307 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 51
17743189 CCACCTCATC
* *
17743199 AAATGATTTTAAAATT-A-TTAAAATTATTTTTTAAAATATAAACTTATTG
1 AAATAATTATAAAATTAATTTAAAATTATTTTTTAAAATATAAACTTATTG
* * *
17743248 AAATTATTATAAAATTAATTTAAAATTATTTTTTTGAAATAATAAATTTATT-
1 AAATAATTATAAAATTAATTTAAAATTA-TTTTTTAAAAT-ATAAACTTATTG
17743300 AAATAATT
1 AAATAATT
17743308 TTAATTTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 14 0.27
50 1 0.02
51 9 0.18
52 17 0.33
53 10 0.20
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (51 bp):
AAATAATTATAAAATTAATTTAAAATTATTTTTTAAAATATAAACTTATTG
Found at i:17744696 original size:32 final size:30
Alignment explanation
Indices: 17744634--17744739 Score: 160
Period size: 29 Copynumber: 3.5 Consensus size: 30
17744624 ATTAAAATTA
* *
17744634 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTAATATTT-TAAAAAATAAT
17744665 TTTAAAATAATTTTAATATTTTAAAAAATAAT
1 TTT--AATAATTTTAATATTTTAAAAAATAAT
17744697 TTTAATAATTTT-ATATTTTAAAAAATAAT
1 TTTAATAATTTTAATATTTTAAAAAATAAT
17744726 TTTAATAATTTTAA
1 TTTAATAATTTTAA
17744740 AATCATTTGT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
29 29 0.41
30 10 0.14
31 3 0.04
32 13 0.19
33 15 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTAATAATTTTAATATTTTAAAAAATAAT
Found at i:17744705 original size:9 final size:9
Alignment explanation
Indices: 17744659--17744739 Score: 53
Period size: 9 Copynumber: 10.2 Consensus size: 9
17744649 ATTTCAAAAA
17744659 AATAATTTT
1 AATAATTTT
17744668 AAAATAATTTT
1 --AATAATTTT
17744679 AAT-ATTTT
1 AATAATTTT
17744687 AA-AA----
1 AATAATTTT
17744691 AATAATTTT
1 AATAATTTT
17744700 AATAATTTT
1 AATAATTTT
17744709 -AT-ATTTT
1 AATAATTTT
17744716 AA-AA----
1 AATAATTTT
17744720 AATAATTTT
1 AATAATTTT
17744729 AATAATTTT
1 AATAATTTT
17744738 AA
1 AA
17744740 AATCATTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 28
0.67 0.00 0.33
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
7 5 0.09
8 12 0.21
9 23 0.40
11 9 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATAATTTT
Found at i:17744725 original size:20 final size:22
Alignment explanation
Indices: 17744700--17744741 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
17744690 AAATAATTTT
17744700 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
17744720 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
17744742 TCATTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:17750146 original size:21 final size:21
Alignment explanation
Indices: 17750121--17750165 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17750111 TGACTCTAAT
17750121 TTTCT-ATTTATTTCTCATGAA
1 TTTCTCATTTATTTCTCA-GAA
* *
17750142 TTTCTCATTTTTTTCTTAGAA
1 TTTCTCATTTATTTCTCAGAA
17750163 TTT
1 TTT
17750166 TAAGGTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTCTCATTTATTTCTCAGAA
Found at i:17765721 original size:21 final size:21
Alignment explanation
Indices: 17765682--17765722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17765672 GCTAATATGC
** *
17765682 TTGATTTTCAGCAGCAAACTA
1 TTGATTTTCAAAAGAAAACTA
17765703 TTGATTTTCAAAAGAAAACT
1 TTGATTTTCAAAAGAAAACT
17765723 GAGGCATCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
TTGATTTTCAAAAGAAAACTA
Found at i:17768349 original size:125 final size:122
Alignment explanation
Indices: 17768111--17768343 Score: 292
Period size: 126 Copynumber: 1.9 Consensus size: 122
17768101 TTTAACACCT
* * * **
17768111 TATTATTTACAAAAAGATCCTAAAATCTCAATATTGAAAATTCTAATAGTCAAAACCAACTAATC
1 TATTATTTAAAAAAAAATCCTAAAATCTAAATATTGAAAATTCTAATAGTCAAAACCAAAAAATC
* * *
17768176 TAAACAAACTTAAAAATCTAATAATTATAAACATAAATTTTTAAAAATATTGAAACC
66 TAAACAAACTTAAAAATATAATAATTATAAACAAAAATATTTAAAAATATTGAAACC
*
17768233 TATTATTTAGAAAAAAAATGCTAAAATGCTAAAATATT-AAATATTCTAATAGTCAAAACCAAAA
1 TATTATTTA-AAAAAAAATCCTAAAAT-CT-AAATATTGAAA-ATTCTAATAGTCAAAACCAAAA
*
17768297 ATATCTTAAA-AAACTTAAAAATATAATATTTATAAGA-AAAAATATTT
62 A-ATC-TAAACAAACTTAAAAATATAATAATTATAA-ACAAAAATATTT
17768344 GAAATACTAC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
122 9 0.10
123 14 0.15
124 5 0.05
125 27 0.29
126 34 0.36
127 5 0.05
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (122 bp):
TATTATTTAAAAAAAAATCCTAAAATCTAAATATTGAAAATTCTAATAGTCAAAACCAAAAAATC
TAAACAAACTTAAAAATATAATAATTATAAACAAAAATATTTAAAAATATTGAAACC
Found at i:17772642 original size:21 final size:21
Alignment explanation
Indices: 17772616--17772657 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17772606 AAATAGAGGC
17772616 TTTCCTCCTCTTTTGTAATCA
1 TTTCCTCCTCTTTTGTAATCA
*
17772637 TTTCCTCCTCTTTTTTAATCA
1 TTTCCTCCTCTTTTGTAATCA
17772658 CCCAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.29, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTCCTCCTCTTTTGTAATCA
Found at i:17788482 original size:22 final size:21
Alignment explanation
Indices: 17788457--17788507 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
17788447 AAATGTGAAG
*
17788457 AAATAATTATTTTCGAAAAATT
1 AAATAATTATATT-GAAAAATT
17788479 AAAT-A-TATATTGAAAAATT
1 AAATAATTATATTGAAAAATT
17788498 -AATAATTATA
1 AAATAATTATA
17788508 AATTAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 9 0.35
20 9 0.35
21 1 0.04
22 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (21 bp):
AAATAATTATATTGAAAAATT
Found at i:17791969 original size:25 final size:25
Alignment explanation
Indices: 17791923--17791983 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
17791913 AACTTTATTT
* ** *
17791923 TTTAACTTTAAAAAATTTAAATGTA
1 TTTAAATTTAAAAAATAAAAATATA
*
17791948 TTTAAATTTAAATAATAAAAATATA
1 TTTAAATTTAAAAAATAAAAATATA
*
17791973 TTTTAATTTAA
1 TTTAAATTTAA
17791984 GTTTAGAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAAATTTAAAAAATAAAAATATA
Found at i:17792030 original size:29 final size:27
Alignment explanation
Indices: 17791998--17792057 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
17791988 AGAATAATTG
* *
17791998 AAATCGAAATTAAAATATTTAAAATATAA
1 AAATCAAAATTAAAATA--TAAAAAATAA
*
17792027 AAATTAAAATTAAAATATAAAAAATAA
1 AAATCAAAATTAAAATATAAAAAATAA
17792054 AAAT
1 AAAT
17792058 ATGGTCTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
29 15 0.54
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAATCAAAATTAAAATATAAAAAATAA
Found at i:17792035 original size:14 final size:14
Alignment explanation
Indices: 17792004--17792055 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
17791994 ATTGAAATCG
17792004 AAATTAAAATATTTA
1 AAATTAAAATA-TTA
17792019 AAATATAAAA-ATTA
1 AAAT-TAAAATATTA
*
17792033 AAATTAAAATATAA
1 AAATTAAAATATTA
*
17792047 AAAATAAAA
1 AAATTAAAA
17792056 ATATGGTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 5 0.15
14 18 0.55
15 5 0.15
16 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATTAAAATATTA
Found at i:17792041 original size:20 final size:20
Alignment explanation
Indices: 17792016--17792055 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17792006 ATTAAAATAT
*
17792016 TTAAAATATAAAAATTAAAA
1 TTAAAATATAAAAAATAAAA
17792036 TTAAAATATAAAAAATAAAA
1 TTAAAATATAAAAAATAAAA
17792056 ATATGGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAAAATATAAAAAATAAAA
Found at i:17792309 original size:20 final size:19
Alignment explanation
Indices: 17792266--17792309 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
17792256 TTAGGAGAAA
*
17792266 AAATATTTAAAAATATATT
1 AAATATTTAAAAATATAAT
17792285 AAATATTTAATTAAA-ATAAT
1 AAATATTTAA--AAATATAAT
17792305 AAATA
1 AAATA
17792310 AATTACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 9 0.41
21 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATTTAAAAATATAAT
Found at i:17795825 original size:61 final size:61
Alignment explanation
Indices: 17795708--17795844 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 61
17795698 GTCAAGCACC
* *
17795708 AAAAAATTTATTTTTTAATTCGTATTTTTATGAGTTTCAGCCATTAGTTGTCAAACA-CAA
1 AAAAAATTTATTTTTTAATTCGTATATTTATGAGTTTCAGCCATTAGATGTCAAACACCAA
* * * *
17795768 AAAAAATTTATTTTTTTATTCGTATAATTTGTGGGTGTT-GGCCATTAGATGAT-AAACACCAA
1 AAAAAATTTATTTTTTAATTCGTAT-ATTTATGAGT-TTCAGCCATTAGATG-TCAAACACCAA
*
17795830 AATATAATTT-TTTTT
1 AA-AAAATTTATTTTT
17795845 ATTTTTGGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
60 24 0.37
61 22 0.34
62 13 0.20
63 6 0.09
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (61 bp):
AAAAAATTTATTTTTTAATTCGTATATTTATGAGTTTCAGCCATTAGATGTCAAACACCAA
Found at i:17801254 original size:19 final size:20
Alignment explanation
Indices: 17801213--17801297 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
17801203 ACAACAGTAC
*
17801213 AGAACAAAACAAAGCAGAAT
1 AGAACAAAACAAAACAGAAT
*
17801233 AGAACAGAACAAAACA-AAT
1 AGAACAAAACAAAACAGAAT
* *
17801252 AGAGCAAAACAAAACAGAAC
1 AGAACAAAACAAAACAGAAT
*** *
17801272 AGGGTAAAACAAAACAGAGT
1 AGAACAAAACAAAACAGAAT
17801292 AGAACA
1 AGAACA
17801298 TAAAAGGAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
19 17 0.33
20 35 0.67
ACGTcount: A:0.64, C:0.15, G:0.16, T:0.05
Consensus pattern (20 bp):
AGAACAAAACAAAACAGAAT
Found at i:17803692 original size:14 final size:15
Alignment explanation
Indices: 17803666--17803694 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17803656 ACGACACTAC
17803666 TTCTTCTTCCTCCTT
1 TTCTTCTTCCTCCTT
17803681 TTCTTC-TCCTCCTT
1 TTCTTCTTCCTCCTT
17803695 ACGCTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCTTCTTCCTCCTT
Found at i:17812051 original size:18 final size:19
Alignment explanation
Indices: 17812016--17812054 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
17812006 AATAAATATA
17812016 AATACAATTTAAATTTAAT
1 AATACAATTTAAATTTAAT
17812035 AATA-AATTGTAAA-TTAAT
1 AATACAATT-TAAATTTAAT
17812053 AA
1 AA
17812055 AAAACAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATACAATTTAAATTTAAT
Found at i:17812447 original size:30 final size:30
Alignment explanation
Indices: 17812413--17812494 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
17812403 TTTAGGTAAA
*
17812413 TTAACAATATGGAATATGAGGTCAACCCTT
1 TTAACAATGTGGAATATGAGGTCAACCCTT
* * *
17812443 TTAACAATGCGGAATATGAGTTTAACCCTT
1 TTAACAATGTGGAATATGAGGTCAACCCTT
17812473 TTAACAATGT-GATATATGAGGT
1 TTAACAATGTGGA-ATATGAGGT
17812495 TTTAAGTGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (30 bp):
TTAACAATGTGGAATATGAGGTCAACCCTT
Found at i:17817708 original size:70 final size:70
Alignment explanation
Indices: 17817587--17817724 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
17817577 TTCCTCTTTT
* * * *
17817587 AGACTACACTATTTTCTGGGATTCAAATATCATCCTAAAACCATGCGCACTTAAGAGTGTCCCAG
1 AGACAACACTATTTTCTGGGATTCAAATACCATCCTAAAACCATACACACTTAAGAGTGTCCCAG
17817652 AAACA
66 AAACA
* *
17817657 AGACAACACTATTTTTTGGGATTCAAATACCATCCTAAAACCATACACACTTAGGAGTGTCCCAG
1 AGACAACACTATTTTCTGGGATTCAAATACCATCCTAAAACCATACACACTTAAGAGTGTCCCAG
17817722 AAA
66 AAA
17817725 TAAGGTTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (70 bp):
AGACAACACTATTTTCTGGGATTCAAATACCATCCTAAAACCATACACACTTAAGAGTGTCCCAG
AAACA
Found at i:17821005 original size:18 final size:18
Alignment explanation
Indices: 17820982--17821018 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17820972 ACAATTCATA
17820982 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
17821000 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
17821018 T
1 T
17821019 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:17823923 original size:13 final size:13
Alignment explanation
Indices: 17823907--17823931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17823897 ACCAAGCTTG
17823907 TAAATATTTTTAT
1 TAAATATTTTTAT
17823920 TAAATATTTTTA
1 TAAATATTTTTA
17823932 GAGTTATTGT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:17832510 original size:127 final size:127
Alignment explanation
Indices: 17832284--17832539 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
17832274 GGTTAATTCC
17832284 AATTGGATGGATGTGGGTCGCATTTTAGGAGTGACTCATGCTGACAACTTGGAATGGTATCTAGG
1 AATTGGATGGATGTGGGTCGCATTTTAGGAGTGACTCATGCTGACAACTTGGAATGGTATCTAGG
17832349 ATTGCCTTTGTATAGTGGGCAAGGATAAAAAGAGAGCATTTGCAATATTACGAGATAAAATA
66 ATTGCCTTTGTATAGTGGGCAAGGATAAAAAGAGAGCATTTGCAATATTACGAGATAAAATA
17832411 AATTGGATGGATGTGGGTCGCATTTTAGGAGTGACTCATGCTGACAACTTGGAATGGTATCTAGG
1 AATTGGATGGATGTGGGTCGCATTTTAGGAGTGACTCATGCTGACAACTTGGAATGGTATCTAGG
17832476 ATTGCCTTTGTATAGTGGGCAAGGATAAAAAGAGAGCATTTGCAATATTACGAGATAAAATA
66 ATTGCCTTTGTATAGTGGGCAAGGATAAAAAGAGAGCATTTGCAATATTACGAGATAAAATA
17832538 AA
1 AA
17832540 AAGTAAAATT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (127 bp):
AATTGGATGGATGTGGGTCGCATTTTAGGAGTGACTCATGCTGACAACTTGGAATGGTATCTAGG
ATTGCCTTTGTATAGTGGGCAAGGATAAAAAGAGAGCATTTGCAATATTACGAGATAAAATA
Found at i:17833844 original size:41 final size:42
Alignment explanation
Indices: 17833767--17833849 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
17833757 AGGCAATTCG
17833767 CAGCTTTGGTCAAGTGGTCTCCGCCCCATTTGGCTTAGAAAA
1 CAGCTTTGGTCAAGTGGTCTCCGCCCCATTTGGCTTAGAAAA
17833809 CAGCTTTGGTCAAGTGGTC-CCGCCCCATTTGGCTTAGAAAA
1 CAGCTTTGGTCAAGTGGTCTCCGCCCCATTTGGCTTAGAAAA
17833850 AATTAATGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 22 0.54
42 19 0.46
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (42 bp):
CAGCTTTGGTCAAGTGGTCTCCGCCCCATTTGGCTTAGAAAA
Found at i:17842013 original size:14 final size:14
Alignment explanation
Indices: 17841953--17842014 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
17841943 TGAGTTTGGA
*
17841953 GTTTAGGGATTTTAG
1 GTTTA-GGATTTAAG
17841968 GTTT--GAGTTTAAG
1 GTTTAGGA-TTTAAG
**
17841981 GTTTAGGATTCGAG
1 GTTTAGGATTTAAG
*
17841995 ATTTAGGATTTAAG
1 GTTTAGGATTTAAG
17842009 GTTTAG
1 GTTTAG
17842015 AGTAAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 20 0.54
15 6 0.16
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.44
Consensus pattern (14 bp):
GTTTAGGATTTAAG
Found at i:17842265 original size:18 final size:18
Alignment explanation
Indices: 17842229--17842280 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
17842219 ATTACTCCCA
* * *
17842229 ATATTTATAAATTTTAAT
1 ATATTTATTAATATAAAT
17842247 ATATTTATTAATATAAAT
1 ATATTTATTAATATAAAT
* *
17842265 ATTTTTCAATAATATA
1 ATATTT-ATTAATATA
17842281 CTAAAAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTATTAATATAAAT
Found at i:17844460 original size:55 final size:55
Alignment explanation
Indices: 17844393--17844496 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
17844383 AAGTGCTATG
* *
17844393 TGACAGTCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTTCAATA
1 TGACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATTTCAATA
17844448 TGACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATT
1 TGACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATT
17844497 CCAACAGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (55 bp):
TGACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAGTATTTCAATA
Found at i:17844760 original size:5 final size:5
Alignment explanation
Indices: 17844750--17844797 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 5
17844740 TATTATAACA
*
17844750 TTCAT TTCAT TTCCAT TTCCAT ATCAT TCTCAT TTCAAT TTCAT TTCA
1 TTCAT TTCAT TT-CAT TT-CAT TTCAT T-TCAT TTC-AT TTCAT TTCA
17844798 AATTAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 18 0.47
6 20 0.53
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (5 bp):
TTCAT
Found at i:17844793 original size:17 final size:17
Alignment explanation
Indices: 17844753--17844796 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17844743 TATAACATTC
*
17844753 ATTTCATTTCCATTTCC
1 ATTTCATTTCCATTTCA
*
17844770 ATATCA-TTCTCATTTCA
1 ATTTCATTTC-CATTTCA
17844787 ATTTCATTTC
1 ATTTCATTTC
17844797 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTCATTTCCATTTCA
Found at i:17846725 original size:14 final size:14
Alignment explanation
Indices: 17846688--17846729 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17846678 CTAGATTTTA
17846688 AATATTTAAATA-T
1 AATATTTAAATATT
17846701 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
17846715 TATATTTAAATATT
1 AATATTTAAATATT
17846729 A
1 A
17846730 GCACAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:17848538 original size:72 final size:72
Alignment explanation
Indices: 17848441--17848750 Score: 455
Period size: 72 Copynumber: 4.5 Consensus size: 72
17848431 TTTTATATTC
* * * *
17848441 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACAGATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
*
17848506 ATTTCCA
66 ATATCCA
* *
17848513 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACAT--A-AA-T--AA-AT--A--GA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
17848567 ATATCCA
66 ATATCCA
17848574 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
*
17848639 ATAACCA
66 ATATCCA
*
17848646 AAAACCAAACATAAACAACTATTGACAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
17848711 ATATCCA
66 ATATCCA
17848718 AAAACCAAACATAAACAACTATTGAT-AAACTAG
1 AAAACCAAACATAAACAACTATTGATAAAACTAG
17848751 TTTAAAATTG
Statistics
Matches: 214, Mismatches: 13, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
61 49 0.23
63 2 0.01
64 2 0.01
65 3 0.01
66 2 0.01
67 2 0.01
68 3 0.01
69 2 0.01
70 2 0.01
71 7 0.03
72 140 0.65
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:17848689 original size:133 final size:133
Alignment explanation
Indices: 17848441--17848700 Score: 439
Period size: 133 Copynumber: 2.0 Consensus size: 133
17848431 TTTTATATTC
* * *
17848441 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACAGATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
** * *
17848506 ATTTCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAATAGAATAT
66 ATAACCAAAAACCAAACATAAACAACTATTGACAAAACTAGATTACACATAAATAAATAGAATAT
17848571 CCA
131 CCA
*
17848574 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
*
17848639 ATAACCAAAAACCAAACATAAACAACTATTGACAAAACTAGATTACACATAAATAAGTAGAA
66 ATAACCAAAAACCAAACATAAACAACTATTGACAAAACTAGATTACACATAAATAAATAGAA
17848701 CATAAATTCA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.57, C:0.15, G:0.06, T:0.22
Consensus pattern (133 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
ATAACCAAAAACCAAACATAAACAACTATTGACAAAACTAGATTACACATAAATAAATAGAATAT
CCA
Found at i:17849225 original size:18 final size:18
Alignment explanation
Indices: 17849177--17849246 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
17849167 CATTTCCATC
17849177 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTGA
*
17849195 AAT-TTGAATATCATTTGA
1 AATGTT-AACATCATTTGA
* *
17849213 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTGA
17849231 AATGTTAACATCATTT
1 AATGTTAACATCATTT
17849247 CTTGCATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
17 2 0.04
18 41 0.91
19 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
AATGTTAACATCATTTGA
Found at i:17856348 original size:22 final size:22
Alignment explanation
Indices: 17856295--17856345 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
17856285 CTTTTAACAT
*
17856295 ATAAACATTCAATTATATTGAC
1 ATAAACAATCAATTATATTGAC
* *
17856317 ACAAACAATCAATTATATTG-G
1 ATAAACAATCAATTATATTGAC
17856338 ATAAACAA
1 ATAAACAA
17856346 ATCTCTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAAACAATCAATTATATTGAC
Found at i:17858206 original size:13 final size:12
Alignment explanation
Indices: 17858187--17858216 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
17858177 AATATTTCTT
17858187 TTTTTTCTTTTC
1 TTTTTTCTTTTC
17858199 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
17858212 TTTTT
1 TTTTT
17858217 CTCATTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:17859077 original size:12 final size:12
Alignment explanation
Indices: 17859060--17859084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17859050 TGGGTGGTGG
17859060 TCTTATCGAAAA
1 TCTTATCGAAAA
17859072 TCTTATCGAAAA
1 TCTTATCGAAAA
17859084 T
1 T
17859085 TACATCTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TCTTATCGAAAA
Found at i:17861686 original size:11 final size:11
Alignment explanation
Indices: 17861651--17861712 Score: 74
Period size: 11 Copynumber: 5.5 Consensus size: 11
17861641 CTCATTTTTC
17861651 CTTTCTT-TTT
1 CTTTCTTATTT
*
17861661 TTTTCTCTCATTT
1 CTTTCT-T-ATTT
17861674 CTTTCTTATTT
1 CTTTCTTATTT
17861685 CTTTCTTATTT
1 CTTTCTTATTT
17861696 CTTT-TATATTT
1 CTTTCT-TATTT
17861707 CTTTCT
1 CTTTCT
17861713 CCTTTAATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
10 6 0.13
11 29 0.64
12 2 0.04
13 8 0.18
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (11 bp):
CTTTCTTATTT
Found at i:17862231 original size:22 final size:22
Alignment explanation
Indices: 17862206--17862266 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
17862196 TTGACTAATT
* *
17862206 GTTGATCGGCTATTGATCGACC
1 GTTGATCGGCCATTGACCGACC
* *
17862228 GTTGA-CTGGCCGTTGACCGACT
1 GTTGATC-GGCCATTGACCGACC
*
17862250 GTTGATCGGCCGTTGAC
1 GTTGATCGGCCATTGAC
17862267 TATTGACCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.30
Consensus pattern (22 bp):
GTTGATCGGCCATTGACCGACC
Found at i:17862279 original size:7 final size:7
Alignment explanation
Indices: 17862259--17862311 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
17862249 TGTTGATCGG
17862259 CCGTTGA
1 CCGTTGA
**
17862266 CTATTGA
1 CCGTTGA
17862273 CCGTTGA
1 CCGTTGA
17862280 CCGTTGA
1 CCGTTGA
17862287 CCGTT-A
1 CCGTTGA
* * *
17862293 GCTTTGG
1 CCGTTGA
17862300 CCGTTGA
1 CCGTTGA
17862307 CCGTT
1 CCGTT
17862312 AACTTTTTTG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
6 4 0.11
7 31 0.89
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.34
Consensus pattern (7 bp):
CCGTTGA
Found at i:17862305 original size:20 final size:20
Alignment explanation
Indices: 17862280--17862317 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17862270 TGACCGTTGA
*
17862280 CCGTTGACCGTTAGCTTTGG
1 CCGTTGACCGTTAACTTTGG
17862300 CCGTTGACCGTTAACTTT
1 CCGTTGACCGTTAACTTT
17862318 TTTGAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (20 bp):
CCGTTGACCGTTAACTTTGG
Found at i:17869022 original size:37 final size:37
Alignment explanation
Indices: 17868994--17869094 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 37
17868984 ATTTTCGGAA
17868994 TGCACCCAAGACTGTCGCTGCATAAATATTCTTCAAAT
1 TGCACCCAAGACTGTCGCTGCATAAATATTCTTC-AAT
* * * *
17869032 TGCATCC-AGAACTATCGTTGCATAACTATTCTTCAAT
1 TGCACCCAAG-ACTGTCGCTGCATAAATATTCTTCAAT
* *
17869069 TGCACCCAAGAATGTCGCTGTATAAA
1 TGCACCCAAGACTGTCGCTGCATAAA
17869095 CATGTCCAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 22 0.43
38 29 0.57
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (37 bp):
TGCACCCAAGACTGTCGCTGCATAAATATTCTTCAAT
Found at i:17869921 original size:16 final size:16
Alignment explanation
Indices: 17869900--17869930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17869890 TTGTGGATCC
17869900 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
17869916 CATTTTATCTTTATT
1 CATTTTACCTTTATT
17869931 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:17875318 original size:15 final size:15
Alignment explanation
Indices: 17875300--17875338 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17875290 AGCATGGACC
* *
17875300 TTGCGAGCAGTGGTG
1 TTGCGAGCACTGATG
*
17875315 TTGCGAGCACTTATG
1 TTGCGAGCACTGATG
17875330 TTGCGAGCA
1 TTGCGAGCA
17875339 TTGGAGCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (15 bp):
TTGCGAGCACTGATG
Found at i:17875396 original size:15 final size:15
Alignment explanation
Indices: 17875378--17875410 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17875368 ACACACAATG
17875378 CGAACACT-GATGTTA
1 CGAACACTAG-TGTTA
17875393 CGAACACTAGTGTTA
1 CGAACACTAGTGTTA
17875408 CGA
1 CGA
17875411 GCATGAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
CGAACACTAGTGTTA
Found at i:17878487 original size:18 final size:18
Alignment explanation
Indices: 17878464--17878506 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
17878454 CGACCTATGG
*
17878464 CACCTCCGGTAAGGCCTC
1 CACCTCCCGTAAGGCCTC
17878482 CACCTCCCGTAAGGCCTC
1 CACCTCCCGTAAGGCCTC
17878500 CACCTCC
1 CACCTCC
17878507 TCTTATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.51, G:0.16, T:0.16
Consensus pattern (18 bp):
CACCTCCCGTAAGGCCTC
Found at i:17892156 original size:21 final size:21
Alignment explanation
Indices: 17892132--17892186 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17892122 TAGAAGTAAG
*
17892132 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTTTCGGTAGAACAGTC
* *
17892153 ACTTGTATT-TGTAGAACTGTC
1 ACTTGT-TTCGGTAGAACAGTC
*
17892174 ACTTGTATCGGTA
1 ACTTGTTTCGGTA
17892187 AAAGTATCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (21 bp):
ACTTGTTTCGGTAGAACAGTC
Found at i:17898059 original size:13 final size:13
Alignment explanation
Indices: 17898041--17898069 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17898031 CCTTTTACTG
17898041 TTTAATAAAAATA
1 TTTAATAAAAATA
17898054 TTTAATAAAAATA
1 TTTAATAAAAATA
17898067 TTT
1 TTT
17898070 TCGGCACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAATAAAAATA
Found at i:17898180 original size:22 final size:22
Alignment explanation
Indices: 17898154--17898197 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17898144 TATACTAAAT
*
17898154 TTTAATTTAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
17898176 TTTAATTCAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
17898198 CATATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATTCAATAATTAAAATTC
Found at i:17906548 original size:13 final size:13
Alignment explanation
Indices: 17906530--17906554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17906520 CCCATTTTAT
17906530 CATTTTTAGCATG
1 CATTTTTAGCATG
17906543 CATTTTTAGCAT
1 CATTTTTAGCAT
17906555 TTTTAACTTA
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:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:17915171 original size:16 final size:16
Alignment explanation
Indices: 17915150--17915180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17915140 ATAATGTGAA
17915150 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
17915166 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
17915181 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:17925787 original size:17 final size:18
Alignment explanation
Indices: 17925743--17925787 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
17925733 TAAAAAAATA
*
17925743 TTTTTATTTTTACAATTT
1 TTTTTCTTTTTACAATTT
*
17925761 TTTTTC-TTTTA-ACTTT
1 TTTTTCTTTTTACAATTT
17925777 TTTTTCTTTTT
1 TTTTTCTTTTT
17925788 CTTTTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 9 0.38
18 5 0.21
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTACAATTT
Found at i:17942087 original size:21 final size:21
Alignment explanation
Indices: 17942062--17942101 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17942052 TCCTTCTTAT
* *
17942062 GCTTCTTCTTTTTGTCCTTGC
1 GCTTCCTCTTCTTGTCCTTGC
17942083 GCTTCCTCTTCTTGTCCTT
1 GCTTCCTCTTCTTGTCCTT
17942102 CGAACCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.33, G:0.12, T:0.55
Consensus pattern (21 bp):
GCTTCCTCTTCTTGTCCTTGC
Found at i:17963912 original size:4 final size:4
Alignment explanation
Indices: 17963905--17964143 Score: 156
Period size: 4 Copynumber: 59.8 Consensus size: 4
17963895 ATAGATTGAT
* * * * * *
17963905 AGAC AGAC AGAC AGAC AAAC AGAG AGAT AAAC AGAC AGAC AGGC AGGC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * *
17963953 AGGC A-AGC AGAC AGAC AGAC AGAC AAAC AGAC AGAT AGAT AGAT AGAC
1 AGAC AGA-C AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * * * * * *
17964001 AGAC AAAT AGAC AGAC AGAT AGAT AGAT AGAT AGAC CGAT AGAC AGAT
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * * * * * *
17964049 AGAC AGAC AGAT AGAC AGAT AGAT AGAT ATAT AGAT AGAC GGAT AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * *
17964097 AGAT AGAT AGAT AGAC AGAC AGAC AGAC AGAT AGAT AGAC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
17964144 TCAAGAAGTA
Statistics
Matches: 194, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
4 193 0.99
5 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.25, T:0.10
Consensus pattern (4 bp):
AGAC
Found at i:17964144 original size:12 final size:12
Alignment explanation
Indices: 17963875--17964144 Score: 163
Period size: 12 Copynumber: 22.5 Consensus size: 12
17963865 GATTGCACTC
*
17963875 ACAGATAGGCAG
1 ACAGATAGACAG
* *
17963887 ATAGATAGATAG
1 ACAGATAGACAG
**
17963899 ATTGATAGACAG
1 ACAGATAGACAG
* *
17963911 ACAGACAGACAA
1 ACAGATAGACAG
* * *
17963923 ACAGAGAGATAA
1 ACAGATAGACAG
*
17963935 ACAGACAGACAG
1 ACAGATAGACAG
*
17963947 GCAG---G-CAG
1 ACAGATAGACAG
* *
17963955 GCA-AGCAGACAG
1 ACAGA-TAGACAG
* *
17963967 ACAGACAGACAA
1 ACAGATAGACAG
* *
17963979 ACAGACAGATAG
1 ACAGATAGACAG
*
17963991 ATAGATAGACAG
1 ACAGATAGACAG
*
17964003 ACAAATAGACAG
1 ACAGATAGACAG
*
17964015 ACAGATAGATAG
1 ACAGATAGACAG
*
17964027 ATAGATAGACCGATAG
1 ACAGATAGA-C---AG
17964043 ACAGATAGACAG
1 ACAGATAGACAG
17964055 ACAGATAGACAG
1 ACAGATAGACAG
* * *
17964067 ATAGATAGATAT
1 ACAGATAGACAG
* *
17964079 ATAGATAGACGG
1 ACAGATAGACAG
* * *
17964091 ATAGACAGATAG
1 ACAGATAGACAG
*
17964103 ATAGATAGACAG
1 ACAGATAGACAG
*
17964115 ACAGACAGACAG
1 ACAGATAGACAG
*
17964127 ATAGATAGACAG
1 ACAGATAGACAG
17964139 ACAGAT
1 ACAGAT
17964145 CAAGAAGTAA
Statistics
Matches: 203, Mismatches: 45, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
8 6 0.03
9 1 0.00
11 1 0.00
12 183 0.90
13 1 0.00
15 1 0.00
16 10 0.05
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.12
Consensus pattern (12 bp):
ACAGATAGACAG
Found at i:17964397 original size:26 final size:26
Alignment explanation
Indices: 17964363--17964562 Score: 177
Period size: 26 Copynumber: 7.7 Consensus size: 26
17964353 TAATGTGAGG
* *
17964363 TGATAATTTAGCAGGCTTCGAGCCGA
1 TGATTATTTAGCAGGCTTTGAGCCGA
* * *
17964389 TGATTATTTAGCAGGCTTTAAGTCGG
1 TGATTATTTAGCAGGCTTTGAGCCGA
* * * * *
17964415 TGATTATTTAGTAGACTTTAAACCGG
1 TGATTATTTAGCAGGCTTTGAGCCGA
*
17964441 TGATTATTTAGTAGGCTTTGAG-CGA
1 TGATTATTTAGCAGGCTTTGAGCCGA
* *
17964466 GTGATTATTTAGCAAGCTTCGAGCCGA
1 -TGATTATTTAGCAGGCTTTGAGCCGA
* * *
17964493 TGATAATTTAGCAGGCTTTGAGTCGG
1 TGATTATTTAGCAGGCTTTGAGCCGA
** * * * *
17964519 TGATTAAATAACAAGCCTTGAGTCGA
1 TGATTATTTAGCAGGCTTTGAGCCGA
*
17964545 TGATCATTTAGCAGGCTT
1 TGATTATTTAGCAGGCTT
17964563 CAAGGCACTG
Statistics
Matches: 138, Mismatches: 34, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
25 2 0.01
26 133 0.96
27 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATTATTTAGCAGGCTTTGAGCCGA
Found at i:17964801 original size:10 final size:10
Alignment explanation
Indices: 17964768--17964802 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
17964758 ATATGTGTAT
17964768 GTGTGTGTGA
1 GTGTGTGTGA
*
17964778 GTGAGTGTGA
1 GTGTGTGTGA
*
17964788 GTGTGTGTGC
1 GTGTGTGTGA
17964798 GTGTG
1 GTGTG
17964803 AGAGAGAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.03, G:0.51, T:0.37
Consensus pattern (10 bp):
GTGTGTGTGA
Found at i:17965264 original size:39 final size:39
Alignment explanation
Indices: 17965218--17965316 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
17965208 TTAAATAGGG
17965218 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
*
17965257 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
* * *
17965296 TTTCAAGGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
17965317 GACAAATTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
Found at i:17965405 original size:32 final size:32
Alignment explanation
Indices: 17965360--17965422 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
17965350 AGCTGAAATT
* * *
17965360 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTAATTAATATATTTCAGGTACATGC
*
17965392 AATTAGCTAATTAATATATTTTAGGTACATG
1 AATTAGCTAATTAATATATTTCAGGTACATG
17965423 TATGGATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
AATTAGCTAATTAATATATTTCAGGTACATGC
Found at i:17971849 original size:39 final size:39
Alignment explanation
Indices: 17971803--17971901 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
17971793 TTAAATAGGG
*
17971803 TTTTAATGTGTCTTAGTTTGATACATGTTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
*
17971842 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
* *
17971881 TTTTAAGGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
17971902 GACAAATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
Found at i:17971983 original size:32 final size:32
Alignment explanation
Indices: 17971947--17972009 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
17971937 AGATGAAATT
*
17971947 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTATTTCAGGTACATGC
* *
17971979 AATTAGCTGATTAATTTATTTTAGGTACATG
1 AATTAGCTGATTAATGTATTTCAGGTACATG
17972010 TATGGATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (32 bp):
AATTAGCTGATTAATGTATTTCAGGTACATGC
Found at i:17978057 original size:17 final size:17
Alignment explanation
Indices: 17978007--17978067 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
17977997 CATTGATGTA
17978007 CAATGACAAGTGAAAATG
1 CAATGACAA-TGAAAATG
** *
17978025 CAATGGTAATGCAAATG
1 CAATGACAATGAAAATG
*
17978042 CAATGACAATTAAAATG
1 CAATGACAATGAAAATG
*
17978059 TAATGACAA
1 CAATGACAA
17978068 AAAGGGATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 28 0.80
18 7 0.20
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.21
Consensus pattern (17 bp):
CAATGACAATGAAAATG
Found at i:17978524 original size:24 final size:25
Alignment explanation
Indices: 17978497--17978543 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
17978487 GTTGCCTTGA
17978497 CTTCTTTTCCTTCCTC-TCTTTCTT
1 CTTCTTTTCCTTCCTCTTCTTTCTT
*
17978521 CTTCTTTTCCTTCTTCTTCTTTC
1 CTTCTTTTCCTTCCTCTTCTTTC
17978544 ACTTCTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (25 bp):
CTTCTTTTCCTTCCTCTTCTTTCTT
Found at i:17978533 original size:12 final size:12
Alignment explanation
Indices: 17978497--17978538 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
17978487 GTTGCCTTGA
17978497 CTTCTTTTCCTT
1 CTTCTTTTCCTT
*
17978509 CCTCTCTTT-CTT
1 CTTCT-TTTCCTT
17978521 CTTCTTTTCCTT
1 CTTCTTTTCCTT
17978533 CTTCTT
1 CTTCTT
17978539 CTTTCACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:17978534 original size:15 final size:15
Alignment explanation
Indices: 17978516--17978551 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17978506 CTTCCTCTCT
17978516 TTCTTCTTCTTTTC-C
1 TTCTTCTTC-TTTCAC
17978531 TTCTTCTTCTTTCAC
1 TTCTTCTTCTTTCAC
17978546 TTCTTC
1 TTCTTC
17978552 CACTTGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (15 bp):
TTCTTCTTCTTTCAC
Found at i:17978548 original size:24 final size:24
Alignment explanation
Indices: 17978496--17978550 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
17978486 AGTTGCCTTG
17978496 ACTTCTTTTCCTTCCTCTCTTTCT
1 ACTTCTTTTCCTTCCTCTCTTTCT
* *
17978520 TCTTCTTTTCCTTCTTCTTCTTTC-
1 ACTTCTTTTCCTTCCTC-TCTTTCT
17978544 ACTTCTT
1 ACTTCTT
17978551 CCACTTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (24 bp):
ACTTCTTTTCCTTCCTCTCTTTCT
Found at i:17995363 original size:525 final size:525
Alignment explanation
Indices: 17994373--17995420 Score: 2024
Period size: 525 Copynumber: 2.0 Consensus size: 525
17994363 CTATTGACTA
*
17994373 CAATGCCTTGACACGAGATTTGATGGCCAAGGTAAATCCCCTCTGTTGCCATGAAGTGGCATTTC
1 CAATGCCTTGACACGAGATTTGATGGCCAAGGTAAATCCCCTCTATTGCCATGAAGTGGCATTTC
* *
17994438 TCCCAATTCAGAACCAAGTTTGTTTCCTCACATCTTCTCAAAACATTTGCCAAGTTGTCGGTACA
66 TCCCAATTCAGAACCAAGTTTGTTTCCTCACATCTTCTCAAAACATTTGCCAAGTTGTCAGCACA
17994503 TTGGTCGAAACTCTGTCCATAGACTGAAAAATCATCCATGAATACCTCGAGTGAGTCTTCAATCA
131 TTGGTCGAAACTCTGTCCATAGACTGAAAAATCATCCATGAATACCTCGAGTGAGTCTTCAATCA
*
17994568 TATCCGAGAATATCGCCATCATACATCTCTGGAACGTTGTTGGCGCATTACACAAGCCAAACGGC
196 TATCCGAGAATATCACCATCATACATCTCTGGAACGTTGTTGGCGCATTACACAAGCCAAACGGC
*
17994633 ATCCGTCTGAAAGCAAAAGTCCTAAAAGGGCATGTAAATGTGGTTTTTGCTTGATCTTCCGACGC
261 ATCCGCCTGAAAGCAAAAGTCCTAAAAGGGCATGTAAATGTGGTTTTTGCTTGATCTTCCGACGC
17994698 AATAGCTATTTGGTTGTATCCAGAGTAGCCATCCAAAAAGCAATAATAGGCTTTACCAGCTAGCC
326 AATAGCTATTTGGTTGTATCCAGAGTAGCCATCCAAAAAGCAATAATAGGCTTTACCAGCTAGCC
17994763 TATCTAACATTTGATCGATGAAAGGAAGTGGAAAATGGGTCTTCTTTGTGGCCGCATTCAATCAT
391 TATCTAACATTTGATCGATGAAAGGAAGTGGAAAATGGGTCTTCTTTGTGGCCGCATTCAATCAT
17994828 CGGTAATCCATGCACACACGCCATCCAGTTACGATACGAGTAGGGATTAACTCATTTTTATCATT
456 CGGTAATCCATGCACACACGCCATCCAGTTACGATACGAGTAGGGATTAACTCATTTTTATCATT
17994893 GGTGT
521 GGTGT
17994898 CAATGCCTTGACACGAGATTTGATGGCCAAGGTAAATCCCCTCTATTGCCATGAAGTGGCATTTC
1 CAATGCCTTGACACGAGATTTGATGGCCAAGGTAAATCCCCTCTATTGCCATGAAGTGGCATTTC
*
17994963 TCCCAATTCAGAACCAAGTTTGTTTCCTCACATCTTCTCCAAACATTTGCCAAGTTGTCAGCACA
66 TCCCAATTCAGAACCAAGTTTGTTTCCTCACATCTTCTCAAAACATTTGCCAAGTTGTCAGCACA
17995028 TTGGTCGAAACTCTGTCCATAGACTGAAAAATCATCCATGAATACCTCGAGTGAGTCTTCAATCA
131 TTGGTCGAAACTCTGTCCATAGACTGAAAAATCATCCATGAATACCTCGAGTGAGTCTTCAATCA
17995093 TATCCGAGAATATCACCATCATACATCTCTGGAACGTTGTTGGCGCATTACACAAGCCAAACGGC
196 TATCCGAGAATATCACCATCATACATCTCTGGAACGTTGTTGGCGCATTACACAAGCCAAACGGC
*
17995158 ATCCGCCTGAAAGCAAAAGTCTTAAAAGGGCATGTAAATGTGGTTTTTGCTTGATCTTCCGACGC
261 ATCCGCCTGAAAGCAAAAGTCCTAAAAGGGCATGTAAATGTGGTTTTTGCTTGATCTTCCGACGC
17995223 AATAGCTATTTGGTTGTATCCAGAGTAGCCATCCAAAAAGCAATAATAGGCTTTACCAGCTAGCC
326 AATAGCTATTTGGTTGTATCCAGAGTAGCCATCCAAAAAGCAATAATAGGCTTTACCAGCTAGCC
17995288 TATCTAACATTTGATCGATGAAAGGAAGTGGAAAATGGGTCTTCTTTGTGGCCGCATTCAATCAT
391 TATCTAACATTTGATCGATGAAAGGAAGTGGAAAATGGGTCTTCTTTGTGGCCGCATTCAATCAT
*
17995353 CGGTAATCCATGCACACACGCCATCCAGTTATGATACGAGTAGGGATTAACTCATTTTTATCATT
456 CGGTAATCCATGCACACACGCCATCCAGTTACGATACGAGTAGGGATTAACTCATTTTTATCATT
17995418 GGT
521 GGT
17995421 CACAATAGTA
Statistics
Matches: 515, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
525 515 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (525 bp):
CAATGCCTTGACACGAGATTTGATGGCCAAGGTAAATCCCCTCTATTGCCATGAAGTGGCATTTC
TCCCAATTCAGAACCAAGTTTGTTTCCTCACATCTTCTCAAAACATTTGCCAAGTTGTCAGCACA
TTGGTCGAAACTCTGTCCATAGACTGAAAAATCATCCATGAATACCTCGAGTGAGTCTTCAATCA
TATCCGAGAATATCACCATCATACATCTCTGGAACGTTGTTGGCGCATTACACAAGCCAAACGGC
ATCCGCCTGAAAGCAAAAGTCCTAAAAGGGCATGTAAATGTGGTTTTTGCTTGATCTTCCGACGC
AATAGCTATTTGGTTGTATCCAGAGTAGCCATCCAAAAAGCAATAATAGGCTTTACCAGCTAGCC
TATCTAACATTTGATCGATGAAAGGAAGTGGAAAATGGGTCTTCTTTGTGGCCGCATTCAATCAT
CGGTAATCCATGCACACACGCCATCCAGTTACGATACGAGTAGGGATTAACTCATTTTTATCATT
GGTGT
Found at i:18000874 original size:15 final size:15
Alignment explanation
Indices: 18000834--18000897 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
18000824 TTTGTCCTTC
*
18000834 ATCCATGCTCGCAATG
1 ATCCATGCTCGC-ATT
*
18000850 A-CCATACTCGCATT
1 ATCCATGCTCGCATT
* *
18000864 ATTCATGCTCGCACT
1 ATCCATGCTCGCATT
*
18000879 ATCCATGCTCGCATC
1 ATCCATGCTCGCATT
18000894 ATCC
1 ATCC
18000898 CCTCCCTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 3 0.08
15 35 0.90
16 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.12, T:0.28
Consensus pattern (15 bp):
ATCCATGCTCGCATT
Found at i:18005272 original size:13 final size:13
Alignment explanation
Indices: 18005256--18005280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18005246 TGATTTTTTC
18005256 TTTTTTTAATTTA
1 TTTTTTTAATTTA
18005269 TTTTTTTAATTT
1 TTTTTTTAATTT
18005281 CTAATCCTAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTAATTTA
Found at i:18006604 original size:15 final size:15
Alignment explanation
Indices: 18006564--18006624 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
18006554 TTTGTCCTTC
* *
18006564 ATCCATGATCGCAAT
1 ATCCATGCTCGCATT
* *
18006579 GTCCATACTCGCATT
1 ATCCATGCTCGCATT
* *
18006594 ATTCATGCTCGCACT
1 ATCCATGCTCGCATT
*
18006609 ATCCATGCTCGTATT
1 ATCCATGCTCGCATT
18006624 A
1 A
18006625 ATTATAATGG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.33
Consensus pattern (15 bp):
ATCCATGCTCGCATT
Found at i:18008874 original size:19 final size:18
Alignment explanation
Indices: 18008837--18008885 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
18008827 TGTGTCCGTG
*
18008837 TTTCTAAAACTTTTCAATT
1 TTTCTTAAA-TTTTCAATT
18008856 TTTCTTAAATTTTCTAATT
1 TTTCTTAAATTTTC-AATT
18008875 TGTT-TTAAATT
1 T-TTCTTAAATT
18008886 AGTCCTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 5 0.19
19 20 0.74
20 2 0.07
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTCTTAAATTTTCAATT
Found at i:18012194 original size:16 final size:16
Alignment explanation
Indices: 18012175--18012205 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18012165 AAAACTGATT
18012175 CAATTGTTAGTTCAAC
1 CAATTGTTAGTTCAAC
18012191 CAATTGTTAGTTCAA
1 CAATTGTTAGTTCAA
18012206 TTTAATCAGT
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:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (16 bp):
CAATTGTTAGTTCAAC
Found at i:18014316 original size:63 final size:63
Alignment explanation
Indices: 18014238--18014361 Score: 221
Period size: 63 Copynumber: 2.0 Consensus size: 63
18014228 TTTCTACCAT
*
18014238 AGTTTTGCTATGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCACAATATCAGTGTC
1 AGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCACAATATCAGTGTC
* *
18014301 AGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTAGCTCAATATCAGTG
1 AGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCACAATATCAGTG
18014362 CCAGCAGACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (63 bp):
AGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCACAATATCAGTGTC
Found at i:18015535 original size:25 final size:25
Alignment explanation
Indices: 18015506--18015579 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
18015496 ATTATTCATA
* *
18015506 GTTGACTAATTGACAGCTTAGCACT
1 GTTGACTAATTGATAGCCTAGCACT
* * * * *
18015531 TTTGACAAATAGATAACCTAGTACT
1 GTTGACTAATTGATAGCCTAGCACT
18015556 GTTGACTAATTGATAGCCTAGCAC
1 GTTGACTAATTGATAGCCTAGCAC
18015580 AATCTTGCTG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (25 bp):
GTTGACTAATTGATAGCCTAGCACT
Found at i:18017430 original size:43 final size:43
Alignment explanation
Indices: 18017382--18017469 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
18017372 AAACAGGTTA
18017382 TCTATGCCCCCAATATCTTACAATCTTCTATACTTCATGTCCC
1 TCTATGCCCCCAATATCTTACAATCTTCTATACTTCATGTCCC
18017425 TCTATGCCCCCAATATCTTACAATCTTCTATACTTCATGTCCC
1 TCTATGCCCCCAATATCTTACAATCTTCTATACTTCATGTCCC
18017468 TC
1 TC
18017470 CATTTCATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.38
Consensus pattern (43 bp):
TCTATGCCCCCAATATCTTACAATCTTCTATACTTCATGTCCC
Found at i:18046580 original size:3 final size:3
Alignment explanation
Indices: 18046563--18046620 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
18046553 GCAAAGGAAA
*
18046563 AAG AAGG AA- AAG AAG AAG AAA AAG AAG AAGG AAG AA- AAG AAG AAG
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG
*
18046608 AAA AAG AAG AAG A
1 AAG AAG AAG AAG A
18046621 TATTGCCCCG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18046580 original size:12 final size:12
Alignment explanation
Indices: 18046563--18046620 Score: 80
Period size: 12 Copynumber: 4.6 Consensus size: 12
18046553 GCAAAGGAAA
*
18046563 AAGAAGGAAAAG
1 AAGAAGAAAAAG
18046575 AAGAAGAAAAAG
1 AAGAAGAAAAAG
18046587 AAGAAGGAAGAAAAG
1 AAGAA-G-A-AAAAG
18046602 AAGAAGAAAAAG
1 AAGAAGAAAAAG
18046614 AAGAAGA
1 AAGAAGA
18046621 TATTGCCCCG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
12 28 0.67
13 2 0.05
14 2 0.05
15 10 0.24
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:18046703 original size:10 final size:10
Alignment explanation
Indices: 18046688--18046714 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18046678 ATCTGAAGAA
18046688 CAACTGGAGC
1 CAACTGGAGC
18046698 CAACTGGAGC
1 CAACTGGAGC
18046708 CAACTGG
1 CAACTGG
18046715 GGCGAGCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.11
Consensus pattern (10 bp):
CAACTGGAGC
Found at i:18047042 original size:17 final size:17
Alignment explanation
Indices: 18047017--18047060 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
18047007 TAGTTGCATG
*
18047017 CATTTCATTTAAATTGT
1 CATTGCATTTAAATTGT
**
18047034 CATTGCATTTTTATTGT
1 CATTGCATTTAAATTGT
*
18047051 CCTTGCATTT
1 CATTGCATTT
18047061 TATTTGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (17 bp):
CATTGCATTTAAATTGT
Found at i:18047067 original size:17 final size:17
Alignment explanation
Indices: 18047029--18047061 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18047019 TTTCATTTAA
18047029 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
*
18047046 ATTGTCCTTGCATTTT
1 ATTGTCATTGCATTTT
18047062 ATTTGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:18053951 original size:13 final size:14
Alignment explanation
Indices: 18053913--18053948 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18053903 CATTAGCATC
18053913 GTATAAAAATTTGG
1 GTATAAAAATTTGG
*
18053927 TTATAAAAATTTGG
1 GTATAAAAATTTGG
18053941 GTATAAAA
1 GTATAAAA
18053949 TTTTAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (14 bp):
GTATAAAAATTTGG
Found at i:18055669 original size:80 final size:79
Alignment explanation
Indices: 18055537--18055693 Score: 269
Period size: 80 Copynumber: 2.0 Consensus size: 79
18055527 TACGAGCACT
* * *
18055537 AATTTCATTTTAGCTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
1 AATTTCATTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
18055602 TGAAAAGGCATGAC
66 TGAAAAGGCATGAC
*
18055616 AATTTCATTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATTTGATGTAG
1 AATTTCA-TTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG
18055681 CTGAAAAGGCATG
65 CTGAAAAGGCATG
18055694 GCATTTCTCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 7 0.10
80 66 0.90
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (79 bp):
AATTTCATTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
TGAAAAGGCATGAC
Found at i:18056179 original size:48 final size:49
Alignment explanation
Indices: 18056126--18056228 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 49
18056116 GGTGATGCAT
* * *
18056126 TAATGCAAG-GCATTTAACAAAGATGCATTTAACAAACAAAATAATTAA
1 TAATGCAAGAGCACTAAACAAAGATGCATTTAACAAACAAAACAATTAA
* *
18056174 TAATGC-AGATCACTAAACAAAGATGCATTTAACAAACAAAACACTTAA
1 TAATGCAAGAGCACTAAACAAAGATGCATTTAACAAACAAAACAATTAA
*
18056222 TGATGCA
1 TAATGCA
18056229 GATTATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.04
48 45 0.96
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (49 bp):
TAATGCAAGAGCACTAAACAAAGATGCATTTAACAAACAAAACAATTAA
Found at i:18056229 original size:48 final size:48
Alignment explanation
Indices: 18056141--18056262 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
18056131 CAAGGCATTT
*
18056141 AACAAAGATGCATTTAACAAACAAAATAATTAATAATGCAGATCACTA
1 AACAAAGATGCATTTAACAAACAAAACAATTAATAATGCAGATCACTA
* * * *
18056189 AACAAAGATGCATTTAACAAACAAAACACTTAATGATGCAGATTATTA
1 AACAAAGATGCATTTAACAAACAAAACAATTAATAATGCAGATCACTA
* * * *
18056237 AACAAAAATGTATTTATCAAAAAAAA
1 AACAAAGATGCATTTAACAAACAAAA
18056263 AAACACATAG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (48 bp):
AACAAAGATGCATTTAACAAACAAAACAATTAATAATGCAGATCACTA
Found at i:18062270 original size:80 final size:80
Alignment explanation
Indices: 18062137--18062289 Score: 252
Period size: 80 Copynumber: 1.9 Consensus size: 80
18062127 ACTAATTTCA
* * * * *
18062137 TTTTAACTCTTGTATGGAAGCTAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGTTTAAAAA
1 TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTGAAAAA
18062202 GCAAGGCAATTTTGT
66 GCAAGGCAATTTTGT
*
18062217 TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTGAAAAG
1 TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTGAAAAA
18062282 GCAAGGCA
66 GCAAGGCA
18062290 TTTCTCCTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (80 bp):
TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTGAAAAA
GCAAGGCAATTTTGT
Found at i:18062832 original size:48 final size:48
Alignment explanation
Indices: 18062780--18062925 Score: 186
Period size: 48 Copynumber: 3.0 Consensus size: 48
18062770 GGTGATGCAT
** * * *
18062780 TAATGCAAGGCATTTAACAAAGATGCATTTAACAAACAAAATAGTTAA
1 TAATGCAAGTTATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
* *
18062828 TAATGCAAATTACTAAACAAAGATGCATTTAACAAACAAAACACTTAA
1 TAATGCAAGTTATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
* *
18062876 TGATGC-AGATTATTAAACAAAGATGCATTTAACAAAAAAAAACACTTAA
1 TAATGCAAG-TTATTAAACAAAGATGCATTTAAC-AAACAAAACACTTAA
18062925 T
1 T
18062926 GAAGCATAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 69 0.81
49 15 0.18
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.25
Consensus pattern (48 bp):
TAATGCAAGTTATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
Found at i:18067301 original size:21 final size:21
Alignment explanation
Indices: 18067277--18067326 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18067267 TACGATGTAC
*
18067277 CGGTAGAAC-CCAAATTAGTAT
1 CGGTAGAACTCCAAATT-CTAT
*
18067298 CGGTAGAACTCCAAGTTCTAT
1 CGGTAGAACTCCAAATTCTAT
18067319 CGGTAGAA
1 CGGTAGAA
18067327 TTCTATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (21 bp):
CGGTAGAACTCCAAATTCTAT
Found at i:18075511 original size:215 final size:216
Alignment explanation
Indices: 18074406--18077733 Score: 3580
Period size: 216 Copynumber: 15.6 Consensus size: 216
18074396 TCGCATCACT
* * * *
18074406 ATTCTCATGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTGCAAACTGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * *
18074471 GACCAAAAGATGCGATTT-CTCGAGCATGGAATGCTCGAAAAATTGCTCGAAGGAATGGATCATC
66 GACCAAATGATGCGATTTCCT-GAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* *
18074535 TTGAATACTTTAAGGAACCAAAGCTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTG
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* *
18074600 GCCAACAACCAAGAGAGAAACA
195 TCCAAGAACCAAGAGAGAAACA
18074622 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * *
18074687 GACCAAATGATTCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC-AATTGAATGGATCGTC
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAA-GGAATGGATCGTC
* * * * *
18074751 TTGAATGCTTTAAGGAATCAAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTTCGGAAGTTTG
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* * *
18074816 TCAAAGAACCAAGATAGAAATA
195 TCCAAGAACCAAGAGAGAAACA
* * ** * * **
18074838 ATTCTCTCATAAATAAGTTTTTAATTCAAAGATAAAAAATTGTTTACAAAATGAAAAACTAGATG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * *
18074903 GACCAAATGATGCGATTTCCTGAACATGAAATGTTCGAAAAATTTCTCTAAGGAATGAATCATCT
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCT
* * *
18074968 TGAATACTTTAAGGAACCAATGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGT
131 TGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
18075033 CCAAGAACCAAGAGAGAAACA
196 CCAAGAACCAAGAGAGAAACA
* *
18075054 ATTGC-CACATAAATAAATTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG--AAA--A---
1 ATT-CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * *
18075111 --A-C-AAT-TTG-GA---CC--AACAAGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCATC
65 GGACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * * ** * *
18075165 CTGAATACTTTAAGGAACCGATGTTATTCAAGAA--C-T-AAAGTTTGGCTAGTTCGAAGGAATG
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCG-A--AA--
* *
18075226 GATCATCCTGAATACTTTAAGGAACCAAGAGACAAACA
190 G-T--T-C-G--T-C--CAA-GAACCAAGAGAGAAACA
* *
18075264 ATTCTCACGTAAAAAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATATG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * * * * * *
18075329 G-TCAGATGATGCGATTTCCTGAACATGAAATGTTCGGGAAATTTCTAGAATGAGTGGATCATCC
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCT
* **
18075393 TGAATACTTTAAGGAACCGAAGTTATAAAAGAACTTATAAAAGTTTGACAAGTTCGAAAGTTCGT
131 TGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
* *
18075458 CCAAGAACCAAGAAAGAAATA
196 CCAAGAACCAAGAGAGAAACA
* *
18075479 ATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAACA-TTGTTTACAAAATGAC--CCTATTT
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA-AGTTGTTTACAAAATGACAAACTATTT
* * * * * **
18075541 GGAACAAATGATGCAATTTCCCGAGCATGGATTGTTTAGAAAATTGCTCGAAGGAATGGATCGTC
65 GGACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * *
18075606 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAATTTTGACAAGTTCGGAAGTTCG
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* * *
18075671 GCCAAGAACAAAGAAAGAAACA
195 TCCAAGAACCAAGAGAGAAACA
** * *
18075693 ATTCTCACGTAAATGGGTTTTTAATTCAAAGACAAAAAGTTGTTTAC-AGATGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * *
18075757 GAACAAATGATGCGATTT-CTCAAGCATGGAATGTTC-GAAAATTTGCTCCATGGAATGGATCGT
66 GACCAAATGATGCGATTTCCTGAA-CATGGAATGTTCGGAAAA-TTGCTCGAAGGAATGGATCGT
* ** * *
18075820 CTTGAATACTTTAAGGAATCAAAGTTATTCCAA-AACTCGTAAAAGTTTGACAAGTTTGGAAGTT
129 CTTGAATACTTTAAGGAACCAAAGTTA-TAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT
* * *
18075884 CGGCCAAGGACCAAGAGACAAACA
193 CGTCCAAGAACCAAGAGAGAAACA
* * *
18075908 ATTCTCACGTAAATAAGTTTTTAATTCAATGACAAAAAGTTGTTTACAAAATGAAAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * ** * *
18075973 GACCAAATGATACGATTCCCCGAGCATAAGAA--TTCAAAAAATTGCTGGATGGAATGGATCGTC
66 GACCAAATGATGCGATTTCCTGAACAT-GGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
**
18076036 TTGAATACTTTAAGGAACCAAAGTTATTCAAGAACTCGT-AAA-----A-AAGTTC----G---G
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
*
18076087 -CCAAGAACCAAGAGATAAACA
195 TCCAAGAACCAAGAGAGAAACA
* ** * *
18076108 ATTCTCACATAAATCGGTTTTTAATTCAAAGACCAAAAGTTGTTTATAAAATGGCAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * * * *
18076173 GACTAAATGATACAATTTCCT-AAGGATGGAATGTTCAGAGAATTGGTCGATGGAATGGATCGTC
66 GACCAAATGATGCGATTTCCTGAA-CATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * *
18076237 TTGAATACTTTAAGGAACCTAAGTTATAAAAAAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCA
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* *
18076302 TCTAACAACC-A-AGAGAAACA
195 TCCAAGAACCAAGAGAGAAACA
* * * * *
18076322 ATTTTCACGTAAATAACTTTTTAATTCAAAGA-C-TAA-TAG--TA-AAAAGGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * * * * ** *
18076381 GACCAAATGATGCGTTTTCC-CAAGCATGAAAAGTTTGGAAAATTACACAAAGGAATAAATCATC
66 GACCAAATGATGCGATTTCCTGAA-CATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * ** *
18076445 TTGAATATTTTAAGGAACCGAAGTTATTCAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCA
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-
* *
18076510 G-CCAAGAACCTAGAGACAAACA
194 GTCCAAGAACCAAGAGAGAAACA
** * *
18076532 ATTCTCACAAAAATAAGTTTTTAATTCAAAGATCAATAGTTGTTTACAAAATGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * *
18076597 GACCAAATGATGCAATTTCC-CAATCATGGAATGTTCTGAAATTTCCTCGATGGAATGGATCGTC
66 GACCAAATGATGCGATTTCCTGAA-CATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * * *
18076661 TTAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTCGACAAGTTCGGAAGTTCT
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
**
18076726 TGTAAGAACCAAGAGAGAAACA
195 TCCAAGAACCAAGAGAGAAACA
* ** *
18076748 ATTCTCACGTAAAAAAGTTTTTTAATTCAAAGAAAAAAAGTTGTTTACAAAATGACAAACTATAT
1 ATTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * * *
18076813 GGACCAAATGATGCGATTCCCTGAGCATGGAATGTTTGGAAAATTTCTTGAAGGAATGGATCGTC
65 GGACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTC
* * *
18076878 TTGAA-ACTTTATGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCA
130 TTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
*
18076942 TCCAAGAACTAAGAGAGAAACA
195 TCCAAGAACCAAGAGAGAAACA
* *
18076964 ATTCTCACGTAAAGAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGA-AGAACTATTT
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA-AACTATTT
* * * ** * * *
18077028 GGACCAATTGATGTGATTT-CTCGAGCATGGAATG-TAAGAAAATTTACTCAAAGGATTGGATCG
65 GGACCAAATGATGCGATTTCCT-GAACATGGAATGTTCGGAAAA-TTGCTCGAAGGAATGGATCG
* * ** * **
18077091 TCTTGAATACTGTT-AGGAATCGAAGTTATTCATGAACTCGTAAAAGTTTGACAAGTTTAAAAG-
128 TCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGT
* *
18077154 TCTGCCCAAGAACCAAGAGACAAACA
192 TC-GTCCAAGAACCAAGAGAGAAACA
*
18077180 ATTCTTACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * *
18077245 GACCAAACGATGTGATTTCCTGAGCATGGAAAGTTCGAAAAATTGCTCGAAGGAATGGATTGTCT
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCT
* * *
18077310 TGAATACTTTAGGGAACCAAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCGAAAGTTCGG
131 TGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
* * *
18077375 CCAAGAA-TAAAATGAGAAATA
196 CCAAGAACCAAGA-GAGAAACA
*
18077396 ATTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* * * * * *
18077461 GACCAAATGACGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGATGGAATTGATCGTCT
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCT
* * *
18077526 TGAATACTTTAAGGAACCGAAGTT-TCAAAAGAATTTGTAAAAGTTTGACAAGTTC-AGAAGTTC
131 TGAATACTTTAAGGAACCAAAGTTAT-AAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTC
*
18077589 GTCCAAGAACCAAGAGAGAAATA
194 GTCCAAGAACCAAGAGAGAAACA
* ** ** * **
18077612 ATTTTCACGTAAATAAG-TTTTAATTCAAAGATAAAAAGTTGTTTACAAAACAACAAAGTAGATG
1 ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
* *** *
18077676 GACCAAATGATGCGATTTCTTGAACATTCCATGTTCAGG-AAATTTCTCGAAGGAATGG
66 GACCAAATGATGCGATTTCCTGAACATGGAATGTTC-GGAAAATTGCTCGAAGGAATGG
18077734 TGTAACCACC
Statistics
Matches: 2635, Mismatches: 374, Indels: 207
0.82 0.12 0.06
Matches are distributed among these distances:
194 15 0.01
195 1 0.00
196 1 0.00
197 2 0.00
198 65 0.02
199 5 0.00
200 98 0.04
201 63 0.02
202 4 0.00
203 2 0.00
204 4 0.00
205 3 0.00
206 2 0.00
207 3 0.00
208 137 0.05
209 7 0.00
210 100 0.04
211 3 0.00
212 8 0.00
213 17 0.01
214 229 0.09
215 482 0.18
216 1159 0.44
217 124 0.05
218 2 0.00
219 2 0.00
220 2 0.00
221 3 0.00
222 3 0.00
223 1 0.00
225 3 0.00
226 1 0.00
227 65 0.02
228 2 0.00
230 2 0.00
231 15 0.01
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (216 bp):
ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTG
GACCAAATGATGCGATTTCCTGAACATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCT
TGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
CCAAGAACCAAGAGAGAAACA
Found at i:18078578 original size:79 final size:79
Alignment explanation
Indices: 18078446--18078918 Score: 583
Period size: 79 Copynumber: 5.9 Consensus size: 79
18078436 ATAAATTATG
* *
18078446 TTGTCAGTTTAACTGACTAGGGCTGGGCTCA-TTTTCGCGATTTATCCGCTAGGCACTGGGTGCC
1 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTT-GCGGTTTATCCGCTAGGCACTGGGTGCC
18078510 AAGATTTGACGGACA
65 AAGATTTGACGGACA
* * * **
18078525 TTGTCAGTTTAACTGACTAGGGCTGAGCTCACTTTTGCGATTTATCCTTTAGGCACTGGGTGCCA
1 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
*
18078590 AGATTTGACAGACA
66 AGATTTGACGGACA
* *
18078604 TTGTCAGTTTAATTAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
1 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
*
18078669 AGATTTGACTGACA
66 AGATTTGACGGACA
* * * * **
18078683 TTGTCAGTTTAACTGACTAGAGCTAGGCTCACTTTCGTGGTTTGTCAACTAGGCACTGGGTGCCA
1 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
* *
18078748 ATATTTGACGAACA
66 AGATTTGACGGACA
* * *
18078762 TTGTCAGTTTAACTGACTAGAGTTGGGCTCACTTTTACGGTTTATCCGCTAGGCATTGGGTGCCA
1 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
* * *
18078827 GGAATTGACAGA-A
66 AGATTTGACGGACA
* * * * *
18078840 TTATC-GTTGGTTAATCTAACTAGAGCTGGGCTCATATTTTGCAGTTTATCCGCTAGGCACTGAG
1 TTGTCAG-T--TTAA-CTGACTAGAGCTGGGCTCA-CTTTTGCGGTTTATCCGCTAGGCACTGGG
* *
18078904 TGCCATGAATTGACG
61 TGCCAAGATTTGACG
18078919 AAAATAACAA
Statistics
Matches: 341, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.00
78 6 0.02
79 272 0.80
80 8 0.02
81 17 0.05
82 37 0.11
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (79 bp):
TTGTCAGTTTAACTGACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCA
AGATTTGACGGACA
Found at i:18081725 original size:37 final size:37
Alignment explanation
Indices: 18081683--18081753 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
18081673 AAACGGTCAT
* *
18081683 CTTCCTGATGAGATACAGAGAAGTGGACTAAATCCGC
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGC
18081720 CTTCCTGATGAGATACAGAGAAGTAGACCAAATC
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATC
18081754 AATGAAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGC
Found at i:18081942 original size:85 final size:85
Alignment explanation
Indices: 18081799--18081954 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
18081789 CCCCATCTTC
* ** * *
18081799 CTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTTCTAATGAGATACAGAGA
1 CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGTGGTCATCTCCCTAATAAGATACAAAGA
18081864 AGTGGACCAAATCTGCCTTA
66 AGTGGACCAAATCTGCCTTA
* * *
18081884 CTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGTGGTCATCTCCCTAATAAGATACAAAGA
1 CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGTGGTCATCTCCCTAATAAGATACAAAGA
18081949 AGTGGA
66 AGTGGA
18081955 TTAAACCAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (85 bp):
CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGTGGTCATCTCCCTAATAAGATACAAAGA
AGTGGACCAAATCTGCCTTA
Found at i:18081999 original size:48 final size:48
Alignment explanation
Indices: 18081884--18081990 Score: 160
Period size: 48 Copynumber: 2.2 Consensus size: 48
18081874 ATCTGCCTTA
* *
18081884 CTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGTGGTCATCTCC
1 CTGATGAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTCC
* * *
18081932 CTAATAAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTTC
1 CTGATGAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTCC
*
18081980 TTGATGAGATA
1 CTGATGAGATA
18081991 TCGAGAAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (48 bp):
CTGATGAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTCC
Found at i:18082201 original size:257 final size:256
Alignment explanation
Indices: 18081720--18082208 Score: 784
Period size: 257 Copynumber: 1.9 Consensus size: 256
18081710 CTAAATCCGC
18081720 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTT
* * *
18081785 CAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTTCTA
66 CAAACCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTA
*
18081850 ATGAGATACAGAGAAGTGGACCAAATCTGCCTTACTGATGAGATACAAAGAAGTGGATTAAATCA
131 ATGAGATACAGAGAAGTGGACCAAATCCGCCTTACTGATGAGATACAAAGAAGTGGATTAAATCA
* *
18081915 ATGAAGTGGTCATCTCCCTAATAAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCAT
196 ATGAAGCGATCATCTCCCTAATAAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCAT
* * *
18081976 CTTCTTGATGAGATATC-GAGAAGTAGACCAAATCAGTGAAGCAAAGCTTAATGTGAGTGAAACT
1 CTTCCTGATGAGATA-CAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACT
*
18082040 TCAAACCTCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCC
65 TCAAACC-CCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCC
* * *
18082105 TGATGAGATACAGAGAAGTGGACCAAGTCCGCCTT-CTTGATGAGATACAGAGAAGTGGATTAAA
129 TAATGAGATACAGAGAAGTGGACCAAATCCGCCTTAC-TGATGAGATACAAAGAAGTGGATTAAA
* * * *
18082169 TCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
193 TCAATGAAGCGATCATCTCCCTAATAAGATACAAAGAAGT
18082209 AGACCAAGTC
Statistics
Matches: 213, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
256 67 0.31
257 146 0.69
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (256 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTT
CAAACCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTA
ATGAGATACAGAGAAGTGGACCAAATCCGCCTTACTGATGAGATACAAAGAAGTGGATTAAATCA
ATGAAGCGATCATCTCCCTAATAAGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCAT
Found at i:18082202 original size:85 final size:85
Alignment explanation
Indices: 18082059--18082218 Score: 248
Period size: 85 Copynumber: 1.9 Consensus size: 85
18082049 CATCTTCCTA
* * *
18082059 ATGAGATACAGAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGT
1 ATGAGATACAGAGAAGTGGATCAAAGCAAAAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
*
18082124 GGACCAAGTCCGCCTTCTTG
66 AGACCAAGTCCGCCTTCTTG
* * **
18082144 ATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
1 ATGAGATACAGAGAAGTGGATCAAAGCAAAAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
18082209 AGACCAAGTC
66 AGACCAAGTC
18082219 AGTGAAGCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (85 bp):
ATGAGATACAGAGAAGTGGATCAAAGCAAAAAAGCGATCATCTTCCTGATGAGATACAGAGAAGT
AGACCAAGTCCGCCTTCTTG
Found at i:18082208 original size:209 final size:209
Alignment explanation
Indices: 18081938--18082972 Score: 1428
Period size: 209 Copynumber: 4.9 Consensus size: 209
18081928 CTCCCTAATA
* * *
18081938 AGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTTCTTGATGAGATATC-GAGAAGTAG
1 AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATA-CAGAGAAGTAG
* * *
18082002 ACCAAATCAGTGAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCTCCATCTTCCTAATGAGATA
65 ACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATA
* *
18082067 CAGAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAG
130 CAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAA
18082132 TCCGCCTTCTTGATG
195 TCCGCCTTCTTGATG
*
18082147 AGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGA
1 AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
* * * * *
18082212 CCAAGTCAGTGAAGCAAAGCTGAAT-TGGAGTGAAATTTCAAACCCCCATCTTCCTAATGAGATG
66 CCAAATCAATGAAGCAAAGCTCAATGT-GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATA
* * * *
18082276 CAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTAATAAGATACCGAGAATTGGACCAAA
130 CAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAA
* * *
18082341 TTCGCTTTCCTGATG
195 TCCGCCTTCTTGATG
* * * *
18082356 AGATACAGAGAAGTGAATTAAATTAATGAAGCGGTCATCTTCCTAATGAGATACTGAGAAGTAGA
1 AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
* *
18082421 CCAAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTTAAACCCCCATCTTCCTAATGAGATAC
66 CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
* * **
18082486 ATAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCTTGATGAGATACAGAGAAGTGGATTAAAT
131 AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAT
18082551 CAATGAAGCGGTCATCTT-TCTGATG
196 C-------C-G-C--CTTCT-TGATG
* * * ** * *
18082576 AGATATAGAGAAGTGAATTAAATTAATGAAGCAATCATTTTCCTGATGAGATACAGAGAAGTTGA
1 AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
*
18082641 CCAAATCAATGAAGAAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
66 CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
* *
18082706 AGAGAAGTGGGTCAAAGCAATAAATTGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAAT
131 AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAT
** *
18082771 TTGCCTTCTTGATT
196 CCGCCTTCTTGATG
* * * *
18082785 AGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAGA
1 AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
* * *
18082850 CCAAATCAATAAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCTATCTTCCTGATGAGATAC
66 CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
* * * *
18082915 AGAGGAGTGGGTCAAAGCAATAAAGTAGTCATCTTCCTGATGAGATATAGAGGAGTGG
131 AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGG
18082973 GTCAAAGCAA
Statistics
Matches: 729, Mismatches: 81, Indels: 32
0.87 0.10 0.04
Matches are distributed among these distances:
208 2 0.00
209 534 0.73
210 2 0.00
211 1 0.00
212 1 0.00
216 1 0.00
217 1 0.00
218 1 0.00
220 186 0.26
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (209 bp):
AGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA
CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAT
CCGCCTTCTTGATG
Found at i:18082408 original size:85 final size:85
Alignment explanation
Indices: 18082262--18082426 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
18082252 AACCCCCATC
* ** *
18082262 TTCCTAATGAGATGCAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTAATAAGATACCG
1 TTCCTAATGAGATACAGAGAAGTGAATCAAAGCAATAAAGCGGTCATCTTCCTAATAAGATACCG
* *
18082327 AGAATTGGACCAAATTCGCT
66 AGAAGTAGACCAAATTCGCT
* * ** * * *
18082347 TTCCTGATGAGATACAGAGAAGTGAATTAAATTAATGAAGCGGTCATCTTCCTAATGAGATACTG
1 TTCCTAATGAGATACAGAGAAGTGAATCAAAGCAATAAAGCGGTCATCTTCCTAATAAGATACCG
18082412 AGAAGTAGACCAAAT
66 AGAAGTAGACCAAAT
18082427 CAATGAAGCA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (85 bp):
TTCCTAATGAGATACAGAGAAGTGAATCAAAGCAATAAAGCGGTCATCTTCCTAATAAGATACCG
AGAAGTAGACCAAATTCGCT
Found at i:18082540 original size:48 final size:48
Alignment explanation
Indices: 18082467--18082637 Score: 164
Period size: 48 Copynumber: 3.6 Consensus size: 48
18082457 TTTAAACCCC
* * * * *
18082467 CATCTTCCTAATGAGATACATAGAAGTGGGTCAAAGCAATAAAGTGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
* * *
18082515 CATCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
* * * ** * **
18082563 CATCTT-TCTGATGAGATATAGAGAAGTGAATTAAATTAATGAAGCAAT
1 CATCTTCT-TGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
* *
18082611 CATTTTCCTGATGAGATACAGAGAAGT
1 CATCTTCTTGATGAGATACAGAGAAGT
18082638 TGACCAAATC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 104 0.99
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (48 bp):
CATCTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
Found at i:18082652 original size:48 final size:48
Alignment explanation
Indices: 18082514--18082654 Score: 169
Period size: 48 Copynumber: 2.9 Consensus size: 48
18082504 AATAAAGTGG
* * * **
18082514 TCATCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGG
1 TCATTTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAGCAA
* *
18082562 TCATCTTT-CTGATGAGATATAGAGAAG-TGAATTAAATTAATGAAGCAA
1 TCAT-TTTCCTGATGAGATACAGAGAAGTTG-ATTAAATCAATGAAGCAA
**
18082610 TCATTTTCCTGATGAGATACAGAGAAGTTGACCAAATCAATGAAG
1 TCATTTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAG
18082655 AAAAGCTCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
47 4 0.05
48 70 0.90
49 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (48 bp):
TCATTTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAGCAA
Found at i:18082737 original size:220 final size:218
Alignment explanation
Indices: 18081884--18083074 Score: 1386
Period size: 209 Copynumber: 5.6 Consensus size: 218
18081874 ATCTGCCTTA
* * * ** * * *
18081884 CTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGTGGTCATCTCCCTAATAAGATACAAAGA
1 CTGATGAGATACAGAGAAGTGGATCAAATCAAT-AAG-CGTCATCTTTCTGATGAGATACAGAGA
* ** * *
18081949 AGTGGATTAAACCAATGAAGCGGTCATCTTCTTGATGAGATATC-GAGAAGTAGACCAAATCAGT
64 AGTGAATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATA-CAGAGAAGTAGACCAAATCAAT
* *
18082013 GAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCTCCATCTTCCTAATGAGATACAGAGAAGTGG
128 GAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGG
*
18082078 GTCAAAGCAAAAAAGTGGTCATCTTC
193 GTCAAAGCAATAAAGTGGTCATCTTC
* *
18082104 CTGATGAGATACAGAGAAGTGGACCAAGTC------CG-C--C-TTCTTGATGAGATACAGAGAA
1 CTGATGAGATACAGAGAAGTGGATCAAATCAATAAGCGTCATCTTTC-TGATGAGATACAGAGAA
* * * * *
18082159 GTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAGTCAGTGA
65 GTGAATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGA
* * *
18082224 AGCAAAGCTGAAT-TGGAGTGAAATTTCAAACCCCCATCTTCCTAATGAGATGCAGAGAAGTGGG
130 AGCAAAGCTCAATGT-GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGG
18082288 TCAAAGCAATAAAGTGGTCATCTTC
194 TCAAAGCAATAAAGTGGTCATCTTC
* * * * * *
18082313 CTAATAAGATACCGAGAATTGGACCAAAT---T---CG-C-T-TTCCTGATGAGATACAGAGAAG
1 CTGATGAGATACAGAGAAGTGGATCAAATCAATAAGCGTCATCTTTCTGATGAGATACAGAGAAG
* *
18082369 TGAATTAAATTAATGAAGCGGTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATGAA
66 TGAATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAA
* * *
18082434 GCAAAGCTCAATGTAAGTGAAACTTTAAACCCCCATCTTCCTAATGAGATACATAGAAGTGGGTC
131 GCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTC
18082499 AAAGCAATAAAGTGGTCATCTTC
196 AAAGCAATAAAGTGGTCATCTTC
* * *
18082522 TTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTTCTGATGAGATATAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAATCAAT-AAGC-GTCATCTTTCTGATGAGATACAGAGA
** * *
18082587 AGTGAATTAAATTAATGAAGCAATCATTTTCCTGATGAGATACAGAGAAGTTGACCAAATCAATG
64 AGTGAATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATG
*
18082652 AAGAAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGG
129 AAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGG
*
18082717 TCAAAGCAATAAATTGGTCATCTTC
194 TCAAAGCAATAAAGTGGTCATCTTC
* * * * *
18082742 CTGATGAGATACAAAGAAGTGGACCAAAT---T-TGC--C-T-TCT-TGATTAGATACAGAGAAG
1 CTGATGAGATACAGAGAAGTGGATCAAATCAATAAGCGTCATCTTTCTGATGAGATACAGAGAAG
* * * * *
18082798 T-AGATTAAATCAATAAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAGACCAAATCAATAA
66 TGA-ATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGA
* * *
18082862 AGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCTATCTTCCTGATGAGATACAGAGGAGTGGGT
130 AGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGT
*
18082927 CAAAGCAATAAAGTAGTCATCTTC
195 CAAAGCAATAAAGTGGTCATCTTC
* * * * * * *
18082951 CTGATGAGATATAGAGGAGTGGGTCAAAGCAATAAAGTAGTCATCTTCCTGATGAAATACAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAATCAAT-AAG-CGTCATCTTTCTGATGAGATACAGAGA
* * * * * *
18083016 AGTTG-ATCGAAA-CAATGAAGCGGTCATCTTACTGATGAGATGCAGAGAAATGGACCAAA
64 AG-TGAAT-TAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAA
18083075 AGATGAAGTT
Statistics
Matches: 837, Mismatches: 101, Indels: 66
0.83 0.10 0.07
Matches are distributed among these distances:
208 4 0.00
209 536 0.64
210 5 0.01
211 2 0.00
212 4 0.00
214 1 0.00
215 2 0.00
216 1 0.00
217 3 0.00
218 2 0.00
219 2 0.00
220 271 0.32
221 4 0.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (218 bp):
CTGATGAGATACAGAGAAGTGGATCAAATCAATAAGCGTCATCTTTCTGATGAGATACAGAGAAG
TGAATTAAATTAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAA
GCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTC
AAAGCAATAAAGTGGTCATCTTC
Found at i:18082791 original size:429 final size:427
Alignment explanation
Indices: 18081938--18083074 Score: 1521
Period size: 429 Copynumber: 2.7 Consensus size: 427
18081928 CTCCCTAATA
* * * * *
18081938 AGATACAAAGAAGTGGATTAAACCAATGAAGCGGTCATCTTCTTGATGAGATATCGAGAAGTAGA
1 AGATACAGAGAAGTGAATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAGA
* * *
18082003 CCAAATCAGTGAAGCAAAGCTTAATGTGAGTGAAACTTCAAACCTCCATCTTCCTAATGAGATAC
66 CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
*
18082068 AGAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGG---ACCA
131 AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGTAAACCA
* * * *
18082130 A-G--TCCG-C--C-TTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTT
196 ATGAAGCAGTCATCTTTC-TGATGAGATACAGAGAAGTGAATTAAATCAATGAAGCAATCATCTT
* * * * *
18082188 CCTGATGAGATACAGAGAAGTAGACCAAGTCAGTGAAGCAAAGCTGAATTGGAGTGAAATTTCAA
260 CCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGAAAAGCTCAATTGGAGTGAAACTTCAA
*
18082253 ACCCCCATCTTCCTAATGAGATGCAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTAAT
325 ACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTAAT
** * *
18082318 AAGATACCGAGAATTGGACCAAATTCGCTTTCCTGATG
390 AAGATACAAAGAAGTGGACCAAATTCGCCTTCCTGATG
* *
18082356 AGATACAGAGAAGTGAATTAAATTAATGAAGCGGTCATCTTCCTAATGAGATACT-GAGAAGTAG
1 AGATACAGAGAAGTGAATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATA-TAGAGAAGTAG
* *
18082420 ACCAAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTTAAACCCCCATCTTCCTAATGAGATA
65 ACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATA
* *
18082485 CATAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCTTGATGAGATACAGAGAAGTGGATTAAA
130 CAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGG--TAAA
* * * * *
18082550 TCAATGAAGCGGTCATCTTTCTGATGAGATATAGAGAAGTGAATTAAATTAATGAAGCAATCATT
193 CCAATGAAGCAGTCATCTTTCTGATGAGATACAGAGAAGTGAATTAAATCAATGAAGCAATCATC
*
18082615 TTCCTGATGAGATACAGAGAAGTTGACCAAATCAATGAAGAAAAGCTCAA-TGTGAGTGAAACTT
258 TTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGAAAAGCTCAATTG-GAGTGAAACTT
*
18082679 CAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAATTGGTCATCTTCCT
322 CAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCT
* * * * *
18082744 GATGAGATACAAAGAAGTGGACCAAATTTGCCTTCTTGATT
387 AATAAGATACAAAGAAGTGGACCAAATTCGCCTTCCTGATG
* *
18082785 AGATACAGAGAAGT-AGATTAAATCAATAAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAG
1 AGATACAGAGAAGTGA-ATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAG
* * *
18082849 ACCAAATCAATAAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCTATCTTCCTGATGAGATA
65 ACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATA
* * * *
18082914 CAGAGGAGTGGGTCAAAGCAATAAAGTAGTCATCTTCCTGATGAGATATAGAGGAGTGGGTCAAA
130 CAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGT-GGT-AAA
* * * * * * **
18082979 GCAATAAAGTAGTCATCTTCCTGATGAAATACAGAGAAGTTG-ATCGAAA-CAATGAAGCGGTCA
193 CCAATGAAGCAGTCATCTTTCTGATGAGATACAGAGAAG-TGAAT-TAAATCAATGAAGCAATCA
* * * *
18083042 TCTTACTGATGAGATGCAGAGAAATGGACCAAA
256 TCTTCCTGATGAGATACAGAGAAGTAGACCAAA
18083075 AGATGAAGTT
Statistics
Matches: 629, Mismatches: 70, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
418 172 0.27
419 1 0.00
423 4 0.01
424 1 0.00
426 2 0.00
427 1 0.00
428 5 0.01
429 433 0.69
430 10 0.02
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (427 bp):
AGATACAGAGAAGTGAATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAGA
CCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATAC
AGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGTAAACCA
ATGAAGCAGTCATCTTTCTGATGAGATACAGAGAAGTGAATTAAATCAATGAAGCAATCATCTTC
CTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGAAAAGCTCAATTGGAGTGAAACTTCAAA
CCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTAATA
AGATACAAAGAAGTGGACCAAATTCGCCTTCCTGATG
Found at i:18082843 original size:85 final size:85
Alignment explanation
Indices: 18082700--18082855 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
18082690 CTTCCTAATG
* * ** *
18082700 AGATACAGAGAAGTGGGTCAAAGCAATAAATTGGTCATCTTCCTGATGAGATACAAAGAAGTGGA
1 AGATACAGAGAAGTAGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGA
18082765 CCAAATTTGCCTTCTTGATT
66 CCAAATTTGCCTTCTTGATT
* * *
18082785 AGATACAGAGAAGTAGATTAAATCAATAAAGCGGTCATCTTCCTGATGAGATATAAAGAAGTAGA
1 AGATACAGAGAAGTAGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGA
18082850 CCAAAT
66 CCAAAT
18082856 CAATAAAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (85 bp):
AGATACAGAGAAGTAGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGA
CCAAATTTGCCTTCTTGATT
Found at i:18082968 original size:48 final size:48
Alignment explanation
Indices: 18082897--18083062 Score: 226
Period size: 48 Copynumber: 3.5 Consensus size: 48
18082887 TCAAACCCCT
18082897 ATCTTCCTGATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTAGTC
1 ATCTTCCTGATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTAGTC
*
18082945 ATCTTCCTGATGAGATATAGAGGAGTGGGTCAAAGCAATAAAGTAGTC
1 ATCTTCCTGATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTAGTC
* * * * * **
18082993 ATCTTCCTGATGAAATACAGAGAAGTTGATCGAAA-CAATGAAGCGGTC
1 ATCTTCCTGATGAGATACAGAGGAGTGGGTC-AAAGCAATAAAGTAGTC
* *
18083041 ATCTTACTGATGAGATGCAGAG
1 ATCTTCCTGATGAGATACAGAG
18083063 AAATGGACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 102 0.97
49 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (48 bp):
ATCTTCCTGATGAGATACAGAGGAGTGGGTCAAAGCAATAAAGTAGTC
Done.