Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015136.1 Kokia drynarioides strain JFW-HI SEQ_130180, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 601175
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Warning! 598 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:9682 original size:23 final size:23
Alignment explanation
Indices: 9655--9708 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9645 TCGAACTTGA
* *
9655 AACTCGAATTACT-TATTCGAGTT
1 AACTCGAATAACTCGATTCGA-TT
*
9678 GACTCGAATAACTCGATTCGATT
1 AACTCGAATAACTCGATTCGATT
9701 AACTCGAA
1 AACTCGAA
9709 ATTCGAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (23 bp):
AACTCGAATAACTCGATTCGATT
Found at i:17813 original size:2 final size:2
Alignment explanation
Indices: 17806--17836 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17796 CGAGGCTTTT
17806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17837 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18401 original size:31 final size:32
Alignment explanation
Indices: 18340--18405 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
18330 TAATAATAAT
* *
18340 AATAACTTAAATAACAACTTTTTGAATAGTTC
1 AATAACTTAAATAAAAACTTTTCGAATAGTTC
18372 AATAACTTAAATAAAAAC-TTTCGAATAGTTC
1 AATAACTTAAATAAAAACTTTTCGAATAGTTC
18403 AAT
1 AAT
18406 GATCAAACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (32 bp):
AATAACTTAAATAAAAACTTTTCGAATAGTTC
Found at i:19728 original size:29 final size:28
Alignment explanation
Indices: 19655--19849 Score: 124
Period size: 30 Copynumber: 6.5 Consensus size: 28
19645 TTTGGGATTT
* * *
19655 CAAAATTTTATTTTTGATCTCGAAACTTTT
1 CAAAATTCTATTTTT-ACCTCGAAAC-TTC
* * * *
19685 GAAAATTATCA-TTTTATCTCTAAACTTC
1 CAAAATTCT-ATTTTTACCTCGAAACTTC
*
19713 CAAAAATTCTATTTTTGACC-CTAAAACTTCC
1 C-AAAATTCTATTTTT-ACCTC-GAAACTT-C
* * *
19744 CAAAATTCCATTTTAACCTCAAAACTTC
1 CAAAATTCTATTTTTACCTCGAAACTTC
* *
19772 CCAAATTTTCATTTTTACCCTCGAAACTTTC
1 CAAAATTCT-ATTTTTA-CCTCGAAAC-TTC
*
19803 CAAAATTCCATTTTTACCCCTCGAAACTTTC
1 CAAAATTCTATTTTTA--CCTCGAAAC-TTC
19834 CAAAAATTCTATTTTT
1 C-AAAATTCTATTTTT
19850 TAACCCCAAG
Statistics
Matches: 134, Mismatches: 19, Indels: 22
0.77 0.11 0.13
Matches are distributed among these distances:
28 10 0.07
29 37 0.28
30 47 0.35
31 27 0.20
32 13 0.10
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.41
Consensus pattern (28 bp):
CAAAATTCTATTTTTACCTCGAAACTTC
Found at i:19749 original size:59 final size:58
Alignment explanation
Indices: 19694--19849 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 58
19684 TGAAAATTAT
* *
19694 CATTTTATCTCTAAACTTCCAAAAATTCTATTTTTGACCCT-AAAACTTCCCAAAATTC
1 CATTTTACCTCAAAACTTCCAAAAATTCTATTTTT-ACCCTCAAAACTTCCCAAAATTC
* * * *
19752 CATTTTAACCTCAAAACTTCC-CAAATTTTCATTTTTACCCTCGAAACTTTCCAAAATTC
1 CATTTT-ACCTCAAAACTTCCAAAAATTCT-ATTTTTACCCTCAAAACTTCCCAAAATTC
*
19811 CATTTTTACCCCTCGAAACTTTCCAAAAATTCTATTTTT
1 CA-TTTTA--CCTCAAAAC-TTCCAAAAATTCTATTTTT
19850 TAACCCCAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
58 17 0.21
59 36 0.44
60 4 0.05
61 8 0.10
62 10 0.12
63 6 0.07
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (58 bp):
CATTTTACCTCAAAACTTCCAAAAATTCTATTTTTACCCTCAAAACTTCCCAAAATTC
Found at i:19824 original size:31 final size:29
Alignment explanation
Indices: 19706--19908 Score: 155
Period size: 30 Copynumber: 6.8 Consensus size: 29
19696 TTTTATCTCT
* *
19706 AAAC-TTCCAAAAATTCTATTTTTGACCCTA
1 AAACTTTCC-AAAATTCCATTTTT-ACCCTC
* *
19736 AAACTTCCCAAAATTCCA-TTTTAACCTC
1 AAACTTTCCAAAATTCCATTTTTACCCTC
* * *
19764 AAAACTTCCCAAATTTTCATTTTTACCCTC
1 -AAACTTTCCAAAATTCCATTTTTACCCTC
19794 GAAACTTTCCAAAATTCCATTTTTACCCCTC
1 -AAACTTTCCAAAATTCCATTTTTA-CCCTC
*
19825 GAAACTTTCCAAAAATTCTATTTTTTAACCC-C
1 -AAACTTTCC-AAAATTCCA-TTTTT-ACCCTC
* * *
19857 AAGCTTTCAAAAATTACCA-TTTTACCCCC
1 AAACTTTCCAAAATT-CCATTTTTACCCTC
* *
19886 AGA-TGTCCAAAATTTCCATTTTT
1 AAACTTTCCAAAA-TTCCATTTTT
19909 GATCTCGATT
Statistics
Matches: 143, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
28 18 0.13
29 32 0.22
30 48 0.34
31 27 0.19
32 9 0.06
33 8 0.06
34 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (29 bp):
AAACTTTCCAAAATTCCATTTTTACCCTC
Found at i:38320 original size:30 final size:30
Alignment explanation
Indices: 38286--38348 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
38276 TCGGCTGCAA
38286 CTGGTGTCAGTGGTTCTCAATTTTCTCAAC
1 CTGGTGTCAGTGGTTCTCAATTTTCTCAAC
38316 CTGGTGTCAGTGGTTCTCAATTTTCTCAAC
1 CTGGTGTCAGTGGTTCTCAATTTTCTCAAC
38346 CTG
1 CTG
38349 TATGTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.40
Consensus pattern (30 bp):
CTGGTGTCAGTGGTTCTCAATTTTCTCAAC
Found at i:42693 original size:16 final size:16
Alignment explanation
Indices: 42668--42701 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42658 AACATAATAT
*
42668 ATTATTAATTTAAAAA
1 ATTATAAATTTAAAAA
*
42684 ATTATAAATTTATAAA
1 ATTATAAATTTAAAAA
42700 AT
1 AT
42702 CACTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAAATTTAAAAA
Found at i:50956 original size:31 final size:32
Alignment explanation
Indices: 50921--50988 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
50911 TATGTGAGTT
*
50921 AATTTTGCAACTAAGCTTTAAATTTT-ATTAA
1 AATTTTGCAACTAAACTTTAAATTTTAATTAA
* **
50952 AA-TTTGCAACTAAATTTTATTTTTTAATTAA
1 AATTTTGCAACTAAACTTTAAATTTTAATTAA
50983 AATTTT
1 AATTTT
50989 CCTCTCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 19 0.61
31 9 0.29
32 3 0.10
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.50
Consensus pattern (32 bp):
AATTTTGCAACTAAACTTTAAATTTTAATTAA
Found at i:51886 original size:30 final size:30
Alignment explanation
Indices: 51851--51911 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
51841 AAAAATTTTC
51851 AAGGTTTCTTTCCATTAAATAAATATTCTA
1 AAGGTTTCTTTCCATTAAATAAATATTCTA
51881 AAGGTTTCTTTCCATTAAATAAATATTCTA
1 AAGGTTTCTTTCCATTAAATAAATATTCTA
51911 A
1 A
51912 GTTAATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (30 bp):
AAGGTTTCTTTCCATTAAATAAATATTCTA
Found at i:55594 original size:30 final size:29
Alignment explanation
Indices: 55559--55624 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
55549 ATAATTTGTA
* *
55559 AAAATTGAATC-AAATCGAAATTTCATTTAT
1 AAAATT-AATCAAAATC-AAAATTCATATAT
*
55589 AAAATTACTCAAAATCAAAATTCATATAT
1 AAAATTAATCAAAATCAAAATTCATATAT
55618 AAAATTA
1 AAAATTA
55625 CACATTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTAATCAAAATCAAAATTCATATAT
Found at i:56857 original size:14 final size:14
Alignment explanation
Indices: 56838--56868 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
56828 AAAATCTAAT
56838 AATCAATACATTAC
1 AATCAATACATTAC
56852 AATCAATACATTAC
1 AATCAATACATTAC
56866 AAT
1 AAT
56869 ATCTTGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (14 bp):
AATCAATACATTAC
Found at i:60209 original size:59 final size:58
Alignment explanation
Indices: 60084--60221 Score: 134
Period size: 59 Copynumber: 2.3 Consensus size: 58
60074 TAACATTTGT
* * * * *
60084 TATTTTCTTTTAATTTGATATTTAAATTTTTTCGATTCAATTTGGTGTTTAAATTTGA
1 TATTTTTTTTTAATTTGATATCTAAATTTTTTCGATTCAATTTGATATTTAAACTTGA
* * * * *
60142 CACATTTTTTTTAATTTGGTATCTAAATTTTTTGGGA-TCAAATTTGATATTTGAACTTGA
1 TA-TTTTTTTTTAATTTGATATCTAAATTTTTT-CGATTC-AATTTGATATTTAAACTTGA
**
60202 TATTTTTTCCTAATTTGATA
1 TATTTTTTTTTAATTTGATA
60222 CTTAAGCTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
58 1 0.02
59 42 0.68
60 19 0.31
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (58 bp):
TATTTTTTTTTAATTTGATATCTAAATTTTTTCGATTCAATTTGATATTTAAACTTGA
Found at i:67064 original size:21 final size:22
Alignment explanation
Indices: 67014--67065 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
67004 CTGAAACCCA
*
67014 AAATCC-AAAACTCAAAACCTC
1 AAATCCTAAACCTCAAAACCTC
*
67035 AAA-CCTAAACCT-AAAACCTT
1 AAATCCTAAACCTCAAAACCTC
67055 AAATCCTAAAC
1 AAATCCTAAAC
67066 ACCAAACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATCCTAAACCTCAAAACCTC
Found at i:67065 original size:27 final size:27
Alignment explanation
Indices: 67035--67103 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
67025 TCAAAACCTC
*
67035 AAACCTAAACCTAAAACCTTAAATCCT
1 AAACCTAAACCTAAAACCTTAAACCCT
* * *
67062 AAACACCAAA-CTCAAACCTTGAACCCT
1 AAAC-CTAAACCTAAAACCTTAAACCCT
* *
67089 AAATCTAAACATAAA
1 AAACCTAAACCTAAA
67104 CTCTGAGATC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (27 bp):
AAACCTAAACCTAAAACCTTAAACCCT
Found at i:67072 original size:21 final size:20
Alignment explanation
Indices: 67014--67065 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
67004 CTGAAACCCA
*
67014 AAATCCAAAACTCAAAACCTC
1 AAATCCTAAAC-CAAAACCTC
*
67035 AAA-CCTAAACCTAAAACCTT
1 AAATCCTAAACC-AAAACCTC
67055 AAATCCTAAAC
1 AAATCCTAAAC
67066 ACCAAACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 10 0.37
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATCCTAAACCAAAACCTC
Found at i:73861 original size:6 final size:6
Alignment explanation
Indices: 73839--73924 Score: 68
Period size: 6 Copynumber: 14.5 Consensus size: 6
73829 GTTTAAGCTG
* * * * *
73839 ATTTAA ATTTAT TTTTAA ATTTAA ATTTATC TTTTTA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA
* * **
73888 ATTT-G CTTTAA ATTTAA ATTT-A ATCAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
73925 GATATTAAAT
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
5 6 0.10
6 50 0.85
7 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:73876 original size:42 final size:42
Alignment explanation
Indices: 73830--73909 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
73820 TTAAGTTGGG
* **
73830 TTTAAGCT-GATTTAAATTTATTTTTAAATTTAAATTTATCTT
1 TTTAAGCTAAATTTAAATTT-GCTTTAAATTTAAATTTATCTT
**
73872 TTTAATTTAAATTTAAATTTGCTTTAAATTTAAATTTA
1 TTTAAGCTAAATTTAAATTTGCTTTAAATTTAAATTTA
73910 ATCAAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 22 0.69
43 10 0.31
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (42 bp):
TTTAAGCTAAATTTAAATTTGCTTTAAATTTAAATTTATCTT
Found at i:73878 original size:19 final size:18
Alignment explanation
Indices: 73839--73909 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 18
73829 GTTTAAGCTG
73839 ATTTAAATTTATTTTTAA
1 ATTTAAATTTATTTTTAA
*
73857 ATTTAAATTTATCTTTTTA
1 ATTTAAATTTAT-TTTTAA
73876 ATTTAAATTTAAATTTGCTTTAA
1 ATTTAAATTT--A-TT--TTTAA
73899 ATTTAAATTTA
1 ATTTAAATTTA
73910 ATCAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.27
19 15 0.33
21 3 0.07
22 1 0.02
23 14 0.31
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
ATTTAAATTTATTTTTAA
Found at i:73934 original size:17 final size:17
Alignment explanation
Indices: 73878--73935 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
73868 TCTTTTTAAT
*
73878 TTAAATTTAAATTTGCT-
1 TTAAATTTAAA-TTGATA
*
73895 TTAAATTTAAATTTA-A
1 TTAAATTTAAATTGATA
*
73911 TCAAAATTTAAATTGATA
1 T-TAAATTTAAATTGATA
73929 TTAAATT
1 TTAAATT
73936 AAAAACCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.09
17 28 0.85
18 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TTAAATTTAAATTGATA
Found at i:73939 original size:23 final size:23
Alignment explanation
Indices: 73894--73939 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
73884 TTAAATTTGC
* *
73894 TTTAAATTTAAATTTAATCAAAA
1 TTTAAATTGAAATTAAATCAAAA
* *
73917 TTTAAATTGATATTAAATTAAAA
1 TTTAAATTGAAATTAAATCAAAA
73940 ACCCAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTAAATTGAAATTAAATCAAAA
Found at i:74686 original size:3 final size:3
Alignment explanation
Indices: 74601--74675 Score: 62
Period size: 3 Copynumber: 25.0 Consensus size: 3
74591 TAAATGTCAT
* * *
74601 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAC TAA T-A TCAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* ** * *
74646 TAT TAA TAA CGA CAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74676 ACGTTAATAA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
2 2 0.04
3 54 0.95
4 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:75793 original size:29 final size:28
Alignment explanation
Indices: 75761--75992 Score: 119
Period size: 29 Copynumber: 7.9 Consensus size: 28
75751 AAAATTATAT
* *
75761 TTTTGACCTTCGAACTTCTAAAAATTCCA
1 TTTTGACC-TCAAACTTCCAAAAATTCCA
* **
75790 TTTTAAACC-CTAAACTTCCAAAAATTATA
1 TTTT-GACCTC-AAACTTCCAAAAATTCCA
* * ***
75819 TTTTTAACCCCAAAACTTTTGAAAATTCCA
1 -TTTTGACCTC-AAACTTCCAAAAATTCCA
* *
75849 TTTTTAGACC-CGAACTTCCAAAAATTCTA
1 -TTTT-GACCTCAAACTTCCAAAAATTCCA
* * *
75878 TTTTTACCCTTAAACTTCTAAAAATTCCA
1 TTTTGA-CCTCAAACTTCCAAAAATTCCA
*
75907 TTTTTGACCTCAAAACTTCCAAAAATTTCA
1 -TTTTGACCTC-AAACTTCCAAAAATTCCA
* * * *
75937 TTTTTACCCCCGAACCTT-CAAAAATTTCA
1 TTTTGA-CCTC-AAACTTCCAAAAATTCCA
* *
75966 TTTTTGAGCTCAAAACTTTCAAAAATT
1 -TTTTGACCTC-AAACTTCCAAAAATT
75993 TAAAAAGTTT
Statistics
Matches: 156, Mismatches: 35, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 7 0.04
29 76 0.49
30 69 0.44
31 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (28 bp):
TTTTGACCTCAAACTTCCAAAAATTCCA
Found at i:75970 original size:88 final size:86
Alignment explanation
Indices: 75708--75970 Score: 237
Period size: 88 Copynumber: 3.0 Consensus size: 86
75698 TCCTAAAGGT
* * ** *
75708 CCCTAAACTATTCGAAAATTACATTTTT-ACCCCCGAA-TTACCAAAAATTAT-ATTTTTGACCT
1 CCCTAAACT-TCCAAAAATTACATTTTTAACCCCAAAACTT-CCAAAAATT-TCATTTTT-ACCC
* * *
75770 TCGAACTTCTAAAAATTCCATTTTAAA
62 CCGAACTTC-AAAAATTTCATTTT-TA
* *** * **
75797 CCCTAAACTTCCAAAAATTATATTTTTAACCCCAAAACTTTTGAAAATTCCATTTTTAGACCCGA
1 CCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCCGA
75862 ACTTCCAAAAA-TTCTATTTTTA
66 ACTT-CAAAAATTTC-ATTTTTA
* * * *
75884 CCCTTAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTTCATTTTTACCCCCG
1 CCC-TAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCCG
75949 AACCTTCAAAAATTTCATTTTT
65 AA-CTTCAAAAATTTCATTTTT
75971 GAGCTCAAAA
Statistics
Matches: 140, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
87 6 0.04
88 97 0.69
89 35 0.25
90 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (86 bp):
CCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCCGA
ACTTCAAAAATTTCATTTTTA
Found at i:75989 original size:30 final size:30
Alignment explanation
Indices: 75749--75993 Score: 145
Period size: 30 Copynumber: 8.3 Consensus size: 30
75739 CCCGAATTAC
*
75749 CAAAAATTAT-ATTTTTGACCTTC-GAAC-TT
1 CAAAAATT-TCATTTTTGACC-TCAAAACTTT
* ** * *
75778 CTAAAAATTCCATTTTAAACC-CTAAACTTC
1 C-AAAAATTTCATTTTTGACCTCAAAACTTT
* *
75808 CAAAAATTAT-ATTTTTAACCCCAAAACTTT
1 CAAAAATT-TCATTTTTGACCTCAAAACTTT
** * * *
75838 TGAAAATTCCATTTTTAGACC-C-GAACTTC
1 CAAAAATTTCATTTTT-GACCTCAAAACTTT
*
75867 CAAAAA-TTCTATTTTT-ACC-CTTAAAC-TT
1 CAAAAATTTC-ATTTTTGACCTC-AAAACTTT
* *
75895 CTAAAAATTCCATTTTTGACCTCAAAACTTC
1 C-AAAAATTTCATTTTTGACCTCAAAACTTT
* ** *
75926 CAAAAATTTCATTTTT-ACCCCCGAACCTT
1 CAAAAATTTCATTTTTGACCTCAAAACTTT
*
75955 CAAAAATTTCATTTTTGAGCTCAAAACTTT
1 CAAAAATTTCATTTTTGACCTCAAAACTTT
75985 CAAAAATTT
1 CAAAAATTT
75994 AAAAAGTTTT
Statistics
Matches: 165, Mismatches: 34, Indels: 33
0.71 0.15 0.14
Matches are distributed among these distances:
27 4 0.02
28 5 0.03
29 73 0.44
30 77 0.47
31 6 0.04
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (30 bp):
CAAAAATTTCATTTTTGACCTCAAAACTTT
Found at i:75993 original size:59 final size:60
Alignment explanation
Indices: 75748--75993 Score: 240
Period size: 59 Copynumber: 4.2 Consensus size: 60
75738 CCCCGAATTA
* * ** *
75748 CCAAAAA-TTATATTTTTGACCTTCG-AACTTCTAAAAATTCCATTTTAAACC-CTAAACTT
1 CCAAAAATTTCTATTTTT-ACC-CCGAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTT
* * * * *
75807 CCAAAAA-TTATATTTTTAACCCCAAAACTTTTGAAAATTCCATTTTTAGACC-C-GAACTT
1 CCAAAAATTTCTATTTTT-ACCCCGAAACTTCTAAAAATTCCATTTTT-GACCTCAAAACTT
**
75866 CCAAAAA-TTCTATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTT
1 CCAAAAATTTCTATTTTTACCCCGAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTT
* * *
75925 CCAAAAATTTC-ATTTTTACCCCCGAACCTTC-AAAAATTTCATTTTTGAGCTCAAAACTT
1 CCAAAAATTTCTATTTTTA-CCCCGAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTT
*
75984 TCAAAAATTT
1 CCAAAAATTT
75994 AAAAAGTTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
57 4 0.02
58 27 0.17
59 114 0.71
60 16 0.10
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (60 bp):
CCAAAAATTTCTATTTTTACCCCGAAACTTCTAAAAATTCCATTTTTGACCTCAAAACTT
Found at i:80928 original size:16 final size:15
Alignment explanation
Indices: 80898--80926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
80888 GACATGTCTC
80898 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
80913 TTTTTAAAATATTT
1 TTTTTAAAATATTT
80927 TACTATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATTTA
Found at i:88537 original size:6 final size:6
Alignment explanation
Indices: 88520--88606 Score: 51
Period size: 6 Copynumber: 15.0 Consensus size: 6
88510 AGCCCAACAG
* * * *
88520 AATTTA AA-TTA ATTTTA AAATTA AGTTT- ATTTTA AATTTA AA-TT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
88564 CATTGGA AATTTA AATTT- -ATTATA AATTTA AATTTA AGATTTA
1 AATT-TA AATTTA AATTTA AATT-TA AATTTA AATTTA A-ATTTA
88607 TTTAAATAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
4 4 0.07
5 12 0.20
6 34 0.56
7 11 0.18
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (6 bp):
AATTTA
Found at i:88596 original size:23 final size:23
Alignment explanation
Indices: 88570--88613 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
88560 AATTCATTGG
88570 AAATTTAA-ATTTATTATAAATTT
1 AAATTTAAGATTTATT-TAAATTT
88593 AAATTTAAGATTTATTTAAAT
1 AAATTTAAGATTTATTTAAAT
88614 AATGTCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATTTAAGATTTATTTAAATTT
Found at i:88598 original size:17 final size:17
Alignment explanation
Indices: 88520--88599 Score: 97
Period size: 17 Copynumber: 4.7 Consensus size: 17
88510 AGCCCAACAG
*
88520 AATTTAAATTAATTTTA
1 AATTTAAATTTATTTTA
* *
88537 AAATTAAGTTTATTTTA
1 AATTTAAATTTATTTTA
* **
88554 AATTTAAATTCATTGGA
1 AATTTAAATTTATTTTA
*
88571 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
88588 AATTTAAATTTA
1 AATTTAAATTTA
88600 AGATTTATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 52 1.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:90462 original size:60 final size:60
Alignment explanation
Indices: 90365--90558 Score: 202
Period size: 60 Copynumber: 3.3 Consensus size: 60
90355 GACCTCGACT
* * *
90365 TTTCCAAAATTCCA-TTTTTAACCTCGAACTTTCCAAAAATTAAAATTTTTCCCTCAAAC
1 TTTCCAAAATTCCATTTTTTAACCTCAAAATTTCCAAAAATTAAAATTTTACCCTCAAAC
* * *
90424 TTTCCAAAATTCAATTTTTTAACC-CTAAAATTTTCAAAAATTACAATTTTACCCTCAAAC
1 TTTCCAAAATTCCATTTTTTAACCTC-AAAATTTCCAAAAATTAAAATTTTACCCTCAAAC
* * * * * *
90484 TTTCCAAAATTCCA--TTTTCACCTCGAATTTTCAAAAAATT-ACATTTTGA-CCTCGAAC
1 TTTCCAAAATTCCATTTTTTAACCTCAAAATTTCCAAAAATTAAAATTTT-ACCCTCAAAC
*
90541 CTTCCAAAATTACCATTT
1 TTTCCAAAATT-CCATTT
90559 ACCCCCGGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
57 22 0.20
58 23 0.21
59 15 0.13
60 52 0.46
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (60 bp):
TTTCCAAAATTCCATTTTTTAACCTCAAAATTTCCAAAAATTAAAATTTTACCCTCAAAC
Found at i:90629 original size:59 final size:57
Alignment explanation
Indices: 90470--90742 Score: 241
Period size: 59 Copynumber: 4.7 Consensus size: 57
90460 AAAATTACAA
* * * * **
90470 TTTT-ACCCTCAAACTTTCCAAAATT-CCATTTTCACCTCGA-ATTTTCAAAAAATTACA
1 TTTTAACCC-CAAACTTTCCAAAATTACCATTTT-ACCCCCAGA-TGTCTAAAAATTATT
* * * * * *
90527 TTTTGACCTCGAACCTTCCAAAATTACCA-TTTACCCCCGGATGTCTAAAAATTTTGT
1 TTTTAACCCCAAACTTTCCAAAATTACCATTTTACCCCCAGATGTCTAAAAATTAT-T
*
90584 TTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCCCAGATGTCTAAAAATTCCTT
1 TTTTAACCCCAAACTTTCC-AAAATTACCATTTTACCCCCAGATGTCTAAAAATT-ATT
* * * **
90643 TTTTAACCCCGAACTTTCCAAAAATTTCCATTTTACCCCC-GAATATCTAAAAATTACCA
1 TTTTAACCCCAAACTTTCC-AAAATTACCATTTTACCCCCAG-ATGTCTAAAAATTA-TT
* *
90702 TTTTAACCCCAAATCCTTCCAAAATTACCATTTTAACCCCA
1 TTTTAACCCCAAA-CTTTCCAAAATTACCATTTTACCCCCA
90743 AATCCTTCCA
Statistics
Matches: 178, Mismatches: 27, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
56 14 0.08
57 37 0.21
58 17 0.10
59 104 0.58
60 6 0.03
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (57 bp):
TTTTAACCCCAAACTTTCCAAAATTACCATTTTACCCCCAGATGTCTAAAAATTATT
Found at i:90814 original size:58 final size:55
Alignment explanation
Indices: 90662--90888 Score: 161
Period size: 58 Copynumber: 3.9 Consensus size: 55
90652 CGAACTTTCC
* * * *
90662 AAAAATTTCCATTTTACCCCCGAA-TATCTAAAAATTACCATTTTAACCC-CAAATCCTT
1 AAAAA-TTCCATTTTA-CCCCGAACTTTC-CAAAATTACCATTTT-ACCCTCGAATTC-T
* * *
90720 CCAAAATTACCATTTTAACCCCAAATCCTTCCAAAATTACCATTTTACCCTCGAATGTCT
1 -AAAAATT-CCATTTT-ACCCCGAA-CTTTCCAAAATTACCATTTTACCCTCGAAT-TCT
* *
90780 AAAAATTCCATTTTCACCCCGAACTTTCCAAAAATCACCATTTTACCCTCGGACTTCT
1 AAAAATTCCATTTT-ACCCCGAACTTTCC-AAAATTACCATTTTACCCTC-GAATTCT
* *** * * * *
90838 AAAATTTTGTTTTTGACTCTGAACTTTCCAAAATTACTATTTTGCCCTCGA
1 AAAAATTCCATTTT-ACCCCGAACTTTCCAAAATTACCATTTTACCCTCGA
90889 GTGTCCAAAA
Statistics
Matches: 137, Mismatches: 23, Indels: 19
0.77 0.13 0.11
Matches are distributed among these distances:
56 2 0.01
57 22 0.16
58 60 0.44
59 30 0.22
60 20 0.15
61 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (55 bp):
AAAAATTCCATTTTACCCCGAACTTTCCAAAATTACCATTTTACCCTCGAATTCT
Found at i:90827 original size:29 final size:30
Alignment explanation
Indices: 90333--90824 Score: 292
Period size: 29 Copynumber: 16.8 Consensus size: 30
90323 AGAGTCCCTA
* * * *
90333 AACTATCCAAAAATTA-TATTTTGACCTCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
*
90362 -ACTTTTCC-AAAATT-CCATTTTTAACCTCG
1 AAC-TTTCCAAAAATTACCA-TTTTAACCCCG
** * *
90391 AACTTTCCAAAAATTAAAATTTT-TCCCTCA
1 AACTTTCCAAAAATTACCATTTTAACCC-CG
* **
90421 AACTTTCC-AAAATT-CAATTTTTTAACCCTA
1 AACTTTCCAAAAATTACCA--TTTTAACCCCG
* * * *
90451 AAATTTTCAAAAATTACAATTTT-ACCCTCA
1 AACTTTCCAAAAATTACCATTTTAACCC-CG
* *
90481 AACTTTCC-AAAATT-CCATTTTCACCTCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* * * *
90509 AATTTTCAAAAAATTA-CATTTTGACCTCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* *
90538 AACCTTCC-AAAATTACCA-TTTACCCCCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* * * **** *
90566 GA-TGTCTAAAAATTTTGTTTTTAACCCCA
1 AACTTTCCAAAAATTACCATTTTAACCCCG
*
90595 AACTTTCCAAAAATTACCATTTT-ACCCCC
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* * *
90624 AGA-TGTCTAAAAATT-CCTTTTTTAACCCCG
1 A-ACTTTCCAAAAATTACC-ATTTTAACCCCG
* *
90654 AACTTTCCAAAAATTTCCATTTTACCCCCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* * *
90684 AA-TATCTAAAAATTACCATTTTAACCCCA
1 AACTTTCCAAAAATTACCATTTTAACCCCG
* *
90713 AATCCTTCC-AAAATTACCATTTTAACCCCA
1 AA-CTTTCCAAAAATTACCATTTTAACCCCG
*
90743 AATCCTTCC-AAAATTACCATTTT-ACCCTCG
1 AA-CTTTCCAAAAATTACCATTTTAACCC-CG
* * *
90773 AA-TGTCTAAAAATT-CCATTTTCACCCCG
1 AACTTTCCAAAAATTACCATTTTAACCCCG
*
90801 AACTTTCCAAAAATCACCATTTTA
1 AACTTTCCAAAAATTACCATTTTA
90825 CCCTCGGACT
Statistics
Matches: 361, Mismatches: 70, Indels: 63
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.01
28 60 0.17
29 142 0.39
30 140 0.39
31 14 0.04
32 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
AACTTTCCAAAAATTACCATTTTAACCCCG
Found at i:90841 original size:29 final size:28
Alignment explanation
Indices: 90747--90841 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
90737 ACCCCAAATC
* *
90747 CTTCCAAAATTACCATTTTACCCTC-GA
1 CTTCTAAAAATACCATTTTACCCTCGGA
* * *
90774 ATGTCTAAAAATTCCATTTTCACCC-CGAA
1 CT-TCTAAAAATACCATTTT-ACCCTCGGA
*
90803 CTTTCCAAAAATCACCATTTTACCCTCGGA
1 C-TTCTAAAAAT-ACCATTTTACCCTCGGA
90833 CTTCTAAAA
1 CTTCTAAAA
90842 TTTTGTTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.02
28 15 0.29
29 24 0.46
30 12 0.23
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.32
Consensus pattern (28 bp):
CTTCTAAAAATACCATTTTACCCTCGGA
Found at i:90908 original size:58 final size:57
Alignment explanation
Indices: 90748--90908 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 57
90738 CCCCAAATCC
*
90748 TTCCAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCC-ATTTTCACCCCGAACT
1 TTCCAAAATTACCATTTTACCCTCGAATGTC-AAAAATTCCGTTTTTCACCCCGAACT
* * * ** * * *
90805 TTCCAAAAATCACCATTTTACCCTCGGACT-TCTAAAATTTTGTTTTTGACTCTGAACT
1 TTCC-AAAATTACCATTTTACCCTC-GAATGTCAAAAATTCCGTTTTTCACCCCGAACT
* * * *
90863 TTCCAAAATTACTATTTTGCCCTCGAGTGTCCAAAATTACCGTTTT
1 TTCCAAAATTACCATTTTACCCTCGAATGTCAAAAATT-CCGTTTT
90909 ACCCCCGGAC
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
56 3 0.04
57 35 0.42
58 42 0.51
59 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (57 bp):
TTCCAAAATTACCATTTTACCCTCGAATGTCAAAAATTCCGTTTTTCACCCCGAACT
Found at i:93019 original size:9 final size:9
Alignment explanation
Indices: 93005--93043 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
92995 ATACTAATCT
93005 ATTATTCAA
1 ATTATTCAA
**
93014 ATTATTTGA
1 ATTATTCAA
93023 ATTATTCAA
1 ATTATTCAA
*
93032 GTTATTCAA
1 ATTATTCAA
93041 ATT
1 ATT
93044 GTAAAATCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (9 bp):
ATTATTCAA
Found at i:96356 original size:31 final size:31
Alignment explanation
Indices: 96321--96379 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
96311 AAAAAAAAAA
96321 AATTCAAGTTTCAATATCAA-AACAATTAGTT
1 AATTCAAGTTTCAATAT-AAGAACAATTAGTT
* *
96352 AATTCAAGTTTTAATGTAAGAACAATTA
1 AATTCAAGTTTCAATATAAGAACAATTA
96380 ACAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (31 bp):
AATTCAAGTTTCAATATAAGAACAATTAGTT
Found at i:105078 original size:17 final size:18
Alignment explanation
Indices: 105052--105086 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
105042 TGAAATATAA
*
105052 AAAAATAATATTTTAATT
1 AAAAATAATATTTGAATT
105070 AAAAA-AATATTTGAATT
1 AAAAATAATATTTGAATT
105087 TTTTGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAAATAATATTTGAATT
Found at i:113584 original size:18 final size:19
Alignment explanation
Indices: 113561--113598 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
113551 TTTTTTTAAA
113561 TATTTT-CTTCTTAAAAAT
1 TATTTTACTTCTTAAAAAT
* *
113579 TATTTTATTTTTTAAAAAT
1 TATTTTACTTCTTAAAAAT
113598 T
1 T
113599 CTCAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTACTTCTTAAAAAT
Found at i:115234 original size:15 final size:15
Alignment explanation
Indices: 115214--115245 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
115204 TTTAGTAAAT
115214 TGAAAATTTAAGTAC
1 TGAAAATTTAAGTAC
*
115229 TGAAAATTTATGTAC
1 TGAAAATTTAAGTAC
115244 TG
1 TG
115246 GATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (15 bp):
TGAAAATTTAAGTAC
Found at i:117792 original size:30 final size:30
Alignment explanation
Indices: 117757--117846 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
117747 TTCATTCTAT
* *
117757 ATTATAAAAATATAAAAAAAATCATTAATA
1 ATTATAAAAATATAAAAAAAATAATTAAAA
* *
117787 TTTATAAAAAT-TAATATAAAATAATTAAAA
1 ATTATAAAAATATAA-AAAAAATAATTAAAA
* *
117817 ATCAT-AAAATTTATAAAAAAA-AATTAAAA
1 ATTATAAAAATATA-AAAAAAATAATTAAAA
117846 A
1 A
117847 CCATAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 17 0.34
30 32 0.64
31 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (30 bp):
ATTATAAAAATATAAAAAAAATAATTAAAA
Found at i:117865 original size:29 final size:29
Alignment explanation
Indices: 117793--117865 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
117783 AATATTTATA
* * *
117793 AAAATTAATATAAAATAATTAAAAATCAT
1 AAAATTTATATAAAAAAATTAAAAACCAT
*
117822 AAAATTTATAAAAAAAAATTAAAAACCAT
1 AAAATTTATATAAAAAAATTAAAAACCAT
*
117851 AAAATTT-TATTAAAA
1 AAAATTTATATAAAAA
117866 TTTGTATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAATTTATATAAAAAAATTAAAAACCAT
Found at i:118058 original size:19 final size:21
Alignment explanation
Indices: 118034--118083 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
118024 ATAAATTATC
*
118034 TTTAATAAATTT-T-ATGTTT
1 TTTAATAAATTTCTAATGATT
*
118053 TTTAATTAATTTCTAATGATT
1 TTTAATAAATTTCTAATGATT
118074 TTT-ATAAATT
1 TTTAATAAATT
118084 AATTTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 8 0.31
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTAATAAATTTCTAATGATT
Found at i:118076 original size:23 final size:23
Alignment explanation
Indices: 118050--118105 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
118040 AAATTTTATG
118050 TTTTTTAATTAATTTCTAATG-AT
1 TTTTTTAATTAATTT-TAATGAAT
*
118073 TTTTATAAATTAATTTTAATGAAT
1 TTTT-TTAATTAATTTTAATGAAT
*
118097 TTTTATAAT
1 TTTTTTAAT
118106 CATTTTACGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTTTAATTAATTTTAATGAAT
Found at i:118085 original size:24 final size:24
Alignment explanation
Indices: 118056--118104 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
118046 TATGTTTTTT
118056 AATTAATTTCTAATG-ATTTTTATA
1 AATTAATTT-TAATGAATTTTTATA
118080 AATTAATTTTAATGAATTTTTATA
1 AATTAATTTTAATGAATTTTTATA
118104 A
1 A
118105 TCATTTTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATTAATTTTAATGAATTTTTATA
Found at i:118430 original size:2 final size:2
Alignment explanation
Indices: 118423--118453 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
118413 ATAATACCAT
118423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118454 TACATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119644 original size:13 final size:13
Alignment explanation
Indices: 119626--119651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119616 AGTATTATTT
119626 TTTTTCATCTTTA
1 TTTTTCATCTTTA
119639 TTTTTCATCTTTA
1 TTTTTCATCTTTA
119652 GCATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTCATCTTTA
Found at i:119727 original size:54 final size:56
Alignment explanation
Indices: 119657--119767 Score: 190
Period size: 54 Copynumber: 2.0 Consensus size: 56
119647 CTTTAGCATA
*
119657 TATATATATATAAATCATTACTAATAAATC-A-ACCCGAGCTCATTTTCCATTCGT
1 TATATATATAGAAATCATTACTAATAAATCGACACCCGAGCTCATTTTCCATTCGT
*
119711 TATATATATAGAAATCATTACTAATAAATCGACCCCCGAGCTCATTTTCCATTCGT
1 TATATATATAGAAATCATTACTAATAAATCGACACCCGAGCTCATTTTCCATTCGT
119767 T
1 T
119768 TTGCATATTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 29 0.55
55 1 0.02
56 23 0.43
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (56 bp):
TATATATATAGAAATCATTACTAATAAATCGACACCCGAGCTCATTTTCCATTCGT
Found at i:121072 original size:19 final size:21
Alignment explanation
Indices: 121048--121099 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
121038 TATATACTAG
121048 TTAAACTAAATT-ATTTA-A-T
1 TTAAACTAAATTGA-TTAGACT
121067 TTAAAC-ATAATTGATTAGACT
1 TTAAACTA-AATTGATTAGACT
121088 TTAAACTAAATT
1 TTAAACTAAATT
121100 TAACAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 2 0.07
21 11 0.39
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAAACTAAATTGATTAGACT
Found at i:131366 original size:31 final size:31
Alignment explanation
Indices: 131308--131366 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
131298 TATTTGAGTT
*
131308 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCGGATCAACTAGAATAAAA
* * *
131339 AATTAAGTTTTTCGGTTTAACTAGAATA
1 AATTAAGTTATTCGGATCAACTAGAATA
131367 TAAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCGGATCAACTAGAATAAAA
Found at i:131881 original size:28 final size:29
Alignment explanation
Indices: 131852--131910 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
131842 AAAAATTTTA
* *
131852 ATAAATAAAAAATATATAAAATAATATAAT
1 ATAAA-AAAAATTATAAAAAATAATATAAT
*
131882 ATTAAAAAAAATTTTAAAAAATAATATAA
1 A-TAAAAAAAATTATAAAAAATAATATAA
131911 CTTAGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
ATAAAAAAAATTATAAAAAATAATATAAT
Found at i:136209 original size:2 final size:2
Alignment explanation
Indices: 136202--136256 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
136192 NNNNNNNNNN
136202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
136244 AT AT AT GT AT AT A
1 AT AT AT AT AT AT A
136257 AGTGCTGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:138183 original size:18 final size:16
Alignment explanation
Indices: 138160--138195 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
138150 CTTAGTAAAT
138160 ATTAAATTGAGGAATGAA
1 ATTAAATTGA--AATGAA
138178 ATTAAATTGAAATGAA
1 ATTAAATTGAAATGAA
138194 AT
1 AT
138196 GGTATTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
ATTAAATTGAAATGAA
Found at i:138993 original size:52 final size:52
Alignment explanation
Indices: 138736--138993 Score: 403
Period size: 52 Copynumber: 5.0 Consensus size: 52
138726 TAAATGCAAA
*
138736 AGGTCCGATGACAATGTGTCATCGTGAGTATATGAATCCTTTAC-AGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGA-ATTATG
* * *
138788 AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
*
138840 AGGTCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
* *
138892 AGGTGCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
* *
138944 AGGTCCGATGACTATGTGTCATCGTGA-TAAATGAATCCTATTACAAATTA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCT-TTACGAATTA
138994 AAGGTTTGAT
Statistics
Matches: 189, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
51 11 0.06
52 178 0.94
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
Found at i:144572 original size:24 final size:24
Alignment explanation
Indices: 144540--144635 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 24
144530 AGAAATAATC
* *
144540 TTTCGATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTCTTTATTTG
144564 TTTCAATTAAACTCAACTCTTTTTATTTG
1 TTTCAATTAAACT---CTC--TTTATTTG
144593 TTTCAATTAAACTCAACTCTGTTATTTG
1 TTTCAATTAAACT---CTCT-TTATTTG
144621 TTTCAATTAAACTCT
1 TTTCAATTAAACTCT
144636 AATTAATCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
24 12 0.19
25 2 0.03
27 3 0.05
28 20 0.31
29 27 0.42
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTCAATTAAACTCTCTTTATTTG
Found at i:144591 original size:29 final size:29
Alignment explanation
Indices: 144549--144634 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
144539 CTTTCGATTA
*
144549 AACTCTGTTTATTTGTTTCAATTAAACTC
1 AACTCTTTTTATTTGTTTCAATTAAACTC
144578 AACTCTTTTTATTTGTTTCAATTAAACTC
1 AACTCTTTTTATTTGTTTCAATTAAACTC
*
144607 AACTC-TGTTATTTGTTTCAATTAAACTC
1 AACTCTTTTTATTTGTTTCAATTAAACTC
144635 TAATTAATCT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
28 22 0.40
29 33 0.60
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (29 bp):
AACTCTTTTTATTTGTTTCAATTAAACTC
Found at i:157262 original size:29 final size:30
Alignment explanation
Indices: 157205--157271 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
157195 ATTTTAAAAT
157205 TATACATGAATTTTAATTTAATATGTAATTA
1 TATACATGAATTTTAATTTAATA-GTAATTA
* **
157236 TATATATGAATTTTAATTTGGTA-TAATTA
1 TATACATGAATTTTAATTTAATAGTAATTA
*
157265 TACACAT
1 TATACAT
157272 AAAACTCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 11 0.35
31 20 0.65
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAATAGTAATTA
Found at i:158086 original size:44 final size:44
Alignment explanation
Indices: 157999--158087 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
157989 ACTCTAAGCT
* * * *
157999 TAAAATTTGTGATAATTATACATTTGAAAGTATTGTTTATTTAA
1 TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTTTATTTAA
158043 TAAAAGTTGTGATAATTACACATTT-AAA-AATAGTTATACTTTAA
1 TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTT-TA-TTTAA
158087 T
1 T
158088 TTATAACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 5 0.13
43 5 0.13
44 29 0.74
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (44 bp):
TAAAAGTTGTGATAATTACACATTTGAAAGAATAGTTTATTTAA
Found at i:158227 original size:169 final size:168
Alignment explanation
Indices: 158000--158340 Score: 522
Period size: 169 Copynumber: 2.0 Consensus size: 168
157990 CTCTAAGCTT
* * *
158000 AAAATTTGTGATAATTATACATTTGAAAGTATTGTTTATTTAATAAAAGTTGTGATAATTACACA
1 AAAATTTGTGATAATTATACATTTAAAAGTATTGTTAATTTAACAAAAGTTGTGATAATTACACA
* * * * *
158065 TTTAAAAATAGTTATACTTTAATTTATAACTATTAGTTAAAAAAAGTTGTGCTAATTATAAACTA
66 TTTAAAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTATGCTAATTATAAAATA
* *
158130 GAGTTATTACTTAAACAGAACTCTAAGTATACAATATA
131 GAGTTATTACTTAAACAGAACTCCAAGTATAAAATATA
* *
158168 GAAAATTTGTGATAATTATACATTTAAAAGTATT-TATAATTTAACAAATGTTTTGATAATTACA
1 -AAAATTTGTGATAATTATACATTTAAAAGTATTGT-TAATTTAACAAAAGTTGTGATAATTACA
* *
158232 CATTTAAACATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTATGTTAATTATAAAA
64 CATTTAAAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTATGCTAATTATAAAA
*
158297 TAGAGTTATTACTTAAATAGAACTCCAAGTATAAAATATA
129 TAGAGTTATTACTTAAACAGAACTCCAAGTATAAAATATA
158337 AAAA
1 AAAA
158341 CAGGTCATGA
Statistics
Matches: 156, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
168 5 0.03
169 151 0.97
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (168 bp):
AAAATTTGTGATAATTATACATTTAAAAGTATTGTTAATTTAACAAAAGTTGTGATAATTACACA
TTTAAAAATAATTATAATTTAATTTACAACTATTAGTTAAAAAAAGTTATGCTAATTATAAAATA
GAGTTATTACTTAAACAGAACTCCAAGTATAAAATATA
Found at i:166606 original size:24 final size:24
Alignment explanation
Indices: 166577--166623 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
166567 ACCCTCTTCC
*
166577 TTGTGCTTCTT-CTTATTTTTATCT
1 TTGTGCCTCTTCCTT-TTTTTATCT
166601 TTGTGCCTCTTCCTTTTTTTATC
1 TTGTGCCTCTTCCTTTTTTTATC
166624 CGTCGAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.06, C:0.21, G:0.09, T:0.64
Consensus pattern (24 bp):
TTGTGCCTCTTCCTTTTTTTATCT
Found at i:181599 original size:66 final size:66
Alignment explanation
Indices: 181493--181628 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
181483 AACTTCTACT
* * *
181493 GATACAAGTATATTAACTACCTATACATCAATGTACACAACTACCGATACTTCAAATTTAACCAC
1 GATACAAGCATACTAACTACCAATACATCAATGTACACAACTACCGATACTTCAAATTTAACCAC
181558 C
66 C
* *
181559 GATACAAGCATACTAACTACCAATACATCAATGTACACAACTACCGATACTTGAAATTTAACTAC
1 GATACAAGCATACTAACTACCAATACATCAATGTACACAACTACCGATACTTCAAATTTAACCAC
181624 C
66 C
181625 GATA
1 GATA
181629 TAACCCAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (66 bp):
GATACAAGCATACTAACTACCAATACATCAATGTACACAACTACCGATACTTCAAATTTAACCAC
C
Found at i:182300 original size:24 final size:24
Alignment explanation
Indices: 182222--182299 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
182212 TTTAGCCCAC
182222 ACGAGCCCAGAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
*
182246 ACAAGCCCAGAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
* *
182270 ATGAGCTCAGAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
182294 ACGAGC
1 ACGAGC
182300 TTAGATGGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
ACGAGCCCAGAATGGTTAGCTCTT
Found at i:184228 original size:2 final size:2
Alignment explanation
Indices: 184221--184260 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
184211 TCCTACAGTA
* * *
184221 AT AT AT AT AT AT AC AT AT AC AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
184261 TCAATTAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:184244 original size:18 final size:18
Alignment explanation
Indices: 184223--184257 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
184213 CTACAGTAAT
184223 ATATATATATACATATAC
1 ATATATATATACATATAC
184241 ATATATATATACATATA
1 ATATATATATACATATA
184258 TATTCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATATATACATATAC
Found at i:184258 original size:12 final size:12
Alignment explanation
Indices: 184221--184260 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
184211 TCCTACAGTA
*
184221 ATATATATATAT
1 ATATATACATAT
*
184233 ACATATACATAT
1 ATATATACATAT
184245 ATATATACATAT
1 ATATATACATAT
184257 ATAT
1 ATAT
184261 TCAATTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATACATAT
Found at i:186371 original size:21 final size:21
Alignment explanation
Indices: 186345--186438 Score: 84
Period size: 21 Copynumber: 4.3 Consensus size: 21
186335 CAAGTTCTAG
*
186345 CGATACAAGTATACTAACTAA
1 CGATACAAGTATACTAACTAC
186366 CGATACATCAATGTATAC-AACTAC
1 CGAT--A-CAA-GTATACTAACTAC
** * *
186390 CGATACTTG-AAATTTAACTAC
1 CGATACAAGTATA-CTAACTAC
186411 CGATACAAGTATACTAACTAC
1 CGATACAAGTATACTAACTAC
186432 CGATACA
1 CGATACA
186439 TCAATGTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
19 2 0.04
20 1 0.02
21 32 0.56
22 3 0.05
23 1 0.02
24 12 0.21
25 6 0.11
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.26
Consensus pattern (21 bp):
CGATACAAGTATACTAACTAC
Found at i:186451 original size:66 final size:66
Alignment explanation
Indices: 186345--186476 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
186335 CAAGTTCTAG
*
186345 CGATACAAGTATACTAACTAACGATACATCAATGTATACAACTACCGATACTTGAAATTTAACTA
1 CGATACAAGTATACTAACTAACGATACATCAATGTATACAACTACCAATACTTGAAATTTAACTA
186410 C
66 C
* *
186411 CGATACAAGTATACTAACTACCGATACATCAATGTATACAACTACCAATGCTTGAAATTTAACTA
1 CGATACAAGTATACTAACTAACGATACATCAATGTATACAACTACCAATACTTGAAATTTAACTA
186476 C
66 C
186477 TATACAACCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (66 bp):
CGATACAAGTATACTAACTAACGATACATCAATGTATACAACTACCAATACTTGAAATTTAACTA
C
Found at i:187092 original size:24 final size:24
Alignment explanation
Indices: 187064--187164 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
187054 TAGCCCACAT
*
187064 GAGCCCAAAATGGTTAGCTCTTAC
1 GAGCCCAGAATGGTTAGCTCTTAC
* *
187088 AAGCCCAGAATGGTTAGCTATTAC
1 GAGCCCAGAATGGTTAGCTCTTAC
* *
187112 GTGCCTAGAATGGTTAGCTCTTAC
1 GAGCCCAGAATGGTTAGCTCTTAC
* *
187136 GAGCTCAGAATGGTTAACTCTTAC
1 GAGCCCAGAATGGTTAGCTCTTAC
187160 GAGCC
1 GAGCC
187165 TAGACAGGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
GAGCCCAGAATGGTTAGCTCTTAC
Found at i:190467 original size:20 final size:20
Alignment explanation
Indices: 190438--190475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
190428 ATATATTCCA
* *
190438 TTTATGCTTGTTTTTATTCT
1 TTTATACTTGATTTTATTCT
190458 TTTATACTTGATTTTATT
1 TTTATACTTGATTTTATT
190476 TATTATCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (20 bp):
TTTATACTTGATTTTATTCT
Found at i:194396 original size:79 final size:80
Alignment explanation
Indices: 194204--194445 Score: 258
Period size: 78 Copynumber: 3.0 Consensus size: 80
194194 TATAATAATT
* * * * * * *
194204 AATTTAATAATTCTGATTCAGGATTTATTC-CTGTCGTTCAACAGAATTAATTTGGATTTTGTTT
1 AATTAAATAATTCTGTTTCGGGATTTATTCTC-GTCGTTCAACAGATTTTATTTTGATTTAGTTT
*
194268 CCAAATTAAGAATT--
65 CCAAACTAAGAATTAA
* ** * *
194282 AATTGAATAATTCTGTTTCGAAATTTACTCTCGTCGTTCAACAGCTTTTATTTTGATTTAGTTTC
1 AATTAAATAATTCTGTTTCGGGATTTATTCTCGTCGTTCAACAGATTTTATTTTGATTTAGTTTC
194347 CAAA-TAAGAATTAA
66 CAAACTAAGAATTAA
* *
194361 AATTAAATAATTATGTTTCGGGATTTATTCTCGTCGTTCAACAGATTTGATTAGATCTTGATTTA
1 AATTAAATAATTCTGTTTCGGGATTTATTCTCGTCGTTCAACAGA-TT--TT--ATTTTGATTTA
*
194426 GTTTCCAAACAAAGAATTAA
61 GTTTCCAAACTAAGAATTAA
194446 TTAATTAATC
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
77 8 0.06
78 56 0.41
79 40 0.29
80 2 0.01
82 2 0.01
84 19 0.14
85 9 0.07
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (80 bp):
AATTAAATAATTCTGTTTCGGGATTTATTCTCGTCGTTCAACAGATTTTATTTTGATTTAGTTTC
CAAACTAAGAATTAA
Found at i:196552 original size:30 final size:30
Alignment explanation
Indices: 196516--196576 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
196506 GGTAAAAAAC
*
196516 TATCCTACAACCACTTGAAAATCTGGGGGG
1 TATCCTACAACCACTTGAAAATCTAGGGGG
*
196546 TATCCTACAACCACTTGAAAATGTAGGGGG
1 TATCCTACAACCACTTGAAAATCTAGGGGG
196576 T
1 T
196577 GTCTTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (30 bp):
TATCCTACAACCACTTGAAAATCTAGGGGG
Found at i:210094 original size:79 final size:79
Alignment explanation
Indices: 209961--210209 Score: 331
Period size: 79 Copynumber: 3.2 Consensus size: 79
209951 TACAACTCCG
*
209961 AATCTTTTACCCTAATCAGACGGCAGATTGAAAACATCATCCGATCTCTTACCCCGACCATGGGG
1 AATCTTTTACCCTAATCAGAGGGCAGATTG-AAA-ATCATCCGATCTCTTACCCCGACCATGGGG
* *
210026 CAGATTGAAGCAATCC
64 CAAATTGAAGCAATAC
* * * * * * *
210042 AATCTTTTACCTTAATTAGAGGGTAGATTGAAGATCATCCGTTCTCTTACCCCAACCATGGGACA
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAAATCATCCGATCTCTTACCCCGACCATGGGGCA
*
210107 AATTGAAGCAATTC
66 AATTGAAGCAATAC
* * *
210121 AATCTTTTACCCTAACCAGAGGGCAGATTGAAAATCGTCAGATCTCTTACCCCGACCATGGGGCA
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAAATCATCCGATCTCTTACCCCGACCATGGGGCA
*
210186 AATTG-A-CAATAT
66 AATTGAAGCAATAC
210198 AATCTTTTACCC
1 AATCTTTTACCC
210210 CTAAATCTAT
Statistics
Matches: 146, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
77 16 0.11
78 1 0.01
79 101 0.69
80 2 0.01
81 26 0.18
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (79 bp):
AATCTTTTACCCTAATCAGAGGGCAGATTGAAAATCATCCGATCTCTTACCCCGACCATGGGGCA
AATTGAAGCAATAC
Found at i:210138 original size:39 final size:39
Alignment explanation
Indices: 210088--210210 Score: 121
Period size: 39 Copynumber: 3.2 Consensus size: 39
210078 ATCCGTTCTC
*
210088 TTACCCCAACCATGGGACAAATTGAAGCAAT-TCAATCTT
1 TTACCCCAACCATGGGGCAAATTGAA-CAATATCAATCTT
* * * *
210127 TTACCCTAACCA-GAGGGCAGATTGAA-AATCGTCAGATCTC
1 TTACCCCAACCATG-GGGCAAATTGAACAAT-ATCA-ATCTT
*
210167 TTACCCCGACCATGGGGCAAATTG-ACAATAT-AATCTT
1 TTACCCCAACCATGGGGCAAATTGAACAATATCAATCTT
210204 TTACCCC
1 TTACCCC
210211 TAAATCTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
37 14 0.20
38 2 0.03
39 26 0.38
40 26 0.38
41 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (39 bp):
TTACCCCAACCATGGGGCAAATTGAACAATATCAATCTT
Found at i:210185 original size:40 final size:39
Alignment explanation
Indices: 209982--210191 Score: 126
Period size: 39 Copynumber: 5.3 Consensus size: 39
209972 CTAATCAGAC
* *
209982 GGCAGATTGAAAACATCATCCGATCTCTTACCCCGACCATGG
1 GGCAGATTG-AAA-ATC-TCAGATCTCTTACCCCAACCATGG
* ** **
210024 GGCAGATTGAAGCAATC-CA-ATCTTTTACCTTAATTA-GAG
1 GGCAGATTGAA--AATCTCAGATCTCTTACCCCAACCATG-G
* * * *
210063 GGTAGATTGAAGATCATCCGTTCTCTTACCCCAACCATGG
1 GGCAGATTGAAAATC-TCAGATCTCTTACCCCAACCATGG
* * * *
210103 GACAAATTGAAGCAAT-TCA-ATCTTTTACCCTAACCA-GAG
1 GGCAGATTGAA--AATCTCAGATCTCTTACCCCAACCATG-G
*
210142 GGCAGATTGAAAATCGTCAGATCTCTTACCCCGACCATGG
1 GGCAGATTGAAAATC-TCAGATCTCTTACCCCAACCATGG
*
210182 GGCAAATTGA
1 GGCAGATTGA
210192 CAATATAATC
Statistics
Matches: 124, Mismatches: 30, Indels: 30
0.67 0.16 0.16
Matches are distributed among these distances:
37 6 0.05
38 2 0.02
39 50 0.40
40 47 0.38
41 4 0.03
42 14 0.11
43 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (39 bp):
GGCAGATTGAAAATCTCAGATCTCTTACCCCAACCATGG
Found at i:210964 original size:16 final size:17
Alignment explanation
Indices: 210943--210974 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
210933 CCTGCTAACC
210943 CAAATTTA-ACAAAACT
1 CAAATTTATACAAAACT
210959 CAAATTTATACAAAAC
1 CAAATTTATACAAAAC
210975 AAAAAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (17 bp):
CAAATTTATACAAAACT
Found at i:212236 original size:30 final size:30
Alignment explanation
Indices: 212092--212366 Score: 211
Period size: 30 Copynumber: 9.3 Consensus size: 30
212082 AAAATTATTT
* **
212092 TTTGACCCCTAAATTATCTAAAAA-TTATGT
1 TTTGACCCCTAAATTTTCTAAAAATTTA-AA
*
212122 TTTGA-CCCTAAATTTTCT-AAAATTCAAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
* * *
212150 TTTAACCCCCAAACTTTCT-AAAATTTCAAA
1 TTTGACCCCTAAATTTTCTAAAAATTT-AAA
* *
212180 TTTGACCCCTAAATTTTCCAAAAATTTTAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
* *
212210 TTTGACCCCTAAACTTTCTAAAAATTTGAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
* * * *
212240 TTTAACCCTTAAATTTTCCAAAAATTTGAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
* * * **
212270 TTTAACCTCTAAATTTTCCAAAAATTCCAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
* * * **
212300 TTTGACCCTTGAATTTT-TCAAAAAATCCAA
1 TTTGACCCCTAAATTTTCT-AAAAATTTAAA
* * * * *
212330 -TTGACCCTTGAAGTTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCTAAAAATTTAAA
212359 TTTGACCC
1 TTTGACCC
212367 GGCCTTAATA
Statistics
Matches: 204, Mismatches: 34, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 8 0.04
29 55 0.27
30 134 0.66
31 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (30 bp):
TTTGACCCCTAAATTTTCTAAAAATTTAAA
Found at i:212323 original size:90 final size:89
Alignment explanation
Indices: 212122--212366 Score: 246
Period size: 90 Copynumber: 2.8 Consensus size: 89
212112 AAAATTATGT
* ** * *
212122 TTTGACCCTAAATTTTCTAAAATTCAAATTTAACCCCCAAACTTT-CTAAAATTTCAAATTTGAC
1 TTTGACCCTAAATTTTCAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTTCAAATTTAAC
**
212186 CCCTAAATTTTCCAAAAATTTTAA
66 CCCTAAATTTTCCAAAAATTCCAA
* ** * *
212210 TTTGACCCCTAAACTTTCTAAAAATTTGAATTTAACCCTTAAATTTTCCAAAAATTT-GAATTTA
1 TTTGA-CCCTAAATTTTC-AAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTTCAAATTTA
*
212274 ACCTCTAAATTTTCCAAAAATTCCAA
64 ACCCCTAAATTTTCCAAAAATTCCAA
* * * * * * *
212300 TTTGACCCTTGAATTTTTCAAAAAATCCAA-TTGACCCTTGAAGTTTCCAAAAA-TTCAAATTTG
1 TTTGACCC-T-AAATTTTCAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTTCAAATTTA
212363 ACCC
64 ACCC
212367 GGCCTTAATA
Statistics
Matches: 127, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
88 7 0.06
89 42 0.33
90 64 0.50
91 14 0.11
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (89 bp):
TTTGACCCTAAATTTTCAAAAATTCAAATTTAACCCTTAAACTTTCCAAAAATTTCAAATTTAAC
CCCTAAATTTTCCAAAAATTCCAA
Found at i:212505 original size:21 final size:21
Alignment explanation
Indices: 212484--212522 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
212474 ATTATTTTAT
212484 TTACTTTTT-TTATGTATATA
1 TTACTTTTTATTATGTATATA
* *
212504 TTATTTTTTATTATTTATA
1 TTACTTTTTATTATGTATA
212523 CTTGTAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (21 bp):
TTACTTTTTATTATGTATATA
Found at i:219067 original size:23 final size:23
Alignment explanation
Indices: 219023--219068 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
219013 ATAAGTTATA
**
219023 TTATTTAATGATACTTTAATTTT
1 TTATTTAAAAATACTTTAATTTT
* *
219046 TTATTTAAAAATATTTTTATTTT
1 TTATTTAAAAATACTTTAATTTT
219069 GTGATATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTTAAAAATACTTTAATTTT
Found at i:219585 original size:33 final size:34
Alignment explanation
Indices: 219523--219586 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
219513 TTAATTTTTT
*
219523 ATTTTAAATCGTACATATTCATATGTTATTAATA
1 ATTTTAAATCATACATATTCATATGTTATTAATA
*
219557 ATTTTAAATCATACGT-TTCATTAT-TTATTA
1 ATTTTAAATCATACATATTCA-TATGTTATTA
219587 TATGTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (34 bp):
ATTTTAAATCATACATATTCATATGTTATTAATA
Found at i:223606 original size:21 final size:22
Alignment explanation
Indices: 223580--223624 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
223570 CGGTTCCAAC
223580 AATAATAAACAAA-TAAAATAA
1 AATAATAAACAAATTAAAATAA
* *
223601 AATAATAACCAAATTCAAATAA
1 AATAATAAACAAATTAAAATAA
223623 AA
1 AA
223625 AACATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAATAAACAAATTAAAATAA
Found at i:236442 original size:12 final size:12
Alignment explanation
Indices: 236425--236453 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
236415 TATTTCACCT
236425 AAAAAAAGAAAG
1 AAAAAAAGAAAG
236437 AAAAAAAGAAAG
1 AAAAAAAGAAAG
236449 AAAAA
1 AAAAA
236454 TCGGGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:237441 original size:98 final size:98
Alignment explanation
Indices: 237313--237985 Score: 609
Period size: 98 Copynumber: 6.9 Consensus size: 98
237303 CAGAGACATG
* * ** * *
237313 ATGGAAAAGATTGAAACCATAATGGCGAAT-CTGGCACCATGGAGATATTGAGGGAAAGGTTGAA
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCT-GTACCATGGAGATATTGAGGGAAAGGTTGAA
* *
237377 GCTACAACAGCGAACCTTATACCTTAGAAAAATA
65 GCCACAACGGCGAACCTTATACCTTAGAAAAATA
* * * ** *
237411 ATGGGAAAGATTGAAGTCGTAACGGTGAATCCTGTACCATAAAGATATGGAGGGAAAGGTTGAA-
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATTGAGGGAAAGGTTGAAG
** * * * * **
237475 CCGTAATGACAAACCTTTTACCTTAGAAACGTA
66 CCACAACGGCGAACCTTATACCTTAGAAAAATA
* * * * *
237508 ATGGGAAAGATTGAAACTGCAACGACTAATCCTGTACCAT-GA-CTATATGAAGGGAAAGGTTGA
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATAT-TG-AGGGAAAGGTTGA
* ** *
237571 AGCCACAACGGCGAACCTTGTACCTTAGAAACGTG
64 AGCCACAACGGCGAACCTTATACCTTAGAAAAATA
*
237606 ATGGGAAAGATTGAAGCCGCAACGGCAAATCCTGTACCATGG-G-----GAGGGAAAGGTTGAAG
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATTGAGGGAAAGGTTGAAG
** * *
237665 CCACAACAACGAACCTTTTACCTTAGGAAAATA
66 CCACAACGGCGAACCTTATACCTTAGAAAAATA
* ** * * *
237698 ATGGGAAAGATTGAAGCTGCAATAGCGAATCCTGTACCATGAAGATATAGAGGGAAAGGTTAAAG
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATTGAGGGAAAGGTTGAAG
* ** * * * ** *
237763 TCGTAACGGCAAACCTTGTACCTCA-AAGATGTG
66 CCACAACGGCGAACCTTATACCTTAGAA-AAATA
* * *
237796 ATGGGAAAAATTGAAGCCACAACGGTGAAT-CTGGTACCATGGAGATA-TGAAGGGAAAGGTTGA
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCT-GTACCATGGAGATATTG-AGGGAAAGGTTGA
* *
237859 AGCCGCAACGGCGAACCTTATACCTTAGGAAAATA
64 AGCCACAACGGCGAACCTTATACCTTAGAAAAATA
* * * * * *
237894 ATGGGAAAGATTGAGGCCGTAATGGCGAATCTTGTACCATGGAGATA-TGAAGGAAAAGGTTAAA
1 ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATTG-AGGGAAAGGTTGAA
**
237958 GCCACAACGGTAAACCTTATACCTTAGA
65 GCCACAACGGCGAACCTTATACCTTAGA
237986 GATACTTAAG
Statistics
Matches: 461, Mismatches: 97, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
92 78 0.17
93 2 0.00
95 3 0.01
96 2 0.00
97 74 0.16
98 297 0.64
99 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (98 bp):
ATGGGAAAGATTGAAGCCGCAACGGCGAATCCTGTACCATGGAGATATTGAGGGAAAGGTTGAAG
CCACAACGGCGAACCTTATACCTTAGAAAAATA
Found at i:237593 original size:49 final size:48
Alignment explanation
Indices: 237348--237967 Score: 254
Period size: 49 Copynumber: 12.8 Consensus size: 48
237338 CGAATCTGGC
** * *
237348 ACCATGGAGATATTG-AGGGAAAGGTTGAAGCTACAACAGCGAACCTTAT
1 ACCAT-GAGATA-TGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * * * * *
237397 ACCTTAGAAAAAT-AATGGGAAAGATTGAAGTCGTAACGGTGAATCC-TGT
1 ACCAT-GAGATATGAA-GGGAAAGGTTGAAGCCGCAACGGCGAA-CCTTGT
* * * * * * *
237446 ACCATAAAGATATGGAGGGAAAGGTTGAA-CCGTAATGACAAACCTTTT
1 ACCAT-GAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * * * * * *
237494 ACC-TTAGAAACGTAATGGGAAAGATTGAAACTGCAACGACTAATCC-TGT
1 ACCATGAGATATG-AA-GGGAAAGGTTGAAGCCGCAACGGCGAA-CCTTGT
* *
237543 ACCATGACTATATGAAGGGAAAGGTTGAAGCCACAACGGCGAACCTTGT
1 ACCATGA-GATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * * *
237592 ACC-TTAGAAACGTGATGGGAAAGATTGAAGCCGCAACGGCAAATCC-TGT
1 ACCATGAGATA--TGAAGGGAAAGGTTGAAGCCGCAACGGCGAA-CCTTGT
* * ** *
237641 ACCATG-G----GGAGGGAAAGGTTGAAGCCACAACAACGAACCTTTT
1 ACCATGAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * * **
237684 ACC-TTAGGAAAAT-AATGGGAAAGATTGAAGCTGCAATAGCGAATCC-TGT
1 ACCATGA-G-ATATGAA-GGGAAAGGTTGAAGCCGCAACGGCGAA-CCTTGT
* * * *
237733 ACCATGAAGATAT-AGAGGGAAAGGTTAAAGTCGTAACGGCAAACCTTGT
1 ACCATG-AGATATGA-AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * ** * * * *
237782 ACC-TCAAAGATGTGATGGGAAAAATTGAAGCCACAACGGTGAATCTGGT
1 ACCAT--GAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
*
237831 ACCATGGAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTAT
1 ACCAT-GAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * * * * * *
237880 ACC-TTAGGAAAAT-AATGGGAAAGATTGAGGCCGTAATGGCGAATCTTGT
1 ACCATGA-G-ATATGAA-GGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
* * *
237929 ACCATGGAGATATGAAGGAAAAGGTTAAAGCCACAACGG
1 ACCAT-GAGATATGAAGGGAAAGGTTGAAGCCGCAACGG
237968 TAAACCTTAT
Statistics
Matches: 412, Mismatches: 119, Indels: 80
0.67 0.19 0.13
Matches are distributed among these distances:
42 3 0.01
43 28 0.07
44 1 0.00
46 5 0.01
47 7 0.02
48 39 0.09
49 301 0.73
50 23 0.06
51 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.20
Consensus pattern (48 bp):
ACCATGAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGT
Found at i:237780 original size:190 final size:190
Alignment explanation
Indices: 237348--237985 Score: 660
Period size: 190 Copynumber: 3.3 Consensus size: 190
237338 CGAATCTGGC
* * * * * * *
237348 ACCATGGAGATATTG-AGGGAAAGGTTGAAGCTACAACAGCGAACCTTATACCTTAGAAAAATAA
1 ACCATGAAGATA-TGAAGGGAAAGGTTAAAGCCACAACGGCAAACCTTATACCTTAGAAAAGTGA
* * *
237412 TGGGAAAGATTGAAGTCGTAACGGTGAATCCTGTACCATAAAGATATGGAGGGAAAGGTTGAA-C
65 TGGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCAT---G---GGGAGGGAAAGGTTGAAGC
* * * * * * *
237476 CGTAATGACAAACCTTTTACCTTA-GAAACGTAATGGGAAAGATTGAAACTGCAA-CGACTAATC
124 CGCAACGACGAACCTTTTACCTTAGGAAA-ATAATGGGAAAGATTGAAGCTGCAATAG-CGAATC
237539 CTGT
187 CTGT
** * * * *
237543 ACCATGACTATATGAAGGGAAAGGTTGAAGCCACAACGGCGAACCTTGTACCTTAGAAACGTGAT
1 ACCATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGGCAAACCTTATACCTTAGAAAAGTGAT
** * *
237608 GGGAAAGATTGAAGCCGCAACGGCAAATCCTGTACCATGGGGAGGGAAAGGTTGAAGCCACAACA
66 GGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGGGGAGGGAAAGGTTGAAGCCGCAACG
237673 ACGAACCTTTTACCTTAGGAAAATAATGGGAAAGATTGAAGCTGCAATAGCGAATCCTGT
131 ACGAACCTTTTACCTTAGGAAAATAATGGGAAAGATTGAAGCTGCAATAGCGAATCCTGT
* ** * * *
237733 ACCATGAAGATAT-AGAGGGAAAGGTTAAAGTCGTAACGGCAAACCTTGTACCTCA-AAGATGTG
1 ACCATGAAGATATGA-AGGGAAAGGTTAAAGCCACAACGGCAAACCTTATACCTTAGAA-AAGTG
* *
237796 ATGGGAAAAATTGAAGCCACAACGGTGAAT-CTGGTACCATGGAGATATGAAGGGAAAGGTTGAA
64 ATGGGAAAGATTGAAGCCGCAACGGTGAATCCT-GTACCATGG-G----G-AGGGAAAGGTTGAA
* * * * * *
237860 GCCGCAACGGCGAACCTTATACCTTAGGAAAATAATGGGAAAGATTGAGGCCGTAATGGCGAATC
122 GCCGCAACGACGAACCTTTTACCTTAGGAAAATAATGGGAAAGATTGAAGCTGCAATAGCGAATC
*
237925 TTGT
187 CTGT
* * *
237929 ACCATGGAGATATGAAGGAAAAGGTTAAAGCCACAACGGTAAACCTTATACCTTAGA
1 ACCATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGGCAAACCTTATACCTTAGA
237986 GATACTTAAG
Statistics
Matches: 375, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
189 21 0.06
190 136 0.36
191 6 0.02
192 1 0.00
194 2 0.01
195 88 0.23
196 119 0.32
197 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.21
Consensus pattern (190 bp):
ACCATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGGCAAACCTTATACCTTAGAAAAGTGAT
GGGAAAGATTGAAGCCGCAACGGTGAATCCTGTACCATGGGGAGGGAAAGGTTGAAGCCGCAACG
ACGAACCTTTTACCTTAGGAAAATAATGGGAAAGATTGAAGCTGCAATAGCGAATCCTGT
Found at i:238148 original size:21 final size:22
Alignment explanation
Indices: 238115--238159 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
238105 CGGGTCCAAC
238115 AATAATAAACAAA-TAAAATAA
1 AATAATAAACAAATTAAAATAA
*
238136 AATAA-AAACCAAATTCAAATAA
1 AATAATAAA-CAAATTAAAATAA
238158 AA
1 AA
238160 GACATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.43
22 9 0.43
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (22 bp):
AATAATAAACAAATTAAAATAA
Found at i:242051 original size:15 final size:15
Alignment explanation
Indices: 242031--242061 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
242021 AAGCACACAT
242031 AATAGAGAACAAGAA
1 AATAGAGAACAAGAA
242046 AATAGAGAACAAGAA
1 AATAGAGAACAAGAA
242061 A
1 A
242062 CTAAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.19, T:0.06
Consensus pattern (15 bp):
AATAGAGAACAAGAA
Found at i:242735 original size:21 final size:21
Alignment explanation
Indices: 242711--242767 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
242701 ACTAGAGTTT
242711 ATTGTTTCGGTAGAAGTCATG-
1 ATTGTTTCGGTAGAAGTCA-GA
* *
242732 ATTGTATT-GATAGAAGTTAGA
1 ATTGT-TTCGGTAGAAGTCAGA
*
242753 ATTGTATCGGTAGAA
1 ATTGTTTCGGTAGAA
242768 CTCCAAGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (21 bp):
ATTGTTTCGGTAGAAGTCAGA
Found at i:247679 original size:40 final size:40
Alignment explanation
Indices: 247635--247781 Score: 213
Period size: 40 Copynumber: 3.6 Consensus size: 40
247625 TTTCCGAATC
*
247635 AATGAAAAGGTTGAAAAGGATACTATCTGGAAGGATAACA
1 AATGAAAAGGTTGAAAAGGATATTATCTGGAAGGATAACA
* * *
247675 AATGAAAATGTTGAGAAGGATATTATCTGGAAAGATAACA
1 AATGAAAAGGTTGAAAAGGATATTATCTGGAAGGATAACA
* * **
247715 AATGAAAATGTTGAAAAGGATATTATCAGGAAGGATAATG
1 AATGAAAAGGTTGAAAAGGATATTATCTGGAAGGATAACA
247755 AATGAAAAGGTTGAAAAGGATGATTAT
1 AATGAAAAGGTTGAAAAGGAT-ATTAT
247782 AAATGGAATG
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 91 0.95
41 5 0.05
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (40 bp):
AATGAAAAGGTTGAAAAGGATATTATCTGGAAGGATAACA
Found at i:248224 original size:21 final size:21
Alignment explanation
Indices: 248191--248239 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
248181 ACTGGAGTTT
* *
248191 ATTGTTTCGGTAGAAGTCATG-
1 ATTGTATCAGTAGAAGTCA-GA
*
248212 ATTGTATCAGTAGATGTCAGA
1 ATTGTATCAGTAGAAGTCAGA
248233 ATTGTAT
1 ATTGTAT
248240 TGATAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (21 bp):
ATTGTATCAGTAGAAGTCAGA
Found at i:249754 original size:19 final size:19
Alignment explanation
Indices: 249730--249775 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
249720 CCTTTGCATC
*
249730 CATCCCTACCAAGAATTTT
1 CATCCCCACCAAGAATTTT
249749 CATCCCCACCAAGAATTTT
1 CATCCCCACCAAGAATTTT
249768 CATCCCCA
1 CATCCCCA
249776 TCCTTGCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.39, G:0.04, T:0.26
Consensus pattern (19 bp):
CATCCCCACCAAGAATTTT
Found at i:258262 original size:25 final size:27
Alignment explanation
Indices: 258198--258267 Score: 72
Period size: 31 Copynumber: 2.5 Consensus size: 27
258188 TATAGAGATT
*
258198 GAATCAAATTAGTTCTTCTATTATTAAAT
1 GAATCAAATTAGTTC-TCTATTA-TAAAA
258227 GCACATCAAATTAGTTC-CTATTA-AAAA
1 G-A-ATCAAATTAGTTCTCTATTATAAAA
*
258254 GAATCAAATAAGTT
1 GAATCAAATTAGTT
258268 TAAATTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 11 0.30
26 1 0.03
27 4 0.11
29 7 0.19
30 1 0.03
31 13 0.35
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (27 bp):
GAATCAAATTAGTTCTCTATTATAAAA
Found at i:260657 original size:19 final size:19
Alignment explanation
Indices: 260613--260660 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
260603 TTAAATTTTA
* *
260613 ATAAAAAAATATAAAAATT
1 ATAAAAAAATAGAAAAATC
* *
260632 ATTAAAAATTAGAAAAATC
1 ATAAAAAAATAGAAAAATC
260651 ATAAAAAAAT
1 ATAAAAAAAT
260661 TGTAAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAAAAAAATAGAAAAATC
Found at i:260757 original size:29 final size:29
Alignment explanation
Indices: 260720--260776 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
260710 TTTTATAGTC
* *
260720 ATAAGAAATTTATAAAAAAAATATAAAAA
1 ATAAAAAATTCATAAAAAAAATATAAAAA
* *
260749 ATAAAAAATTCGTAAAAAAATTATAAAA
1 ATAAAAAATTCATAAAAAAAATATAAAA
260777 GTTATTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (29 bp):
ATAAAAAATTCATAAAAAAAATATAAAAA
Found at i:260914 original size:26 final size:26
Alignment explanation
Indices: 260876--260929 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
260866 ACGACACGTA
260876 ATAACTTAAACTGAAAAAAACTAAAG
1 ATAACTTAAACTGAAAAAAACTAAAG
*
260902 ATAACTTAGACTGAAAAAAACTAAAG
1 ATAACTTAAACTGAAAAAAACTAAAG
260928 AT
1 AT
260930 CAACCGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (26 bp):
ATAACTTAAACTGAAAAAAACTAAAG
Found at i:260984 original size:20 final size:20
Alignment explanation
Indices: 260959--261001 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
260949 TTAAAGAACC
260959 TTTTTTATAT-ATTTTAT-AA
1 TTTTTT-TATGATTTTATAAA
260978 TTTTTTTATGATTTTATAAA
1 TTTTTTTATGATTTTATAAA
260998 TTTT
1 TTTT
261002 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTTATGATTTTATAAA
Found at i:261001 original size:28 final size:28
Alignment explanation
Indices: 260960--261040 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 28
260950 TAAAGAACCT
*
260960 TTTTTATATATTTTATAATTTTTTTATGA
1 TTTTTATAAATTTTATAATTTTTTTAT-A
*
260989 -TTTTATAAATTTTACAATTTTTTTATA
1 TTTTTATAAATTTTATAATTTTTTTATA
*
261016 TTTTTATTAAAATTTAATAATTTTT
1 TTTTTA-T-AAATTTTATAATTTTT
261041 ATAACTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 29 0.64
29 1 0.02
30 14 0.31
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTATAAATTTTATAATTTTTTTATA
Found at i:265188 original size:9 final size:9
Alignment explanation
Indices: 265174--265216 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
265164 TTCAAATTTC
265174 ATTCTCTCA
1 ATTCTCTCA
265183 ATTCTCTCA
1 ATTCTCTCA
265192 ATTCATC-C-
1 ATTC-TCTCA
265200 ATTCTCTCA
1 ATTCTCTCA
265209 ATTCTCTC
1 ATTCTCTC
265217 TACTTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.06
8 5 0.16
9 22 0.71
10 2 0.06
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:273422 original size:16 final size:15
Alignment explanation
Indices: 273401--273463 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 15
273391 CATTGAAATT
273401 GAATAAATTTGTAATG
1 GAATAAA-TTGTAATG
273417 GAATAAGATTGTAATG
1 GAATAA-ATTGTAATG
* *
273433 AAATAGAACTGTAATG
1 GAATA-AATTGTAATG
273449 GAATAAAGTTGTAAT
1 GAATAAA-TTGTAAT
273464 AAATAATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.05
16 36 0.90
17 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.32
Consensus pattern (15 bp):
GAATAAATTGTAATG
Found at i:273717 original size:61 final size:62
Alignment explanation
Indices: 273636--273770 Score: 177
Period size: 61 Copynumber: 2.2 Consensus size: 62
273626 TTATTAAATA
* * * *
273636 TAATAGAATT-TTATTAAATATAATTTAATAAAAATGATAATAAAAAAAT-TAATCATATT-T
1 TAATATAATTATTATTAAATATAATTTAATAAAAATAATAAT-AAAAAATCTAATAACATTCT
* * *
273696 TAATATAATTATTATTGAATATAATTTAATAAAAATAATAATATATAATCTAATAACATTCT
1 TAATATAATTATTATTAAATATAATTTAATAAAAATAATAATAAAAAATCTAATAACATTCT
273758 TAATATAATTATT
1 TAATATAATTATT
273771 TAATATTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
60 14 0.22
61 37 0.57
62 14 0.22
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (62 bp):
TAATATAATTATTATTAAATATAATTTAATAAAAATAATAATAAAAAATCTAATAACATTCT
Found at i:275377 original size:62 final size:62
Alignment explanation
Indices: 275298--275457 Score: 241
Period size: 62 Copynumber: 2.6 Consensus size: 62
275288 CACACTAGTT
* * *
275298 TGACACCCAGTGCCTCATCGAATAAACCGAAGTAATAGTCGCGTCCAACGCTATAATGTAAG
1 TGACACCCAGTGTCTCATCGAATAAACCGAAGTAATAGTCGCGCCCAACACTATAATGTAAG
* *
275360 TGACACCCAGTGTCTCAT-TAATTAAACCGAAGTAATAGTCGCGCCCAGCACTATAATGTAAG
1 TGACACCCAGTGTCTCATCGAA-TAAACCGAAGTAATAGTCGCGCCCAACACTATAATGTAAG
* *
275422 TGACACCCAGTGTCTCATCGATTAAACCAAAGTAAT
1 TGACACCCAGTGTCTCATCGAATAAACCGAAGTAAT
275458 TTGACACCCA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 2 0.02
62 85 0.97
63 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (62 bp):
TGACACCCAGTGTCTCATCGAATAAACCGAAGTAATAGTCGCGCCCAACACTATAATGTAAG
Found at i:278393 original size:49 final size:50
Alignment explanation
Indices: 278300--278394 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 50
278290 TTCAAACTTT
*
278300 TTTTATTATTTTAAATTAATGCTTTTAATTAATAAATGTATTATTTTCAA
1 TTTTATTATTTTAAATTAATGCTTTTAATTAATAAATATATTATTTTCAA
* * *
278350 TTTTATTATTTT-AATTCAT-CTTTTAAATTAATAACTATTTTATTT
1 TTTTATTATTTTAAATTAATGCTTTT-AATTAATAAATATATTATTT
278395 ATAAAATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 5 0.12
49 23 0.57
50 12 0.30
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (50 bp):
TTTTATTATTTTAAATTAATGCTTTTAATTAATAAATATATTATTTTCAA
Found at i:279694 original size:30 final size:30
Alignment explanation
Indices: 279658--279723 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
279648 ATTATTAAGG
*
279658 ATAAAATTACACTTTAACCCCTTAAAAATA
1 ATAAAATTACAATTTAACCCCTTAAAAATA
** * * *
279688 ATAAAATTTTAATTTAATCCTTTAAAAATT
1 ATAAAATTACAATTTAACCCCTTAAAAATA
279718 ATAAAA
1 ATAAAA
279724 ATATAAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (30 bp):
ATAAAATTACAATTTAACCCCTTAAAAATA
Found at i:281542 original size:53 final size:53
Alignment explanation
Indices: 281419--281763 Score: 417
Period size: 53 Copynumber: 6.5 Consensus size: 53
281409 ACCTTTGATA
* * * *
281419 ACTCATGATGACACAAAGTCATCGGACCT-TTAATTCGTAATAGGATCCAT-T
1 ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
* * * * * *
281470 ATTCACGATGACACGTAGTCATCGGACCTGTAAATCCGTAGTAAGATTCGTAT
1 ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
* * * * * *
281523 ACTCATGATGACACATAGTCATCAGATCTGTTACTCCGTTATAGGATTCATGT
1 ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
* * *
281576 ACTCACGATGACACATAGTCATCAGACCTGTTAATCTGTAACAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
* ** * *
281629 ACTCACGATGACACGTAGTCATCGGACCTGTTAATTTGTTATAGGATTCATGT
1 ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
*
281682 ACTCACGATGACA-AGTAGTCATCGGATCTGTTAATCCGTAATAGGATTCATAT
1 ACTCACGATGACACA-TAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
* *
281735 ACTCACGATGACACATAATCATTGGACCT
1 ACTCACGATGACACATAGTCATCGGACCT
281764 TTTTTAATTT
Statistics
Matches: 246, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
51 25 0.10
52 15 0.06
53 205 0.83
54 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (53 bp):
ACTCACGATGACACATAGTCATCGGACCTGTTAATCCGTAATAGGATTCATAT
Found at i:283937 original size:24 final size:23
Alignment explanation
Indices: 283909--283971 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
283899 TAGACTAATA
*
283909 AGAGTTTGACTCAAAAAAATAAAT
1 AGAGTTTAACT-AAAAAAATAAAT
* *
283933 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACT-AAAAAAATAAAT
283957 AGAGTTTAACTAAAA
1 AGAGTTTAACTAAAA
283972 GATTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.27
Consensus pattern (23 bp):
AGAGTTTAACTAAAAAAATAAAT
Found at i:300160 original size:17 final size:18
Alignment explanation
Indices: 300138--300171 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
300128 TTTATAAATA
300138 TTTTTTAAAG-TTTTAAT
1 TTTTTTAAAGCTTTTAAT
300155 TTTTTTAAAGCTTTTAA
1 TTTTTTAAAGCTTTTAA
300172 AAAATGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTTAAAGCTTTTAAT
Found at i:304236 original size:83 final size:80
Alignment explanation
Indices: 304148--304309 Score: 252
Period size: 83 Copynumber: 2.0 Consensus size: 80
304138 TTTTTGTTAA
* * *
304148 TTTTTTAATTAATAATTCTTTTATTTATATAAATATGTAATTATACAATGAAAATATATTTGATA
1 TTTTTTAATCAATAACTCTTTTATTTATATAAATATATAATTATACAATGAAAATATA-TT-ATA
*
304213 TATTTCATTATGTTAAAT
64 T-TATCATTATGTTAAAT
*
304231 TTTTTTAATCAATAACTCTTTTATTTATATAAATATATAATTATATAATGAAAATATATTATATT
1 TTTTTTAATCAATAACTCTTTTATTTATATAAATATATAATTATACAATGAAAATATATTATATT
304296 ATCATTATGTTAAA
66 ATCATTATGTTAAA
304310 AATATTTATT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
80 14 0.19
81 4 0.05
82 2 0.03
83 54 0.73
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (80 bp):
TTTTTTAATCAATAACTCTTTTATTTATATAAATATATAATTATACAATGAAAATATATTATATT
ATCATTATGTTAAAT
Found at i:305091 original size:50 final size:50
Alignment explanation
Indices: 305037--305152 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
305027 TCAGATCTAA
* *
305037 TGTTTTAAATAAATATAAATATTTATTTA-ATTTATTTTGTTTAGATCTGG
1 TGTTTTAAATAAATATAAATATTTATTTATA-TTATTTTGTTCAGATATGG
* * * *
305087 TGTTTTACATAAACATAAATATTTATTTATATTGTTTTGTTCAGATATTG
1 TGTTTTAAATAAATATAAATATTTATTTATATTATTTTGTTCAGATATGG
* *
305137 TATTTTATATAAATAT
1 TGTTTTAAATAAATAT
305153 TTTATATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (50 bp):
TGTTTTAAATAAATATAAATATTTATTTATATTATTTTGTTCAGATATGG
Found at i:305470 original size:81 final size:81
Alignment explanation
Indices: 305287--305616 Score: 435
Period size: 81 Copynumber: 4.0 Consensus size: 81
305277 AAAATATAAA
** * * * *
305287 AATTGAATAGCTCTGTTTCGGGATTTATTCCTTCCGTTGAACAAATTTTATTCTATTTTTTATTT
1 AATTGAATAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAAATTTTATTCTA-TTTTGATTT
305352 GTTTCCAAACAAGAATT
65 GTTTCCAAACAAGAATT
* * * * *
305369 ATTTGAATAAATCTGTTTCGAGATTTATTCGTGCCGTTGAATAGATTTTATTCTATTTTGATTTG
1 AATTGAATAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAAATTTTATTCTATTTTGATTTG
*
305434 TTTCCAAACAATAATT
66 TTTCCAAACAAGAATT
* * * * *
305450 AATTGAATAAATTTGTTTCGAGACTTATTCCTACCGTTCAACAGATTTTATTTTATTTTGATTTG
1 AATTGAATAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAAATTTTATTCTATTTTGATTTG
*
305515 TTTCCAAATAAGAATT
66 TTTCCAAACAAGAATT
* * * *
305531 AATTGAATAAATCTGTTTCAAAATTTATTCCTGTCGTTCAACAAATTTTATTCTAGTTTGATTTT
1 AATTGAATAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAAATTTTATTCTATTTTGA-TTT
*
305596 GTTTCCAAACAAGAAAT
65 GTTTCCAAACAAGAATT
305613 AATT
1 AATT
305617 AAAATTTTTA
Statistics
Matches: 216, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 147 0.68
82 69 0.32
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (81 bp):
AATTGAATAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAAATTTTATTCTATTTTGATTTG
TTTCCAAACAAGAATT
Found at i:305638 original size:81 final size:81
Alignment explanation
Indices: 305287--305656 Score: 404
Period size: 81 Copynumber: 4.6 Consensus size: 81
305277 AAAATATAAA
** ** * *
305287 AATTGAATAGCTCTGTTTCGGGATTTATTCCT-TCCGTTGAACAAATTTTATTCTATTTTTTATT
1 AATTGAATAAATCTGTTTCAAGATTTATTCCTGT-CGTTCAACAAATTTTATTCTA-TTTTGATT
305351 TGTTTCCAAACAAGAATT
64 TGTTTCCAAACAAGAATT
* * * * * * *
305369 ATTTGAATAAATCTGTTTCGAGATTTATTCGTGCCGTTGAATAGATTTTATTCTATTTTGATTTG
1 AATTGAATAAATCTGTTTCAAGATTTATTCCTGTCGTTCAACAAATTTTATTCTATTTTGATTTG
*
305434 TTTCCAAACAATAATT
66 TTTCCAAACAAGAATT
* * * ** * *
305450 AATTGAATAAATTTGTTTCGAGACTTATTCCTACCGTTCAACAGATTTTATTTTATTTTGATTTG
1 AATTGAATAAATCTGTTTCAAGATTTATTCCTGTCGTTCAACAAATTTTATTCTATTTTGATTTG
*
305515 TTTCCAAATAAGAATT
66 TTTCCAAACAAGAATT
* *
305531 AATTGAATAAATCTGTTTCAAAATTTATTCCTGTCGTTCAACAAATTTTATTCTAGTTTGATTTT
1 AATTGAATAAATCTGTTTCAAGATTTATTCCTGTCGTTCAACAAATTTTATTCTATTTTGA-TTT
*
305596 GTTTCCAAACAAGAAAT
65 GTTTCCAAACAAGAATT
* * * * * *
305613 AATT-AA-AATTTTTATTTTAAGATTTAATCCTGTCGTTTAACAAA
1 AATTGAATAA-ATCTGTTTCAAGATTTATTCCTGTCGTTCAACAAA
305657 ATGGATTTTG
Statistics
Matches: 247, Mismatches: 38, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 177 0.72
82 68 0.28
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (81 bp):
AATTGAATAAATCTGTTTCAAGATTTATTCCTGTCGTTCAACAAATTTTATTCTATTTTGATTTG
TTTCCAAACAAGAATT
Found at i:307173 original size:55 final size:55
Alignment explanation
Indices: 307113--307222 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
307103 ACCTTAAAAG
307113 AAATACTTTGAGTTTTCTCAATTTAAAATTGAGATCAACCTTAAAAGAAATACTT
1 AAATACTTTGAGTTTTCTCAATTTAAAATTGAGATCAACCTTAAAAGAAATACTT
307168 AAATACTTTGAGTTTTCTCAATTTAAAATTGAGATCAACCTTAAAAGAAATACTT
1 AAATACTTTGAGTTTTCTCAATTTAAAATTGAGATCAACCTTAAAAGAAATACTT
307223 TGAGTTTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (55 bp):
AAATACTTTGAGTTTTCTCAATTTAAAATTGAGATCAACCTTAAAAGAAATACTT
Found at i:308645 original size:158 final size:158
Alignment explanation
Indices: 308345--308679 Score: 463
Period size: 158 Copynumber: 2.1 Consensus size: 158
308335 GTAACCATAT
* ** * * *
308345 ATGCTCACATGAGCTGTAAAATGGGCCTGCTCACGCGAGTTGTGGGTCGAGATGTGGGGCTACAC
1 ATGCTCACACGAGCTGTAAAATGGGCCTGCTCAAACGAGCTGTGGGTCAAGATGTGAGGCTACAC
* * *
308410 GATGCTGCTCACACGAGCTGTGGAGAATCCGCAATAAATGTCGGACCTCAGCCATCGGTAAGACA
66 GATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATGTAGGACCTCAGCCATCGGTAAGACA
* *
308475 TTTAAGACCAGCACCCATATAACCTGTA
131 TCTAAAACCAGCACCCATATAACCTGTA
* * * * *
308503 ATGCTCACACAAGCTGTGAAATGGGCCTGCTCAAATGAGCTGTGGGTCAAGATGTTAGGCTACGC
1 ATGCTCACACGAGCTGTAAAATGGGCCTGCTCAAACGAGCTGTGGGTCAAGATGTGAGGCTACAC
* ** * * *
308568 GATGCTGCTCACACGAGCTGTGGAGAATCCACAACCAATGTAGGACCTCATTCATTGGTAGGATA
66 GATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATGTAGGACCTCAGCCATCGGTAAGACA
*
308633 TCTAAAAGCAGCACCCATATAACCTGTA
131 TCTAAAACCAGCACCCATATAACCTGTA
308661 ATGCTCACACGAGCTGTAA
1 ATGCTCACACGAGCTGTAA
308680 CTGTAACATG
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (158 bp):
ATGCTCACACGAGCTGTAAAATGGGCCTGCTCAAACGAGCTGTGGGTCAAGATGTGAGGCTACAC
GATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATGTAGGACCTCAGCCATCGGTAAGACA
TCTAAAACCAGCACCCATATAACCTGTA
Found at i:310347 original size:19 final size:20
Alignment explanation
Indices: 310309--310365 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
310299 TTTAATTCTT
* * * *
310309 TTATTATTTTCTTTCTTTTT
1 TTATTCTTTTCATTATTTTC
310329 TTAATTC-TTTCATTATTTTC
1 TT-ATTCTTTTCATTATTTTC
*
310349 TTTTTCTTTTCATTATT
1 TTATTCTTTTCATTATT
310366 ATATACATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTCTTTTCATTATTTTC
Found at i:310358 original size:29 final size:29
Alignment explanation
Indices: 310286--310351 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
310276 ATTTCTAATC
* *
310286 TTTTCTTTCTTTCTTTAATTCTTTTATTA
1 TTTTCTTTCTTTTTTTAATTCTTTCATTA
310315 TTTTCTTTCTTTTTTTAATTCTTTCATTA
1 TTTTCTTTCTTTTTTTAATTCTTTCATTA
310344 TTTTCTTT
1 TTTTCTTT
310352 TTCTTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTCTTTCTTTTTTTAATTCTTTCATTA
Found at i:311190 original size:13 final size:13
Alignment explanation
Indices: 311172--311207 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
311162 TTCTACAAAT
311172 ACTTCATATAAAC
1 ACTTCATATAAAC
311185 ACTTCATATAAAC
1 ACTTCATATAAAC
*
311198 ATTTCATATA
1 ACTTCATATA
311208 TCTATTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTCATATAAAC
Found at i:318698 original size:19 final size:20
Alignment explanation
Indices: 318658--318698 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
318648 TTTTTAAATA
*
318658 TTACAAATTTAAATAATTAT
1 TTACAAATTTAAACAATTAT
318678 TTACAAA-TT-AACAATTCAT
1 TTACAAATTTAAACAATT-AT
318697 TT
1 TT
318699 CATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
TTACAAATTTAAACAATTAT
Found at i:319468 original size:25 final size:25
Alignment explanation
Indices: 319438--319565 Score: 238
Period size: 25 Copynumber: 5.1 Consensus size: 25
319428 ACACTAAATT
* *
319438 CTCCGAAAGTGTTAGGAGTTATAAA
1 CTCCGAAAGTGTTTGGAGTTCTAAA
319463 CTCCGAAAGTGTTTGGAGTTCTAAA
1 CTCCGAAAGTGTTTGGAGTTCTAAA
319488 CTCCGAAAGTGTTTGGAGTTCTAAA
1 CTCCGAAAGTGTTTGGAGTTCTAAA
319513 CTCCGAAAGTGTTTGGAGTTCTAAA
1 CTCCGAAAGTGTTTGGAGTTCTAAA
319538 CTCCGAAAGTGTTTGGAGTTCTAAA
1 CTCCGAAAGTGTTTGGAGTTCTAAA
319563 CTC
1 CTC
319566 TAATGGGTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 101 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (25 bp):
CTCCGAAAGTGTTTGGAGTTCTAAA
Found at i:320029 original size:20 final size:20
Alignment explanation
Indices: 320000--320048 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
319990 CCAATAACCA
*
320000 AGTTGCCTTCACTCCAAACG
1 AGTTGACTTCACTCCAAACG
320020 AGTTGACTTCACTCCAAACG
1 AGTTGACTTCACTCCAAACG
320040 AGTTGACTT
1 AGTTGACTT
320049 TAACTCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
AGTTGACTTCACTCCAAACG
Found at i:321724 original size:198 final size:198
Alignment explanation
Indices: 321463--321845 Score: 649
Period size: 198 Copynumber: 1.9 Consensus size: 198
321453 TTCAGTACGT
* ** *
321463 TTATAGGGATATAAGGCTCATTTCCTATTTTATCTTGTACAATTTTTGGTGATTTTTCAAAGTCG
1 TTATAGGGATATAAGGCTCACTTCCTATTTTATCTTGTACAATTTTTAATGATTTTTCAAAGTCA
* *
321528 CTGCTAAATCTGTTTTATAAGAATTCTGCTGCCAGATTTTTATGACCTTTCAACACTCAAAAATT
66 CTGCTAAATCTGTTTTATAAGAATTCTGCTGCCAAATTTTTATGACCTTTCAACACTAAAAAATT
* * *
321593 CATATCTTTTAAAATAAAAATCGAAATCAATCTCTGTTTGTTCTAAACAAAACTATACTTTCGTA
131 CATATATTTTAAAATAAAAATCAAAATCAATCTCCGTTTGTTCTAAACAAAACTATACTTTCGTA
321658 GTA
196 GTA
* *
321661 TTATAGGGATATAAGGGTCACTTCCTATTTTATCTTGTGCAATTTTTAATGATTTTTCAAAGTCA
1 TTATAGGGATATAAGGCTCACTTCCTATTTTATCTTGTACAATTTTTAATGATTTTTCAAAGTCA
*
321726 CTGCTAAATCTGTTTTATTAGAATTCTGCTGCCAAATTTTTATGACCTTTCAACACTAAAAAATT
66 CTGCTAAATCTGTTTTATAAGAATTCTGCTGCCAAATTTTTATGACCTTTCAACACTAAAAAATT
*
321791 CATATATTTTAAACTAAAAATCAAAATCAATCTCCGTTTGTTCTAAACAAAACTA
131 CATATATTTTAAAATAAAAATCAAAATCAATCTCCGTTTGTTCTAAACAAAACTA
321846 GATTGACTCA
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
198 172 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (198 bp):
TTATAGGGATATAAGGCTCACTTCCTATTTTATCTTGTACAATTTTTAATGATTTTTCAAAGTCA
CTGCTAAATCTGTTTTATAAGAATTCTGCTGCCAAATTTTTATGACCTTTCAACACTAAAAAATT
CATATATTTTAAAATAAAAATCAAAATCAATCTCCGTTTGTTCTAAACAAAACTATACTTTCGTA
GTA
Done.