Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000458.1 Hibiscus syriacus cultivar Beakdansim tig00000848_pilon, 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: 149762
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1228 original size:58 final size:58
Alignment explanation
Indices: 1124--1243 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
1114 AATCCCAGTG
* * * ** *
1124 TATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAGTACATTCCCGAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTAGTACATTCCCGAA
** *
1182 TATGACACATAAGGTCATGCCCA-CATATACACTAGGAATCCTTTAGTGTATTCTCGAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGAATCC-TTAGTACATTCCCGAA
1240 TATG
1 TATG
1244 CAGCCTTCTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 14 0.27
58 38 0.73
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (58 bp):
TATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTAGTACATTCCCGAA
Found at i:13437 original size:131 final size:131
Alignment explanation
Indices: 13199--13480 Score: 433
Period size: 131 Copynumber: 2.2 Consensus size: 131
13189 ATAATTTTAA
* *
13199 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAGAGAA
1 GAGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAA
* * * *
13264 GTCATTTATTATTCCAACCGGAATGAAAACATATCACTATTTCTTCTTAAAATTCAATATTGATT
66 GTCATTTATTACTCCAACCGAAATGAAAACATATCACTATTTCGTCTTAAAAATCAATATTGATT
13329 T
131 T
* *
13330 GA-ATGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGC
1 GAGA-GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGA
* * *
13394 AGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGAT
65 AGTCATTTATTACTCCAACCGAAATGAAAACATATCACTATTTCGTCTTAAAAATCAATATTGAT
13459 TT
130 TT
13461 GAGAGAAAAC-AGTAATATCT
1 GAGAGAAAACGA-TAATATCT
13481 GGTTCCCGAT
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
130 2 0.01
131 134 0.98
132 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAA
GTCATTTATTACTCCAACCGAAATGAAAACATATCACTATTTCGTCTTAAAAATCAATATTGATT
T
Found at i:18622 original size:22 final size:23
Alignment explanation
Indices: 18583--18626 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18573 CAAATTGTGC
18583 AGGGGGGTACAGATTTCCCCCTG
1 AGGGGGGTACAGATTTCCCCCTG
18606 AGGGGGGTATC-GA-TTCCCCCT
1 AGGGGGGTA-CAGATTTCCCCCT
18627 AAATGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 11 0.55
24 1 0.05
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (23 bp):
AGGGGGGTACAGATTTCCCCCTG
Found at i:19083 original size:16 final size:17
Alignment explanation
Indices: 19049--19088 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19039 TTATATAAAC
*
19049 TGATATGTGCTTATATG
1 TGATATGTGATTATATG
*
19066 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
19082 TGATATG
1 TGATATG
19089 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:20492 original size:13 final size:14
Alignment explanation
Indices: 20474--20502 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20464 TTTTAAACGT
20474 ATAAATGTA-AATG
1 ATAAATGTATAATG
20487 ATAAATGTATAATG
1 ATAAATGTATAATG
20501 AT
1 AT
20503 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:24936 original size:21 final size:22
Alignment explanation
Indices: 24906--24948 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24896 AAGTTGATAT
24906 AGTGAATTTTC-GGGCATGAAC
1 AGTGAATTTTCTGGGCATGAAC
* *
24927 AGTGATTTTTCTGGGCTTGAAC
1 AGTGAATTTTCTGGGCATGAAC
24949 GAAATTCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
AGTGAATTTTCTGGGCATGAAC
Found at i:25444 original size:16 final size:17
Alignment explanation
Indices: 25410--25449 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25400 TTATATAAAC
*
25410 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
25427 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
25443 TGATATG
1 TGATATG
25450 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:26195 original size:23 final size:23
Alignment explanation
Indices: 26169--26256 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
26159 CAATCTTATA
*
26169 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
26192 TGGCACTTCGGTGTATTTCTACA
1 TGGCACTTCGGTGCAATTCTACG
26215 TGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
*
26239 TGGCACTTTGGTGCAATT
1 TGGCACTTCGGTGCAATT
26257 TATACGAGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
22 1 0.02
23 33 0.63
24 17 0.33
25 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:26900 original size:13 final size:14
Alignment explanation
Indices: 26882--26910 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26872 TTTTAAACGT
26882 ATAAATGTA-AATG
1 ATAAATGTATAATG
26895 ATAAATGTATAATG
1 ATAAATGTATAATG
26909 AT
1 AT
26911 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:31884 original size:16 final size:17
Alignment explanation
Indices: 31850--31889 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
31840 TTATATAAAC
*
31850 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
31867 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
31883 TGATATG
1 TGATATG
31890 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:33322 original size:13 final size:14
Alignment explanation
Indices: 33304--33332 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33294 TTTTAAACGT
33304 ATAAATGTA-AATG
1 ATAAATGTATAATG
33317 ATAAATGTATAATG
1 ATAAATGTATAATG
33331 AT
1 AT
33333 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:33431 original size:22 final size:21
Alignment explanation
Indices: 33390--33431 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33380 GTAGTAGTAC
*
33390 TGTAGCAGGGTATCGATTCCA
1 TGTAGCAGGGAATCGATTCCA
*
33411 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCA-GGGAATCGATTCC
33432 CCTCTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGAATCGATTCCA
Found at i:37000 original size:16 final size:16
Alignment explanation
Indices: 36979--37014 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36969 AAAGTTAGTT
*
36979 GAAAAACTAAATGAAG
1 GAAAAACTAAATAAAG
*
36995 GAAAAATTAAATAAAG
1 GAAAAACTAAATAAAG
37011 GAAA
1 GAAA
37015 CAACATAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.14
Consensus pattern (16 bp):
GAAAAACTAAATAAAG
Found at i:37864 original size:20 final size:21
Alignment explanation
Indices: 37826--37866 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37816 TAGATTGTGC
37826 AGGGGGTACAGATTCCCCCTG
1 AGGGGGTACAGATTCCCCCTG
37847 AGGGGGTATC-GATTCCCCCT
1 AGGGGGTA-CAGATTCCCCCT
37867 AAATGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (21 bp):
AGGGGGTACAGATTCCCCCTG
Found at i:38323 original size:16 final size:17
Alignment explanation
Indices: 38289--38328 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
38279 TTATATAAAC
*
38289 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
38306 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
38322 TGATATG
1 TGATATG
38329 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:39759 original size:13 final size:14
Alignment explanation
Indices: 39741--39769 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39731 TTTTAAACGT
39741 ATAAATGTA-AATG
1 ATAAATGTATAATG
39754 ATAAATGTATAATG
1 ATAAATGTATAATG
39768 AT
1 AT
39770 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:39857 original size:22 final size:21
Alignment explanation
Indices: 39816--39857 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
39806 ACGGAAGTAC
*
39816 TGTAGCAGGGTATCGATTCCA
1 TGTAGCAGGGAATCGATTCCA
*
39837 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCA-GGGAATCGATTCC
39858 CCTCTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGAATCGATTCCA
Found at i:41184 original size:29 final size:32
Alignment explanation
Indices: 41120--41184 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
41110 TCGATGGTCA
*
41120 AAAAAATTCCTAAATTAATTATAATTTTTAAT
1 AAAAAATTCCTAAATTAATTATAATTCTTAAT
* *
41152 AAAAAA-T-CTAATTTAATTAT-ATTCTTATT
1 AAAAAATTCCTAAATTAATTATAATTCTTAAT
41181 AAAA
1 AAAA
41185 TTTAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 11 0.37
30 12 0.40
31 1 0.03
32 6 0.20
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAAAATTCCTAAATTAATTATAATTCTTAAT
Found at i:41194 original size:27 final size:30
Alignment explanation
Indices: 41120--41202 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 30
41110 TCGATGGTCA
*
41120 AAAAAATTCCTAAATTAATTATAATTTTTAAT
1 AAAAAA-T-CTAAATTAATTATAATTCTTAAT
*
41152 AAAAAATCTAATTTAATTAT-ATTCTT-AT
1 AAAAAATCTAAATTAATTATAATTCTTAAT
* *
41180 -TAAAATTTAAATTAATTAATAAT
1 AAAAAATCTAAATTAATT-ATAAT
41203 AAAAGATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 14 0.32
28 4 0.09
29 7 0.16
30 12 0.27
31 1 0.02
32 6 0.14
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
AAAAAATCTAAATTAATTATAATTCTTAAT
Found at i:41692 original size:30 final size:29
Alignment explanation
Indices: 41648--41762 Score: 90
Period size: 30 Copynumber: 3.9 Consensus size: 29
41638 TGAACCTCGC
41648 TTCGAAATAT-AGAATTCGACTGAACTTCAG
1 TTCGAAAT-TGAGAATTCGACTGAA-TTCAG
** *
41678 TTCGAAATTGAGAATGTC-TTTGATTTTCAG
1 TTCGAAATTGAGAAT-TCGACTGA-ATTCAG
** * *
41708 TTCGAAATACAGATTTCGACTGAATCTCTG
1 TTCGAAATTGAGAATTCGACTGAAT-TCAG
* *
41738 TTTGGAATTGAGAATTCGACTGAAT
1 TTCGAAATTGAGAATTCGACTGAAT
41763 CCCTGTTTGA
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
29 4 0.06
30 59 0.91
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (29 bp):
TTCGAAATTGAGAATTCGACTGAATTCAG
Found at i:45061 original size:3 final size:3
Alignment explanation
Indices: 45042--45090 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
45032 TTTAGGTTTG
* * *
45042 TAA TAA TATA TATA TAA TAA TAT TAA AAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45089 TA
1 TA
45091 TGGATATAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 32 0.82
4 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:45078 original size:18 final size:18
Alignment explanation
Indices: 45055--45090 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45045 TAATATATAT
45055 ATAATAATATTAAAAATA
1 ATAATAATATTAAAAATA
*
45073 ATAATAATATTAATAATA
1 ATAATAATATTAAAAATA
45091 TGGATATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATATTAAAAATA
Found at i:45601 original size:30 final size:30
Alignment explanation
Indices: 45488--45612 Score: 169
Period size: 30 Copynumber: 4.1 Consensus size: 30
45478 AAGAAGATCA
* * * * *
45488 ACTTGCCTTCTTTTTGGAATCAGCAACTCA
1 ACTTGCCTTCTTTATGGGATCATCATCTCT
45518 ACTTGGCCTTCTTTATGGGATCATCATCTCT
1 ACTT-GCCTTCTTTATGGGATCATCATCTCT
* * *
45549 ACTTGCCTTCTTTATGAGATCATCACCCCT
1 ACTTGCCTTCTTTATGGGATCATCATCTCT
45579 ACTTGCCTTCTTTATGGGATCATCATCTCT
1 ACTTGCCTTCTTTATGGGATCATCATCTCT
45609 ACTT
1 ACTT
45613 ATACAACATC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
30 58 0.70
31 25 0.30
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (30 bp):
ACTTGCCTTCTTTATGGGATCATCATCTCT
Found at i:47104 original size:30 final size:30
Alignment explanation
Indices: 47068--47142 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
47058 GAATTTGAGA
47068 AGAACCCGGCTGAATTCCAGGTTGAAATTG
1 AGAACCCGGCTGAATTCCAGGTTGAAATTG
* *
47098 AGAACCCGACTGAATTCCTGGTTGAAATTG
1 AGAACCCGGCTGAATTCCAGGTTGAAATTG
*
47128 AGGACCC-GCTGAATT
1 AGAACCCGGCTGAATT
47143 TCACAATAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 7 0.17
30 34 0.83
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (30 bp):
AGAACCCGGCTGAATTCCAGGTTGAAATTG
Found at i:48715 original size:16 final size:16
Alignment explanation
Indices: 48685--48715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48675 TGAAACTCGA
*
48685 CTCGAACTCGAAAAAG
1 CTCGAACTCAAAAAAG
48701 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
48716 AAATTCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:48797 original size:23 final size:23
Alignment explanation
Indices: 48771--48846 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
48761 CTCGATTTTG
48771 AGCTCAACTTTGAGCTCGATTCA
1 AGCTCAACTTTGAGCTCGATTCA
* * *
48794 AGCTCGACTTTGAACTCGAATCA
1 AGCTCAACTTTGAGCTCGATTCA
* **
48817 GGCTTGACTTTGAGCTCGATTCA
1 AGCTCAACTTTGAGCTCGATTCA
48840 AGCTCAA
1 AGCTCAA
48847 AAACGGGTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
AGCTCAACTTTGAGCTCGATTCA
Found at i:50567 original size:7 final size:7
Alignment explanation
Indices: 50555--50584 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50545 ATAAGTATAA
50555 TTTAGGG
1 TTTAGGG
50562 TTTAGGG
1 TTTAGGG
50569 TTTAGGG
1 TTTAGGG
50576 TTTAGGG
1 TTTAGGG
50583 TT
1 TT
50585 CATTGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:50647 original size:11 final size:11
Alignment explanation
Indices: 50631--50693 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
50621 GTATTATAGA
50631 ATTTTTAATAT
1 ATTTTTAATAT
50642 ATTTTTAA-AT
1 ATTTTTAATAT
50652 -TTTTATAAT-T
1 ATTTT-TAATAT
*** * *
50662 ATCAATAGTGT
1 ATTTTTAATAT
50673 ATTTTTAATAT
1 ATTTTTAATAT
50684 ATTTTTAATA
1 ATTTTTAATA
50694 ATGAAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 4 0.10
10 9 0.23
11 26 0.67
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:54832 original size:23 final size:23
Alignment explanation
Indices: 54785--54834 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
54775 AATAACATAT
**
54785 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
54808 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
54831 TAGG
1 TAGG
54835 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:55271 original size:199 final size:195
Alignment explanation
Indices: 54840--55542 Score: 736
Period size: 199 Copynumber: 3.5 Consensus size: 195
54830 ATAGGCATTT
* * * *
54840 AACCGGTATATTTATACCGGTAGCATTGCAAATTTACCTATTGCATTATAATTATTGGTTTCGTT
1 AACCGGTATATTTATACCGGTA-CATTGTAAATTTACCTATTACATTATAATT-TTCGTTTCGAT
*
54905 G-TTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATACTTGCACCTCGTTGGGCATTC
64 GTTTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATACTTGCACCTCTTTGGGCATT-
* * *
54969 CTAATTCATTCTGGAAAAAAGTATCGACACAAACTATAAAGGTGTCGATACATTATTTAGACCTA
128 C--ATT-A---TGGAAAAAAGTATCGACACAAATTA-AAAAGTGTCGATACTTTATTT-GACCTA
55034 TTTTCTCATAA
185 TTTTCTCATAA
* * *
55045 AACCGGTATATTTATACTGGGTACATTGTAAATTTACCTATAACATTGTAATTTTCGTTTCGATG
1 AACCGGTATATTTATAC-CGGTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCGATG
* *
55110 TTTTTTTGGATCGATACAATTTTAAATGTATCGACA-TGTTATTCTTGCACATCTTTGGGCATTC
65 TTTTTTTGGATCGATACAATTTTAAATGTATCGACACT-TTATACTTGCACCTCTTTGGGCATTC
* * *
55174 ATTATGGACAAAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACCTATTTTTT
129 ATTATGGA-AAAAAGTATCGACACAAATTA-AAAAGTGTCGATACTTTATT-TGACCTATTTTCT
55239 CATAA
191 CATAA
* * * *
55244 AACCGGTAAATTTAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTATCAGTTTCGAT
1 AACCGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTATAATTTTC-GTTTCGAT
* * * * * ** *
55309 GTTTTTGT-GATCGATACAATTTTAAATGTATCGACACTTTATGCGTGAACCTGTTTGTACTTTC
64 GTTTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATACTTGCACCTCTTTGGGCATTC
* * *
55373 -TTTTGGAAAAAAGTATCGACACAAACTTAAAAAAGTGTCGATACTTTATGTTGACCTGTTTTAT
129 ATTATGGAAAAAAGTATCGACACAAA-TT-AAAAAGTGTCGATACTTTAT-TTGACCTATTTTCT
* *
55437 AAT-T
191 CATAA
* * * * * ** **
55441 AACTGGTATATGTATACTGTTACATTGTTAATTTAAATATTACATTATAATTATTTATTTCGATG
1 AACCGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATAATT-TTCGTTTCGATG
* * *
55506 -TTTTTGGGGTCGATAC-TTTTTGAAAATGTATCGACAC
65 TTTTTTTGGATCGATACAATTTT--AAATGTATCGACAC
55543 ATATTCTTAC
Statistics
Matches: 426, Mismatches: 57, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
195 8 0.02
196 44 0.10
197 46 0.11
198 45 0.11
199 146 0.34
200 17 0.04
201 1 0.00
202 3 0.01
204 12 0.03
205 100 0.23
206 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (195 bp):
AACCGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCGATGT
TTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATACTTGCACCTCTTTGGGCATTCAT
TATGGAAAAAAGTATCGACACAAATTAAAAAGTGTCGATACTTTATTTGACCTATTTTCTCATAA
Found at i:58445 original size:199 final size:199
Alignment explanation
Indices: 58043--58906 Score: 1087
Period size: 199 Copynumber: 4.3 Consensus size: 199
58033 AGACATTTGG
* * *
58043 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAACTTTGTT
1 TTATAATTATAG-TTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA-TTTTTT
* * * *
58107 -GTGCACTTGGTTTTTAAAATATAGTCTGGAAAAAAATGTATCGAAACTTGAT-GTATTTGTGTC
64 AGTGCACTTGG-TTTTAAAATACAGTCTGGAGAAAAA-GTATCGACACTTGTTAG-ATTTGTGTC
* * * * *
58170 GATACTTCATGTATACA--TGTTTTCTCATAAACCGGTACATTTAGACCAGTTACATTGTTAATT
126 GATACTT--TTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTGTTACATTGATAATT
58233 TACCTATTACA
189 TACCTATTACA
* *
58244 TTATAATTATAGTTTTCGATGTTTTTGGGATCTACACTTGTTATAAATGTATCGACATTTTTTAA
1 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACATTTTTTAG
* * *
58309 TGCACTTGGTTTTGAAATACATTATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
66 TGCACTTGGTTTTAAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
* *
58374 TTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTATACCTTTTACA-TGAATAATTTACCTA
131 TTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTGTTACATTG-ATAATTTACCTA
58438 TTACA
195 TTACA
* * * * * *
58443 TTATAATTATATTTTTTGATGTTTTCGGGATCGACACTTGTTTTAAATGTATTGACA-CTTTTAT
1 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACATTTTTTA-
* * ** **
58507 GTGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATA
65 GTGCACTTGGTTTTAAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATA
* * * * * * *
58572 CTGTTTGTACACGTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTATATTGCTAATTTACCTA
130 CTTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTGTTACATTGATAATTTACCTA
58637 TTACA
195 TTACA
* * * * *
58642 TTATAATTATGGTTTTCGACGTTTTTTGGATCGACACTTGTTATATATGTATCGACACTTTTTAG
1 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACATTTTTTAG
* * * *
58707 TGCACTTGGGTTTGAAATACAGTCTGGAGAAAAAGTATTGACACTTGTTAGATTTGTGTCAATAC
66 TGCACTTGGTTTTAAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
* * * *
58772 TTTTTGTACACCTGTTTTCTCAAAAACCGATATATTTATACCTTTTACA-TGAATAATTTACCTA
131 TTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTGTTACATTG-ATAATTTACCTA
58836 TTACA
195 TTACA
* *
58841 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTGTTTT
1 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA-TT-TTTT
58906 A
64 A
58907 TTTGTGTCGA
Statistics
Matches: 572, Mismatches: 79, Indels: 24
0.85 0.12 0.04
Matches are distributed among these distances:
197 7 0.01
198 9 0.02
199 455 0.80
200 34 0.06
201 66 0.12
202 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (199 bp):
TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACATTTTTTAG
TGCACTTGGTTTTAAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
TTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTGTTACATTGATAATTTACCTAT
TACA
Found at i:58784 original size:398 final size:400
Alignment explanation
Indices: 58043--58900 Score: 1328
Period size: 398 Copynumber: 2.1 Consensus size: 400
58033 AGACATTTGG
* * * *
58043 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAACTTTGTTG
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
* * *
58108 TGCACTTGGTTTTTAAAATATAGTCTGGAAAAAAATGTATCGAAACTTGATGTATTTGTGTCGAT
66 TGCACTTGGTTTCTAAAATACAGTCTGGAAAAAAATGTATCGAAACTTGATCTATTTGTGTCGAT
* * *
58173 ACTTCATGTATACATGTTTTCTCATAAACCGGTACATTTAGACCAGTTACATTGTTAATTTACCT
131 ACTTCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTACCT
* * *
58238 ATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCTACACTTGTTATAAATGTATCGACATT
196 ATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACT
* *
58303 TTTTAATGCACTTGGTTTTGAAATACATTATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGT
261 TTTTAATGCACTTGGGTTTGAAATACAGTATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGT
* *
58368 CGATACTTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTATACCTTTTACATGAATAATTT
326 CAATACTTTTTATACACCTGTTTTCTCAAAAACCGATATATTTATACCTTTTACATGAATAATTT
58433 ACCTATTACA
391 ACCTATTACA
* * *
58443 TTATAATTATATTTTTTGATGTTTTCGGGATCGACACTTGTTTTAAATGTATTGACACTTT-TAT
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTTGT-T
* ** * *
58507 GTGCACTTGG-TTCTAAAATACATTCTGGACCAAAA-GTATCGACACTTGTTCTATTTGTGTCGA
65 GTGCACTTGGTTTCTAAAATACAGTCTGGAAAAAAATGTATCGAAACTTGATCTATTTGTGTCGA
* * * * * *
58570 TACTGT-TTGTACACGTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTATATTGCTAATTTAC
130 TACT-TCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTAC
* * *
58634 CTATTACATTATAATTATGGTTTTCGACGTTTTTTGGATCGACACTTGTTATATATGTATCGACA
194 CTATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA
* * *
58699 CTTTTTAGTGCACTTGGGTTTGAAATACAGTCTGGAGAAAAAGTATTGACACTTGTTAGATTTGT
259 CTTTTTAATGCACTTGGGTTTGAAATACAGTATGGAGAAAAAGTATCGACACTTGTTAGATTTGT
*
58764 GTCAATACTTTTTGTACACCTGTTTTCTCAAAAACCGATATATTTATACCTTTTACATGAATAAT
324 GTCAATACTTTTTATACACCTGTTTTCTCAAAAACCGATATATTTATACCTTTTACATGAATAAT
58829 TTACCTATTACA
389 TTACCTATTACA
58841 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTT
58901 GTTTTATTTG
Statistics
Matches: 415, Mismatches: 41, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
398 328 0.79
399 22 0.05
400 65 0.16
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (400 bp):
TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
TGCACTTGGTTTCTAAAATACAGTCTGGAAAAAAATGTATCGAAACTTGATCTATTTGTGTCGAT
ACTTCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTACCT
ATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACT
TTTTAATGCACTTGGGTTTGAAATACAGTATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGT
CAATACTTTTTATACACCTGTTTTCTCAAAAACCGATATATTTATACCTTTTACATGAATAATTT
ACCTATTACA
Found at i:61532 original size:15 final size:15
Alignment explanation
Indices: 61508--61549 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
61498 AGGAGGTTGT
61508 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
61523 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
61538 GGTTGAGAAGAG
1 GGTTGAGAAGAG
61550 ATTTGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.52, T:0.19
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:62183 original size:199 final size:199
Alignment explanation
Indices: 61897--62597 Score: 1231
Period size: 199 Copynumber: 3.5 Consensus size: 199
61887 TTTTCAATTT
* * *
61897 AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTATATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
61962 TTTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
62027 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
62092 TCAA
196 TCAA
* * *
62096 AAATCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACAATATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
62161 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * * *
62226 CATTCTGGACAAAAAGTATTGACACTTGTTCGATTTGTGTCGATACTTTTTGCATACATGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
62291 TCAA
196 TCAA
*
62295 AAACCGGTATATTTAGACCGATTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
62360 TGTTTTTGGGATTGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
62425 CATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTTGATACTTTTTTTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
62490 TCAA
196 TCAA
62494 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
62559 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
62598 ATAAGTTTAC
Statistics
Matches: 472, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 472 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:62967 original size:19 final size:19
Alignment explanation
Indices: 62943--62991 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
62933 TTACATTCAC
62943 ATACAAAATTATAAA-TCGT
1 ATACAAAATTA-AAACTCGT
*
62962 ATACAAAATTAAAACTCTT
1 ATACAAAATTAAAACTCGT
62981 ATAC-AAATTAA
1 ATACAAAATTAA
62992 CCATGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAACTCGT
Found at i:64488 original size:21 final size:18
Alignment explanation
Indices: 64450--64488 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
64440 TTCTCCTCAT
64450 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
64468 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
64486 TTC
1 TTC
64489 AAATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:65194 original size:22 final size:21
Alignment explanation
Indices: 65166--65222 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
65156 AACCTGCATT
*
65166 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
65188 TATAATAATTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
65212 TATAAAAAAAC
1 TATAATAAAAC
65223 AAAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 18 0.60
25 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:66203 original size:18 final size:18
Alignment explanation
Indices: 66180--66218 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66170 TACTGTCAAC
66180 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTT-TAATCCA
*
66198 ATTTAAAGTTTTAATCCA
1 ATTTAAAATTTTAATCCA
66216 ATT
1 ATT
66219 ACCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAATCCA
Found at i:66341 original size:5 final size:5
Alignment explanation
Indices: 66331--66355 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66321 TCAGTTTGCG
66331 CAAAT CAAAT CAAAT CAAAT CAAAT
1 CAAAT CAAAT CAAAT CAAAT CAAAT
66356 ACTACTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAAAT
Found at i:66521 original size:19 final size:20
Alignment explanation
Indices: 66474--66522 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
66464 CATTTATAAA
66474 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
66493 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
66511 ACCTATAAATAT
1 ACCTATAAATAT
66523 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:67637 original size:23 final size:23
Alignment explanation
Indices: 67611--67655 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67601 CACCACAGCT
*
67611 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
67634 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
67656 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:67893 original size:149 final size:149
Alignment explanation
Indices: 67634--67937 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
67624 CGAAGTGCCC
* *
67634 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAAAATTCTTTAAGAAT
67699 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
67764 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
67783 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAAAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAAAATTCTTTAAGAAT
67848 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
67913 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
67932 CGTAGA
1 CGTAGA
67938 CCCTCGACTC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAAAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:68761 original size:18 final size:18
Alignment explanation
Indices: 68740--68774 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68730 TCCCATCTAG
68740 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
68758 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
68775 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:69381 original size:21 final size:21
Alignment explanation
Indices: 69357--69401 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
69347 TCTTGTTCGT
* *
69357 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
69378 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
69399 TTG
1 TTG
69402 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:72561 original size:23 final size:23
Alignment explanation
Indices: 72535--72579 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
72525 CACCACAGCT
*
72535 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
72558 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
72580 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:74158 original size:21 final size:21
Alignment explanation
Indices: 74134--74178 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
74124 TCTTGTTCGT
* *
74134 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
74155 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
74176 TTG
1 TTG
74179 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:75162 original size:164 final size:165
Alignment explanation
Indices: 74876--75697 Score: 716
Period size: 182 Copynumber: 4.8 Consensus size: 165
74866 ATTTGGGATG
* * *
74876 TTACAGGTTTTGTC-ATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTCTGGATC
1 TTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
74940 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
66 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
*
75005 AAATTATCGACACTTTCAACATATCCGGTAATATT
131 AAATTATCGACACTTTCAACATATCCGGTAATGTT
* * * *
75040 TT-CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGCTATATTGGTAAGGATC
1 TTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* * *
75104 GATATATTTTAATAAAGTGTTGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
66 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTC----
*
75169 ATTGTTGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACT-TT
127 A-----G------A-A--AAATTATCGACACTTTCAACATATCCGGTAA-TGTT
* * * * *
75222 TT-TCGGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGATC
1 TTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* * * ***** ** *
75286 GATACATTTTCATAAAGTGTTGACACTTTTT-A--G-TTTAATTTCAGAAAGTGTCGATACTT-A
66 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC-TTCTCT-TTTA-AATTCA
* *
75346 TATTAAATTATCGACACTTTCAACATATCCGGT-ATCGTT
128 GA-AAAATTATCGACACTTTCAACATATCCGGTAAT-GTT
* *
75385 TTACTGGTTTTGTCAATTTT-AGGACCTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGAT
1 TTACCGGTTTTGTCAATTTTGA-GACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* ** * * *
75449 CGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGA
65 CGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGA
** * * * **
75513 AAGTTTCGATACTTATATCAAATTATCAACACT-TTCAATATATCCGGTAGCGTT
130 AAAATT--AT-C---GA-C-ACTT-TCAACA-TATCCGGTA-A-----T---GTT
* *
75567 TTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
1 TTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* *
75632 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAA
66 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
75697 A
131 A
75698 GTGTCGATAC
Statistics
Matches: 530, Mismatches: 75, Indels: 87
0.77 0.11 0.13
Matches are distributed among these distances:
161 1 0.00
162 1 0.00
163 63 0.12
164 168 0.32
165 6 0.01
166 4 0.01
167 8 0.02
168 1 0.00
170 1 0.00
171 1 0.00
172 3 0.01
173 10 0.02
174 1 0.00
175 1 0.00
176 1 0.00
178 7 0.01
179 3 0.01
180 4 0.01
181 4 0.01
182 187 0.35
183 55 0.10
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (165 bp):
TTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
AAATTATCGACACTTTCAACATATCCGGTAATGTT
Found at i:75476 original size:163 final size:163
Alignment explanation
Indices: 75156--75477 Score: 459
Period size: 163 Copynumber: 2.0 Consensus size: 163
75146 CTTCTTCTCT
* * * *
75156 TTTAAATTCAGAAATTGTTGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* *
75221 TTTTCGGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGATC
66 TTTACGGTTTTGTCATATTTTAGACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGATC
* *
75286 GATACATTTTCATAAAGTGTTGACACTTTTTAG
131 GATACATTTTCATAAAGTATCGACACTTTTTAG
* * *
75319 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * *
75384 TTTACTGGTTTTGTCA-ATTTTAGGACCTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGA
66 TTTAC-GGTTTTGTCATATTTTA-GACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGA
* **
75448 TCGATA-TTTTTTTTAAAGTATCGACACTTT
129 TCGATACATTTTCATAAAGTATCGACACTTT
75478 ATAGGCGCTA
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
163 86 0.61
164 54 0.39
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (163 bp):
TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACGGTTTTGTCATATTTTAGACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGATC
GATACATTTTCATAAAGTATCGACACTTTTTAG
Found at i:75578 original size:346 final size:345
Alignment explanation
Indices: 74876--76023 Score: 1418
Period size: 346 Copynumber: 3.3 Consensus size: 345
74866 ATTTGGGATG
* *
74876 TTACAGGTTTTGTCA-TTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTCTGGATC
1 TTAC-GGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* * * ***** ** *
74940 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC-TTCTCT-TTTA-AATTCA
65 GATACATTTTCATAAAGTGTCGACACTTTTTAA-CGTTTTAAATTCAGAAAGTGTCGATACTT-A
* * *
75002 GA-AAAATTATCGACACTTTCAACATATCCGGTAATATTTTCCGGTTTTGTCATTTTTGAGACCT
128 TATTAAATTATCGACACTTTCAACATATCCGGT-ATCTTTTCCGGTTTTGTCATTTTTGAGACCT
* *
75066 GTTTTATCATATTTTTACCTGCTATATTGGTAAGGATCGATATATTTTAATAAAGTGTTGACACT
192 GTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATAT-TTTTAATAAAGTGTCGACACT
* *
75131 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAA-TTGTTGATACTAATATTAAATTATC
256 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTT-TCGATACTAATATTAAATTATC
75195 GACACTTTCAATATATCCGGTAACTTT
320 GACACTTTCAATATATCCGGTAAC-TT
* * *
75222 TTTCGGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTATTATATTGTTATGGATCG
1 TTACGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
* *
75287 ATACATTTTCATAAAGTGTTGACACTTTTT-A-G-TTTAATTTCAGAAAGTGTCGATACTTATAT
66 ATACATTTTCATAAAGTGTCGACACTTTTTAACGTTTTAAATTCAGAAAGTGTCGATACTTATAT
* *
75349 TAAATTATCGACACTTTCAACATATCCGGTATCGTTTTACTGGTTTTGTCAATTTT-AGGACCTG
131 TAAATTATCGACACTTTCAACATATCCGGTATC-TTTT-CCGGTTTTGTCATTTTTGA-GACCTG
* ** ** *
75413 TTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGATATTTTTTTTAAAGTATCGACACTTT
193 TTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATATTTTTAATAAAGTGTCGACACTTT
* * * *
75478 ATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATCAAATTATCAAC
258 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTAATATTAAATTATCGAC
*
75543 ACTTTCAATATATCCGGTAGCGTT
323 ACTTTCAATATATCCGGTAAC-TT
* * *
75567 TTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
1 TTAC-GGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
75632 GATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAA
65 GATACATTTTCATAAAGTGTCGACACTTTTTAA-CG---------------TTTTAAATTCAGAA
* * *
75697 AGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGATAACTTTTTCCGGTTTTGT
114 AGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATC-TTTTCCGGTTTTGT
* * *
75762 CATTTTTGAGACCTG-TTTATCATATTTTTACCTGTTATATTGGTAAGGATCAATACATTTTCAT
178 CATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATA-TTTTTAAT
** *
75826 AAAGTGTCGACACTTTTTAGGCATTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTA
242 AAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTA
75891 ATATTAAATTATCGACACTTTCAATATATCCGGTAACTTT
307 ATATTAAATTATCGACACTTTCAATATATCCGGTAAC-TT
* * * *
75931 TTCCAGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTGTGGATCG
1 TTACGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
* ** *
75996 ATATATTTTTTTAAAGTATCGACACTTT
66 ATACATTTTCATAAAGTGTCGACACTTT
76024 ATAGGCGCTA
Statistics
Matches: 692, Mismatches: 79, Indels: 45
0.85 0.10 0.06
Matches are distributed among these distances:
342 7 0.01
343 2 0.00
344 6 0.01
345 148 0.21
346 224 0.32
347 1 0.00
349 1 0.00
363 115 0.17
364 124 0.18
365 64 0.09
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (345 bp):
TTACGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
ATACATTTTCATAAAGTGTCGACACTTTTTAACGTTTTAAATTCAGAAAGTGTCGATACTTATAT
TAAATTATCGACACTTTCAACATATCCGGTATCTTTTCCGGTTTTGTCATTTTTGAGACCTGTTT
TATCATATTTTTACCTGTTATATTGGTAAGGATCGATATTTTTAATAAAGTGTCGACACTTTTTA
GGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTAATATTAAATTATCGACACT
TTCAATATATCCGGTAACTT
Found at i:75632 original size:182 final size:183
Alignment explanation
Indices: 75319--76186 Score: 1169
Period size: 182 Copynumber: 4.8 Consensus size: 183
75309 CACTTTTTAG
* *
75319 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* *
75384 TTTACTGGTTTTGTCAATTTT-AGGACCTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGA
66 TTTACCGGTTTTGTCAATTTTGA-GACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
* **
75448 TCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
130 TCGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * * *
75501 TTTAAATTCAGAAAGTTTCGATACTTATATCAAATTATCAACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* *
75566 TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACATGTTATATTGTTATGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * *
75631 CGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* *
75684 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * *
75748 TTTTCCGGTTTTGTCATTTTTGAGACCTG-TTTATCATATTTTTACCTGTTATATTGGTAAGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * **
75812 CAATACATTTTCATAAAGTGTCGACACTTTTTAGGCATTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* *
75865 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * * * *
75929 TTTTCCAGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTGTGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* **
75994 CGATATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* *
76047 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC--TCGACACATATCCGGTAGC
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * * * * *
76110 GTTTTACCGGTTTTGTC-ATTTTGGGACC-GATTTTGTCATATTTGTGCTTGTAATATTGCTATG
64 GTTTTACCGGTTTTGTCAATTTTGAGACCTG-TTTTATCATATTTTTACCTGTTATATTGTTATG
* *
76173 GAACGATCCATTTT
128 GATCGATACATTTT
76187 TCATTTGTAT
Statistics
Matches: 607, Mismatches: 72, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
180 2 0.00
181 167 0.28
182 328 0.54
183 110 0.18
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (183 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:75958 original size:21 final size:22
Alignment explanation
Indices: 75933--75973 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
75923 GTAACTTTTT
*
75933 CCAGTTTTGTCAT-TTTTTAGA
1 CCAGTTTTATCATATTTTTAGA
75954 CCAGTTTTATCATATTTTTA
1 CCAGTTTTATCATATTTTTA
75974 CCTGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.54
Consensus pattern (22 bp):
CCAGTTTTATCATATTTTTAGA
Found at i:76039 original size:363 final size:365
Alignment explanation
Indices: 75319--76152 Score: 1180
Period size: 363 Copynumber: 2.3 Consensus size: 365
75309 CACTTTTTAG
* *
75319 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * **
75384 TTTACTGGTTTTGTCAATTTTAGGACCTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGAT
66 TTTACCGGTTTTGTCATTTTTAGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
* * ** *
75449 CGATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAA
131 CAATAATTTTCATAAAGTATCGACACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCAGAA
* * * **
75514 AGTTTCGATACTTATATCAAATTATCAACACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTG
196 AGTGTCGATACTAATATCAAATTATCAACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTG
*
75579 TCAATTTTGAGACCTGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCA
261 TCAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCA
* * *
75644 TAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
326 TAAAGTATCGACACTTTATAAGCGCAATAACTTCTTCTCT
* *
75684 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
*
75748 TTTTCCGGTTTTGTCATTTTT-GAGACCTG-TTTATCATATTTTTACCTGTTATATTGGTAAGGA
66 TTTACCGGTTTTGTCATTTTTAG-GACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGA
* * *
75811 TCAATACATTTTCATAAAGTGTCGACACTTTTTAGGCATTATAACTTCTTCTCTTTTAAATTCAG
130 TCAATA-ATTTTCATAAAGTATCGACACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCAG
* * *
75876 AAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAAC-TTTTTCCAGTTT
194 AAAGTGTCGATACTAATATCAAATTATCAACACTTTCAATATATCCGGTAACGTTTTACCAGTTT
* * * * *
75940 TGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGATATATTTT
259 TGTCAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTT
** * *
76005 TTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
324 CATAAAGTATCGACACTTTATAAGCGCAATAACTTCTTCTCT
* *
76047 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC--TCGACACATATCCGGTAGC
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* *
76110 GTTTTACCGGTTTTGTCA-TTTTGGGACC-GATTTTGTCATATTT
64 GTTTTACCGGTTTTGTCATTTTTAGGACCTG-TTTTATCATATTT
76153 GTGCTTGTAA
Statistics
Matches: 416, Mismatches: 45, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
361 1 0.00
362 2 0.00
363 203 0.49
364 151 0.36
365 59 0.14
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (365 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACCGGTTTTGTCATTTTTAGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
CAATAATTTTCATAAAGTATCGACACTTTATAGGCACTATAACTTCTTCTCTTTTAAATTCAGAA
AGTGTCGATACTAATATCAAATTATCAACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTG
TCAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTCA
TAAAGTATCGACACTTTATAAGCGCAATAACTTCTTCTCT
Found at i:76143 original size:20 final size:21
Alignment explanation
Indices: 76115--76153 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
76105 GTAGCGTTTT
*
76115 ACCGGTTTTGTCAT-TTTGGG
1 ACCGATTTTGTCATATTTGGG
76135 ACCGATTTTGTCATATTTG
1 ACCGATTTTGTCATATTTG
76154 TGCTTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (21 bp):
ACCGATTTTGTCATATTTGGG
Found at i:78155 original size:30 final size:30
Alignment explanation
Indices: 78119--78279 Score: 250
Period size: 30 Copynumber: 5.4 Consensus size: 30
78109 TTCAAAAAAA
**
78119 AAATTGAGAACCCAACTGAATTCCTGGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
* *
78149 AAATTGAGAACCCGGCTTAATTCCTTGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
* *
78179 AAATTGAGAATCCGGCTGAATTTCTGGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
*
78209 AAATTGAGAACCCGGCTGAATTCCTGATTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
*
78239 AAATTGAGAACCCGGCTGAATTCCTGGTCG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
78269 AAATTGAGAAC
1 AAATTGAGAAC
78280 TCGACCGACT
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 118 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (30 bp):
AAATTGAGAACCCGGCTGAATTCCTGGTTG
Found at i:78302 original size:27 final size:27
Alignment explanation
Indices: 78264--78371 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
78254 CTGAATTCCT
*
78264 GGTCGAAATTGAGAACTCGACCGACTG
1 GGTCGAAATTGAGAACTCGACTGACTG
* *
78291 GGTCGAAATTGAGAATTCGACTGAAATATG
1 GGTCGAAATTGAGAACTCGACTG--A-CTG
* *
78321 GGTAGATATTGAGAACTCGACTGACTG
1 GGTCGAAATTGAGAACTCGACTGACTG
* *
78348 GGTTGAAATTGAGAATTCGACTGA
1 GGTCGAAATTGAGAACTCGACTGA
78372 ACTATTGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 44 0.65
28 1 0.01
29 1 0.01
30 22 0.32
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (27 bp):
GGTCGAAATTGAGAACTCGACTGACTG
Found at i:78332 original size:30 final size:30
Alignment explanation
Indices: 78289--78402 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 30
78279 CTCGACCGAC
*
78289 TGGGTCGAAATTGAGAATTCGACTGAAATA
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* * *
78319 TGGGTAGATATTGAGAACTCGACTG--A-C
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* *
78346 TGGGTTGAAATTGAGAATTCGACTGAACTA
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* * *
78376 TTGGTAGATATTGAGAATTCAACTGAA
1 TGGGTAGAAATTGAGAATTCGACTGAA
78403 TTCCAATCGA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 22 0.32
28 1 0.01
30 45 0.66
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (30 bp):
TGGGTAGAAATTGAGAATTCGACTGAAATA
Found at i:78401 original size:57 final size:57
Alignment explanation
Indices: 78271--78401 Score: 208
Period size: 57 Copynumber: 2.3 Consensus size: 57
78261 CCTGGTCGAA
*
78271 ATTGAGAACTCGACCGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
1 ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
* * *
78328 ATTGAGAACTCGACTGACTGGGTTGAAATTGAGAATTCGACTGAACTATTGGTAGAT
1 ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
* *
78385 ATTGAGAATTCAACTGA
1 ATTGAGAACTCGACTGA
78402 ATTCCAATCG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (57 bp):
ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
Found at i:79214 original size:324 final size:325
Alignment explanation
Indices: 78624--79229 Score: 1106
Period size: 324 Copynumber: 1.9 Consensus size: 325
78614 GCTCGATCAT
* *
78624 GTTCCTGGTCCGGATAGATTGAATTGGGCCGGTTCGTCTGATGGTAATTATTCCCCTAAATCCTT
1 GTTCCTGGTCCGGATAGATTGAATTGAGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
*
78689 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAATGGTGTGGTCTAAA
66 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
* * * * *
78754 TTAGCCCCTCCAAAAGTTGTTGGTTTCGTTTGGAAAGCTGTGCATCGGAGGGTGTCGGTTACCAC
131 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
*
78819 TGAATTGGTTAAGCGAGGCGTTTGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
196 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
78884 CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
261 CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
78949 GTTCCTGGTCCGGATAGATTGAATTGAGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
1 GTTCCTGGTCCGGATAGATTGAATTGAGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
**
79014 TTGTTCCAAGCT-GGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGATTAGGGTGTGGTCTAAA
66 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
79078 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
131 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
79143 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
196 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
79208 CTGAAACTATTGAACATGTTCT
261 CTGAAACTATTGAACATGTTCT
79230 TTGTCATTGT
Statistics
Matches: 270, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
324 195 0.72
325 75 0.28
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (325 bp):
GTTCCTGGTCCGGATAGATTGAATTGAGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
Found at i:83033 original size:24 final size:24
Alignment explanation
Indices: 82998--83058 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
82988 TTTAAGAGAA
* *
82998 TAAATATTAAAATGATAAATTTTT
1 TAAATATAAAAATGATAAATTTAT
*
83022 TAAATATAAAAA-AATAAATTTAT
1 TAAATATAAAAATGATAAATTTAT
83045 TAAAT-TAAGAAATG
1 TAAATATAA-AAATG
83059 GATAGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 3 0.10
23 17 0.55
24 11 0.35
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
TAAATATAAAAATGATAAATTTAT
Found at i:84113 original size:42 final size:39
Alignment explanation
Indices: 84023--84115 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 39
84013 CTATATTGTT
* * *
84023 AAAATATATT-TTTTAATTATTAAAAATATAAAATTATA
1 AAAATATATTATTCTAATCATTAAAAATATAAAATAATA
* *
84061 AAAAAATATTATTCTAATCATTTAAAATATAATAAATAATTA
1 AAAATATATTATTCTAATCATTAAAAATAT-A-AAATAA-TA
*
84103 TAAATATATTATT
1 AAAATATATTATT
84116 ATAAAATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 9 0.20
39 16 0.36
40 1 0.02
41 5 0.11
42 13 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (39 bp):
AAAATATATTATTCTAATCATTAAAAATATAAAATAATA
Found at i:84116 original size:14 final size:14
Alignment explanation
Indices: 84099--84131 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
84089 ATAATAAATA
84099 ATTAT-AAATATATT
1 ATTATAAAATATA-T
84113 ATTATAAAATATAT
1 ATTATAAAATATAT
84127 ATTAT
1 ATTAT
84132 TTTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATAAAATATAT
Found at i:85182 original size:20 final size:22
Alignment explanation
Indices: 85146--85192 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
85136 ATTAAATCTC
85146 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
* *
85168 TATTTTT-TT-AATAAATATAT
1 TATTTTTATTGAATAAAAATAA
85188 TATTT
1 TATTT
85193 CGGGTTGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 2 0.09
22 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:87244 original size:15 final size:15
Alignment explanation
Indices: 87224--87265 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
87214 GAAGAGTAAT
*
87224 ATGTATGCATGTATC
1 ATGTATGTATGTATC
87239 ATGTATGTATGTATC
1 ATGTATGTATGTATC
*
87254 ACGTATGTATGT
1 ATGTATGTATGT
87266 GCAATGCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (15 bp):
ATGTATGTATGTATC
Found at i:93974 original size:3 final size:3
Alignment explanation
Indices: 93968--94039 Score: 101
Period size: 3 Copynumber: 23.7 Consensus size: 3
93958 CTCCATTTAC
*
93968 TAT TAT TAT TATT TAT TATT TAT TAT TAT TAT GAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
94015 TAT TGT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
94040 CAAACGGGCC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.03
3 54 0.87
4 6 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94507 original size:21 final size:21
Alignment explanation
Indices: 94465--94512 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
94455 ACAGAGAGAC
*
94465 AAAACCGAGAGCAAAGATACA
1 AAAACCGAGAGCAAAGACACA
*
94486 AAAACGGAGAGCAACA-ACACA
1 AAAACCGAGAGCAA-AGACACA
*
94507 ACAACC
1 AAAACC
94513 AGCAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.25, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAACCGAGAGCAAAGACACA
Found at i:96175 original size:24 final size:23
Alignment explanation
Indices: 96135--96184 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
96125 TTAATTTATA
*
96135 ATTTTTTTATATATATACATATT
1 ATTTTTATATATATATACATATT
* *
96158 ATTTTTATAGTATTTATATATATT
1 ATTTTTATA-TATATATACATATT
96182 ATT
1 ATT
96185 AATATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTATATATATATACATATT
Found at i:96721 original size:9 final size:9
Alignment explanation
Indices: 96707--96731 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
96697 TTACATGTGA
96707 ATTTAAATT
1 ATTTAAATT
96716 ATTTAAATT
1 ATTTAAATT
96725 ATTTAAA
1 ATTTAAA
96732 AGCATGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:99507 original size:15 final size:15
Alignment explanation
Indices: 99487--99518 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99477 ATCAATACCT
99487 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
99502 TTTTGCATACATTCA
1 TTTTGCATACATGCA
99517 TT
1 TT
99519 ATTCATTATT
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:106827 original size:10 final size:10
Alignment explanation
Indices: 106812--106858 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
106802 TATTATGCTT
106812 GAAAAAAAAA
1 GAAAAAAAAA
106822 GAAAAAAAAAA
1 G-AAAAAAAAA
106833 GAAAAAAAAA
1 GAAAAAAAAA
*
106843 G-AGAAAAAA
1 GAAAAAAAAA
106852 GAAAAAA
1 GAAAAAA
106859 GGGGGGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 8 0.24
10 15 0.45
11 10 0.30
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:106828 original size:7 final size:7
Alignment explanation
Indices: 106816--106859 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
106806 ATGCTTGAAA
106816 AAAAAAG
1 AAAAAAG
*
106823 AAAAAAA
1 AAAAAAG
*
106830 AAAGAAAA
1 AAA-AAAG
106838 AAAAAGAG
1 AAAAA-AG
106846 AAAAAAG
1 AAAAAAG
106853 AAAAAAG
1 AAAAAAG
106860 GGGGGTCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:106829 original size:11 final size:11
Alignment explanation
Indices: 106813--106856 Score: 70
Period size: 11 Copynumber: 3.8 Consensus size: 11
106803 ATTATGCTTG
106813 AAAAAAAAAGA
1 AAAAAAAAAGA
106824 AAAAAAAAAGA
1 AAAAAAAAAGA
106835 AAAAAAAAGAGA
1 AAAAAAAA-AGA
106847 AAAAAGAAAA
1 AAAAA-AAAA
106857 AAGGGGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.61
12 9 0.29
13 3 0.10
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:106839 original size:19 final size:19
Alignment explanation
Indices: 106812--106858 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
106802 TATTATGCTT
106812 GAAAAAAAAAGAAAAAAAAAA
1 GAAAAAAAAAG--AAAAAAAA
*
106833 GAAAAAAAAAGAGAAAAAA
1 GAAAAAAAAAGAAAAAAAA
106852 GAAAAAA
1 GAAAAAA
106859 GGGGGGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAGAAAAAAAA
Found at i:108012 original size:93 final size:93
Alignment explanation
Indices: 107853--108414 Score: 939
Period size: 93 Copynumber: 6.0 Consensus size: 93
107843 CGTAAACCCA
* * *
107853 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCAAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAA
*
107918 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATAAATGTGCTC
*
107946 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAA
*
108011 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATAAATGTGCTC
* *
108039 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAA
108104 TCATTGAATTTGGAAGATAAATGTGCTC
66 TCATTGAATTTGGAAGATAAATGTGCTC
* *
108132 ATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGATCTGGTTTGGTATGAA-CCACAAAAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCA-AAAAACCA
108196 ATCATTGAATTTGGAAGATAAATGTGCTC
65 ATCATTGAATTTGGAAGATAAATGTGCTC
*
108225 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGTATGAACTCAAAAAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-TATGAACCCAAAAAACCA
*
108289 ATCATTGAATTTGGAAGATAAATGTGATC
65 ATCATTGAATTTGGAAGATAAATGTGCTC
* *
108318 ATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAA
* * *
108383 TCATTGGATTTGAAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATAAATGTGCTC
108411 ATAG
1 ATAG
108415 TAGAAATAAG
Statistics
Matches: 443, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
92 2 0.00
93 438 0.99
94 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAA
TCATTGAATTTGGAAGATAAATGTGCTC
Found at i:108353 original size:279 final size:287
Alignment explanation
Indices: 107848--108607 Score: 1110
Period size: 279 Copynumber: 2.6 Consensus size: 287
107838 AGTGTCGTAA
107848 ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCAAAAA
1 ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCAAAAA
*
107913 ACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * * *
107978 CTGATCTGGTTTGATATGAACCCTAAAAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAG
131 CTGATCTGGTTTG-TATGAA-CCAAAAAACCAATCATTGAATTTGGAAGATAAATGTGATCATAA
* *
108043 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAATCAT
194 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCAT
*
108108 TGAATTT-G-GAA-G-A-T-AAAT-G-TG
259 TGAATTTAGAGAATGCAGTAAAATAGAAG
* * *
108129 -CTC-ATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGATCTGGTTTGGTATGAAC-CACAAA
1 ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCA-AAA
108191 AACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
108256 TCTGATCTGGTTTAGTATGAACTCAAAAAACCAATCATTGAATTTGGAAGATAAATGTGATCATA
130 TCTGATCTGGTTT-GTATGAAC-CAAAAAACCAATCATTGAATTTGGAAGATAAATGTGATCATA
*
108321 ACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCTAAAAACCAATCA
193 ACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCA
*
108386 TTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAG
258 TTGAATTT---AGA-GAA--TG--C--AGTA-AAAT-AGAAG
*
108428 ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATTAACTCAAAAA
1 ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCAAAAA
*
108493 ACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGATTTAT
66 ACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * *
108558 CTGATCTGGTTTGGTATGAGCCACAAAAACCAATCATTGGATTTGAAAGA
131 CTGATCTGGTTT-GTATGAACCA-AAAAACCAATCATTGAATTTGGAAGA
108608 CGAATGTGCT
Statistics
Matches: 431, Mismatches: 21, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
278 3 0.01
279 244 0.57
280 3 0.01
283 1 0.00
285 3 0.01
288 1 0.00
293 1 0.00
294 1 0.00
296 4 0.01
298 1 0.00
299 1 0.00
300 4 0.01
301 162 0.38
302 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (287 bp):
ACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACTCAAAAA
ACCAATCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTTGTATGAACCAAAAAACCAATCATTGAATTTGGAAGATAAATGTGATCATAACA
TCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCATTG
AATTTAGAGAATGCAGTAAAATAGAAG
Found at i:108524 original size:115 final size:115
Alignment explanation
Indices: 108322--108529 Score: 353
Period size: 115 Copynumber: 1.8 Consensus size: 115
108312 GTGATCATAA
*
108322 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCTAAAAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCAT
* *
108387 TGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAG
66 TGAATTTGAAAGATAAATGTGCTCATAGTAGAAATAAGAAGACCCAATAG
* * *
108437 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATTAACTCAAAAAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCAT
*
108502 TGAATTTGGAAGATAAATGTGCTCATAG
66 TGAATTTGAAAGATAAATGTGCTCATAG
108530 CATCTTCTGG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 86 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (115 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCAAAAAACCAATCAT
TGAATTTGAAAGATAAATGTGCTCATAGTAGAAATAAGAAGACCCAATAG
Found at i:108588 original size:208 final size:208
Alignment explanation
Indices: 108225--108688 Score: 831
Period size: 208 Copynumber: 2.2 Consensus size: 208
108215 AAATGTGCTC
*
108225 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTATGAACTCAAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
108290 TCATTGAATTTGGAAGATAAATGTGATCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGGAAGATAAATGTGATCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
108355 CTGGTTTGATATGAACCCTAAAAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAA
131 CTGGTTTGATATGAACCCTAAAAACCAATCATTGGATTTGAAAGACGAATGTGCTCATAGTAGAA
108420 ATAAGAAGACCCA
196 ATAAGAAGACCCA
*
108433 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATTAACTCAAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
* * *
108498 TCATTGAATTTGGAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGAT
66 TCATTGAATTTGGAAGATAAATGTGATCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* * *
108563 CTGGTTTGGTATGAGCCAC-AAAAACCAATCATTGGATTTGAAAGACGAATGTGCTTATAGTAGA
131 CTGGTTTGATATGAACC-CTAAAAACCAATCATTGGATTTGAAAGACGAATGTGCTCATAGTAGA
108627 AATAAGAAGACCCA
195 AATAAGAAGACCCA
108641 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
108689 AGAATCACAG
Statistics
Matches: 246, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
208 245 1.00
209 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (208 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
TCATTGAATTTGGAAGATAAATGTGATCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGATATGAACCCTAAAAACCAATCATTGGATTTGAAAGACGAATGTGCTCATAGTAGAA
ATAAGAAGACCCA
Found at i:108592 original size:93 final size:93
Alignment explanation
Indices: 108433--108622 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 93
108423 AGAAGACCCA
*
108433 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATTAACTCAAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
* *
108498 TCATTGAATTTGGAAGATAAATGTGCTC
66 TCATTGAATTTGAAAGACAAATGTGCTC
* *
108526 ATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGATCTGGTTTGGTATGAGC-CACAAAAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCA-AAAAACCA
* * *
108590 ATCATTGGATTTGAAAGACGAATGTGCTT
65 ATCATTGAATTTGAAAGACAAATGTGCTC
108619 ATAG
1 ATAG
108623 TAGAAATAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 2 0.02
93 86 0.98
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTCAAAAAACCAA
TCATTGAATTTGAAAGACAAATGTGCTC
Found at i:109103 original size:131 final size:131
Alignment explanation
Indices: 108864--109131 Score: 527
Period size: 131 Copynumber: 2.0 Consensus size: 131
108854 GAATTCGTGA
*
108864 TTTTCTCGGTATCAAAAGAACTATCGATATCTGTGAAATCATCTTGAAAGATCACTTCATAATCA
1 TTTTATCGGTATCAAAAGAACTATCGATATCTGTGAAATCATCTTGAAAGATCACTTCATAATCA
108929 GATGAGTTGTTATCAGAATCAACATGTTGCATGAGTGCGAGCTTTTCAATAGTCTATACTATTGA
66 GATGAGTTGTTATCAGAATCAACATGTTGCATGAGTGCGAGCTTTTCAATAGTCTATACTATTGA
108994 G
131 G
108995 TTTTATCGGTATCAAAAGAACTATCGATATCTGTGAAATCATCTTGAAAGATCACTTCATAATCA
1 TTTTATCGGTATCAAAAGAACTATCGATATCTGTGAAATCATCTTGAAAGATCACTTCATAATCA
109060 GATGAGTTGTTATCAGAATCAACATGTTGCATGAGTGCGAGCTTTTCAATAGTCTATACTATTGA
66 GATGAGTTGTTATCAGAATCAACATGTTGCATGAGTGCGAGCTTTTCAATAGTCTATACTATTGA
109125 G
131 G
109126 TTTTAT
1 TTTTAT
109132 TCTCAAGAGA
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 136 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (131 bp):
TTTTATCGGTATCAAAAGAACTATCGATATCTGTGAAATCATCTTGAAAGATCACTTCATAATCA
GATGAGTTGTTATCAGAATCAACATGTTGCATGAGTGCGAGCTTTTCAATAGTCTATACTATTGA
G
Found at i:109468 original size:20 final size:20
Alignment explanation
Indices: 109445--109509 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
109435 TCTGAAGAAG
*
109445 GAAGAAGAAGTTCATAATGA
1 GAAGAACAAGTTCATAATGA
** *
109465 GAAGAACTCG-TCAT-CTGAA
1 GAAGAACAAGTTCATAATG-A
* *
109484 GAAGAATAAATTCATAATGA
1 GAAGAACAAGTTCATAATGA
109504 GAAGAA
1 GAAGAA
109510 TTTGTTCAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.33
20 18 0.55
21 2 0.06
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (20 bp):
GAAGAACAAGTTCATAATGA
Found at i:109499 original size:39 final size:40
Alignment explanation
Indices: 109413--109509 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
109403 TGCTAGGTCG
109413 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
109453 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAA-TA-A
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
109493 A-TTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
109510 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
39 16 0.30
40 20 0.38
41 1 0.02
42 4 0.08
43 12 0.23
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
Found at i:109517 original size:20 final size:20
Alignment explanation
Indices: 109453--109517 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
109443 AGGAAGAAGA
*
109453 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAATT
* * *
109473 CG-TCAT-CTGAAGAAGAATA
1 AGTTCATAATG-AGAAGAATT
*
109492 AATTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
*
109512 TGTTCA
1 AGTTCA
109518 ACTTTTTGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAATT
Found at i:109619 original size:24 final size:23
Alignment explanation
Indices: 109576--109620 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
109566 GTTCGTAATG
*
109576 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
109599 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
109621 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:109649 original size:113 final size:109
Alignment explanation
Indices: 109452--109924 Score: 626
Period size: 113 Copynumber: 4.2 Consensus size: 109
109442 AAGGAAGAAG
*
109452 AAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAATAAATTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
109517 AACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
63 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
*
109564 AAGTTCGTAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAATTCATCT---GAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
109629 CAATCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTCCAGAGA
62 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
* *
109677 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAATTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTT
* * * * * * *
109742 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTA
62 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAG-A
*
109790 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
109855 AACCTTTTGCTCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-
63 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
*
109901 AAGTTCATAATGAGAAGAACTCAT
1 AAGTTCATAATGAGAAGAATTCAT
109925 ATCACAGATT
Statistics
Matches: 316, Mismatches: 32, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
108 4 0.01
109 9 0.03
110 7 0.02
111 20 0.06
112 81 0.26
113 178 0.56
114 1 0.00
115 4 0.01
116 12 0.04
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (109 bp):
AAGTTCATAATGAGAAGAATTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
CTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
Found at i:109864 original size:225 final size:219
Alignment explanation
Indices: 109450--109924 Score: 668
Period size: 225 Copynumber: 2.1 Consensus size: 219
109440 AGAAGGAAGA
* *
109450 AGAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAATAAATTCATAATGAGAAGAATTTGT
1 AGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAAAAATTCATAATAAGAAGAATTTGT
* * * * *
109515 TCAACTTTTTGTTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCGTAATGAGAA
63 TCAACCTTTTGTTCAAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAA
*
109580 GAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAA
128 GAATTCATCT--AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
* * *
109645 TCCATCATTTGATGGATCAGTTTTTCCAG
191 TCCATCACTTGATGGAGCAGCTTTTCCAG
109674 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTT
1 AG-AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAA-AA-AA-TTCATAATAAGAAGAATTT
* * * *
109739 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGA
61 GTTCAACCTTTTGTTCAAATCCATCATTTGATGGATCAACATTGCCAGAG-AAAGTTCATAATGA
109803 GAAGAACTCGTCATCT-GAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
125 GAAGAA-T--TCATCTAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
109866 CAAATCCATCACTTGATGGAGCAGCTTTTCCAG
187 CAAATCCATCACTTGATGGAGCAGCTTTTCCAG
109899 AGAAGTTCATAATGAGAAGAACTCAT
1 AGAAGTTCATAATGAGAAGAACTCAT
109925 ATCACAGATT
Statistics
Matches: 227, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
222 12 0.05
223 4 0.02
224 27 0.12
225 97 0.43
226 80 0.35
227 1 0.00
229 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (219 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAATTCATAATAAGAAGAATTTGTTCA
ACCTTTTGTTCAAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAA
TTCATCTAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCAT
CACTTGATGGAGCAGCTTTTCCAG
Found at i:110226 original size:3 final size:3
Alignment explanation
Indices: 110218--110269 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
110208 CTCCATTTAC
* *
110218 TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110265 TAT TA
1 TAT TA
110270 CAAACGGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:110735 original size:21 final size:21
Alignment explanation
Indices: 110693--110740 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
110683 ACAGAGAGAC
*
110693 AAAACCGAGAGCAAAGATACA
1 AAAACCGAGAGCAAAGACACA
*
110714 AAAACGGAGAGCAACA-ACACA
1 AAAACCGAGAGCAA-AGACACA
*
110735 ACAACC
1 AAAACC
110741 AGCAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.25, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAACCGAGAGCAAAGACACA
Found at i:111691 original size:24 final size:22
Alignment explanation
Indices: 111663--111712 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
111653 ATATATATAT
111663 AATAAATAATAATTTATATTTTTC
1 AATAAAT--TAATTTATATTTTTC
* *
111687 AATAAATTATTTTTTATTTTTC
1 AATAAATTAATTTATATTTTTC
111709 AATA
1 AATA
111713 TCGAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATAAATTAATTTATATTTTTC
Found at i:113118 original size:2 final size:2
Alignment explanation
Indices: 113111--113166 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
113101 GTGGTCCTAT
113111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113153 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
113167 CTCCATGAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119313 original size:72 final size:71
Alignment explanation
Indices: 119175--119850 Score: 657
Period size: 72 Copynumber: 9.5 Consensus size: 71
119165 AAAAAATGCA
* * *
119175 AAATAGGT-CCTAAACTTGAATTTTTA-GTTTTTTTGATGAT-TTGAGTACTTGAACCTT-GCAA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTT-ATGATGTTGAGTCCTTGAA-CTTGGCAA
* *
119236 TACTTCTC
64 CACTTCCC
* * *
119244 AAATAGGCCCCTGAACTTGAATTTTTAGGTTTTTTCTATGATGTTGAGTCCTTGAGCTTGGCAAC
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTT-TATGATGTTGAGTCCTTGAACTTGGCAAC
119309 ACTTCCC
65 ACTTCCC
* ** * * * * * *
119316 AAGTAGGTTTCTAAACTTGAATATTTAAGTTTCTTTTATGATATTGAGTCCTTGAACTTGGCAAT
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTT-TTTTATGATGTTGAGTCCTTGAACTTGGCAAC
*
119381 AGTTCCC
65 ACTTCCC
* * * * *
119388 AAACAGGT-CCTTAAGCATGAA-TTTTAGG-TTTTTTATGATGATGAGTCCTTGAACTTGGAAAG
1 AAATAGGTCCCTGAA-CATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
* *
119450 TCTTCTC
65 ACTTCCC
* * * * * *
119457 AAATAGGTACATGAACATAAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTGGAAAT
1 AAATAGGTCCCTGAACATGAATTTTTAGG-TTTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
119522 ACTTCCC
65 ACTTCCC
* * * *
119529 AAATAGGTACATGAACATGAATTTTTAGGTTTTTTTTATGATGTTGAGTCCTTTAACTTGGAAAC
1 AAATAGGTCCCTGAACATGAATTTTTAGG-TTTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
119594 ACTTCCC
65 ACTTCCC
* * * * * *
119601 AAATAGGTCCCTGAACTTGAATTTTTAGTATTTTTTTTATAACGTTAAGTCCTTGAACTTGGAAA
1 AAATAGGTCCCTGAACATGAATTTTTAG--GTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAA
*
119666 CTCTTCCC
64 CACTTCCC
* * ** * * *
119674 AAATAGGTCTCTGAACATGAACTTTTAGGGGTTTTAATGATGTAGAGTCCTTGAACTTAGCAACA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
119739 CATT-CC
66 C-TTCCC
* ** * ** * *
119745 AAATAGGTCCCTGGACATGAAACTTCAGGGGTTTTAATGACGTTGAGTCCTTGAACTTGGCAACA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
*
119810 CTTTCC
66 CTTCCC
* * *
119816 AAATAGGTCTCTAAACTTGAATTTTTAGGTTTTTT
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTT
119851 GAATTACTGA
Statistics
Matches: 508, Mismatches: 84, Indels: 28
0.82 0.14 0.05
Matches are distributed among these distances:
69 51 0.10
70 32 0.06
71 139 0.27
72 221 0.44
73 65 0.13
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (71 bp):
AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
CTTCCC
Found at i:119568 original size:213 final size:210
Alignment explanation
Indices: 119175--119850 Score: 677
Period size: 213 Copynumber: 3.2 Consensus size: 210
119165 AAAAAATGCA
* * *
119175 AAATAGGTCCTAAACTTGAATTTTTA-GTTTTTT-TGATGATTTGAGTACTTGAACCTT-GCAAT
1 AAATAGGTCCTTAACTTGAATTTTTAGGTTTTTTATGATGA--TGAGTCCTTGAA-CTTGGAAAT
* * * * *
119237 ACTTCTCAAATAGGCCCCTGAACTTGAATTTTTAGGTTTTTTCTATGATGTTGAGTCCTTGAGCT
63 -CTTCTCAAATAGG-TCCTGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACT
* * * * * * *
119302 TGGCAACACTTCCCAAGTAGGTTTCTAAACTTGAATATTTAAGTTTCTTTTATGATATTGAGTCC
126 TGGCAACACTTCCCAAATAGG-TACTGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTCC
* *
119367 TTGAACTTGGCAATAGTTCCC
190 TTGAACTTGGCAACACTTCCC
* *
119388 AAACAGGTCCTTAAGCATGAA-TTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAAGTC
1 AAATAGGTCCTTAA-CTTGAATTTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAA-TC
* *
119452 TTCTCAAATAGGTACATGAACATAAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTG
64 TTCTCAAATAGGT-CCTGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTG
* * *
119517 GAAATACTTCCCAAATAGGTACATGAACATGAATTTTTAGGTTTTTTTTATGATGTTGAGTCCTT
128 GCAACACTTCCCAAATAGGTAC-TGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTCCTT
* *
119582 TAACTTGGAAACACTTCCC
192 GAACTTGGCAACACTTCCC
* * * * * *
119601 AAATAGGTCCCTGAACTTGAATTTTTAGTATTTTTTTTATAACGTTAAGTCCTTGAACTTGGAAA
1 AAATAGGT-CCTTAACTTGAATTTTTAG---GTTTTTTATGATGATGAGTCCTTGAACTTGGAAA
* * ** *
119666 CTCTTCCCAAATAGGTCTCTGAACATGAACTTTTAGG-GGTTTTAATGATG-TAGAGTCCTTGAA
62 -TCTTCTCAAATAGGTC-CTGAACATGAATTTTTAGGTTTTTTTTATGATGTTA-AGTCCTTGAA
* * * * ** * *
119729 CTTAGCAACACATT-CCAAATAGGTCCCTGGACATGAA-ACTTCAGG-GGTTTTAATGACGTTGA
124 CTTGGCAACAC-TTCCCAAATAGGT-ACTGAACATGAATA-TTTAGGTTTTTTTTATGATGTTGA
*
119791 GTCCTTGAACTTGGCAACACTTTCC
186 GTCCTTGAACTTGGCAACACTTCCC
*
119816 AAATAGGTCTCTAAACTTGAATTTTTAGGTTTTTT
1 AAATAGGTC-CTTAACTTGAATTTTTAGGTTTTTT
119851 GAATTACTGA
Statistics
Matches: 387, Mismatches: 58, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
212 11 0.03
213 168 0.43
214 25 0.06
215 68 0.18
216 53 0.14
217 62 0.16
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (210 bp):
AAATAGGTCCTTAACTTGAATTTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAATCTT
CTCAAATAGGTCCTGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTGGCA
ACACTTCCCAAATAGGTACTGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTCCTTGAAC
TTGGCAACACTTCCC
Found at i:121125 original size:184 final size:184
Alignment explanation
Indices: 120799--121185 Score: 604
Period size: 184 Copynumber: 2.1 Consensus size: 184
120789 TTTTCTAATT
*
120799 TATATAAAA-A-TTAA-ATGTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAA
1 TATATAAAATATTTAATAT-TTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAA
*
120861 TTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTATGTTTAAAAATTAT
65 TTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTAT
*
120926 TGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGCTT-AGTCCATATGTTA
130 TGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGG-TTAAGCCCATATGTTA
* * *
120981 TATATAATATATTTAATATTTTTTAATTTAAAAACAGTTTACAATTAATTTAAATAATATATAAT
1 TATATAAAATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
* * * * *
121046 TATAAAATTAAAATTTTATAT-ACTTTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TATAAAATAAAAATTTCAGATAAATTTTTT-AATTAATTAATATTGATTTAGGTTTAAAAATTAT
*
121110 TGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGTTAAGCCCATATGTTA
130 TGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGTTAAGCCCATATGTTA
121165 TATATAAAATATTTAATATTT
1 TATATAAAATATTTAATATTT
121186 AAAATTTAAT
Statistics
Matches: 187, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
182 8 0.04
183 10 0.05
184 167 0.89
185 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (184 bp):
TATATAAAATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATT
GGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGTTAAGCCCATATGTTA
Found at i:121632 original size:13 final size:14
Alignment explanation
Indices: 121614--121646 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
121604 ATACTCTACT
121614 CCTAAATT-AAAAC
1 CCTAAATTGAAAAC
*
121627 CCTAAATTGATAAC
1 CCTAAATTGAAAAC
121641 CCTAAA
1 CCTAAA
121647 CCCTAAGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (14 bp):
CCTAAATTGAAAAC
Found at i:122740 original size:40 final size:40
Alignment explanation
Indices: 122656--123004 Score: 203
Period size: 40 Copynumber: 8.7 Consensus size: 40
122646 CATTTTTAGC
* * * *
122656 GGCG-TTTTATGAACAAACGCCGATAAATAATGTATTTTAGT
1 GGCGTTTTTAT-AA-AAACGCCGCTAAATATTGTACTTTAAT
* * *
122697 GGCGTTTTTATAAAAATGTCGCTAAATATTTTACTTTAAT
1 GGCGTTTTTATAAAAACGCCGCTAAATATTGTACTTTAAT
* *** *
122737 GGCGTTTTTATACAAAA-GCTGCTAACGGTCT-TACTTTAGT
1 GGCGTTTTTATA-AAAACGCCGCTAAATAT-TGTACTTTAAT
* **
122777 GGCG-TTTTAAACACAAATACCGCT-AAT-TTCACGTACTTT-A-
1 GGCGTTTTTATA-A-AAACGCCGCTAAATATT---GTACTTTAAT
* * * * *
122817 GGGGTTTTTATATAAACGTCGATAAATATTGTATTTTAAT
1 GGCGTTTTTATAAAAACGCCGCTAAATATTGTACTTTAAT
* * *
122857 GGCGTTTTTAGAAAAACGCCGCTAAAGACTCGTACTTTAAT
1 GGCGTTTTTATAAAAACGCCGCTAAATA-TTGTACTTTAAT
* * * * * * *
122898 GGTGTTTTAACACAAACGCCACTAAATATTTATACTTTAGT
1 GGCGTTTTTATAAAAACGCCGCTAAATA-TTGTACTTTAAT
* * * * *
122939 GGCGTTTATA-AAAAACGCTGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATAAAAACGCCGCTAAATA-TTGTACTTTAAT
*
122979 GGCGTTTTTATACAAACGCCGCTAAA
1 GGCGTTTTTATAAAAACGCCGCTAAA
123005 GACTCGTACT
Statistics
Matches: 234, Mismatches: 58, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
38 7 0.03
39 16 0.07
40 115 0.49
41 84 0.36
42 12 0.05
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (40 bp):
GGCGTTTTTATAAAAACGCCGCTAAATATTGTACTTTAAT
Found at i:122881 original size:120 final size:122
Alignment explanation
Indices: 122691--123017 Score: 337
Period size: 120 Copynumber: 2.7 Consensus size: 122
122681 AATAATGTAT
* * * *
122691 TTTAGTGGCGTTTTTATAAAAATGTCGCTAAATATTTTACTTTAATGGCGTTTTTATACAAAAGC
1 TTTAGTGGCGTTTTTATAAAAACGTCGATAAATATTGTACTTTAATGGCGTTTTTAGACAAAAGC
* * * * *
122756 TGCTAACG-GTCTTACTTTAGTGGCGTTTTAAACACAAATACCGCTAATTTCACGTAC
66 CGCTAAAGACTCGTACTTTAATGGCGTTTT-AACACAAATACCGCTAATTTCACGTAC
* *
122813 TTTAG-GG-GTTTTTATATAAACGTCGATAAATATTGTATTTTAATGGCGTTTTTAGA-AAAACG
1 TTTAGTGGCGTTTTTATAAAAACGTCGATAAATATTGTACTTTAATGGCGTTTTTAGACAAAA-G
* ** * *
122875 CCGCTAAAGACTCGTACTTTAATGGTGTTTTAACACAAACGCCACTAAATATTTA--TAC
65 CCGCTAAAGACTCGTACTTTAATGGCGTTTTAACACAAATACCGCT-AAT-TTCACGTAC
* * * * * * *
122933 TTTAGTGGCGTTTATA-AAAAACG-CTGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
1 TTTAGTGGCGTTTTTATAAAAACGTC-GATAAATA-TTGTACTTTAATGGCGTTTTTAGACAAAA
122996 GCCGCTAAAGACTCGTACTTTA
64 GCCGCTAAAGACTCGTACTTTA
123018 TTGGATTTTC
Statistics
Matches: 171, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
119 4 0.02
120 72 0.42
121 36 0.21
122 56 0.33
123 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (122 bp):
TTTAGTGGCGTTTTTATAAAAACGTCGATAAATATTGTACTTTAATGGCGTTTTTAGACAAAAGC
CGCTAAAGACTCGTACTTTAATGGCGTTTTAACACAAATACCGCTAATTTCACGTAC
Found at i:122905 original size:41 final size:40
Alignment explanation
Indices: 122851--123017 Score: 192
Period size: 41 Copynumber: 4.1 Consensus size: 40
122841 AATATTGTAT
122851 TTTAATGGCGTTTTTAGAAAAACGCCGCTAAAGACTCGTAC
1 TTTAATGGCGTTTTTA-AAAAACGCCGCTAAAGACTCGTAC
* * * * **
122892 TTTAATGGTG-TTTTAACACAAACGCCACTAAATATTTATAC
1 TTTAATGGCGTTTTTAA-A-AAACGCCGCTAAAGACTCGTAC
* * *
122933 TTTAGTGGCGTTTATAAAAAACGCTGCTAAAGACTCGTAC
1 TTTAATGGCGTTTTTAAAAAACGCCGCTAAAGACTCGTAC
* *
122973 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
1 TTTAATGGCGTTTTTA-AAAAACGCCGCTAAAGACTCGTAC
123014 TTTA
1 TTTA
123018 TTGGATTTTC
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 37 0.36
41 61 0.59
42 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
TTTAATGGCGTTTTTAAAAAACGCCGCTAAAGACTCGTAC
Found at i:123015 original size:81 final size:81
Alignment explanation
Indices: 122650--123017 Score: 250
Period size: 81 Copynumber: 4.5 Consensus size: 81
122640 TAGCATCATT
* * * * *
122650 TTTAGCGGCG-TTTTATGAACAAACGCCGATAAATAAT-GTATTTTAGTGGCGTTTTTATAAAAA
1 TTTAGTGGCGTTTTTAT--ACAAACGCCGCTAAAT-ATCGTACTTTAGTGGCGTTTATACAAAAA
* * **
122713 TG-TCGCTAAATA-TTTTAC
63 CGCT-GCTAAAGACTCGTAC
* * * *** * *
122731 TTTAATGGCGTTTTTATACAAAAGCTGCTAACGGTCTTACTTTAGTGGCGTTTTAAACACAAATA
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATATCGTACTTTAGTGGCG-TTTATACA-AAA-A
*** *
122796 C-C-GCTAATTTCACGTAC
63 CGCTGCTAAAGACTCGTAC
* * * * * * * *
122813 TTTAG-GG-GTTTTTATATAAACGTCGATAAATATTGTATTTTAATGGCGTTTTTAGAAAAACGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATATCGTACTTTAGTGGCGTTTATACAAAAACGC
*
122876 CGCTAAAGACTCGTAC
66 TGCTAAAGACTCGTAC
* * * * * **
122892 TTTAATGGTGTTTTAACACAAACGCCACTAAATATTTATACTTTAGTGGCGTTTATA-AAAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATA-TCGTACTTTAGTGGCGTTTATACAAAAACG
122956 CTGCTAAAGACTCGTAC
65 CTGCTAAAGACTCGTAC
*
122973 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATA-TCGTACTTTA
123018 TTGGATTTTC
Statistics
Matches: 215, Mismatches: 60, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
77 2 0.01
78 4 0.02
79 21 0.10
80 54 0.25
81 99 0.46
82 34 0.16
83 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (81 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAATATCGTACTTTAGTGGCGTTTATACAAAAACGC
TGCTAAAGACTCGTAC
Found at i:125869 original size:20 final size:20
Alignment explanation
Indices: 125844--125886 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
125834 TCTAAGAGCC
*
125844 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
125864 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
125884 CAT
1 CAT
125887 GTGGTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:130122 original size:23 final size:23
Alignment explanation
Indices: 130090--130140 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
130080 TGGTACTACG
* *
130090 GTGCATTTCTACGCGGCACTTCA
1 GTGCAATTCTACACGGCACTTCA
* *
130113 GTGCAATTCTACATGGCACTTCG
1 GTGCAATTCTACACGGCACTTCA
130136 GTGCA
1 GTGCA
130141 TTTATACGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGCAATTCTACACGGCACTTCA
Found at i:131013 original size:20 final size:22
Alignment explanation
Indices: 130985--131025 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
130975 ATACTACAAT
130985 CATTCCA-TTT-CCACAACATC
1 CATTCCATTTTGCCACAACATC
*
131005 CATTTCATTTTGCCACAACAT
1 CATTCCATTTTGCCACAACAT
131026 TCTCATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.29, C:0.34, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTCCATTTTGCCACAACATC
Found at i:132052 original size:43 final size:43
Alignment explanation
Indices: 131933--132062 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
131923 GACATTTTAT
* * * * *
131933 GGCGTTTGTTTCCAAAAATGACGCTATAGATCTCGACCTTTTAC
1 GGCGTTTG-TTCCAAAAACGCCGCTATAAATCTTGACCTTTTGC
*
131977 GGCATTTGTTCCAAAAACGCCGCTATAAATCTTGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAAATCTTGACCTTTTGC
* * * * *
132020 GGTGTTTGTTCCAAAAACGCCACTATATATCTTTACCTATTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAAATCTTGACCTTTTGC
132063 AACATTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 67 0.91
44 7 0.09
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (43 bp):
GGCGTTTGTTCCAAAAACGCCGCTATAAATCTTGACCTTTTGC
Found at i:133234 original size:48 final size:48
Alignment explanation
Indices: 133182--133376 Score: 227
Period size: 48 Copynumber: 4.1 Consensus size: 48
133172 TTCCGTCATC
* * *
133182 GAAACCCCAAACTTATCTTCTTCATGGTTTCGCAGT-AATTCCATCGTT
1 GAAACCCTAAGCTTATCTTCTTCATGGTTTCGCA-TCAATTCCATAGTT
* * *
133230 GAAACCCTAAGTTTATCTTCATCGA-GGTTTCGCTTCAATTCCATAGTT
1 GAAACCCTAAGCTTATCTTCTTC-ATGGTTTCGCATCAATTCCATAGTT
* * ** *
133278 GAAACCCTAAGGTTATCTTTTTCATGGTTTATCAAT-AATTCCATCGTT
1 GAAACCCTAAGCTTATCTTCTTCATGGTTTCGC-ATCAATTCCATAGTT
133326 GAAACCCTAAGGC-TATCTTCTTCATGGTTTCGCATCAATTCCATAGTT
1 GAAACCCTAA-GCTTATCTTCTTCATGGTTTCGCATCAATTCCATAGTT
133374 GAA
1 GAA
133377 TACGCCAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
47 4 0.03
48 116 0.94
49 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (48 bp):
GAAACCCTAAGCTTATCTTCTTCATGGTTTCGCATCAATTCCATAGTT
Found at i:133302 original size:96 final size:96
Alignment explanation
Indices: 133194--133376 Score: 278
Period size: 96 Copynumber: 1.9 Consensus size: 96
133184 AACCCCAAAC
* * **
133194 TTATCTTCTTCATGGTTTCGCAGTAATTCCATCGTTGAAACCCTAAGTTTATCTTCATCGA-GGT
1 TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATC-ATGGT
*
133258 TTCGCTTCAATTCCATAGTTGAAACCCTAAGG
65 TTCGCATCAATTCCATAGTTGAAACCCTAAGG
* * *
133290 TTATCTTTTTCATGGTTTATCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCTTCATGGTT
1 TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATCATGGTT
133355 TCGCATCAATTCCATAGTTGAA
66 TCGCATCAATTCCATAGTTGAA
133377 TACGCCAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 77 0.99
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (96 bp):
TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATCATGGTT
TCGCATCAATTCCATAGTTGAAACCCTAAGG
Found at i:142580 original size:2 final size:2
Alignment explanation
Indices: 142573--142613 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
142563 AACTCCAAAA
142573 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
142614 AGTAACAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:149703 original size:23 final size:22
Alignment explanation
Indices: 149671--149753 Score: 103
Period size: 22 Copynumber: 3.7 Consensus size: 22
149661 CAGAACCCTC
*
149671 AGGGGTATCGATTCCCCTTCAA
1 AGGGGAATCGATTCCCCTTCAA
*
149693 AGAGGGAATCGGTTCCCCTTCAA
1 AG-GGGAATCGATTCCCCTTCAA
* *
149716 AGGGGAAGCGGTTCCCCTTCAA
1 AGGGGAATCGATTCCCCTTCAA
* *
149738 GGGGGTATCGATTCCC
1 AGGGGAATCGATTCCC
149754 TCTGCCCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
22 33 0.62
23 20 0.38
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.23
Consensus pattern (22 bp):
AGGGGAATCGATTCCCCTTCAA
Done.