Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007131.1 Hibiscus syriacus cultivar Beakdansim tig00018635_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: 132003
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:1419 original size:18 final size:18
Alignment explanation
Indices: 1396--1449 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
1386 TATGCTAGAT
1396 AGTATCGATACCCAAGGG
1 AGTATCGATACCCAAGGG
1414 AGTATCGATACCCAAGGGG
1 AGTATCGATACCCAA-GGG
* *
1433 ACTATCGATACCTAAGG
1 AGTATCGATACCCAAGG
1450 TAAGGTATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (18 bp):
AGTATCGATACCCAAGGG
Found at i:1438 original size:19 final size:19
Alignment explanation
Indices: 1398--1449 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
1388 TGCTAGATAG
*
1398 TATCGATACCCAA-GGGAG
1 TATCGATACCCAAGGGGAC
1416 TATCGATACCCAAGGGGAC
1 TATCGATACCCAAGGGGAC
*
1435 TATCGATACCTAAGG
1 TATCGATACCCAAGG
1450 TAAGGTATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (19 bp):
TATCGATACCCAAGGGGAC
Found at i:1932 original size:54 final size:54
Alignment explanation
Indices: 1875--2162 Score: 378
Period size: 54 Copynumber: 5.3 Consensus size: 54
1865 TAGAAATTCA
* * * *
1875 TATGCGGATGAATAACCGTTTCGGTACTAAGTGTATATTGCACGGAATTCATCA
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
* * * *
1929 TATGTGGATGAATAACCATTTCGACACTAAGTGTGTATTTCACTGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
* * * *
1983 GATGTGGATGAATAACCGTTTCAGCACTAAGTGTTTATTTCATGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
* * *
2037 TATGTGGATGAATAACTGTTTCGGTACTAAGTGTACATTTCACGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
* * ** *
2091 TTTGTGGATGAATAACCGTTTCGGCACTAAGTTTGCATTTCATGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
* *
2145 CATGAGGATGAATAACCG
1 TATGTGGATGAATAACCG
2163 ATTTGGTCCC
Statistics
Matches: 203, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 203 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (54 bp):
TATGTGGATGAATAACCGTTTCGGCACTAAGTGTATATTTCACGGAATTCATCC
Found at i:2189 original size:108 final size:108
Alignment explanation
Indices: 1880--2196 Score: 289
Period size: 108 Copynumber: 2.9 Consensus size: 108
1870 ATTCATATGC
* * * * ** *
1880 GGATGAATAACCGTTTCGGTACTAAGTGTAT-ATTGCACGGAATTCATCATATGTGGATGAATAA
1 GGATGAATAACCGTTTCAGCACTAAGTGT-TCATTTCATGGAATTCATCCCATGAGGATGAATAA
* ** * * ** *** *
1944 CCATTTCGACACTAAGTGTGTATTTCACTGAATTCATCCGATGT
65 CCGTTTCGGTACCAAGGGTACAAAACACGGAATTCATCCGATGT
* * *
1988 GGATGAATAACCGTTTCAGCACTAAGTGTTTATTTCATGGAATTCATCCTATGTGGATGAATAAC
1 GGATGAATAACCGTTTCAGCACTAAGTGTTCATTTCATGGAATTCATCCCATGAGGATGAATAAC
* * * *** **
2053 TGTTTCGGTACTAAGTGTACATTTCACGGAATTCATCCTTTGT
66 CGTTTCGGTACCAAGGGTACAAAACACGGAATTCATCCGATGT
*
2096 GGATGAATAACCGTTTCGGCACTAAGT-TTGCATTTCATGGAATTCATCCCATGAGGATGAATAA
1 GGATGAATAACCGTTTCAGCACTAAGTGTT-CATTTCATGGAATTCATCCCATGAGGATGAATAA
* * *
2160 CCGATTT-GGTCCCATGGGTGCAAAACACGGAATTCAT
65 CCG-TTTCGGTACCAAGGGTACAAAACACGGAATTCAT
2197 AATATATTAT
Statistics
Matches: 179, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
107 3 0.02
108 173 0.97
109 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (108 bp):
GGATGAATAACCGTTTCAGCACTAAGTGTTCATTTCATGGAATTCATCCCATGAGGATGAATAAC
CGTTTCGGTACCAAGGGTACAAAACACGGAATTCATCCGATGT
Found at i:2194 original size:162 final size:162
Alignment explanation
Indices: 1875--2196 Score: 398
Period size: 162 Copynumber: 2.0 Consensus size: 162
1865 TAGAAATTCA
*
1875 TATGCGGATGAATAACCGTTTCGGTACTAAGTGTATATTGCACGGAATTCATCATATGTGGATGA
1 TATGCGGATGAATAACCGTTTCGGTACTAAGTGTACATTGCACGGAATTCATCATATGTGGATGA
* * *
1940 ATAACCATTTCGACACTAAGTGTGTATTTCACTGAATTCATCCGATGTGGATGAATAACCGTTTC
66 ATAACCATTTCGACACTAAGTGTGCATTTCACTGAATTCATCCCATGAGGATGAATAACCGTTTC
* * ** *** *
2005 AGCACTAAGTGTTTATTTCATGGAATTCATCC
131 AGCACCAAGGGTGCAAAACACGGAATTCATCC
* * * * *
2037 TATGTGGATGAATAACTGTTTCGGTACTAAGTGTACATTTCACGGAATTCATCCTTTGTGGATGA
1 TATGCGGATGAATAACCGTTTCGGTACTAAGTGTACATTGCACGGAATTCATCATATGTGGATGA
* * *
2102 ATAACCGTTTCGGCACTAAGTTTGCATTTCA-TGGAATTCATCCCATGAGGATGAATAACCGATT
66 ATAACCATTTCGACACTAAGTGTGCATTTCACT-GAATTCATCCCATGAGGATGAATAACCG-TT
* *
2166 T-GGTC-CCATGGGTGCAAAACACGGAATTCAT
129 TCAG-CACCAAGGGTGCAAAACACGGAATTCAT
2197 AATATATTAT
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
161 1 0.01
162 130 0.96
163 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (162 bp):
TATGCGGATGAATAACCGTTTCGGTACTAAGTGTACATTGCACGGAATTCATCATATGTGGATGA
ATAACCATTTCGACACTAAGTGTGCATTTCACTGAATTCATCCCATGAGGATGAATAACCGTTTC
AGCACCAAGGGTGCAAAACACGGAATTCATCC
Found at i:2930 original size:3 final size:3
Alignment explanation
Indices: 2924--2958 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
2914 AAATTATTAA
*
2924 ATT ATT ATT ATT ATT ATT ATTT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A
2959 AGTGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4748 original size:50 final size:47
Alignment explanation
Indices: 4689--4794 Score: 176
Period size: 47 Copynumber: 2.2 Consensus size: 47
4679 ATTCATTCCA
*
4689 GTCTTGGAAACTGATTTTTTTGTTCATATTATATATATTTTTTTTAACAT
1 GTCTTGGAAACTGA-TTTTTTGTTCATA-TATATATA-TTTGTTTAACAT
4739 GTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGTTTAACAT
1 GTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGTTTAACAT
4786 GTCTTGGAA
1 GTCTTGGAA
4795 CTCCCCTGTC
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 20 0.36
48 8 0.15
49 13 0.24
50 14 0.25
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.52
Consensus pattern (47 bp):
GTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGTTTAACAT
Found at i:5232 original size:55 final size:56
Alignment explanation
Indices: 5160--5287 Score: 222
Period size: 55 Copynumber: 2.3 Consensus size: 56
5150 TTGTTAAACG
*
5160 TATATATATATTTTTATTTAATGTGTCTTGGAAACTGA-TTTTTTGTTCATATATA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTGTTCATATATA
5215 TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTTGTTCATATATA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGA-TTTTTTTGTTCATATATA
*
5272 TATATATATATGTTTA
1 TATATATATATATTTA
5288 ACATGTCTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
55 37 0.54
57 32 0.46
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (56 bp):
TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTGTTCATATATA
Found at i:5349 original size:2 final size:2
Alignment explanation
Indices: 5342--5434 Score: 179
Period size: 2 Copynumber: 47.0 Consensus size: 2
5332 GCTTAGCTGG
5342 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5425 AT AT AT AT AT
1 AT AT AT AT AT
5435 TTAAATTATT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 89 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17338 original size:16 final size:16
Alignment explanation
Indices: 17315--17389 Score: 91
Period size: 16 Copynumber: 4.6 Consensus size: 16
17305 AAAAGGGAAC
*
17315 AAAT-AAAAAGATAAA
1 AAATGAAAAAGAAAAA
17330 AAATGAAAAAGAAAAA
1 AAATGAAAAAGAAAAA
*
17346 AAATGAAAAAAAAATGAA
1 AAATGAAAAAGAAA--AA
17364 AAATGAAAAA-AAAAA
1 AAATGAAAAAGAAAAA
17379 GAAATGAAAAA
1 -AAATGAAAAA
17390 ATGAAAAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
15 6 0.11
16 33 0.61
17 3 0.06
18 12 0.22
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (16 bp):
AAATGAAAAAGAAAAA
Found at i:17357 original size:11 final size:11
Alignment explanation
Indices: 17341--17390 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
17331 AATGAAAAAG
17341 AAAAAAAATGA
1 AAAAAAAATGA
17352 AAAAAAAATGA
1 AAAAAAAATGA
17363 AAAATGAAAA--A
1 AAAA--AAAATGA
17374 AAAAAGAAATGA
1 AAAAA-AAATGA
17386 AAAAA
1 AAAAA
17391 TGAAAAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 3 0.09
11 20 0.59
12 6 0.18
13 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:17357 original size:34 final size:34
Alignment explanation
Indices: 17319--17390 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
17309 GGGAACAAAT
*
17319 AAAAAGATAAAAAATGAAAAAGAAAAA-AAATGAA
1 AAAAAAATAAAAAATGAAAAA-AAAAAGAAATGAA
*
17353 AAAAAAATGAAAAATGAAAAAAAAAAGAAATGAA
1 AAAAAAATAAAAAATGAAAAAAAAAAGAAATGAA
17387 AAAA
1 AAAA
17391 TGAAAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (34 bp):
AAAAAAATAAAAAATGAAAAAAAAAAGAAATGAA
Found at i:17396 original size:23 final size:22
Alignment explanation
Indices: 17351--17396 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 22
17341 AAAAAAAATG
17351 AAAAAAAAATGAAAAATGAAAA
1 AAAAAAAAATGAAAAATGAAAA
17373 AAAAAAGAAATGAAAAAATGAAAA
1 AAAAAA-AAATG-AAAAATGAAAA
17397 GAGAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 11 0.50
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAAAAAAATGAAAAATGAAAA
Found at i:17398 original size:18 final size:16
Alignment explanation
Indices: 17327--17390 Score: 92
Period size: 16 Copynumber: 3.9 Consensus size: 16
17317 ATAAAAAGAT
*
17327 AAAAAATGAAAAAGAA
1 AAAAAATGAAAAAAAA
17343 AAAAAATGAAAAAAAA
1 AAAAAATGAAAAAAAA
17359 ATGAAAAATGAAAAAAAA
1 A--AAAAATGAAAAAAAA
*
17377 AAGAAATGAAAAAA
1 AAAAAATGAAAAAA
17391 TGAAAAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
16 28 0.64
18 16 0.36
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAAATGAAAAAAAA
Found at i:18519 original size:136 final size:136
Alignment explanation
Indices: 18274--18611 Score: 542
Period size: 136 Copynumber: 2.5 Consensus size: 136
18264 GGTGAACCAG
18274 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * *
18339 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACAGCTTGCTTGAAG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTTGAATCAGTGACACCTCGCTTGAAG
*
18404 GATCAG
131 GATCAA
*
18410 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* *
18475 AGAAGAGCTTGTTCGACCTATCACTCGATTCATAACATTTTGAATCAGTGACACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTTGAATCAGTGACACCTCGCTTGAAG
18540 GATCAA
131 GATCAA
* * * *
18546 CATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCGTCCTA-A-A-GGAG-A-AAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
18606 AGAAGA
66 AGAAGA
18612 ACTCGTCCTA
Statistics
Matches: 190, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
131 18 0.09
132 1 0.01
133 4 0.02
134 1 0.01
135 1 0.01
136 165 0.87
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (136 bp):
CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTTGAATCAGTGACACCTCGCTTGAAG
GATCAA
Found at i:18606 original size:35 final size:35
Alignment explanation
Indices: 18560--18644 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
18550 TCCAGTGAAG
18560 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
18595 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
18630 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
18645 AAACATGTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (35 bp):
AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
Found at i:18777 original size:105 final size:105
Alignment explanation
Indices: 18591--18825 Score: 445
Period size: 105 Copynumber: 2.2 Consensus size: 105
18581 GTCCTAAAGG
18591 AGAA-AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
1 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
18655 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
66 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
18695 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
1 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
*
18760 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACGTTTCC
66 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
*
18800 AAAAGAGTTCATAATGAGAAGAACTC
1 AGAAGAGTTCATAATGAGAAGAACTC
18826 ATCCACGAGA
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
104 4 0.03
105 124 0.97
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (105 bp):
AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
Found at i:20410 original size:14 final size:16
Alignment explanation
Indices: 20386--20418 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20376 GTTTATTTTG
20386 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
20401 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
20416 TTT
1 TTT
20419 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:20894 original size:49 final size:49
Alignment explanation
Indices: 20822--20931 Score: 220
Period size: 49 Copynumber: 2.2 Consensus size: 49
20812 GCATTCATTC
20822 CATGTCTTGGAAACTGATTTTTTGTTCATATATATATATATTTGTTTAA
1 CATGTCTTGGAAACTGATTTTTTGTTCATATATATATATATTTGTTTAA
20871 CATGTCTTGGAAACTGATTTTTTGTTCATATATATATATATTTGTTTAA
1 CATGTCTTGGAAACTGATTTTTTGTTCATATATATATATATTTGTTTAA
20920 CATGTCTTGGAA
1 CATGTCTTGGAA
20932 CTCCCCTGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (49 bp):
CATGTCTTGGAAACTGATTTTTTGTTCATATATATATATATTTGTTTAA
Found at i:21372 original size:57 final size:58
Alignment explanation
Indices: 21298--21418 Score: 217
Period size: 57 Copynumber: 2.1 Consensus size: 58
21288 TTGTTAAACG
*
21298 TATATATATATTTTTATTTAATGTGTCTTGGAAACTGA-TTTTTTGTTCATATATATA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTGTTCATATATATA
21355 TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTTGTTCATATATATA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGA-TTTTTTTGTTCATATATATA
21414 TATAT
1 TATAT
21419 TTGTTTAACA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 37 0.61
59 24 0.39
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (58 bp):
TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTTTGTTCATATATATA
Found at i:21488 original size:2 final size:2
Alignment explanation
Indices: 21481--21536 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
21471 GCTTAGCTGG
21481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21523 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
21537 TTTAAATTAT
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):
AT
Found at i:21660 original size:24 final size:24
Alignment explanation
Indices: 21633--21678 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
21623 ATATTCTTTA
21633 TATCATTTATTTAATAAGTATAGT
1 TATCATTTATTTAATAAGTATAGT
21657 TATCATTTATTTAATAAGTATA
1 TATCATTTATTTAATAAGTATA
21679 ATGTTCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (24 bp):
TATCATTTATTTAATAAGTATAGT
Found at i:27536 original size:22 final size:22
Alignment explanation
Indices: 27503--27553 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
27493 GATATATAAC
27503 ATATT-TTATAAGCATA-TATATT
1 ATATTATT-TAAGCATATTATA-T
**
27525 ATATTATTTAAGTGTATTATAT
1 ATATTATTTAAGCATATTATAT
27547 ATATTAT
1 ATATTAT
27554 ATAGTATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
ATATTATTTAAGCATATTATAT
Found at i:27617 original size:17 final size:17
Alignment explanation
Indices: 27595--27649 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
27585 CATTATGTAA
27595 TATATATATAACATGCG
1 TATATATATAACATGCG
* ***
27612 TATATATTATAATTATTTT
1 TATATA-TATAA-CATGCG
27631 TATATATATAACATGCG
1 TATATATATAACATGCG
27648 TA
1 TA
27650 ACACTTATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 10 0.36
18 10 0.36
19 8 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (17 bp):
TATATATATAACATGCG
Found at i:27724 original size:21 final size:20
Alignment explanation
Indices: 27676--27724 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
27666 ATAATAATTT
27676 TATTAATTTACGCATATAGA
1 TATTAATTTACGCATATAGA
* *
27696 TATATAATTTATGCATATTATA
1 TAT-TAATTTACGCATA-TAGA
27718 TATTAAT
1 TATTAAT
27725 ATTTTTAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (20 bp):
TATTAATTTACGCATATAGA
Found at i:35325 original size:4 final size:4
Alignment explanation
Indices: 35318--35366 Score: 55
Period size: 4 Copynumber: 11.5 Consensus size: 4
35308 TTTTTTCTCC
35318 TTAT TTAT TTAT TTAT TTAT TTAT TATAT ATTA- TTAT TTCAT TCTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT -TTAT TTAT TT-AT T-TAT
35365 TT
1 TT
35367 TGATATGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 3 0.08
4 24 0.60
5 11 0.28
6 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:35339 original size:16 final size:16
Alignment explanation
Indices: 35318--35366 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
35308 TTTTTTCTCC
35318 TTATTTATT-TATTTA
1 TTATTTATTATATTTA
35333 TTTATTTATTATATATTA
1 -TTATTTATTATAT-TTA
*
35351 TTATTTCATTCTATTT
1 TTATTT-ATTATATTT
35367 TGATATGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.31
17 11 0.38
18 9 0.31
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTATATTTA
Found at i:38973 original size:22 final size:22
Alignment explanation
Indices: 38948--39017 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 22
38938 GGGTTCAAGA
38948 TGAAAACCCGTAAAGGGCGCCT
1 TGAAAACCCGTAAAGGGCGCCT
* * * *
38970 TG-AAACCAG-AGAAGGTCTCAGGT
1 TGAAAACCCGTA-AAGGGCGC--CT
*
38993 TGAAAACCCGTAAAGGGCGGCT
1 TGAAAACCCGTAAAGGGCGCCT
39015 TGA
1 TGA
39018 GAATTGTGTA
Statistics
Matches: 34, Mismatches: 9, Indels: 10
0.64 0.17 0.19
Matches are distributed among these distances:
20 1 0.03
21 12 0.35
22 6 0.18
23 3 0.09
24 11 0.32
25 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (22 bp):
TGAAAACCCGTAAAGGGCGCCT
Found at i:40462 original size:113 final size:114
Alignment explanation
Indices: 40147--40803 Score: 999
Period size: 113 Copynumber: 5.8 Consensus size: 114
40137 CTTCAGAATA
*
40147 TGATATTCCCTTCAGAGTAAGCGAAACATGTCTCTC-TTTCCAAGATTTGATATTCCCTTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
* *
40211 TAAGTGGAACAAGTCT-TCCTCGATTCAATGGATCAACTCCTCCAGATC
66 TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
* *
40259 TGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTC-TTT-CAAGATTTGATATTCCTTTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
*
40322 TAAGTGGAACAAGTCTA-CCTCGATTCAATGAATCAACTCCCCCAGATC
66 TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
* *
40370 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTATCCAAGATTTGATATTCCCTTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
*
40435 TAAGTGGAACAAGTCTACCCT-GATTCAATGGATCAATTCCCCCAGATC
66 TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
* * * *
40483 TGATATTCCCTTCTGAGTAAGCGGAACATATATCTCTTTTCTAAGATTTGATATTCCCTTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
* * *
40548 TAAGTGGAACAAGTCTACCCT-GATTCAATGGATTAATTCCCCCAGATA
66 TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
* * *
40596 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTATTTTTTCCAAGATTTGATATTCCATTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
* * * * *
40661 TAAGTGGAACAAGTCTA-CCTAGATTCAATGGATTAACTCCCCAAAATA
66 TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
* * *
40709 TGGTATTCCCTTCAGAGTAAGCGGAACATATCTCTTTTTTTCCAAGATTTGATATTCCCTTCAGA
1 TGATATTCCCTTCAGAGTAAGCGGAACATGTCTC-TCTTTTCCAAGATTTGATATTCCCTTCAGA
40774 GTAAGTGGAACAAGTCTACCCT-GATTCAAT
65 GTAAGTGGAACAAGTCTACCCTCGATTCAAT
40804 ATTCCCTGAA
Statistics
Matches: 506, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
111 103 0.20
112 42 0.08
113 300 0.59
114 58 0.11
115 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (114 bp):
TGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTTCAGAG
TAAGTGGAACAAGTCTACCCTCGATTCAATGGATCAACTCCCCCAGATC
Found at i:42504 original size:22 final size:22
Alignment explanation
Indices: 42471--42521 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
42461 GATATATAAC
42471 ATATT-TTATAAGCATA-TATATT
1 ATATTATT-TAAGCATATTATA-T
**
42493 ATATTATTTAAGTGTATTATAT
1 ATATTATTTAAGCATATTATAT
42515 ATATTAT
1 ATATTAT
42522 ATAGTATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
ATATTATTTAAGCATATTATAT
Found at i:42585 original size:17 final size:17
Alignment explanation
Indices: 42563--42617 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
42553 CATTATGTAA
42563 TATATATATAACATGCG
1 TATATATATAACATGCG
* ***
42580 TATATATTATAATTATTTT
1 TATATA-TATAA-CATGCG
42599 TATATATATAACATGCG
1 TATATATATAACATGCG
42616 TA
1 TA
42618 ACACTTATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 10 0.36
18 10 0.36
19 8 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (17 bp):
TATATATATAACATGCG
Found at i:44860 original size:110 final size:110
Alignment explanation
Indices: 44667--44888 Score: 408
Period size: 110 Copynumber: 2.0 Consensus size: 110
44657 TGGGCCCACC
*
44667 TGAAAGGCGATTACGACAATTATAACTCACCAACTAATTGTTTCTTTCTATTTTAGTCATTTAGC
1 TGAAAGGCGATTACGACAATTATAACTCACCAACTAATTGTGTCTTTCTATTTTAGTCATTTAGC
* *
44732 TTTTTTTTTGTTGATAAAAACGCCACTCATTACTCTTTTTTATGT
66 TTTTTTATTGTTGATAAAAACGCCACTCATTACTCTTTTCTATGT
*
44777 TGAAAGGCGATTACGACAATTATAAGTCACCAACTAATTGTGTCTTTCTATTTTAGTCATTTAGC
1 TGAAAGGCGATTACGACAATTATAACTCACCAACTAATTGTGTCTTTCTATTTTAGTCATTTAGC
44842 TTTTTTATTGTTGATAAAAACGCCACTCATTACTCTTTTCTATGT
66 TTTTTTATTGTTGATAAAAACGCCACTCATTACTCTTTTCTATGT
44887 TG
1 TG
44889 GTTGTCCGTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (110 bp):
TGAAAGGCGATTACGACAATTATAACTCACCAACTAATTGTGTCTTTCTATTTTAGTCATTTAGC
TTTTTTATTGTTGATAAAAACGCCACTCATTACTCTTTTCTATGT
Found at i:45912 original size:21 final size:20
Alignment explanation
Indices: 45826--45983 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
45816 AAATGACCAA
**
45826 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
45845 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
45865 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
45885 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
45906 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
45927 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
45947 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
45968 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
45984 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:45993 original size:20 final size:20
Alignment explanation
Indices: 45950--46143 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
45940 CGATTTTCCA
* ** *
45950 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
45970 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
45990 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
46010 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
46030 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
46050 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
46070 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
46090 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
46110 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
46131 AAATCGCAACGCG
1 AAATCGCAACGCG
46144 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:46034 original size:60 final size:60
Alignment explanation
Indices: 45950--46143 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
45940 CGATTTTCCA
* ** * *
45950 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
* * ***
46010 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGT
* ** *
46070 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGT
46131 AAATCGCAACGCG
1 AAATCGCAACGCG
46144 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.72
61 30 0.27
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
Found at i:46563 original size:33 final size:33
Alignment explanation
Indices: 46524--46594 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
46514 TTCACTTAGA
*
46524 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
46557 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
46590 TTTCA
1 TTTCA
46595 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:46731 original size:41 final size:41
Alignment explanation
Indices: 46673--46750 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
46663 TTGCAGAAGA
*
46673 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
46714 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
46751 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:46747 original size:21 final size:21
Alignment explanation
Indices: 46674--46749 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
46664 TGCAGAAGAG
*
46674 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
46695 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
46715 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
46736 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
46750 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:46787 original size:19 final size:19
Alignment explanation
Indices: 46748--46792 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
46738 GCAACGAGAG
* **
46748 AATCGCAACGCGATATGAA
1 AATCGCAACGCGAAACCAA
46767 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
46786 AATCGCA
1 AATCGCA
46793 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:46810 original size:19 final size:19
Alignment explanation
Indices: 46788--46885 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
46778 GAAACCAAAA
*
46788 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
46807 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
46821 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
46840 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
46854 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
46873 TCGCGTTGCGATT
1 TCGCGTTGCGATT
46886 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:46829 original size:14 final size:14
Alignment explanation
Indices: 46810--46899 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
46800 TTTCATTTCG
46810 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
46824 CGTTGCGATTTTAATTTCG
1 CGTTGCGA---T--TCTCT
46843 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
46857 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
46876 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
46890 CGTTGCGATT
1 CGTTGCGATT
46900 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 31 0.52
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
19 21 0.35
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:46835 original size:33 final size:33
Alignment explanation
Indices: 46793--46907 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
46783 CAAAATCGCA
46793 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
46826 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
46859 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
46892 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
46908 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:48916 original size:185 final size:186
Alignment explanation
Indices: 48603--49070 Score: 904
Period size: 185 Copynumber: 2.5 Consensus size: 186
48593 TAGATTGCTT
* *
48603 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48668 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
48733 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
48789 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48853 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
48918 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
48974 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
49039 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
49071 TGCAATCCAT
Statistics
Matches: 279, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
185 190 0.68
186 89 0.32
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:49093 original size:93 final size:93
Alignment explanation
Indices: 48603--49070 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
48593 TAGATTGCTT
* *
48603 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48668 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
48696 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48761 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
48789 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48853 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
48881 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
48946 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
48974 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
49039 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
49066 AGTAA
1 AGTAA
49071 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
92 98 0.26
93 274 0.74
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:49238 original size:19 final size:19
Alignment explanation
Indices: 49118--49232 Score: 141
Period size: 19 Copynumber: 6.3 Consensus size: 19
49108 TAGTTTACTT
* *
49118 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
49138 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
49157 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAACCAAAA
49176 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
49195 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
49209 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
49228 TCGCA
1 TCGCA
49233 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 53 0.65
20 13 0.16
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:49250 original size:19 final size:19
Alignment explanation
Indices: 49228--49362 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
49218 GAAACCAAAA
*
49228 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49247 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
49263 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
49280 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
**
49296 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
49313 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
49332 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
49352 TCGTGTTGCGA
1 TCGCGTTGCGA
49363 AAGTAAACTA
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 10 0.11
17 11 0.12
19 44 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:49269 original size:14 final size:14
Alignment explanation
Indices: 49250--49306 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
49240 TTTCATTTCG
49250 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
49264 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
49281 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
49297 CGTTGCGATT
1 CGTTGCGATT
49307 TTGGTTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:49275 original size:33 final size:33
Alignment explanation
Indices: 49233--49327 Score: 145
Period size: 33 Copynumber: 2.9 Consensus size: 33
49223 CAAAATCGCA
*
49233 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
49266 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
** *
49299 TTGCGATTTTGGTTTCTCGTTGCGATTCT
1 TTGCGATTTTCATTTCGCGTTGCGATTCT
49328 CATTTCGCGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:51294 original size:14 final size:14
Alignment explanation
Indices: 51275--51310 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51265 ATTGTTTAAT
51275 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
51289 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
51303 TGATTTGT
1 TGATTTGT
51311 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:51433 original size:19 final size:19
Alignment explanation
Indices: 51417--51514 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
51407 AAAAATGACT
51417 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
51436 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
51455 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
51469 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
51488 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
51508 ATCGCAA
1 ATCGCAA
51515 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.54
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:51546 original size:53 final size:53
Alignment explanation
Indices: 51417--51529 Score: 210
Period size: 53 Copynumber: 2.2 Consensus size: 53
51407 AAAAATGACT
*
51417 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
51469 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
51522 ATCGCAAT
1 ATCGCAAT
51530 GCGTTTATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.47
53 31 0.53
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:51576 original size:33 final size:33
Alignment explanation
Indices: 51539--51691 Score: 150
Period size: 33 Copynumber: 4.5 Consensus size: 33
51529 TGCGTTTATA
51539 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
51572 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
51612 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
51643 ATTTCGCATTGCGATTCTCTCGTTGCAATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
51676 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
51692 TTCATTTCGC
Statistics
Matches: 96, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 51 0.53
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:51585 original size:19 final size:19
Alignment explanation
Indices: 51561--51777 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
51551 GATTCTCTCG
51561 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
51580 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
51599 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
51613 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
51632 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
51651 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
51665 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
51684 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
51703 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
51717 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
51737 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
51751 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
51770 TTGCGATT
1 TTGCGATT
51778 GTAATTTCCG
Statistics
Matches: 167, Mismatches: 10, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 28 0.17
16 23 0.14
17 20 0.12
18 3 0.02
19 81 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:51596 original size:52 final size:52
Alignment explanation
Indices: 51539--51749 Score: 395
Period size: 52 Copynumber: 4.0 Consensus size: 52
51529 TGCGTTTATA
51539 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
51591 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
51643 ATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
51695 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
51748 AT
1 AT
51750 GTTGGGATTT
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 138 0.89
53 17 0.11
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:51721 original size:33 final size:33
Alignment explanation
Indices: 51580--51777 Score: 181
Period size: 33 Copynumber: 5.8 Consensus size: 33
51570 TCATTTCGCA
*
51580 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
*
51613 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TT-ATCTCG
* * * *
51649 CATTGCGATTCTCTC-GTT-GCAATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGC-A-TTGCGATTATCTCG
51684 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
*
51717 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTATC-TCG
* *
51751 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
51778 GTAATTTCCG
Statistics
Matches: 136, Mismatches: 14, Indels: 30
0.76 0.08 0.17
Matches are distributed among these distances:
31 5 0.04
32 7 0.05
33 64 0.47
34 29 0.21
35 5 0.04
36 4 0.03
37 2 0.01
38 10 0.07
39 5 0.04
40 5 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTATCTCG
Found at i:54077 original size:12 final size:12
Alignment explanation
Indices: 54060--54084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54050 TCTTCGGGGA
54060 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54072 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54084 C
1 C
54085 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:54888 original size:21 final size:21
Alignment explanation
Indices: 54860--54899 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
54850 ACCTGTTGTC
54860 GGATTAGGAA-GGATGTCGTT
1 GGATTAGGAACGGATGTCGTT
54880 GGATATAGGAACGGATGTCG
1 GGAT-TAGGAACGGATGTCG
54900 CCGGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.28, C:0.07, G:0.40, T:0.25
Consensus pattern (21 bp):
GGATTAGGAACGGATGTCGTT
Found at i:55015 original size:20 final size:20
Alignment explanation
Indices: 54987--55216 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
54977 AAATTTCAGT
* * *
54987 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55007 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
55027 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55047 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
55067 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
55087 GTTGCGATATACAGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
55107 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
55127 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
55147 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
55167 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
55187 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
55207 GTTGCGATTT
1 GTTGCGATTT
55217 TGGAAAATCG
Statistics
Matches: 179, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:55233 original size:21 final size:21
Alignment explanation
Indices: 55203--55285 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
55193 ATTTTCATAT
*
55203 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
55224 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
55245 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
55266 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
55286 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:55276 original size:42 final size:43
Alignment explanation
Indices: 55183--55281 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
55173 ATTTATGTGT
* *
55183 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
55224 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
55266 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
55282 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:60074 original size:213 final size:214
Alignment explanation
Indices: 59509--60149 Score: 1257
Period size: 213 Copynumber: 3.0 Consensus size: 214
59499 GTCCTTTAAC
59509 TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
1 TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
59574 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
66 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
*
59639 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGACTCAA
131 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
59704 GCTTTTTTTTTTACTTGGG
196 GCTTTTTTTTTTACTTGGG
*
59723 TAGTGTTATACTTTAAGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
1 TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
59788 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
66 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
59853 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
131 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
59918 GC-TTTTTTTTTACTTGGG
196 GCTTTTTTTTTTACTTGGG
59936 TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
1 TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
60001 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
66 GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
60066 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
131 TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
60131 GCTTTTTTTTTTACTTGGG
196 GCTTTTTTTTTTACTTGGG
60150 ATTTGGGATG
Statistics
Matches: 423, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
213 212 0.50
214 211 0.50
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (214 bp):
TAGTGTTATACTTTATGTTTTAATGCAAAATAATGTATGATTTATTTTTAATGGGATCGCCATGA
GTGCGAGACAACATAAGTATGTAACATTTATGCTGTATGATTTCTGGTTATGAGCACGATCCATT
TTCCTATCTTATGTTATGCATTCATGTTTAATTTTTGAATTATATTATGATTATGTATGTCTCAA
GCTTTTTTTTTTACTTGGG
Found at i:60810 original size:13 final size:13
Alignment explanation
Indices: 60794--60834 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
60784 CACAATGAAA
*
60794 ATAAATAAATAGT
1 ATAAATAAATAAT
60807 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
60821 A-AAATAAA-AAT
1 ATAAATAAATAAT
60832 ATA
1 ATA
60835 TAAAAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.16
12 4 0.16
13 10 0.40
14 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:66208 original size:3 final size:3
Alignment explanation
Indices: 66200--66254 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
66190 TCTAATTTTA
*
66200 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT ATT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT
66246 ATT ATT ATT
1 ATT ATT ATT
66255 TTTGCAGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 42 0.89
4 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:67510 original size:19 final size:19
Alignment explanation
Indices: 67464--67510 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
67454 CATTAATTTG
*
67464 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
67484 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
67504 TATATTT
1 TATATTT
67511 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:70229 original size:31 final size:32
Alignment explanation
Indices: 70193--70254 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
70183 ATTTTACATG
70193 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
70224 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
70255 CAGTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:73432 original size:17 final size:16
Alignment explanation
Indices: 73412--73446 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
73402 AGATCATATT
*
73412 AAAGCGAAGAGAAAAGA
1 AAAGCAAAGAG-AAAGA
73429 AAAGCAAAGAGAAAGA
1 AAAGCAAAGAGAAAGA
73445 AA
1 AA
73447 CAAAGTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.69, C:0.06, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGCAAAGAGAAAGA
Found at i:74650 original size:4 final size:4
Alignment explanation
Indices: 74643--74680 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
74633 ATACATCAAC
*
74643 ACAT ACAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
74681 GATACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:74652 original size:16 final size:16
Alignment explanation
Indices: 74631--74675 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
74621 GATTGAGAAA
74631 ACATACATCA-ACACAT
1 ACATACAT-ATACACAT
*
74647 ACATACATATATACAT
1 ACATACATATACACAT
*
74663 ACATACACATACA
1 ACATACATATACA
74676 TACATGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (16 bp):
ACATACATATACACAT
Found at i:75350 original size:106 final size:105
Alignment explanation
Indices: 75137--75374 Score: 256
Period size: 106 Copynumber: 2.2 Consensus size: 105
75127 TGAGAATTTT
* * * * *
75137 AAAACAAATTGCGTCTCGCTTGAGACGTTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTGGAGATACAAATTTCGAATTTGATTCACT
*
75202 AAAAACAAAATTAATCTCACCTTAGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCACCTTAGATTC-TGTTTCTCTCA
*
75242 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCCTTGGAGAT-CAAAATTTCGAATTTGTTTCA
1 AAAACAAATTTCGTCTCGCTTGAGACCTTTT-CCCTTGGAGATAC-AAATTTCGAATTTGATTCA
* * *
75306 C-ATTAAACAAAGTTGATCTCACTCACTTGAGA-TC-GTTT-TCTCA
64 CTA-AAAACAAAATTAATCTCA--C-CTT-AGATTCTGTTTCTCTCA
75349 AAAACAAACTTT-GTCTCGCTTGAGAC
1 AAAACAAA-TTTCGTCTCGCTTGAGAC
75375 AATTTCTCTA
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
105 31 0.27
106 45 0.39
107 26 0.23
108 4 0.04
109 5 0.04
110 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (105 bp):
AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTGGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACCTTAGATTCTGTTTCTCTCA
Found at i:75373 original size:36 final size:36
Alignment explanation
Indices: 75342--75445 Score: 108
Period size: 34 Copynumber: 3.0 Consensus size: 36
75332 TTGAGATCGT
75342 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAACTTTGTCTCGCTTGAGACAA
* **
75377 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGAC--
1 TTTCTCTAAAAACAAACTTTGTCTCGCTTGAGACAA
* * * *
75411 TGTATCTTAAAGCAAA-TTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAACTTT-GTCTCGCTTGAGACA
75446 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
33 3 0.05
34 24 0.42
35 6 0.11
36 24 0.42
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTCTCTAAAAACAAACTTTGTCTCGCTTGAGACAA
Found at i:75784 original size:57 final size:57
Alignment explanation
Indices: 75689--75855 Score: 232
Period size: 57 Copynumber: 3.0 Consensus size: 57
75679 TCTTGAGACG
*
75689 GTTTCTCTTG-AAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAAAATCTTTGAGTTA
1 GTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAATCTTTGAGTTA
* * * * *
75745 GTTTCTCTTGAAAAAAATCTTTGAGTTTGCTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAATCTTTGAGTTA
* *
75802 GTTCCTTTTGAATAAAAATCTTTGAG-TTGTTTCTTTTGAAAAAAAA-CTTTGAGT
1 GTTTCTCTTGAA-AAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAATCTTTGAGT
75856 CTATTTATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
56 17 0.18
57 67 0.69
58 13 0.13
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (57 bp):
GTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAATCTTTGAGTTA
Found at i:75866 original size:28 final size:28
Alignment explanation
Indices: 75689--75870 Score: 215
Period size: 29 Copynumber: 6.5 Consensus size: 28
75679 TCTTGAGACG
*
75689 GTTTCTCTTG-AAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
* *
75716 GTTTCTCTTGAAAAAAAATCTTTGAGTTA
1 GTTTCTTTTG-AAAAAAATCTTTGAGTTT
*
75745 GTTTCTCTTGAAAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
* * *
75773 GCTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTTTTGAA-AAAAATCTTTGAGTTT
*
75802 GTTCCTTTTGAATAAAAATCTTTGAG-TT
1 GTTTCTTTTGAA-AAAAATCTTTGAGTTT
* *
75830 GTTTCTTTTGAAAAAAAACTTTGAGTCT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
* *
75858 ATTTATTTTGAAA
1 GTTTCTTTTGAAA
75871 CAAAGTTTTG
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
27 22 0.16
28 51 0.37
29 65 0.47
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (28 bp):
GTTTCTTTTGAAAAAAATCTTTGAGTTT
Found at i:75944 original size:52 final size:53
Alignment explanation
Indices: 75866--75969 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
75856 CTATTTATTT
75866 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
75918 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAAATCTTTGAG
75970 ATTGTTTCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 36 0.73
54 13 0.27
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:75998 original size:35 final size:35
Alignment explanation
Indices: 75955--76025 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
75945 CAATTTTGTG
* *
75955 AAAAAAATCTTTGAGATTGTTTCTTTTGAAACAAA
1 AAAAAAATCTTTGAGATTATTTCTTTGGAAACAAA
*
75990 AAAAAAATCTTTGAGTTTATTTCTTTGGAAACAAA
1 AAAAAAATCTTTGAGATTATTTCTTTGGAAACAAA
76025 A
1 A
76026 TGTTGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (35 bp):
AAAAAAATCTTTGAGATTATTTCTTTGGAAACAAA
Found at i:76853 original size:28 final size:28
Alignment explanation
Indices: 76822--76903 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
76812 GAAACACATC
*
76822 ATCTTTGAGTTTGTTTTTCTTGAAACGA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
*
76850 ATCTTTGGGTTTGTTTCTT-TTGAAACAA
1 ATCTTTGAGTTTGTTT-TTCTTGAAACAA
* *
76878 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAGTTT-GTTTTTCTTGAAAC
76904 CATAACTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 4 0.09
28 40 0.87
29 2 0.04
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (28 bp):
ATCTTTGAGTTTGTTTTTCTTGAAACAA
Found at i:76990 original size:40 final size:41
Alignment explanation
Indices: 76935--77130 Score: 123
Period size: 40 Copynumber: 4.5 Consensus size: 41
76925 GCCGTCCTCT
* *
76935 TCATCACGTATGAGCCGTGTCATCCCC-CGACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCATCCCCAAGACCAGATCTCC
* *
76975 TCATCACGTAGGAGCCGTGTCA-CCCCTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCC-A-A-GACCAGATC-TCC
* * * *
77018 TCATCACGTAGGAACCGTGTTATTGCCTTCCTAAAGATGGCCAAGAACTCT
1 TCATCACGTAGGAGCCGTGTCA-T-CC--CC--AAGA---CC-AGATCTCC
* *
77069 TCATCACGTATGAGCCGTGTCATCCACC--GACCAAATCTCC
1 TCATCACGTAGGAGCCGTGTCATCC-CCAAGACCAGATCTCC
*
77109 TCATCACGTAGGAACCGTGTCA
1 TCATCACGTAGGAGCCGTGTCA
77131 CCCTTAGACA
Statistics
Matches: 121, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
39 4 0.03
40 46 0.38
41 2 0.02
42 1 0.01
43 28 0.23
44 2 0.02
46 2 0.02
47 1 0.01
48 5 0.04
49 3 0.02
50 3 0.02
51 23 0.19
52 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (41 bp):
TCATCACGTAGGAGCCGTGTCATCCCCAAGACCAGATCTCC
Found at i:77172 original size:43 final size:39
Alignment explanation
Indices: 77062--77172 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 39
77052 AGATGGCCAA
* * *
77062 GAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACC
1 GAACTCTTCATCACGTATGAGCCGTGTCACCCAACAACC
* * * *
77101 AAATCTCCTCATCACGTAGGAACCGTGTCACCCTTAGACAACCC
1 GAA-CTCTTCATCACGTATGAGCCGTGTCACCC--A-ACAA-CC
*
77145 GAACTCTTCATCACGTATGAGCAGTGTC
1 GAACTCTTCATCACGTATGAGCCGTGTC
77173 GTCCCCAACA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
39 2 0.04
40 25 0.45
42 1 0.02
43 23 0.42
44 4 0.07
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.23
Consensus pattern (39 bp):
GAACTCTTCATCACGTATGAGCCGTGTCACCCAACAACC
Found at i:77346 original size:3 final size:3
Alignment explanation
Indices: 77338--77392 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
77328 TCTAATTTTA
*
77338 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT ATT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT
77384 ATT ATT ATT
1 ATT ATT ATT
77393 TTTTGCAGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 42 0.89
4 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:78649 original size:19 final size:19
Alignment explanation
Indices: 78603--78649 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
78593 CATTAATTTG
*
78603 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
78623 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
78643 TATATTT
1 TATATTT
78650 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:81353 original size:16 final size:17
Alignment explanation
Indices: 81332--81372 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
81322 CATAAAATTA
*
81332 TAAATAATT-AATATAT
1 TAAATAATTAAAAATAT
81348 TAAAT-ATTAAAAATAT
1 TAAATAATTAAAAATAT
*
81364 AAAATAATT
1 TAAATAATT
81373 TTAAATACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTAAAAATAT
Found at i:82271 original size:265 final size:257
Alignment explanation
Indices: 81784--82403 Score: 880
Period size: 260 Copynumber: 2.4 Consensus size: 257
81774 CTTATTCATA
81784 TATTGAATAAAAATATTTTTTTTATTATTTCGGGTCAGGTC-GAGTTTCTAATTCATATATTCGG
1 TATTGAATAAAAATA--TTTTTTATTATTTCGGGTC-GGTCGGA-TTTCTAATTCATATATTCGG
* *
81848 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATT
62 GTCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCGGGTCGGGT--GTTTTTTTAAGTATGATATT
* *
81913 TGGGTCGGGTTGAGTTTGGGTTTAGGGTGAAAAATACCTGACCCAAAAATATATATAATTTTACC
125 CGGGTCGGGTTGAGTTCGGGTTTAGGGTGAAAAATACCTGACCCAAAAATATATATAATTTTACC
* * * * *
81978 TTATATATTTAGGAATAATTACAATAATATCCCTCTATATATAATTTTTTTCAATTAAGTCACTG
190 TTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT-ATTTTTTCCAATAAAGCCACTA
*
82043 TTTT
254 TTGT
82047 TATTGAATAAAAATATTTTTT-TTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTC
1 TATTGAATAAAAATATTTTTTATTATTTCGGGTC-GGTCGGATTTCTAATTCATATATTCGGGTC
82111 GGGTCGGGTGAAACTTTATTTTGGTTGGGTCGGGTC-GGT-TTTTTTTAAGTATGATATTCGGGT
65 GGGTCGGGTGAAACTTTATTTTGGTTGGGTCGGGTCGGGTGTTTTTTTAAGTATGATATTCGGGT
*
82174 CGGGTTGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCTGACCCAAAAA-ATATATAATT
130 CGGGTTGAGTTCGGGTTTAGGGTGAAAAAT----------ACCTGACCCAAAAATATATATAATT
*
82238 TTACCTTATATATTTAGGAATAATTATAATAATACCCCTCTATATATATTTTTTCCAATAAAGCC
185 TTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATATTTTTTCCAATAAAGCC
82303 ACTATTGT
250 ACTATTGT
*
82311 TATTGAATAAAAATATTTTATTATTATTTCGGGTC-G--GG-TTTCTAATTCATATATTCGGATC
1 TATTGAATAAAAATATTTT-TTATTATTTCGGGTCGGTCGGATTTCTAATTCATATATTCGGGTC
*
82372 GGGTTGGGTGAAACTTTATTTTGGTTGGGTCG
65 GGGTCGGGTGAAACTTTATTTTGGTTGGGTCG
82404 AATCTCGGAT
Statistics
Matches: 329, Mismatches: 15, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
256 50 0.15
259 3 0.01
260 74 0.22
261 61 0.19
262 2 0.01
263 15 0.05
264 41 0.12
265 57 0.17
266 26 0.08
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (257 bp):
TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGTCGGATTTCTAATTCATATATTCGGGTCG
GGTCGGGTGAAACTTTATTTTGGTTGGGTCGGGTCGGGTGTTTTTTTAAGTATGATATTCGGGTC
GGGTTGAGTTCGGGTTTAGGGTGAAAAATACCTGACCCAAAAATATATATAATTTTACCTTATAT
ATTTAGGAATAATTACAATAATACCCCTCTATATATATTTTTTCCAATAAAGCCACTATTGT
Found at i:82473 original size:261 final size:264
Alignment explanation
Indices: 81948--82445 Score: 616
Period size: 265 Copynumber: 1.9 Consensus size: 264
81938 GGTGAAAAAT
*
81948 ACCTGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATATCCCTC
1 ACCTGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTC
* * * * *
82013 TATATATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTTTATTTCGGG
66 TATATATAATTTTTTCCAATAAAGCCACTATTGTTATTGAATAAAAATATTTTTTTTATTTCGGG
*
82078 TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCG
131 TC-GG-CGGATTTCTAATTCATATATTCGGATCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCG
* ***** * * **** ****
82143 GGTCGGTTTTTTTTAAGTATGATATTCGGGTCGGGTTGGGTTCGGGTTTAGGGTGAAAAATACCC
194 GCTCGGTGGAGGTTAACTATGATATTCGGGTCGGGTCGGGTTCGGAAAAAACCCGAAAAATACCC
82208 GACCCG
259 GACCCG
*
82214 ACCTGACCCAAAAA-ATATATAATTTTACCTTATATATTTAGGAATAATTATAATAATACCCCTC
1 ACCTGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTC
82278 TATATAT-ATTTTTTCCAATAAAGCCACTATTGTTATTGAATAAAAATATTTTATTATTATTTCG
66 TATATATAATTTTTTCCAATAAAGCCACTATTGTTATTGAATAAAAATATTTT-TT-TTATTTCG
*
82342 GGTC-G-GG-TTTCTAATTCATATATTCGGATCGGGTTGGGTGAAACTTTATTTTGGTTGGGTCG
129 GGTCGGCGGATTTCTAATTCATATATTCGGATCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCG
* **
82404 AATCTCGGATGGAGGTTCCCT-TG-T-TCTCGGGTCGGGTCGGGT
194 --GCTCGG-TGGAGGTTAACTATGATAT-TCGGGTCGGGTCGGGT
82446 GGACAAAAAA
Statistics
Matches: 206, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
261 54 0.26
262 18 0.09
263 6 0.03
264 45 0.22
265 57 0.28
266 26 0.13
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (264 bp):
ACCTGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTC
TATATATAATTTTTTCCAATAAAGCCACTATTGTTATTGAATAAAAATATTTTTTTTATTTCGGG
TCGGCGGATTTCTAATTCATATATTCGGATCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCGGC
TCGGTGGAGGTTAACTATGATATTCGGGTCGGGTCGGGTTCGGAAAAAACCCGAAAAATACCCGA
CCCG
Found at i:87049 original size:20 final size:21
Alignment explanation
Indices: 87003--87049 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
86993 AGGGTGAGAT
* *
87003 TCGATATTGGTTCATGCATTA
1 TCGATATTGGTTCATACAATA
*
87024 TTGATATT-GTTCATACAATA
1 TCGATATTGGTTCATACAATA
87044 TCGATA
1 TCGATA
87050 CTAAATGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (21 bp):
TCGATATTGGTTCATACAATA
Found at i:87182 original size:21 final size:21
Alignment explanation
Indices: 87156--87197 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
87146 ATCGATACTC
*
87156 GAGTATCCATTCTCTCTAATT
1 GAGTATCCATACTCTCTAATT
*
87177 GAGTATTCATACTCTCTAATT
1 GAGTATCCATACTCTCTAATT
87198 TGGTACTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (21 bp):
GAGTATCCATACTCTCTAATT
Found at i:87207 original size:21 final size:21
Alignment explanation
Indices: 87167--87211 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
87157 AGTATCCATT
*
87167 CTCTCTAATTGAGTATTCATA
1 CTCTCTAATTGAGTACTCATA
87188 CTCTCTAATTTG-GTACTCATA
1 CTCTCTAA-TTGAGTACTCATA
87209 CTC
1 CTC
87212 CTAGTTGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (21 bp):
CTCTCTAATTGAGTACTCATA
Found at i:87998 original size:42 final size:42
Alignment explanation
Indices: 87951--88042 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
87941 GTACTTGATG
* * *
87951 TTTAGTGACACCATGTGCCATTTTTATTTTATGTT-ACCTACT
1 TTTAGTGACACCATGTGCCATTTCTATTTCATGTTAACC-ACC
*
87993 TTTAGTGACACCATGTTCCATTTCTATTTCATGTTAACCACC
1 TTTAGTGACACCATGTGCCATTTCTATTTCATGTTAACCACC
88035 TTTAGTGA
1 TTTAGTGA
88043 TATCAGGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (42 bp):
TTTAGTGACACCATGTGCCATTTCTATTTCATGTTAACCACC
Found at i:88818 original size:21 final size:21
Alignment explanation
Indices: 88794--88842 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
88784 TAAGCGCCGC
* *
88794 TAAAAACATTCCTGGCGCAAG
1 TAAAAACATTCCCGACGCAAG
*
88815 TAAAAAAATTCCCGACGCAAG
1 TAAAAACATTCCCGACGCAAG
88836 TAAAAAC
1 TAAAAAC
88843 GTCGCAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.16
Consensus pattern (21 bp):
TAAAAACATTCCCGACGCAAG
Found at i:89292 original size:48 final size:48
Alignment explanation
Indices: 89217--89312 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
89207 ATTAACCAGT
* *
89217 GACAAGTACCAATCGCAATACACATATAATTAAACAAGTTTATGGGAA
1 GACAAGTACCAATCACAATACAAATATAATTAAACAAGTTTATGGGAA
89265 GACAAGTACCAATCACAATACAAATATAATTAAACAAGTTTATGGGAA
1 GACAAGTACCAATCACAATACAAATATAATTAAACAAGTTTATGGGAA
89313 AAATATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
GACAAGTACCAATCACAATACAAATATAATTAAACAAGTTTATGGGAA
Found at i:92517 original size:9 final size:9
Alignment explanation
Indices: 92505--92529 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
92495 AAAATTTAAA
92505 TTTTTATAT
1 TTTTTATAT
92514 TTTTTATAT
1 TTTTTATAT
92523 TTTTTAT
1 TTTTTAT
92530 TAAAATTCTA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATAT
Found at i:93071 original size:25 final size:25
Alignment explanation
Indices: 93036--93102 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
93026 TAGCTTAGTA
93036 AATA-TTTATATTTGAAAT-TTATTT
1 AATATTTTATATTTGAAATATT-TTT
93060 AATATTTTATATTTAGAAATATTTTT
1 AATATTTTATATTT-GAAATATTTTT
* *
93086 -ATATTATATTTTTGAAA
1 AATATTTTATATTTGAAA
93103 AATGGGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 8 0.21
25 20 0.53
26 8 0.21
27 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
AATATTTTATATTTGAAATATTTTT
Found at i:93073 original size:18 final size:18
Alignment explanation
Indices: 93038--93096 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
93028 GCTTAGTAAA
* *
93038 TATTT-ATATTTGAAATT
1 TATTTAATATTTTATATT
93055 TATTTAATATTTTATATT
1 TATTTAATATTTTATATT
**
93073 TA-GAAATATTTTTATATT
1 TATTTAATA-TTTTATATT
93091 ATATTT
1 -TATTT
93097 TTGAAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 9 0.28
18 21 0.66
19 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATTTAATATTTTATATT
Found at i:93102 original size:24 final size:24
Alignment explanation
Indices: 93036--93102 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
93026 TAGCTTAGTA
*
93036 AATATTTATATTTGAAATTTATTT
1 AATATTTATTTTTGAAATTTATTT
*
93060 AATATTTTATATTTAGAAATATT-TTT
1 AATA-TTTAT-TTTTGAAAT-TTATTT
93086 -ATATTATATTTTTGAAA
1 AATATT-TATTTTTGAAA
93103 AATGGGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 13 0.36
25 11 0.31
26 10 0.28
27 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
AATATTTATTTTTGAAATTTATTT
Found at i:93582 original size:12 final size:12
Alignment explanation
Indices: 93561--93590 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93551 CGTTAACCCT
*
93561 TCATCATCATCA
1 TCATCCTCATCA
93573 TCATCCTCATCA
1 TCATCCTCATCA
93585 TCATCC
1 TCATCC
93591 AAATTAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (12 bp):
TCATCCTCATCA
Found at i:94570 original size:47 final size:45
Alignment explanation
Indices: 94492--94624 Score: 169
Period size: 47 Copynumber: 2.9 Consensus size: 45
94482 AACATAATAT
*
94492 AAAATATCTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
1 AAAATA-CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
* *
94538 AAAATACTTACCATTTAAATTACATAAGCTCGTAAGCTTATTTTTCC
1 AAAATACTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACC
* * * *
94585 AATATACTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
94625 GCATGGTTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
44 22 0.29
45 10 0.13
46 8 0.10
47 37 0.48
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (45 bp):
AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
Found at i:94777 original size:40 final size:40
Alignment explanation
Indices: 94728--94889 Score: 315
Period size: 40 Copynumber: 4.0 Consensus size: 40
94718 ACCGTAGTGC
*
94728 TACATATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
94768 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
94808 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
94848 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
94888 TA
1 TA
94890 TAAACCTGCA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:96448 original size:19 final size:20
Alignment explanation
Indices: 96407--96457 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
96397 GAAACCCCTT
*
96407 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
96427 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
96446 TGAAGATACATG
1 TGAAAATACATG
96458 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:100561 original size:19 final size:20
Alignment explanation
Indices: 100520--100570 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
100510 GAAACCCCTT
*
100520 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
100540 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
100559 TGAAGATACATG
1 TGAAAATACATG
100571 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:103293 original size:2 final size:2
Alignment explanation
Indices: 103286--103318 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103276 TATTATTTTC
103286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103319 CCATAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103575 original size:31 final size:31
Alignment explanation
Indices: 103539--103597 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
103529 AACTTAAAAG
* *
103539 AGTTTTGCAATAGTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
103570 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
103598 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:103646 original size:22 final size:22
Alignment explanation
Indices: 103621--104006 Score: 544
Period size: 22 Copynumber: 17.6 Consensus size: 22
103611 ACAATAAAAT
*
103621 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
*
103643 TTTTAAAATAAATCAAACCATA
1 TTTTAAAATAAATCAATCCATA
**
103665 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
103687 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
103709 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
103731 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
103753 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
103775 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
103797 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
103819 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
103841 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
103863 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
103885 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
103907 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
103929 TTTT-AAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
103950 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
103972 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
103994 TTTTAAAATAAAT
1 TTTTAAAATAAAT
104007 TTTAAAATAG
Statistics
Matches: 319, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
21 26 0.08
22 285 0.89
23 8 0.03
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:104023 original size:11 final size:12
Alignment explanation
Indices: 103993--104032 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
103983 ATCAATCCAT
103993 ATTTTAAAATAA
1 ATTTTAAAATAA
*
104005 ATTTTAAAATAG
1 ATTTTAAAATAA
104017 A-TTT-AAAT-A
1 ATTTTAAAATAA
104026 ATTTTAA
1 ATTTTAA
104033 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:104404 original size:47 final size:48
Alignment explanation
Indices: 104353--104867 Score: 195
Period size: 54 Copynumber: 9.8 Consensus size: 48
104343 AAAATAATTT
* *
104353 TAAATAATTTAATAAGG-TT-ATTTATTTTAAAATAATTTATTTTAAAA
1 TAAATTATTTAATATGGATTGATTTATTTTAAAATAATTTATTTT-AAA
104400 TAAATTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAA
1 TAAATTATT-T--AATATGGATTGATTTATTTTAAAATAATTTATTTTAAA
* * * *
104451 TAATTTA-TTAGTATGGATTGATTTATTTT-AAATAATTTATTAGTATGGAT
1 TAAATTATTTAATATGGATTGATTTATTTTAAAATAATTTATT--T-T-AAA
* * * * *
104501 TGATTTATTTTAAAATATAGATTGATTTATTTT-AAATAATTTATTAGTATGGAT
1 TAAATTA-TTT--AATATGGATTGATTTATTTTAAAATAATTTATT--T-T-AAA
* * * *
104555 TGATTTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAGTATGGAT
1 TAAATTA-TTT--AATATGGATTGATTTATTTTAAAATAATTTATT--T-T-AAA
* * * *
104609 TGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAA
1 TAAATTA-TTT--AATATGGATTGATTTA-T-TT-TA-----A---AATAATTTATTTTAAA
* *
104671 TAATTTATTT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1 TAAATTATTTAATATGGATTGATTTATTTT-AAA-AT--A---ATTTATTTTAAA
* *
104725 TAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1 TAAATTATTTAATATGGATTGATTTATTTT-AAA-AT--A---ATTTATTTTAAA
* *
104779 TAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1 TAAATTATTTAATATGGATTGATTTATTTT-AAA-AT--A---ATTTATTTTAAA
* * *
104833 TAATTTA-TTAGTATGAATTGATTTATTTTAAAATA
1 TAAATTATTTAATATGGATTGATTTATTTTAAAATA
104868 TGGATTGATT
Statistics
Matches: 416, Mismatches: 19, Indels: 63
0.84 0.04 0.13
Matches are distributed among these distances:
46 12 0.03
47 27 0.06
48 3 0.01
49 3 0.01
50 15 0.04
51 12 0.03
52 28 0.07
53 5 0.01
54 266 0.64
55 2 0.00
56 5 0.01
57 2 0.00
58 14 0.03
61 3 0.01
62 7 0.02
63 2 0.00
64 1 0.00
66 9 0.02
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (48 bp):
TAAATTATTTAATATGGATTGATTTATTTTAAAATAATTTATTTTAAA
Found at i:104428 original size:37 final size:37
Alignment explanation
Indices: 104387--104517 Score: 110
Period size: 37 Copynumber: 3.4 Consensus size: 37
104377 TTTTAAAATA
104387 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
*
104424 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAAATTA--TT--ATAA---A--A-TATGGATTG
* *
104471 ATTTATTTT-AAAT-AA-T-TTAT-TAGTATGGATTG
1 ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
104503 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
104518 TAGATTGATT
Statistics
Matches: 78, Mismatches: 4, Indels: 27
0.72 0.04 0.25
Matches are distributed among these distances:
32 18 0.23
33 4 0.05
35 1 0.01
37 19 0.24
39 4 0.05
41 6 0.08
44 2 0.03
45 1 0.01
46 5 0.06
47 18 0.23
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.51
Consensus pattern (37 bp):
ATTTATTTTAAAATAAATTATTATAAAATATGGATTG
Found at i:104453 original size:14 final size:15
Alignment explanation
Indices: 104372--104459 Score: 88
Period size: 15 Copynumber: 5.5 Consensus size: 15
104362 TAATAAGGTT
104372 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
104387 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
104402 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
104421 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
104439 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
104453 ATTTATT
1 ATTTATT
104460 AGTATGGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
14 12 0.19
15 30 0.48
16 4 0.06
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
21 4 0.06
22 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:104477 original size:32 final size:32
Alignment explanation
Indices: 104439--105002 Score: 312
Period size: 32 Copynumber: 18.4 Consensus size: 32
104429 TTTTAAAATA
104439 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104471 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104503 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104525 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104557 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104579 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
104611 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
104640 ATTGTAGTTGTATGGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * *
104673 ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTT-TA---AATAATTTA--TT--AGTATGGATTG
104713 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104745 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104767 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104799 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
104821 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
104853 ATTTATTTTAAAATATGGATTGATTTATTATTATAG-TTG
1 ATTTATTTT--AA-AT--A---ATTTATTAGTATGGATTG
** * * *
104892 TATAGATTGATT-TATTATTGTAGTT-GTATAGATTG
1 -ATTTATT--TTAAATAATT-TA-TTAGTATGGATTG
*
104927 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
104959 ATTTATTTTAAATAATTTATTTGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
104991 ATTTATTTTAAA
1 ATTTATTTTAAA
105003 ATATGGATTG
Statistics
Matches: 421, Mismatches: 35, Indels: 152
0.69 0.06 0.25
Matches are distributed among these distances:
22 56 0.13
23 12 0.03
24 3 0.01
25 7 0.02
26 10 0.02
28 10 0.02
29 10 0.02
30 12 0.03
31 20 0.05
32 192 0.46
33 13 0.03
34 24 0.06
35 7 0.02
36 7 0.02
37 1 0.00
38 3 0.01
39 6 0.01
40 26 0.06
42 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:104523 original size:22 final size:22
Alignment explanation
Indices: 104498--104590 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
104488 TATTAGTATG
104498 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
104520 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
* *
104547 GTATGGATTGATTTATTTTAAAATATG
1 G-ATTGA-T---TTATTTTAAAATATA
104574 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
104591 TAATTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
22 24 0.41
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 5 0.09
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:104531 original size:54 final size:54
Alignment explanation
Indices: 104462--104639 Score: 347
Period size: 54 Copynumber: 3.3 Consensus size: 54
104452 AATTTATTAG
104462 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
104516 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
104570 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
104624 TATGGATTGATTTATT
1 TATGGATTGATTTATT
104640 ATTGTAGTTG
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:104687 original size:188 final size:188
Alignment explanation
Indices: 104415--105114 Score: 894
Period size: 188 Copynumber: 3.7 Consensus size: 188
104405 TATTATAAAA
* *
104415 TATGGATTGATTTATTTTAAAATA---ATTTATTTTAAATAATT-TATTAGTATGGATTGATTTA
1 TATGGATTGATTTATTTTAAAATATGGATTGA-TTT--ATTATTGTATTAGTATGGATTGATTTA
104476 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAAT
63 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAAT
104541 TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
128 TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
104602 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT-GTATGGATTGATTTATT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTAGTATGGATTGATTTATT
* *
104666 TTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
65 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTT
104731 ATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
130 ATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
* *
104790 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTATTAGTATGGATTGAT
* * * * ***
104855 TTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTATAGTTGTATAGATTGATTTATTATT--
60 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATAGATTGATTTATT-TTAA
* * * * * * *
104911 GTAGTTGTA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAA
123 ATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAA
*
104974 TTTATTTG
181 TTTATTAG
*
104982 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT-GTATGGATTGATTTATT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTAGTATGGATTGATTTATT
*
105046 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
65 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTT
105111 ATTA
130 ATTA
105115 TTGTAGTTGT
Statistics
Matches: 446, Mismatches: 35, Indels: 58
0.83 0.06 0.11
Matches are distributed among these distances:
186 28 0.06
187 50 0.11
188 206 0.46
189 10 0.02
190 12 0.03
191 7 0.02
192 95 0.21
193 17 0.04
194 21 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (188 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTAGTATGGATTGATTTATTT
TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA
TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:104698 original size:134 final size:134
Alignment explanation
Indices: 104520--104970 Score: 529
Period size: 134 Copynumber: 3.4 Consensus size: 134
104510 TTAAAATATA
104520 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
104585 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
104650 TATG
131 TATG
*
104654 GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
104719 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TG
104784 TA-TTAGTATG
125 TAGTT-GTATG
*
104794 GATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTT-AAATA---ATTTA-TTAG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
* * * * * ** *
104844 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTGTATAGATTGATTTATTA
65 TTTTAAATAATTTA--TT--AGTATGGATTGATTTATT-TTA-A--AATATGGATTGATTTATTA
*
104909 TTGTAGTTGTATA
122 TTGTAGTTGTATG
*
104922 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
104971 TAATTTATTT
Statistics
Matches: 274, Mismatches: 15, Indels: 51
0.81 0.04 0.15
Matches are distributed among these distances:
125 3 0.01
126 14 0.05
128 19 0.07
129 10 0.04
130 37 0.14
131 3 0.01
132 6 0.02
133 1 0.00
134 130 0.47
135 1 0.00
136 5 0.02
137 1 0.00
138 19 0.07
139 7 0.03
140 18 0.07
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (134 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
TATG
Found at i:104707 original size:22 final size:22
Alignment explanation
Indices: 104682--104724 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
104672 AATTTATTTG
104682 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
104704 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
104725 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:104719 original size:54 final size:54
Alignment explanation
Indices: 104650--105114 Score: 579
Period size: 54 Copynumber: 8.6 Consensus size: 54
104640 ATTGTAGTTG
*
104650 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
104704 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
104758 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
104812 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * ***
104866 TATGGATTGATTTATTATT--ATAGTTGTA-TAG-ATTGATTTA-TTATTGTAGTTG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGATTTATTTTA-AAA
* *
104918 TATAGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * * * ***
104971 TA---ATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
105030 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
105084 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
105115 TTGTAGTTGT
Statistics
Matches: 352, Mismatches: 39, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
50 17 0.05
51 9 0.03
52 25 0.07
53 18 0.05
54 230 0.65
55 11 0.03
56 4 0.01
57 2 0.01
58 15 0.04
59 2 0.01
60 2 0.01
62 17 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:104761 original size:22 final size:22
Alignment explanation
Indices: 104736--104778 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
104726 AATTTATTAG
104736 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
104758 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
104779 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:104768 original size:242 final size:241
Alignment explanation
Indices: 104415--105019 Score: 903
Period size: 242 Copynumber: 2.5 Consensus size: 241
104405 TATTATAAAA
* * *
104415 TATGGATTGATTTATTTTAAAATAATTTATTT-TA--AATAATTTA--TT--AGTATGGATTGAT
1 TATGGATTGATTTATTTT-AAATAATTTATTTGTATGATTGATTTATTTTAAAATATGGATTGAT
*
104473 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
104538 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
130 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
* *
104603 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
195 ATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTG
104650 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTAT-GATTGATTTATTTTAAAATATGGATTGAT
104715 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
104780 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
130 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
104845 ATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTG
195 ATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTG
* * *
104892 TATAGATTGATTTA--TT--AT--TGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTAT-GATTGATTTATTTT-AA-AA--TA-T-G-
* *
104951 ATAGATTGATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATT
58 ---GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
105016 TATT
120 TATT
105020 ATTGTAGTTG
Statistics
Matches: 340, Mismatches: 12, Indels: 25
0.90 0.03 0.07
Matches are distributed among these distances:
234 13 0.04
235 20 0.06
236 23 0.07
237 2 0.01
238 11 0.03
240 6 0.02
241 1 0.00
242 200 0.59
246 64 0.19
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (241 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGATTGATTTATTTTAAAATATGGATTGATT
TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
TGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTG
Found at i:104815 original size:22 final size:22
Alignment explanation
Indices: 104790--104832 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
104780 AATTTATTAG
104790 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
104812 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
104833 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:104907 original size:23 final size:24
Alignment explanation
Indices: 104870--104933 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 24
104860 TTAAAATATG
104870 GATTGATTTATTATTATAGTTGTATA
1 GATTGATTTATTA-T-TAGTTGTATA
104896 GATTGATTTATTATTGTAGTTGTATA
1 GATTGATTTATTA-T-TAGTTGTATA
104922 GATTGATTTATT
1 GATTGATTTATT
104934 TTAAATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (24 bp):
GATTGATTTATTATTAGTTGTATA
Found at i:104946 original size:14 final size:14
Alignment explanation
Indices: 104927--104980 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
104917 GTATAGATTG
104927 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
104941 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
104959 ATTTATTTTAAATA
1 ATTTATTTTAAATA
104973 ATTTATTT
1 ATTTATTT
104981 GTATGAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:104964 original size:18 final size:17
Alignment explanation
Indices: 104915--104965 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
104905 ATTATTGTAG
104915 TTGTATAGATTGATTTA
1 TTGTATAGATTGATTTA
* *
104932 TT-T-TA-AATAATTTA
1 TTGTATAGATTGATTTA
104946 TTAGTATAGATTGATTTA
1 TT-GTATAGATTGATTTA
104964 TT
1 TT
104966 TTAAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 2 0.08
17 4 0.15
18 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTATAGATTGATTTA
Found at i:104994 original size:18 final size:17
Alignment explanation
Indices: 104915--104998 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 17
104905 ATTATTGTAG
104915 TTGTATAGATTGATTTAT
1 TTGTATA-ATTGATTTAT
*
104933 TT-TA-AA-TAATTTAT
1 TTGTATAATTGATTTAT
*
104947 TAGTATAGATTGATTTAT
1 TTGTATA-ATTGATTTAT
*
104965 TT-TA-AA-TAATTTAT
1 TTGTATAATTGATTTAT
104979 TTGTATGAATTGATTTAT
1 TTGTAT-AATTGATTTAT
104997 TT
1 TT
104999 TAAAATATGG
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
14 17 0.33
15 6 0.12
16 3 0.06
17 7 0.13
18 19 0.37
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (17 bp):
TTGTATAATTGATTTAT
Found at i:105045 original size:80 final size:80
Alignment explanation
Indices: 104949--105099 Score: 275
Period size: 80 Copynumber: 1.9 Consensus size: 80
104939 TAATTTATTA
*
104949 GTATAGATTGATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGA
1 GTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
105014 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
* *
105029 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
105094 TTTATT
66 TTTATT
105100 TTAAATAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
GTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
TTTATTATTGTAGTT
Found at i:105087 original size:22 final size:22
Alignment explanation
Indices: 105062--105104 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
105052 AATTTATTAG
105062 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
105084 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
105105 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Done.