Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 85 of 106
Found at i:32419097 original size:10 final size:8
Alignment explanation
Indices: 32419084--32419109 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32419074 CTTCTTCTTT
32419084 TGTGTGCA
1 TGTGTGCA
32419092 TGTGTGCA
1 TGTGTGCA
32419100 TGTGTGCA
1 TGTGTGCA
32419108 TG
1 TG
32419110 GTGGGCTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (8 bp):
TGTGTGCA
Found at i:32419984 original size:2 final size:2
Alignment explanation
Indices: 32419979--32420011 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32419969 AAGAGCGCAT
*
32419979 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32420012 TATTACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:32421965 original size:27 final size:27
Alignment explanation
Indices: 32421935--32421988 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
32421925 ATTAGATTTT
32421935 TTAAAATATTAATAATCT-ATAATTTAA
1 TTAAAATATTAATAAT-TAATAATTTAA
32421962 TTAAAATATTAATAATTAATAATTTAA
1 TTAAAATATTAATAATTAATAATTTAA
32421989 ATATTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
TTAAAATATTAATAATTAATAATTTAA
Found at i:32421990 original size:22 final size:23
Alignment explanation
Indices: 32421938--32422017 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 23
32421928 AGATTTTTTA
*
32421938 AAATATTAATAATCTATAATTTAATTA
1 AAATATTAATAAT-TAT-A--TAATTT
32421965 AAATATTAATAATTA-ATAATTT
1 AAATATTAATAATTATATAATTT
* * *
32421987 AAATATTAATATTTATTTACTTT
1 AAATATTAATAATTATATAATTT
32422010 AAATATTA
1 AAATATTA
32422018 TTATGATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
22 19 0.40
23 13 0.27
24 1 0.02
26 2 0.04
27 13 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATTAATAATTATATAATTT
Found at i:32422092 original size:19 final size:19
Alignment explanation
Indices: 32422059--32422159 Score: 91
Period size: 19 Copynumber: 5.2 Consensus size: 19
32422049 TTTTAAAATA
*
32422059 TTAAA-ATTTATAATTTAT
1 TTAAATATTAATAATTTAT
*
32422077 TTAAATATTAATAATTGAT
1 TTAAATATTAATAATTTAT
*
32422096 CTTAAATATTAATATTTTAT
1 -TTAAATATTAATAATTTAT
*
32422116 TTATAAT-TTAATTATTTGATT
1 TTA-AATATTAATAATTT-A-T
*
32422137 TTAAAATATTAA-ATTTTAT
1 TT-AAATATTAATAATTTAT
32422156 TTAA
1 TTAA
32422160 TTTAAATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
18 7 0.10
19 25 0.37
20 22 0.32
21 9 0.13
22 5 0.07
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAAATATTAATAATTTAT
Found at i:32422102 original size:20 final size:19
Alignment explanation
Indices: 32422059--32422148 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 19
32422049 TTTTAAAATA
* *
32422059 TTAAA-ATTTATAATTTAT
1 TTAAATATTAATAATTGAT
32422077 TTAAATATTAATAATTGAT
1 TTAAATATTAATAATTGAT
* *
32422096 CTTAAATATTAATATTTTAT
1 -TTAAATATTAATAATTGAT
*
32422116 TTATAAT-TTAATTATTTGATT
1 TTA-AATATTAA-TAATTGA-T
32422137 TTAAAATATTAA
1 TT-AAATATTAA
32422149 ATTTTATTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.08
19 18 0.30
20 26 0.43
21 6 0.10
22 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAAATATTAATAATTGAT
Found at i:32422105 original size:45 final size:45
Alignment explanation
Indices: 32422051--32422170 Score: 137
Period size: 40 Copynumber: 2.8 Consensus size: 45
32422041 TTATTTATTT
32422051 TTAAAATATTAAAATTTATAATTTATTTAAATATTAA-TAATTGATC
1 TTAAAATATTAAAATTT-T-ATTTATTTAAATATTAATTAATTGATC
* * *
32422097 TT-AAATATTAATATTTTATTTA--T-AAT-TTAATTATTTGATT
1 TTAAAATATTAAAATTTTATTTATTTAAATATTAATTAATTGATC
32422137 TTAAAATATT-AAATTTTATTTAATTTAAATATTA
1 TTAAAATATTAAAATTTTATTT-ATTTAAATATTA
32422171 TTATGATCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
39 4 0.06
40 22 0.35
41 9 0.14
43 6 0.10
44 4 0.06
45 16 0.25
46 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (45 bp):
TTAAAATATTAAAATTTTATTTATTTAAATATTAATTAATTGATC
Found at i:32422152 original size:20 final size:21
Alignment explanation
Indices: 32422079--32422157 Score: 76
Period size: 20 Copynumber: 3.9 Consensus size: 21
32422069 TAATTTATTT
* *
32422079 AAATATTAATAATTGATCTT-
1 AAATATTAATATTTGATTTTA
*
32422099 AAATATTAATATTTTA-TTTA
1 AAATATTAATATTTGATTTTA
*
32422119 TAAT-TTAATTATTTGATTTTA
1 AAATATTAA-TATTTGATTTTA
*
32422140 AAATATTAA-ATTTTATTT
1 AAATATTAATATTTGATTT
32422158 AATTTAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.12
20 31 0.65
21 7 0.15
22 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
AAATATTAATATTTGATTTTA
Found at i:32422174 original size:19 final size:19
Alignment explanation
Indices: 32422062--32422174 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 19
32422052 TAAAATATTA
*
32422062 AAAT-TTATAATTT-ATTT
1 AAATATTATTATTTAATTT
* * *
32422079 AAATATTAATAATTGATCTT
1 AAATATTATTATTTAAT-TT
* *
32422099 AAATATTAATATTTTATTT
1 AAATATTATTATTTAATTT
*
32422118 ATAAT-TTAATTATTTGATTTT
1 A-AATATT-ATTATTT-AATTT
32422139 AAAATATTAAATTTTATTTAATTT
1 -AAATATT--A--TTATTTAATTT
32422163 AAATATTATTAT
1 AAATATTATTAT
32422175 GATCAATTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
17 4 0.05
18 6 0.08
19 11 0.14
20 26 0.34
21 7 0.09
22 3 0.04
23 9 0.12
24 4 0.05
25 6 0.08
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATATTATTATTTAATTT
Found at i:32422190 original size:78 final size:84
Alignment explanation
Indices: 32422041--32422195 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 84
32422031 TTATTTTATT
32422041 TTATTTATTTTTAAAATATTAAAATTTATAATTTATTTAAATATTAATAATTGATCTTAAATATT
1 TTATTTATTTTTAAAATATTAAAATTTATAATTTATTTAAATATTAATAATTGATC-TAAATATT
32422106 AATATTTTATTTATAATTTAA
65 -ATATTTTATTTATAATTTAA
* *
32422127 TTATTTGA-TTTTAAAATATT-AAATTT-T-ATTTAATTTAAATATT-ATTA-TGATC-AATTAT
1 TTATTT-ATTTTTAAAATATTAAAATTTATAATTT-ATTTAAATATTAATAATTGATCTAAATAT
32422185 T-TATTTTATTT
64 TATATTTTATTT
32422196 TAAAATTAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
78 10 0.15
80 6 0.09
82 5 0.08
83 7 0.11
84 12 0.18
85 6 0.09
86 18 0.28
87 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (84 bp):
TTATTTATTTTTAAAATATTAAAATTTATAATTTATTTAAATATTAATAATTGATCTAAATATTA
TATTTTATTTATAATTTAA
Found at i:32423840 original size:3 final size:3
Alignment explanation
Indices: 32423832--32423867 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
32423822 ATGTCCAATG
32423832 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32423868 AAGGATATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32432580 original size:21 final size:22
Alignment explanation
Indices: 32432550--32432590 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32432540 CGCACCGACC
*
32432550 CCATCGTCGTCGTCGTTGGCTG
1 CCATCGTCGTCGTCGCTGGCTG
32432572 CCAT-GTCGTCGTCGCTGGC
1 CCATCGTCGTCGTCGCTGGC
32432591 GGCGCGTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.05, C:0.34, G:0.32, T:0.29
Consensus pattern (22 bp):
CCATCGTCGTCGTCGCTGGCTG
Found at i:32436153 original size:2 final size:2
Alignment explanation
Indices: 32436148--32436173 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32436138 CCAAAAAATA
32436148 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
32436174 TTTCATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32437382 original size:1 final size:1
Alignment explanation
Indices: 32437376--32437403 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
32437366 TGTGGGTGGG
32437376 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
32437404 ATCTTGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:32441584 original size:13 final size:13
Alignment explanation
Indices: 32441566--32441590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32441556 TTCTAAAAAA
32441566 TTTATAAAATCAT
1 TTTATAAAATCAT
32441579 TTTATAAAATCA
1 TTTATAAAATCA
32441591 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:32442859 original size:19 final size:19
Alignment explanation
Indices: 32442835--32442871 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32442825 ACATCTAAAC
32442835 CTCAAATCATACTCCAATG
1 CTCAAATCATACTCCAATG
32442854 CTCAAATCATACTCCAAT
1 CTCAAATCATACTCCAAT
32442872 AAGTCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.27
Consensus pattern (19 bp):
CTCAAATCATACTCCAATG
Found at i:32450311 original size:25 final size:25
Alignment explanation
Indices: 32450266--32450313 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
32450256 AAAGCAAAAA
*
32450266 AATAAATAAAAATGACAAAAAATAT
1 AATAAATAAAAATGAAAAAAAATAT
32450291 AATAAATAAAAAT-AAAGAAAAAT
1 AATAAATAAAAATGAAA-AAAAAT
32450314 GAAAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (25 bp):
AATAAATAAAAATGAAAAAAAATAT
Found at i:32452079 original size:18 final size:19
Alignment explanation
Indices: 32452039--32452080 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
32452029 TAAATAAATA
* * *
32452039 AATAAAATAAGTAAATAAT
1 AATAAAATAAATAAAAAAC
32452058 AATAAAA-AAATAAAAAAC
1 AATAAAATAAATAAAAAAC
32452076 AATAA
1 AATAA
32452081 CTAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AATAAAATAAATAAAAAAC
Found at i:32452264 original size:14 final size:14
Alignment explanation
Indices: 32452225--32452289 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 14
32452215 GATTGCTTAC
32452225 AAAAAATATAATAAT
1 AAAAAATA-AATAAT
*
32452240 ATAATAA-AAAT-AT
1 A-AAAAATAAATAAT
32452253 AAAAAATGAAATAAT
1 AAAAAAT-AAATAAT
*
32452268 AAATAATAAATAAT
1 AAAAAATAAATAAT
32452282 AAGAAAAT
1 AA-AAAAT
32452290 CATCAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 4 0.10
13 3 0.07
14 16 0.39
15 14 0.34
16 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:32452265 original size:28 final size:29
Alignment explanation
Indices: 32452225--32452289 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 29
32452215 GATTGCTTAC
32452225 AAAAAATATAATAATATAATAA-AAAT-AT
1 AAAAAATATAATAATA-AATAATAAATAAT
32452253 AAAAAATGA-AATAATAAATAATAAATAAT
1 AAAAAAT-ATAATAATAAATAATAAATAAT
32452282 AAGAAAAT
1 AA-AAAAT
32452290 CATCAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.15
28 18 0.55
29 5 0.15
30 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAAAATATAATAATAAATAATAAATAAT
Found at i:32452271 original size:7 final size:7
Alignment explanation
Indices: 32452229--32452283 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
32452219 GCTTACAAAA
32452229 AATATAAT
1 AATA-AAT
32452237 AATATAAT
1 AATA-AAT
32452245 AA-AAAT
1 AATAAAT
*
32452251 -ATAAAA
1 AATAAAT
32452257 AATGAAAT
1 AAT-AAAT
32452265 AATAAAT
1 AATAAAT
32452272 AATAAAT
1 AATAAAT
32452279 AATAA
1 AATAA
32452284 GAAAATCATC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 1 0.02
6 6 0.14
7 19 0.45
8 16 0.38
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:32452402 original size:21 final size:20
Alignment explanation
Indices: 32452378--32452461 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 20
32452368 AAAAATTTAG
*
32452378 AATAAAAATATAAGGTATAAA
1 AATAAAAATATAAGGAAT-AA
*
32452399 AATAATAATAATAAGGAATAA
1 AATAAAAAT-ATAAGGAATAA
* *
32452420 GATAGAAAATATAA-TAATAA
1 AATA-AAAATATAAGGAATAA
32452440 AA-AATAAA-ATAA--AATAA
1 AATAA-AAATATAAGGAATAA
32452457 AATAA
1 AATAA
32452462 TAATTAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
17 7 0.13
18 7 0.13
19 4 0.08
20 6 0.11
21 17 0.32
22 12 0.23
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
AATAAAAATATAAGGAATAA
Found at i:32452408 original size:27 final size:27
Alignment explanation
Indices: 32452378--32452464 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
32452368 AAAAATTTAG
32452378 AATAAAAATATAAGGTATA-AAAATAATAAT
1 AATAAAAA-ATAA-G-ATAGAAAAT-ATAAT
**
32452408 AATAAGGAATAAGATAGAAAATATAAT
1 AATAAAAAATAAGATAGAAAATATAAT
* *
32452435 AATAAAAAATAA-A-ATAAAATAAAAT
1 AATAAAAAATAAGATAGAAAATATAAT
32452460 AATAA
1 AATAA
32452465 TTAAATAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 15 0.30
26 1 0.02
27 18 0.36
28 6 0.12
29 4 0.08
30 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
AATAAAAAATAAGATAGAAAATATAAT
Found at i:32452448 original size:5 final size:5
Alignment explanation
Indices: 32452425--32452472 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
32452415 AATAAGATAG
* *
32452425 AAAAT ATAAT AATAA- AAAAT AAAAT AAAAT AAAAT AATAAT TAAAT AA
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AA
32452473 TAGTAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
AAAAT
Found at i:32452470 original size:11 final size:11
Alignment explanation
Indices: 32452402--32452479 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 11
32452392 GTATAAAAAT
32452402 AATAATAATAA
1 AATAATAATAA
* *
32452413 GGAATAAGATAGAA
1 --AATAATA-ATAA
32452427 AAT-ATAATAA
1 AATAATAATAA
32452437 TAA-AA-AATAA
1 -AATAATAATAA
32452447 AATAA-AATAA
1 AATAATAATAA
*
32452457 AATAATAATTA
1 AATAATAATAA
*
32452468 AATAATAGTAA
1 AATAATAATAA
32452479 A
1 A
32452480 TAAATAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
9 2 0.04
10 20 0.38
11 19 0.36
12 3 0.06
13 6 0.11
14 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (11 bp):
AATAATAATAA
Found at i:32452484 original size:25 final size:24
Alignment explanation
Indices: 32452421--32452486 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 24
32452411 AAGGAATAAG
*
32452421 ATAGAAAATATAATAATAAAAAATA
1 ATAGTAAATA-AATAATAAAAAATA
* *
32452446 A-AATAAAATAAAATAATAATTAAATA
1 ATAGT-AAAT-AAATAATAA-AAAATA
32452472 ATAGTAAATAAATAA
1 ATAGTAAATAAATAA
32452487 ATAGATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 1 0.03
25 19 0.58
26 11 0.33
27 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (24 bp):
ATAGTAAATAAATAATAAAAAATA
Found at i:32464508 original size:37 final size:37
Alignment explanation
Indices: 32464336--32464700 Score: 336
Period size: 37 Copynumber: 9.6 Consensus size: 37
32464326 ACCAAAAAAA
* * * * *
32464336 AAAGTTTTATTACCTTAGTTTTGGGGAGATCATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
* *
32464373 AAAAGTTTCATTGCCTCAATTTTGAGGAGTTCAATTTTA
1 -AAAGTTTCATTGCCTCAGTTTTGAGGAGTTC-ATTTTT
* ** *
32464412 AAAGTCTT-GTTGCCTCAGCATTGAGGAGTTCTTTTTTTTTTT
1 AAAGT-TTCATTGCCTCAGTTTTGAGGAGTTC-----ATTTTT
* * * * *
32464454 TAAGTCTCGTTGGCTCAGTTTTGAGGAGTTCATTTTA
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * * *
32464491 AAAGTCTCATTGTCTCAGCTTTGGGGAGTTTTATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAG-TTCATTTTT
* * *
32464529 AAAGTTTCATTGCCTCAATTTTGAGGAATTTATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
**
32464566 AAAGTTTCGGTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
* * *
32464603 CAAGTTTCATTACCTCAATTTTGAGGAGTTCATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
* *
32464640 AAAGTTTCAGTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
* * *
32464677 CAAGTTTCGTTGCCTCAATTTTGA
1 AAAGTTTCATTGCCTCAGTTTTGA
32464701 AGATGTTTAT
Statistics
Matches: 265, Mismatches: 54, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
37 151 0.57
38 78 0.29
39 7 0.03
41 1 0.00
42 28 0.11
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (37 bp):
AAAGTTTCATTGCCTCAGTTTTGAGGAGTTCATTTTT
Found at i:32464628 original size:74 final size:74
Alignment explanation
Indices: 32464355--32464700 Score: 372
Period size: 74 Copynumber: 4.6 Consensus size: 74
32464345 TTACCTTAGT
* *
32464355 TTTGGGGAGATCATTTTTAAAAGTTTCATTGCCTCAATTTTGAGGAGTTCAATTTTAAAAGTCTT
1 TTTGAGGAGTTCATTTTT-AAAGTTTCATTGCCTCAATTTTGAGGAGTTC-ATTTTAAAAGT-TT
32464420 --GTTGCCTCAGC
63 CAG-TGCCTCAGC
* * * * * * *
32464431 ATTGAGGAGTTCTTTTTTTTTTTTAAGTCTCGTTGGCTCAGTTTTGAGGAGTTCATTTTAAAAGT
1 TTTGAGGAGTTC-----ATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTAAAAGT
* * *
32464496 CTCATTGTCTCAGC
61 TTCAGTGCCTCAGC
* * * * * *
32464510 TTTGGGGAGTTTTATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAATTTATTTTTAAAGTTTCG
1 TTTGAGGAG-TTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTAAAAGTTTCA
*
32464575 GTGCCTCAGT
65 GTGCCTCAGC
* * *
32464585 TTTGAGGAGTTCATTTTTCAAGTTTCATTACCTCAATTTTGAGGAGTTCATTTTTAAAGTTTCAG
1 TTTGAGGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTAAAAGTTTCAG
32464650 TGCCTCAGC
66 TGCCTCAGC
* *
32464659 TTTGAGGAGTTCATTTTTCAAGTTTCGTTGCCTCAATTTTGA
1 TTTGAGGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGA
32464701 AGATGTTTAT
Statistics
Matches: 223, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
74 98 0.44
75 56 0.25
76 9 0.04
78 1 0.00
79 26 0.12
80 28 0.13
81 5 0.02
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (74 bp):
TTTGAGGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTAAAAGTTTCAG
TGCCTCAGC
Found at i:32464882 original size:21 final size:22
Alignment explanation
Indices: 32464858--32464898 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
32464848 CATCATCAAA
32464858 ACAAAAAAATA-AATAAATATG
1 ACAAAAAAATATAATAAATATG
32464879 ACAAAAAAATATAATAAATA
1 ACAAAAAAATATAATAAATA
32464899 AAAATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (22 bp):
ACAAAAAAATATAATAAATATG
Found at i:32465590 original size:2 final size:2
Alignment explanation
Indices: 32465578--32465643 Score: 89
Period size: 2 Copynumber: 33.0 Consensus size: 2
32465568 TTCGGACAAC
*
32465578 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
**
32465620 -A GA CCN GA GA GA GA GA GA GA GA GA
1 GA GA -GA GA GA GA GA GA GA GA GA GA
32465644 CCGGTGGGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.50, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32466268 original size:3 final size:3
Alignment explanation
Indices: 32466260--32466305 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
32466250 CATAAAAATT
32466260 ATA ATA ATAA ATA ATGA ATA A-A A-A ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
32466306 TAGCTTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 26 0.67
4 9 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:32466274 original size:7 final size:7
Alignment explanation
Indices: 32466262--32466303 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
32466252 TAAAAATTAT
32466262 AATAATA
1 AATAATA
*
32466269 AATAATG
1 AATAATA
*
32466276 AATAAAA
1 AATAATA
32466283 AATAAT-
1 AATAATA
32466289 AATAATA
1 AATAATA
32466296 AATAATA
1 AATAATA
32466303 A
1 A
32466304 TATAGCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AATAATA
Found at i:32466291 original size:27 final size:26
Alignment explanation
Indices: 32466253--32466305 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
32466243 TGTGAGTCAT
*
32466253 AAAAATTATAATAATAAATAATGAATA
1 AAAAATAATAATAATAAATAAT-AATA
32466280 AAAAATAATAATAATAAATAATAATA
1 AAAAATAATAATAATAAATAATAATA
32466306 TAGCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAAATAATAATAATAAATAATAATA
Found at i:32466299 original size:10 final size:10
Alignment explanation
Indices: 32466260--32466305 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
32466250 CATAAAAATT
32466260 ATAATAATAA
1 ATAATAATAA
32466270 ATAATGAAT-A
1 ATAAT-AATAA
32466280 A-AA-AAT-A
1 ATAATAATAA
32466287 ATAATAATAA
1 ATAATAATAA
32466297 ATAATAATA
1 ATAATAATA
32466306 TAGCTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 5 0.16
10 17 0.53
11 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
ATAATAATAA
Found at i:32470661 original size:22 final size:22
Alignment explanation
Indices: 32470619--32470661 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32470609 TATATGTTTA
**
32470619 TATTATATTTTTATACTAATAT
1 TATTATATTTTTATAAAAATAT
32470641 TATTAATATTTTTA-AAAAATA
1 TATT-ATATTTTTATAAAAATA
32470662 AACATTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATATTTTTATAAAAATAT
Found at i:32470965 original size:22 final size:22
Alignment explanation
Indices: 32470939--32470980 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32470929 AAAATTGACA
*
32470939 TGAAAATTATGCAAATAAATTC
1 TGAAAATTATGCAAAGAAATTC
*
32470961 TGAAAATTATTCAAAGAAAT
1 TGAAAATTATGCAAAGAAAT
32470981 CAATCTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (22 bp):
TGAAAATTATGCAAAGAAATTC
Found at i:32471725 original size:63 final size:64
Alignment explanation
Indices: 32471623--32471753 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 64
32471613 TCACTAAATA
** * *
32471623 AAAAATTATTATAGGGACAAAATTATAAAATTTTTAAAAAATAAAAATACGTTAGAAAAATTTT
1 AAAAATTATTATAGGGACAAAATTATAAAATTTCGAAAAAATAAAAATAAGTTAGAAAAAATTT
* * * * ** *
32471687 AAAAATT-TTGTAGGGGCGAAATTATAAGATTTCGAAAAAATAAAGCTAAGTTATAAAAAATTT
1 AAAAATTATTATAGGGACAAAATTATAAAATTTCGAAAAAATAAAAATAAGTTAGAAAAAATTT
32471750 AAAA
1 AAAA
32471754 TTGTTGAGGG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
63 49 0.88
64 7 0.12
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (64 bp):
AAAAATTATTATAGGGACAAAATTATAAAATTTCGAAAAAATAAAAATAAGTTAGAAAAAATTT
Found at i:32473283 original size:20 final size:23
Alignment explanation
Indices: 32473255--32473299 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
32473245 AATTCTATTT
32473255 AAACTTATAATAC-T-AAATATA
1 AAACTTATAATACATAAAATATA
*
32473276 AAAC-TATAATGCATAAAATATA
1 AAACTTATAATACATAAAATATA
32473298 AA
1 AA
32473300 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
AAACTTATAATACATAAAATATA
Found at i:32473748 original size:19 final size:19
Alignment explanation
Indices: 32473715--32473766 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
32473705 ACATATAAGT
* *
32473715 AAATAAAATAAAAATATCAA
1 AAAT-AAATATAAATAACAA
32473735 AAATAAATATAAATAACAA
1 AAATAAATATAAATAACAA
*
32473754 TAAT-AATATAAAT
1 AAATAAATATAAAT
32473767 TAAACAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 9 0.31
19 16 0.55
20 4 0.14
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATAAATATAAATAACAA
Found at i:32474698 original size:21 final size:21
Alignment explanation
Indices: 32474672--32474725 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
32474662 GATGTTAGTG
32474672 GCGACGGCGACGGC-AGCGGAA
1 GCGACGGCGACGGCTA-CGGAA
32474693 GCGACGGCGACGGCTACGGAA
1 GCGACGGCGACGGCTACGGAA
* *
32474714 GCGGCTGCGACG
1 GCGACGGCGACG
32474726 ATAATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.46, T:0.04
Consensus pattern (21 bp):
GCGACGGCGACGGCTACGGAA
Found at i:32476100 original size:18 final size:18
Alignment explanation
Indices: 32476077--32476111 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32476067 AGCATAAGTA
*
32476077 TTTGAACAAATTTAATTG
1 TTTGAACAAATATAATTG
32476095 TTTGAACAAATATAATT
1 TTTGAACAAATATAATT
32476112 CTTAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTGAACAAATATAATTG
Found at i:32476131 original size:127 final size:127
Alignment explanation
Indices: 32475907--32476137 Score: 336
Period size: 127 Copynumber: 1.8 Consensus size: 127
32475897 AACATAATTG
* * * ** * * *
32475907 TCTGTTTTCGACAAATATAATTGTTTGTTTTTCAGTATAATTATTTGAACAAATTTCATTATTTG
1 TCTGTTTTCAACAAACATAATTGTCTGTTTCCCAGCATAAGTATTTGAACAAATTTAATTATTTG
* * **
32475972 AATAAATATAATTCTTGAACAATCATGTTTGTTCAAATGTTTATTTCCAACAGATACAAGTA
66 AACAAATATAATTCTTAAACAATCATAATTGTTCAAATGTTTATTTCCAACAGATACAAGTA
*
32476034 TCTGTTTTCAACAAACATAATTGTCTGTTTCCCAGCATAAGTATTTGAACAAATTTAATTGTTTG
1 TCTGTTTTCAACAAACATAATTGTCTGTTTCCCAGCATAAGTATTTGAACAAATTTAATTATTTG
*
32476099 AACAAATATAATTCTTAAACAATCATAATTGTTGAAATG
66 AACAAATATAATTCTTAAACAATCATAATTGTTCAAATG
32476138 ACTTTCTTCC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
127 90 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (127 bp):
TCTGTTTTCAACAAACATAATTGTCTGTTTCCCAGCATAAGTATTTGAACAAATTTAATTATTTG
AACAAATATAATTCTTAAACAATCATAATTGTTCAAATGTTTATTTCCAACAGATACAAGTA
Found at i:32478949 original size:29 final size:31
Alignment explanation
Indices: 32478917--32478987 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
32478907 TTGAATATGT
32478917 CGTGTAACAATAATA-T-TTTTTCAACATAA
1 CGTGTAACAATAATATTCTTTTTCAACATAA
* * *
32478946 CGTGTAATAACAATATTCTTTTTCAATATAA
1 CGTGTAACAATAATATTCTTTTTCAACATAA
*
32478977 CATGTAACAAT
1 CGTGTAACAAT
32478988 CTTTTTTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 13 0.38
30 1 0.03
31 20 0.59
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (31 bp):
CGTGTAACAATAATATTCTTTTTCAACATAA
Found at i:32479109 original size:76 final size:74
Alignment explanation
Indices: 32478940--32479178 Score: 183
Period size: 66 Copynumber: 3.2 Consensus size: 74
32478930 TATTTTTTCA
* * * * * * *
32478940 ACATAACGTGTAATAACAATATTCTTTTTCAATATAACATGTAACAATCTTTTTTAACCATGACG
1 ACATAGCGTGTAACAACAA-ATT-TTTTTCAACATAGCATGTAACAA-C----CTAACCATGGCT
*
32479005 TGTAACATGTTTTTGT
59 TGTAACATATTTTTGT
** *
32479021 ACATAGAATGTAACAACAAGATTTTTTTTCAACATAGCATGTAACAACCTAACCATGGCTTGTTA
1 ACATAGCGTGTAACAACAA-A-TTTTTTTCAACATAGCATGTAACAACCTAACCATGGCTTGTAA
32479086 CATATTTTTGT
64 CATATTTTTGT
* * *
32479097 ACATAGCGTGTAACAAC--------TT-AACA-ATGACGTGTAATAACCTAACCATGGCTTGTCA
1 ACATAGCGTGTAACAACAAATTTTTTTCAACATA-G-CATGTAACAACCTAACCATGGCTTGTAA
32479152 CATATTTTTGT
64 CATATTTTTGT
32479163 ACATAGCGTGTAACAA
1 ACATAGCGTGTAACAA
32479179 TCTAACCATG
Statistics
Matches: 138, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
64 1 0.01
65 5 0.04
66 54 0.39
76 38 0.28
80 1 0.01
81 37 0.27
82 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (74 bp):
ACATAGCGTGTAACAACAAATTTTTTTCAACATAGCATGTAACAACCTAACCATGGCTTGTAACA
TATTTTTGT
Found at i:32479137 original size:66 final size:66
Alignment explanation
Indices: 32479060--32479243 Score: 300
Period size: 66 Copynumber: 2.8 Consensus size: 66
32479050 CAACATAGCA
*
32479060 TGTAACAACCTAACCATGGCTTGTTACATATTTTTGTACATAGCGTGTAACAA-CTTAACAATGA
1 TGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAATC-TAACAATGA
32479124 CG
65 CG
* *
32479126 TGTAATAACCTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAATCTAACCATGAC
1 TGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAATCTAACAATGAC
32479191 G
66 G
*
32479192 TGTAACAACCTAACCATGACTTGTCACATATTTTTGTACAT-GACGTGTAACA
1 TGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATAG-CGTGTAACA
32479244 TGTTTTTGTA
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
65 1 0.01
66 109 0.98
67 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (66 bp):
TGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAATCTAACAATGAC
G
Found at i:32479195 original size:21 final size:21
Alignment explanation
Indices: 32479169--32479211 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
32479159 TTGTACATAG
*
32479169 CGTGTAACAATCTAACCATGA
1 CGTGTAACAACCTAACCATGA
32479190 CGTGTAACAACCTAACCATGA
1 CGTGTAACAACCTAACCATGA
32479211 C
1 C
32479212 TTGTCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (21 bp):
CGTGTAACAACCTAACCATGA
Found at i:32479244 original size:24 final size:24
Alignment explanation
Indices: 32479206--32479268 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
32479196 ACAACCTAAC
* *
32479206 CATGACTTGTCACATATTTTTGTA
1 CATGACGTGTAACATATTTTTGTA
*
32479230 CATGACGTGTAACATGTTTTTGTA
1 CATGACGTGTAACATATTTTTGTA
*
32479254 CATGGCGTGTAACAT
1 CATGACGTGTAACAT
32479269 CATAGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
CATGACGTGTAACATATTTTTGTA
Found at i:32492097 original size:78 final size:78
Alignment explanation
Indices: 32491993--32492140 Score: 208
Period size: 78 Copynumber: 1.9 Consensus size: 78
32491983 TAACTTTAAC
*
32491993 TCTTCCTTGTAGTCAAATGATAAGTTGAGAATGAACTTCATGGCTGGAAAACAACATTTGTGTTA
1 TCTTCCTTGTAGTCAAATGATAAGTTGAGAATGAACTTCATGGCTGGAAAACAACATTGGTGTTA
32492058 TGAAGATCGACCA
66 TGAAGATCGACCA
* * * * * *
32492071 TCTTCCTTGT-GATCCAATGTTGAGTTGAGAGTGAACTTCATGGCTTGAAAACAACCTTGGTGTT
1 TCTTCCTTGTAG-TCAAATGATAAGTTGAGAATGAACTTCATGGCTGGAAAACAACATTGGTGTT
*
32492135 GTGAAG
65 ATGAAG
32492141 GTCAACCACT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.02
78 60 0.98
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (78 bp):
TCTTCCTTGTAGTCAAATGATAAGTTGAGAATGAACTTCATGGCTGGAAAACAACATTGGTGTTA
TGAAGATCGACCA
Found at i:32496862 original size:60 final size:59
Alignment explanation
Indices: 32496766--32496944 Score: 234
Period size: 60 Copynumber: 3.0 Consensus size: 59
32496756 AAACATCATC
* * * *
32496766 ACCTACTCGTGGGAACTGCTCACTCCA-CCATATATAAATTGGGGCTTCAAGTTCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCA-ATATAAATCGGGGCTTC-AGGTCCCCTTT
*
32496826 ACTTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCTCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTC-CCCTTT
* ** * *
32496886 TCCTACTCGTGGGAACTGCCCGTGCCACCCAATATGAATCAGGGCTTCAGGTCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCTTT
32496945 TACAATCAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
59 10 0.09
60 93 0.88
61 3 0.03
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (59 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCTTT
Found at i:32497724 original size:21 final size:21
Alignment explanation
Indices: 32497698--32497738 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32497688 GCTCTCCCTC
32497698 TCTCTTCTTTCT-TTCTTTTCT
1 TCTCTT-TTTCTCTTCTTTTCT
*
32497719 TCTCTTTTTTTCTTCTTTTC
1 TCTCTTTTTCTCTTCTTTTC
32497739 CAACCGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TCTCTTTTTCTCTTCTTTTCT
Found at i:32497729 original size:13 final size:14
Alignment explanation
Indices: 32497702--32497738 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
32497692 TCCCTCTCTC
32497702 TTCTT-TCTTTCTT
1 TTCTTCTCTTTCTT
32497715 TTCTTCTCTTT-TT
1 TTCTTCTCTTTCTT
32497728 TTCTTCT-TTTC
1 TTCTTCTCTTTC
32497739 CAACCGGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 5 0.23
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCTTCTCTTTCTT
Found at i:32497789 original size:34 final size:36
Alignment explanation
Indices: 32497722--32497822 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 36
32497712 CTTTTCTTCT
**
32497722 CTTTTTTTCTTCTTTTCCAACCGGCCTTCC-TTTTCC
1 CTTTTTTT-TTCTCCTCCAACCGGCCTTCCTTTTTCC
*
32497758 CTTTTTTTTTCTCCTCCAATCGGCCTT-CTTTTTCC
1 CTTTTTTTTTCTCCTCCAACCGGCCTTCCTTTTTCC
* ** *
32497793 C-TTTTTCTTCTCCTTTAACCGACCTTCCTT
1 CTTTTTTTTTCTCCTCCAACCGGCCTTCCTT
32497823 CTCTCTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
34 21 0.38
35 26 0.47
36 8 0.15
ACGTcount: A:0.07, C:0.36, G:0.05, T:0.52
Consensus pattern (36 bp):
CTTTTTTTTTCTCCTCCAACCGGCCTTCCTTTTTCC
Found at i:32497831 original size:34 final size:34
Alignment explanation
Indices: 32497717--32497869 Score: 137
Period size: 34 Copynumber: 4.5 Consensus size: 34
32497707 TCTTTCTTTT
* *
32497717 CTTCTCTTTTTTTCTTCT-TTTCCAACCGGCCTTC
1 CTTCTCTCTTTTTCTTCTCCTT-CAACCGGCCTTC
* * * * *
32497751 CTTTTCCCTTTTTTTTTCTCCTCCAATCGGCCTTC
1 CTTCTCTC-TTTTTCTTCTCCTTCAACCGGCCTTC
* * * * *
32497786 TTTTTCCCTTTTTCTTCTCCTTTAACCGACCTTC
1 CTTCTCTCTTTTTCTTCTCCTTCAACCGGCCTTC
* * *
32497820 CTTCTCTCTTTTTCTTCTCCTTCAGCGGGCCTGC
1 CTTCTCTCTTTTTCTTCTCCTTCAACCGGCCTTC
*
32497854 CTTCTCTCTCTTTCTT
1 CTTCTCTCTTTTTCTT
32497870 TCTTTCTTCT
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 67 0.71
35 27 0.28
36 1 0.01
ACGTcount: A:0.05, C:0.37, G:0.07, T:0.52
Consensus pattern (34 bp):
CTTCTCTCTTTTTCTTCTCCTTCAACCGGCCTTC
Found at i:32497897 original size:21 final size:21
Alignment explanation
Indices: 32497854--32497897 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32497844 GCGGGCCTGC
** *
32497854 CTTCTCTCTCTTTCTTTCTTT
1 CTTCTCTCTCTTTCCCTCCTT
*
32497875 CTTCTTTCTCTTTCCCTCCTT
1 CTTCTCTCTCTTTCCCTCCTT
32497896 CT
1 CT
32497898 CCTTCATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
CTTCTCTCTCTTTCCCTCCTT
Found at i:32522535 original size:2 final size:2
Alignment explanation
Indices: 32522528--32522564 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32522518 NNNNNNNNNN
32522528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32522565 ACTGTGCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32523316 original size:49 final size:49
Alignment explanation
Indices: 32523244--32523341 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
32523234 GAAGAGGTTC
*
32523244 TGATAGCTTGGAAAGCTCTACAAGTGGACTGGATTTCATTAAATTCGGA
1 TGATAGCTTGGAAAGCTCTACAAGCGGACTGGATTTCATTAAATTCGGA
*
32523293 TGATAGCTTGGGAAGCTCTACAAGCGGACTGGATTTCATTAAATTCGGA
1 TGATAGCTTGGAAAGCTCTACAAGCGGACTGGATTTCATTAAATTCGGA
32523342 AGGTGCATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
TGATAGCTTGGAAAGCTCTACAAGCGGACTGGATTTCATTAAATTCGGA
Found at i:32530172 original size:46 final size:46
Alignment explanation
Indices: 32530119--32530211 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
32530109 GCTATATGCG
*
32530119 TCACTGCTGAAGGCTGGAAGGGGAATTTGGAGAAAGTGAGCAATGT
1 TCACTGCTGAAGGCTGGAAGGGGAATTTGGAGAAAGAGAGCAATGT
*
32530165 TCACTGCTGAAGGCTGGAAGGGGAATTTGGAGAAAGAGAGCAGTGT
1 TCACTGCTGAAGGCTGGAAGGGGAATTTGGAGAAAGAGAGCAATGT
32530211 T
1 T
32530212 TGTATAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.11, G:0.38, T:0.22
Consensus pattern (46 bp):
TCACTGCTGAAGGCTGGAAGGGGAATTTGGAGAAAGAGAGCAATGT
Found at i:32539711 original size:15 final size:15
Alignment explanation
Indices: 32539670--32539711 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
32539660 TTTTGTCAAT
* *
32539670 ATAAAATTTTATTTAA
1 ATAAAAATTTA-TAAA
32539686 ATAAAAA-TTATAAA
1 ATAAAAATTTATAAA
32539700 ATAAAAATTTAT
1 ATAAAAATTTAT
32539712 TTAAATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.43
15 7 0.30
16 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAAATTTATAAA
Found at i:32542590 original size:3 final size:3
Alignment explanation
Indices: 32542582--32542607 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32542572 TGCTATTCCG
32542582 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
32542608 AATGTACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32543872 original size:17 final size:17
Alignment explanation
Indices: 32543847--32543894 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
32543837 GCTAAAATAT
*
32543847 TAAAAAAAAAAAAAATAG
1 TAAAGAAAAAAAAAA-AG
*
32543865 -AAAGAAAAACAAAAAG
1 TAAAGAAAAAAAAAAAG
32543881 TAAAGAAAATAAAA
1 TAAAGAAAA-AAAA
32543895 TAAAAGAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.80
18 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (17 bp):
TAAAGAAAAAAAAAAAG
Found at i:32543930 original size:5 final size:5
Alignment explanation
Indices: 32543920--32543949 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
32543910 CCAAAGACAG
32543920 CCCTT CCCTT CCCTT CCCTT CCCTT CCCTT
1 CCCTT CCCTT CCCTT CCCTT CCCTT CCCTT
32543950 AGCTTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CCCTT
Found at i:32557055 original size:12 final size:12
Alignment explanation
Indices: 32557038--32557067 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
32557028 AAGTCCAAAA
32557038 GAAATCCTTGAT
1 GAAATCCTTGAT
32557050 GAAATCCTTGAT
1 GAAATCCTTGAT
32557062 GAAATC
1 GAAATC
32557068 GACTGCCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (12 bp):
GAAATCCTTGAT
Found at i:32560752 original size:63 final size:63
Alignment explanation
Indices: 32560673--32560796 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
32560663 GGTCATATTT
* * *
32560673 CTCTCTCAACTTTCTGAACTGTCTCAACTTTGCCAACTCTCTGTTGAGCACCATCGTCATCAA
1 CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTGTTGAGCACCATCGTCATCAA
* * * **
32560736 CTCTCTCAGCTCTCTGAACTGTATGAGCTCTGTTAACTCTCTGTTGAGCACCATCGTCATC
1 CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTGTTGAGCACCATCGTCATC
32560797 GGGCTGTGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (63 bp):
CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTGTTGAGCACCATCGTCATCAA
Found at i:32561195 original size:31 final size:31
Alignment explanation
Indices: 32561148--32561375 Score: 294
Period size: 31 Copynumber: 7.4 Consensus size: 31
32561138 GTGTTAGCGT
**
32561148 TGGCGTGTTATAACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
32561179 TGACGTTTTACCACATTTTACGTTATATACA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * * *
32561210 TGGCATGTTACCACATATTATGTTATATACA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
32561241 TGGCATGTTACCACATATTATGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
**
32561272 TGGCGTGTTACCACATCCTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
32561303 TGGCGTGTTACCACATTTTACGTTAGATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
32561334 TTGTGTGTTACCACATTATACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
32561365 TGGCGTGTTAC
1 TGGCGTGTTAC
32561376 ACCATGATTG
Statistics
Matches: 173, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 173 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACCACATTTTACGTTATATGCA
Found at i:32561219 original size:16 final size:16
Alignment explanation
Indices: 32561200--32561250 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
32561190 CACATTTTAC
32561200 GTTATATACATGGCAT
1 GTTATATACATGGCAT
** ***
32561216 GTTA-CCACATATTAT
1 GTTATATACATGGCAT
32561231 GTTATATACATGGCAT
1 GTTATATACATGGCAT
32561247 GTTA
1 GTTA
32561251 CCACATATTA
Statistics
Matches: 24, Mismatches: 10, Indels: 2
0.67 0.28 0.06
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (16 bp):
GTTATATACATGGCAT
Found at i:32561232 original size:15 final size:15
Alignment explanation
Indices: 32561214--32561265 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
32561204 TATACATGGC
32561214 ATGTTACCACATATT
1 ATGTTACCACATATT
** ***
32561229 ATGTTATATACATGGC
1 ATGTTA-CCACATATT
32561245 ATGTTACCACATATT
1 ATGTTACCACATATT
32561260 ATGTTA
1 ATGTTA
32561266 TATGCATGGC
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (15 bp):
ATGTTACCACATATT
Found at i:32571483 original size:118 final size:118
Alignment explanation
Indices: 32571126--32571883 Score: 869
Period size: 118 Copynumber: 6.4 Consensus size: 118
32571116 ATGTCAATGA
** ** * * *
32571126 CATCTTGTGGTGACACTTTGAGTGGAAGAAGATACTTGGTGTGACACGCTGAGTGCATGTATATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * *
32571191 TCTATGGTGACACGCTGACTTTTTACTGTATTGTGGGGTGACACGGCACGCCT
66 TCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
* *
32571244 TATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACAC-CTGAGTGCATGTAGATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * *
32571308 T-TAGTGGTGACCCGTTGACTTCTTGCTGTATTGTGGGGTGACACGACACGCCC
66 TCT-GTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
** * * *
32571361 CATCTTGTGGTGACACGCTGAGTGGAACCAGATTGTTAGCATGACACGCTGAGGGCATGCAGATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * * * *
32571426 TCTGTGGTGACATGCTGACTTCTTGCAGTATTATGGGGTGATACGGCATGCCT
66 TCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
* * * * * * *
32571479 CATCTTGTGCTGACAAGCTGAGTGAAACCAAATACTTGGCGTGACACGCTAAATGCATGTAGATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * * *
32571544 TCTGTGGTGACACGCTAACTTCTTGCTTTATTGTGGGGTTACATGGCATGCCC
66 TCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
* * * *
32571597 CATCTTGTGGTGACACGCTGAGTGGAACTAGATACTTGACGTGACATGTTGAGTGCATGCAGATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * ** *
32571662 TCTGTGGTGATC-CGCTGACTTCTTACTGTATTGTGGGGTGACGCAACATGCCC
66 TCTGTGGTGA-CACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
* * * * * * *
32571715 CATTTTGTGGTGACACGCTGAATGAAACTAGATACTTGGCATGACATGCTGAGTGCATGCAAATT
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * *
32571780 T-TTTAGGTGACTCACTGACTTCTTGTTGTATTGTGGGGTGACACGGCACGCCC
66 TCTGT-GGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
* * * * * *
32571833 CA-ATTATGGTGACACCCTGAATGGAACCAGATATTTGGCGTGACATGCTGA
1 CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGA
32571884 CTTGTTCCAG
Statistics
Matches: 542, Mismatches: 92, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
116 1 0.00
117 147 0.27
118 392 0.72
119 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (118 bp):
CATCTTGTGGTGACACGCTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
TCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGACACGGCACGCCC
Found at i:32575575 original size:31 final size:31
Alignment explanation
Indices: 32575533--32575822 Score: 375
Period size: 31 Copynumber: 9.4 Consensus size: 31
32575523 ACCCATAATA
*
32575533 TGGTAATACGCCATGCATATAACGTAGAA-TG
1 TGGTAACACGCCATGCATATAACGTA-AACTG
* *
32575564 TGGTAACACGCCATGCATATAATGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAACTG
*
32575595 TGGTAACACGCCATGCATGTAACGTAAACTG
1 TGGTAACACGCCATGCATATAACGTAAACTG
* * *
32575626 TGGTAACACGCCATGCACATAGCGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAACTG
* * *
32575657 TGCTAACACGCCATACATATAACGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAACTG
* * *
32575688 TGGTAACACACCATGCATATAACGTAAATTC
1 TGGTAACACGCCATGCATATAACGTAAACTG
* * *
32575719 TGGTAACACACCATGCACATAACGTAAACTC
1 TGGTAACACGCCATGCATATAACGTAAACTG
*
32575750 TGGTAACACGCCATGCACATAACGTAAACTG
1 TGGTAACACGCCATGCATATAACGTAAACTG
* * * *
32575781 TGATAACATGCCATGTATATAACATAAACTG
1 TGGTAACACGCCATGCATATAACGTAAACTG
32575812 TGGTAACACGC
1 TGGTAACACGC
32575823 TAACGTTGAC
Statistics
Matches: 229, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
30 2 0.01
31 227 0.99
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (31 bp):
TGGTAACACGCCATGCATATAACGTAAACTG
Found at i:32576261 original size:7 final size:7
Alignment explanation
Indices: 32576249--32576273 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32576239 GCTATATTTG
32576249 GGAATGA
1 GGAATGA
32576256 GGAATGA
1 GGAATGA
32576263 GGAATGA
1 GGAATGA
32576270 GGAA
1 GGAA
32576274 GAACGCAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
GGAATGA
Found at i:32576579 original size:47 final size:47
Alignment explanation
Indices: 32576512--32576620 Score: 164
Period size: 47 Copynumber: 2.3 Consensus size: 47
32576502 ACAAACTGTT
** * *
32576512 AACGCTGGCATGTCATAGATTCCCTTCATGGCGTGTCACCAACTCTG
1 AACGCTGGTGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTG
*
32576559 AACGTTGGTGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTG
1 AACGCTGGTGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTG
*
32576606 AATGCTGGTGTGTCA
1 AACGCTGGTGTGTCA
32576621 TAGTCGTGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (47 bp):
AACGCTGGTGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTG
Found at i:32576661 original size:58 final size:58
Alignment explanation
Indices: 32576568--32576771 Score: 178
Period size: 58 Copynumber: 3.5 Consensus size: 58
32576558 GAACGTTGGT
* * * * * ** *
32576568 GTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTGAATGCTGGT-GTGTCATAGTC
1 GTGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCT-GTCGTGTCATAGCC
32576626 GTGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCTGTCGTGTCATAGCC
1 GTGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCTGTCGTGTCATAGCC
* * * * * * ** **
32576684 ATGTCACACATT-CCAACATGTCGTGTCATAAACTCCAAACACTACCGTGTCACGGCC
1 GTGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCTGTCGTGTCATAGCC
* * * * *
32576741 ATGCCACACATTCCCAACTTGTCGTGTCACA
1 GTGTCACACATTCCCACCATGACGTGTCACA
32576772 CATTCCCAAG
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 49 0.40
58 74 0.60
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (58 bp):
GTGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCTGTCGTGTCATAGCC
Found at i:32576742 original size:57 final size:58
Alignment explanation
Indices: 32576627--32576771 Score: 184
Period size: 57 Copynumber: 2.5 Consensus size: 58
32576617 GTCATAGTCG
* * * * ** *
32576627 TGTCACACATTCCCACCATGACGTGTCACAAACTCTAAACCCTGTCGTGTCATAGCCA
1 TGTCACACATTCCCAACATGTCGTGTCACAAACTCCAAACACTACCGTGTCACAGCCA
* *
32576685 TGTCACACATT-CCAACATGTCGTGTCATAAACTCCAAACACTACCGTGTCACGGCCA
1 TGTCACACATTCCCAACATGTCGTGTCACAAACTCCAAACACTACCGTGTCACAGCCA
* *
32576742 TGCCACACATTCCCAACTTGTCGTGTCACA
1 TGTCACACATTCCCAACATGTCGTGTCACA
32576772 CATTCCCAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 47 0.64
58 27 0.36
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (58 bp):
TGTCACACATTCCCAACATGTCGTGTCACAAACTCCAAACACTACCGTGTCACAGCCA
Found at i:32576793 original size:23 final size:23
Alignment explanation
Indices: 32576745--32576794 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
32576735 ACGGCCATGC
* *
32576745 CACACATTCCCAACTTGTCGTGT
1 CACACATTCCCAACATGCCGTGT
* *
32576768 CACACATTCCCAAGATGCCGTTT
1 CACACATTCCCAACATGCCGTGT
32576791 CACA
1 CACA
32576795 AACTCTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.36, G:0.12, T:0.26
Consensus pattern (23 bp):
CACACATTCCCAACATGCCGTGT
Found at i:32577142 original size:14 final size:14
Alignment explanation
Indices: 32577123--32577149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32577113 ACGATAATTC
32577123 AGAAGATGGCTCAA
1 AGAAGATGGCTCAA
32577137 AGAAGATGGCTCA
1 AGAAGATGGCTCA
32577150 TTAAGGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.30, T:0.15
Consensus pattern (14 bp):
AGAAGATGGCTCAA
Found at i:32578338 original size:36 final size:36
Alignment explanation
Indices: 32578298--32578375 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
32578288 CGAACACTTA
32578298 GTATAAACTCATGGAACATGGAGTACTTCTTATCCC
1 GTATAAACTCATGGAACATGGAGTACTTCTTATCCC
32578334 GTATAAACTCATGGAACATGGAGTACTTCTTATCCC
1 GTATAAACTCATGGAACATGGAGTACTTCTTATCCC
*
32578370 ATATAA
1 GTATAA
32578376 CACGGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (36 bp):
GTATAAACTCATGGAACATGGAGTACTTCTTATCCC
Found at i:32579005 original size:30 final size:30
Alignment explanation
Indices: 32578969--32579032 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
32578959 ATCATCTTCA
*
32578969 TCATGATTTCTATGATCATTTTGACTCTCT
1 TCATGATTTCTATGATCATTTTGAATCTCT
32578999 TCATGATTTCTATGATCATTTTGAATCTCT
1 TCATGATTTCTATGATCATTTTGAATCTCT
32579029 TCAT
1 TCAT
32579033 TAACTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (30 bp):
TCATGATTTCTATGATCATTTTGAATCTCT
Found at i:32588018 original size:22 final size:23
Alignment explanation
Indices: 32587993--32588055 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
32587983 GATTTTAAAT
32587993 ATTTAATA-ATTAAATTAATCAA
1 ATTTAATATATTAAATTAATCAA
* * *
32588015 ATTT-ATATTTTGAATTAATTAA
1 ATTTAATATATTAAATTAATCAA
* *
32588037 ATTT-ATATTTTAAAATAAT
1 ATTTAATATATTAAATTAAT
32588056 TGAAATCGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTAATATATTAAATTAATCAA
Found at i:32588056 original size:22 final size:22
Alignment explanation
Indices: 32588002--32588061 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
32587992 TATTTAATAA
*
32588002 TTAAATTAATCAAATTTATATT
1 TTAAATTAATTAAATTTATATT
*
32588024 TTGAATTAATTAAATTTATATT
1 TTAAATTAATTAAATTTATATT
*
32588046 TTAAAATAATTGAAAT
1 TTAAATTAATT-AAAT
32588062 CGAATTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
TTAAATTAATTAAATTTATATT
Found at i:32588237 original size:13 final size:13
Alignment explanation
Indices: 32588219--32588246 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32588209 TAAAAATATT
32588219 AAAAATTATAATA
1 AAAAATTATAATA
32588232 AAAAATTATAATA
1 AAAAATTATAATA
32588245 AA
1 AA
32588247 TCAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTATAATA
Found at i:32588401 original size:28 final size:27
Alignment explanation
Indices: 32588349--32588402 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
32588339 ATTTAAATTC
*
32588349 AATTAAAAAATTTTCAAACTGAAACTG
1 AATTAAAAAATTTTAAAACTGAAACTG
*
32588376 AATTAAATTAATTTTAATAACT-AAACT
1 AATTAAA-AAATTTTAA-AACTGAAACT
32588403 ATTCAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 12 0.52
29 4 0.17
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (27 bp):
AATTAAAAAATTTTAAAACTGAAACTG
Found at i:32590818 original size:29 final size:29
Alignment explanation
Indices: 32590786--32590845 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
32590776 TCTTTTTTGT
*
32590786 TATGCTTACATGTGGTATAAAGAAAAAAC
1 TATGCGTACATGTGGTATAAAGAAAAAAC
32590815 TATGCGTACATGTGGTATAAAGAAAAAAC
1 TATGCGTACATGTGGTATAAAGAAAAAAC
32590844 TA
1 TA
32590846 ACATATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (29 bp):
TATGCGTACATGTGGTATAAAGAAAAAAC
Found at i:32591288 original size:22 final size:21
Alignment explanation
Indices: 32591261--32591319 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
32591251 TAAAAAATTA
*
32591261 TATTAAAATTTTAATTATCAAT
1 TATTAAAATTTTAA-TATAAAT
*
32591283 TATTAATATTTTAA-ATAAAT
1 TATTAAAATTTTAATATAAAT
* *
32591303 TTTTAAAAATTTAATAT
1 TATTAAAATTTTAATAT
32591320 TTCAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 13 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAAAATTTTAATATAAAT
Found at i:32591453 original size:76 final size:75
Alignment explanation
Indices: 32591251--32591615 Score: 269
Period size: 74 Copynumber: 4.9 Consensus size: 75
32591241 AGGAAAGAAA
* *
32591251 TAAAAAATTATATTAAAATTTTAATTATCAATTATTAATATTTTAAATAAAT-TTTTAAAAATTT
1 TAAAAAA-TATATT-AAATTTTAATTATAAATTATTAATATTTTAAATAAATATTATAAAAATTT
32591315 AATATTTCAAAT
64 AATATTTCAAAT
* * *
32591327 TAAAAAATATATTAAAATTTAATTATAAATTATTGATATTTTTAAA-AAATATTAT-GAAA-TTA
1 TAAAAAATATATTAAATTTTAATTATAAATTATTAATA-TTTTAAATAAATATTATAAAAATTTA
32591389 ATATTTCAAATT
65 ATATTTCAAA-T
* *
32591401 TAAAAAATCATATTAAAGTTTTGATTATAAACTATTAATATTTTAAAT-AA-A-TA-AAAAA--T
1 TAAAAAAT-ATATTAAA-TTTTAATTATAAATTATTAATATTTTAAATAAATATTATAAAAATTT
* * *
32591460 AATAATTGAAAA
64 AATATTTCAAAT
**** * * * * *
32591472 TAAATAACCGCATTAAAATTTTTATTAAAAATTCA-TAACATTTTTAATAAATA-TA-AAAAAAT
1 TAAA-AAATATATT-AAATTTTAATTATAAATT-ATTAATATTTTAAATAAATATTATAAAAATT
*
32591534 TAACATTTCAAAT
63 TAATATTTCAAAT
* ** * * *
32591547 TAAAATCATAT-TTATTTTTTATTTAT-GATTATTAATAATTTAAATAAA-A-TATAAAAAAGTT
1 TAAAA-AATATATTAAATTTTAATTATAAATTATTAATATTTTAAATAAATATTAT-AAAAA-TT
32591608 TAATATTT
63 TAATATTT
32591616 TATAATAAAA
Statistics
Matches: 228, Mismatches: 42, Indels: 40
0.74 0.14 0.13
Matches are distributed among these distances:
71 34 0.15
72 34 0.15
73 39 0.17
74 50 0.22
75 46 0.20
76 25 0.11
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (75 bp):
TAAAAAATATATTAAATTTTAATTATAAATTATTAATATTTTAAATAAATATTATAAAAATTTAA
TATTTCAAAT
Found at i:32591643 original size:31 final size:29
Alignment explanation
Indices: 32591574--32591644 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 29
32591564 TTTATTTATG
32591574 ATTATTAATAATTTAAATAAAATATAAAAA
1 ATTA-TAATAATTTAAATAAAATATAAAAA
* * *
32591604 AGTT-TAATATTTTATAATAAAAATATCATAA
1 A-TTATAATAATTTA-AAT-AAAATATAAAAA
32591635 ATTATAATAA
1 ATTATAATAA
32591645 AAACTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
29 9 0.27
30 6 0.18
31 18 0.55
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTATAATAATTTAAATAAAATATAAAAA
Found at i:32607094 original size:21 final size:22
Alignment explanation
Indices: 32607068--32607110 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
32607058 CTACAAATAT
*
32607068 ATAATAAAAA-TAAAAATAGTA
1 ATAATAAAAAGGAAAAATAGTA
32607089 ATAATAAAAAGGAAAAATAGTA
1 ATAATAAAAAGGAAAAATAGTA
32607111 GTGGTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAATAAAAAGGAAAAATAGTA
Found at i:32607330 original size:15 final size:15
Alignment explanation
Indices: 32607310--32607341 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32607300 AAAAATTAAT
*
32607310 TAAAAAAATAATAAA
1 TAAAAAAATAAAAAA
32607325 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
32607340 TA
1 TA
32607342 GATGCTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:32607596 original size:21 final size:19
Alignment explanation
Indices: 32607561--32607624 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
32607551 AAAGGATAAA
*
32607561 AAAATAATAATAATAAATAGAT
1 AAAA-AATAAAAATAAA-A-AT
32607583 AAAAAATAAAAATAAAAAT
1 AAAAAATAAAAATAAAAAT
32607602 -AAAAATAATAAATTAAAAAT
1 AAAAAATAA-AAA-TAAAAAT
32607622 AAA
1 AAA
32607625 CTTCACAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
20 8 0.21
21 13 0.34
22 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAAATAAAAATAAAAAT
Found at i:32607624 original size:6 final size:6
Alignment explanation
Indices: 32607560--32607624 Score: 69
Period size: 6 Copynumber: 10.5 Consensus size: 6
32607550 AAAAGGATAA
* * *
32607560 AAAAAT AATAAT AATAAAT AGATA- AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
32607608 AATAAATT AAAAAT AAA
1 AA-AAA-T AAAAAT AAA
32607625 CTTCACAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 3 0.06
6 33 0.67
7 10 0.20
8 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:32609062 original size:32 final size:31
Alignment explanation
Indices: 32608995--32609081 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 31
32608985 NNNTAATTAG
*
32608995 AAATAAAATAGAAAATATGATAA-TAAAAAATA
1 AAATAAAATA-AAAATA-GATAATTAAAAAAAA
32609027 AAATAAAATAAAAATA-ATAATTAAATAATAAA
1 AAATAAAATAAAAATAGATAATTAAA-AA-AAA
*
32609059 AAATGACAA-AAAAATAGATAATT
1 AAAT-AAAATAAAAATAGATAATT
32609082 GCATTAGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
29 4 0.08
30 4 0.08
31 8 0.17
32 23 0.48
33 9 0.19
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (31 bp):
AAATAAAATAAAAATAGATAATTAAAAAAAA
Found at i:32611795 original size:2 final size:2
Alignment explanation
Indices: 32611788--32611813 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32611778 CAGAAGTTTT
32611788 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
32611814 AAGTAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32612784 original size:15 final size:14
Alignment explanation
Indices: 32612745--32612784 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
32612735 AGGTTAGAAT
*
32612745 TTAGTTATTTTTTA
1 TTAGTTAATTTTTA
*
32612759 TTAGTTTATTTTTA
1 TTAGTTAATTTTTA
32612773 TTAAGTTAATTT
1 TT-AGTTAATTT
32612785 AACTTTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (14 bp):
TTAGTTAATTTTTA
Found at i:32613462 original size:13 final size:13
Alignment explanation
Indices: 32613444--32613469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32613434 TTTGTTCTTA
32613444 ATGCTTTTAATTG
1 ATGCTTTTAATTG
32613457 ATGCTTTTAATTG
1 ATGCTTTTAATTG
32613470 TCTGATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
ATGCTTTTAATTG
Found at i:32614000 original size:26 final size:27
Alignment explanation
Indices: 32613962--32614017 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
32613952 ATAAAACTAA
*
32613962 ATTGTTTTAATTTTAGTACTTAGTTAT
1 ATTGTTTTAATTTTAGTACTTAGTAAT
32613989 ATTG-TTTAATTTTAGTACTTAGTAAT
1 ATTGTTTTAATTTTAGTACTTAGTAAT
32614015 ATT
1 ATT
32614018 CTAAATCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.57
Consensus pattern (27 bp):
ATTGTTTTAATTTTAGTACTTAGTAAT
Found at i:32617016 original size:20 final size:20
Alignment explanation
Indices: 32616972--32617009 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32616962 ACAGTCTCTA
*
32616972 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
32616992 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
32617010 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:32619188 original size:95 final size:95
Alignment explanation
Indices: 32619025--32619307 Score: 469
Period size: 95 Copynumber: 3.0 Consensus size: 95
32619015 GTGAAGGTAG
* *
32619025 ATAGTCAACCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCATAAAGAAAGCGTCT
1 ATAGTCGACCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCATAGAGAAAGCGTCT
32619090 CTAAATTTTTTCAAGTTTTTCCTTAATACC
66 CTAAATTTTTTCAAGTTTTTCCTTAATACC
* * *
32619120 ATAGTCGGCCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCTTAGAGAAAGCGTAT
1 ATAGTCGACCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCATAGAGAAAGCGTCT
32619185 CTAAA-TTTTTCAAGTTTTTCCTTAATACC
66 CTAAATTTTTTCAAGTTTTTCCTTAATACC
* * *
32619214 ATAGTCGACCAATCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCCTAGAGAAAGCTTCT
1 ATAGTCGACCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCATAGAGAAAGCGTCT
* *
32619279 TTGAATTTTTTCAAGTTTTTCCTTAATAC
66 CTAAATTTTTTCAAGTTTTTCCTTAATAC
32619308 TAGTGGGCAT
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 87 0.50
95 88 0.50
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (95 bp):
ATAGTCGACCAGTCGACAAGGTGCATCTTCCTATTCCCTTGTGATCCACCATAGAGAAAGCGTCT
CTAAATTTTTTCAAGTTTTTCCTTAATACC
Found at i:32622707 original size:40 final size:40
Alignment explanation
Indices: 32622653--32622756 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 40
32622643 ACCCAGCTCA
* * * *
32622653 TGTACGTCCTCCCACATTGTGCACATAACCGGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAACCAGCGCCATCG
* * *
32622693 TGTGCATCCCCCCACATCGTGCAC--AATCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAACCAGCGCCATCG
*
32622731 TGTACATCCCCCCACATCATGCACAT
1 TGTACATCCCCCCACATCGTGCACAT
32622757 GAGCACTATC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
38 33 0.62
40 20 0.38
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.22
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAACCAGCGCCATCG
Found at i:32622748 original size:19 final size:19
Alignment explanation
Indices: 32622688--32622748 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
32622678 TAACCGGCGC
*
32622688 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
32622707 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
32622726 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
32622745 CATC
1 CATC
32622749 ATGCACATGA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.21, C:0.43, G:0.15, T:0.21
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:32622877 original size:2 final size:2
Alignment explanation
Indices: 32622866--32622914 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
32622856 AATCATCATG
32622866 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32622907 CA CA CA CA
1 CA CA CA CA
32622915 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32627914 original size:15 final size:15
Alignment explanation
Indices: 32627894--32627930 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
32627884 TCTTGAAACG
32627894 AAACCTATAATTTCA
1 AAACCTATAATTTCA
* *
32627909 AAACCTATACTTTCC
1 AAACCTATAATTTCA
32627924 AAACCTA
1 AAACCTA
32627931 GTCCATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (15 bp):
AAACCTATAATTTCA
Found at i:32628920 original size:30 final size:30
Alignment explanation
Indices: 32628858--32628927 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
32628848 TGCGACATTT
*
32628858 TGATGACGTGACATGCCACGTGGCACACAG
1 TGATGACATGACATGCCACGTGGCACACAG
*
32628888 TGATGACATGACATGCCACGTGGCATC-GAG
1 TGATGACATGACATGCCACGTGGCA-CACAG
32628918 TGATGACATG
1 TGATGACATG
32628928 GTAATGCCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (30 bp):
TGATGACATGACATGCCACGTGGCACACAG
Found at i:32629220 original size:2 final size:2
Alignment explanation
Indices: 32629215--32629254 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32629205 TATGATGTTA
32629215 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
32629255 TCTTACTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32629830 original size:108 final size:108
Alignment explanation
Indices: 32629619--32629827 Score: 330
Period size: 107 Copynumber: 1.9 Consensus size: 108
32629609 TAAAATGACT
* * * *
32629619 AAATATGTTGATTTAGTTATAACTTTCGCAATTTACTAATACACATTCTTTTAAAATTATTGAAC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
32629684 TCTTACCCAATCTACCTTTTATTTAAATTTACTCAAATTAGCA
66 TCTTACCCAATCTACCTTTTATTTAAATTTACTCAAATTAGCA
**
32629727 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATT-TTTTGCAATTATTCAAC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
* * *
32629791 TCTTACCCAATTTTCTTTTTATTTAAATTTACTCAAA
66 TCTTACCCAATCTACCTTTTATTTAAATTTACTCAAA
32629828 ATTTCTTACT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 48 0.52
108 44 0.48
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.44
Consensus pattern (108 bp):
AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
TCTTACCCAATCTACCTTTTATTTAAATTTACTCAAATTAGCA
Found at i:32630528 original size:195 final size:197
Alignment explanation
Indices: 32630320--32630686 Score: 569
Period size: 195 Copynumber: 1.9 Consensus size: 197
32630310 TTAGTCATTT
* *
32630320 TATATTATTTTATGTTAATGTAATATAAGTTATTCATCTAAATTTGATTTCAGATATG-AATTTT
1 TATATTATTTTATGTTAAAGTAATATAAGTTATTCATCTAAATTTGACTTCAG-TATGAAATTTT
*
32630384 TTT-AAAAAAATTTTTTATAGAAGGAGTATTCAAACTTAATTTTTGTAAAAAATATAAATTAATT
65 TTTCAAAAAAATTTTTTATAAAAGGAGTATTCAAACTTAATTTTTGTAAAAAATATAAATTAATT
32630448 T-CATATTCTACAATCAAATAATCAAGTAAGAAAATATTTATACATTTAAATTTATAGTGTTAAA
130 TACATATTCTACAATCAAATAATCAAGTAAGAAAATATTTATACATTTAAATTTATAGTGTTAAA
32630512 AAA
195 AAA
* * *
32630515 TATATTGTTTTATGTTAAAGTAATGTAAGTTATTCATCTAAATTTGACTTCCGTATGAAATTTTT
1 TATATTATTTTATGTTAAAGTAATATAAGTTATTCATCTAAATTTGACTTCAGTATGAAATTTTT
***** * *
32630580 TTCAATTTTTTTTTTTATAAAATGAGTATTCAAACTTAATTTTTTTAAAAAATATAAATTAATTT
66 TTCAAAAAAATTTTTTATAAAAGGAGTATTCAAACTTAATTTTTGTAAAAAATATAAATTAATTT
* *
32630645 ACATATTCTAGAATCAAATAATCAAGTAAGAAACTATTTATA
131 ACATATTCTACAATCAAATAATCAAGTAAGAAAATATTTATA
32630687 TATATATATA
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
194 4 0.03
195 57 0.37
196 54 0.35
197 39 0.25
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (197 bp):
TATATTATTTTATGTTAAAGTAATATAAGTTATTCATCTAAATTTGACTTCAGTATGAAATTTTT
TTCAAAAAAATTTTTTATAAAAGGAGTATTCAAACTTAATTTTTGTAAAAAATATAAATTAATTT
ACATATTCTACAATCAAATAATCAAGTAAGAAAATATTTATACATTTAAATTTATAGTGTTAAAA
AA
Found at i:32631321 original size:26 final size:27
Alignment explanation
Indices: 32631263--32631327 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 27
32631253 ATCATTACAA
*
32631263 ATGTAAA-AAAAAAATAAAGATATAAT
1 ATGTAAATAAAATAATAAAGATATAAT
* *
32631289 -TAT-AATAAAATAAT-AGGATATAAT
1 ATGTAAATAAAATAATAAAGATATAAT
32631313 ATGTAAATAAAATAA
1 ATGTAAATAAAATAA
32631328 GAAGATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 11 0.34
25 11 0.34
26 10 0.31
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (27 bp):
ATGTAAATAAAATAATAAAGATATAAT
Found at i:32632624 original size:5 final size:6
Alignment explanation
Indices: 32632597--32632622 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32632587 TTATATTAAG
32632597 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
32632623 TATATAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:32632683 original size:27 final size:27
Alignment explanation
Indices: 32632550--32632685 Score: 86
Period size: 27 Copynumber: 5.1 Consensus size: 27
32632540 TTAGTTTTTA
* * *
32632550 AATAAAAAAATTAA-AATAAGATATAT
1 AATATAAAAATTAATAATAAAAAATAT
* *
32632576 AATATGAAAAATT-ATATTAAGAAATA-
1 AATAT-AAAAATTAATAATAAAAAATAT
* * *
32632602 AAAATAAAAA-TAAAAATAAAATATAT
1 AATATAAAAATTAATAATAAAAAATAT
* *
32632628 AACATTAAAAA-T-ATATTTAAAAATGATAT
1 AATA-TAAAAATTAATA-ATAAAAA--ATAT
*
32632657 TATATAAAAATTAATAATAAAAAATAT
1 AATATAAAAATTAATAATAAAAAATAT
32632684 AA
1 AA
32632686 ATATGTTAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
24 1 0.01
25 14 0.17
26 14 0.17
27 33 0.39
28 6 0.07
29 13 0.15
30 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
AATATAAAAATTAATAATAAAAAATAT
Found at i:32635354 original size:25 final size:23
Alignment explanation
Indices: 32635316--32635362 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
32635306 GAATTTTGCA
*
32635316 AAAGAAAATAAAAGGAAAAAATT
1 AAAGAAAATAAAAGAAAAAAATT
32635339 AAAGAAAGGATAAAAGAAAAAAAT
1 AAAGAAA--ATAAAAGAAAAAAAT
32635363 AGTAACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (23 bp):
AAAGAAAATAAAAGAAAAAAATT
Found at i:32638179 original size:2 final size:2
Alignment explanation
Indices: 32638172--32638209 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
32638162 TCCAAAGTTA
32638172 AT AT AT AT A- AT -T AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32638210 AAATTAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32638215 original size:31 final size:31
Alignment explanation
Indices: 32638172--32638231 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
32638162 TCCAAAGTTA
*
32638172 ATATATATAATTATAT-ATATATA-TTATATAT
1 ATATATAAAATTA-ATGATATA-ACTTATATAT
32638203 ATATATAAAATTAATGATATAACTTATAT
1 ATATATAAAATTAATGATATAACTTATAT
32638232 GTTATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATATAAAATTAATGATATAACTTATATAT
Found at i:32640863 original size:20 final size:19
Alignment explanation
Indices: 32640816--32640864 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
32640806 TATTTTATGA
* *
32640816 GAATTTTATGAAATAAATT
1 GAATTTTATAAAATAAACT
32640835 GAA-TTTATAAAATAAACT
1 GAATTTTATAAAATAAACT
32640853 GAATTTTTATAA
1 GAA-TTTTATAA
32640865 GTTGATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 3 0.12
20 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (19 bp):
GAATTTTATAAAATAAACT
Found at i:32642356 original size:31 final size:31
Alignment explanation
Indices: 32642321--32642584 Score: 368
Period size: 31 Copynumber: 8.5 Consensus size: 31
32642311 GTGTCAGCGT
* *
32642321 TGGCGTGTTATAATATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
32642352 TGGCGTGTTACAACATTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
32642383 CGGCGTGTTACCACATTTTCCGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
32642414 TGGTGTGTTATGAA-ATTTTACCTTATATGCA
1 TGGCGTGTTA-CAACATTTTACGTTATATGCA
*
32642445 TGGTGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
32642476 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
32642507 TAGCGTGTTACAACATTTTACGTTTTATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
32642538 TGACGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
32642569 TGGCATGTTACAACAT
1 TGGCGTGTTACAACAT
32642585 GACTGACAAA
Statistics
Matches: 204, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
30 2 0.01
31 201 0.99
32 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:32642801 original size:36 final size:36
Alignment explanation
Indices: 32642758--32642830 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
32642748 GGGGGTTAGG
*
32642758 AGTGATTTGTCGTTTGTGGGATTAATGACGCTGGTT
1 AGTGATTTGTCGTTTGTGGGATTAATGAAGCTGGTT
* *
32642794 AGTGATTTGTCGTTTGTGGGATTGATGAAGGTGGTT
1 AGTGATTTGTCGTTTGTGGGATTAATGAAGCTGGTT
32642830 A
1 A
32642831 AAGATGTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (36 bp):
AGTGATTTGTCGTTTGTGGGATTAATGAAGCTGGTT
Found at i:32646475 original size:56 final size:56
Alignment explanation
Indices: 32646389--32646512 Score: 194
Period size: 56 Copynumber: 2.2 Consensus size: 56
32646379 GACTTCTGTA
* * * *
32646389 GTGACACACTAACTTCTTGCATTATTGTAGGGTGACACGGCACACCCCATCTTGTG
1 GTGACACGCTGACTTCTTGCATTATTGTAGGGTGACACAGCACACCCCACCTTGTG
* *
32646445 GTGACATGCTGACTTCTTGCATTATTGTAGGGTGACACAGCACGCCCCACCTTGTG
1 GTGACACGCTGACTTCTTGCATTATTGTAGGGTGACACAGCACACCCCACCTTGTG
32646501 GTGACACGCTGA
1 GTGACACGCTGA
32646513 GTGGAACCAG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (56 bp):
GTGACACGCTGACTTCTTGCATTATTGTAGGGTGACACAGCACACCCCACCTTGTG
Found at i:32646596 original size:118 final size:118
Alignment explanation
Indices: 32646441--32646896 Score: 574
Period size: 118 Copynumber: 3.9 Consensus size: 118
32646431 CACCCCATCT
* * * * *
32646441 TGTGGTGACATGCTGACTTCTTGCATTATTGTAGGGTGACAC-AGCACGCCCCACCTTGTGGTGA
1 TGTGATGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGA-CACGCCCCATCTTGTGGTGA
* * *
32646505 CACGCTGAGTGGAACCAGATAGTTAGTGTGACATGCTGAGTGCATGCAGATTTT
65 CACGCTGAGTGGAACCAGATAGTTGGCGTGACATGCTGAGTGCATGCAGATTTC
* * *
32646559 TGTGATGACACGTTGACTTCTTGCAATATTGTGGGGTGACACGGCACACCCCATCTTGTGGTGAC
1 TGTGATGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGACACGCCCCATCTTGTGGTGAC
* * *
32646624 ACACTGAGTGGAACCAGATAGTTGGCATGACACGCTGAGTGCATGCAGATTTC
66 ACGCTGAGTGGAACCAGATAGTTGGCGTGACATGCTGAGTGCATGCAGATTTC
** * * *
32646677 TACGATGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGACACGTCCCATCTTATGGTGAC
1 TGTGATGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGACACGCCCCATCTTGTGGTGAC
* ** * *
32646742 ACGTTGAGTGGAAATAGATAGTTGGTGTGACATGCTAAGTGCATGCAGATTTC
66 ACGCTGAGTGGAACCAGATAGTTGGCGTGACATGCTGAGTGCATGCAGATTTC
* * * ** * * *
32646795 TGTGGTGACACACTAACTTCTTGTTATATTGTGGGGTGACACGACATGCCCTA-ATTGTGGTGAC
1 TGTGATGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGACACGCCCCATCTTGTGGTGAC
* * *
32646859 ATGCTGAGTGGAACCAGATACTTGGCGTGACAAGCTGA
66 ACGCTGAGTGGAACCAGATAGTTGGCGTGACATGCTGA
32646897 CTTGTTCCAA
Statistics
Matches: 286, Mismatches: 51, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
117 39 0.14
118 247 0.86
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (118 bp):
TGTGATGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGACACGCCCCATCTTGTGGTGAC
ACGCTGAGTGGAACCAGATAGTTGGCGTGACATGCTGAGTGCATGCAGATTTC
Found at i:32649313 original size:145 final size:145
Alignment explanation
Indices: 32649048--32649313 Score: 334
Period size: 145 Copynumber: 1.8 Consensus size: 145
32649038 ACCTCTCATT
* *
32649048 GGTTGAGGAGCTGTCATCATATGGTCCAATTGCAAACACAAATATGTTATTCGATAATCACATAT
1 GGTTGAGGAGCTGTCATCACATGGTCCAACTGCAAACACAAATATGTTATTCGATAATCACATAT
* * * ** *
32649113 GAAATTATTGAACATAAACCGTTATAACCGTCTTTACCGGCTCCTCGTTATCATTGTGAGTTTGA
66 GAAATTATTGAACACAAACCGTTAGAACCGTCCTTACCGGCTCCTCACTACCATTGTGAGTTTGA
32649178 GGAGGACTTATCGGA
131 GGAGGACTTATCGGA
* * * * *
32649193 GGTTGTGGAGCTGTCGTCGCATGGTCCAACTGCAAACACAGATATGTTATTCTATAATCACATAT
1 GGTTGAGGAGCTGTCATCACATGGTCCAACTGCAAACACAAATATGTTATTCGATAATCACATAT
* * * * * ** * *
32649258 GGAATTGTTTAACACAAACCTTTAGAATCGTCCTTATTGGTTCTTCACTACCATTG
66 GAAATTATTGAACACAAACCGTTAGAACCGTCCTTACCGGCTCCTCACTACCATTG
32649314 CCATAGTCGT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
145 99 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (145 bp):
GGTTGAGGAGCTGTCATCACATGGTCCAACTGCAAACACAAATATGTTATTCGATAATCACATAT
GAAATTATTGAACACAAACCGTTAGAACCGTCCTTACCGGCTCCTCACTACCATTGTGAGTTTGA
GGAGGACTTATCGGA
Found at i:32650715 original size:31 final size:31
Alignment explanation
Indices: 32650680--32651063 Score: 520
Period size: 31 Copynumber: 12.4 Consensus size: 31
32650670 ACCCATAATA
* *
32650680 TGGTAATACGCCATGCATATAACGTATAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
*
32650711 TGGTAACACGCCATGCATATAACATAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* * *
32650742 TGGTAACACGCCATACATAAAACGTACAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* *
32650773 TTGTAACAGGCCATGCATATAACGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* *
32650804 TGGTAACACACCATGCATATAACGTACAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
*
32650835 TTGTAACACGCCATGCATATAACGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* *
32650866 TGGTAACACACCATGCATATAATGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
** *
32650897 TTTTAACACGCTATGCATATAACGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
*
32650928 TGGTAACACG-CATGCATATAACATAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* * *
32650958 TTGTAACATGCCACGCATATAACGTAAAATG
1 TGGTAACACGCCATGCATATAACGTAAAATG
* *
32650989 TGGTAACACGCCATACATATAACGTAAAATA
1 TGGTAACACGCCATGCATATAACGTAAAATG
* *
32651020 TTGTAACACGCCATGCATATCAA-GTCAAATG
1 TGGTAACACGCCATGCATAT-AACGTAAAATG
*
32651051 TTGTAACACGCCA
1 TGGTAACACGCCA
32651064 ACGCTGACAC
Statistics
Matches: 307, Mismatches: 44, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
30 26 0.08
31 279 0.91
32 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (31 bp):
TGGTAACACGCCATGCATATAACGTAAAATG
Found at i:32651802 original size:23 final size:24
Alignment explanation
Indices: 32651752--32651804 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
32651742 GAATGCTGGT
**
32651752 GTGTCACAGATTCCCTCCATGGCA
1 GTGTCACAGATTCCCTCCATGAAA
32651776 -TGTCACAGATTCCCTCCAT-AAA
1 GTGTCACAGATTCCCTCCATGAAA
32651798 GTGTCAC
1 GTGTCAC
32651805 CAACTCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (24 bp):
GTGTCACAGATTCCCTCCATGAAA
Found at i:32651871 original size:58 final size:57
Alignment explanation
Indices: 32651798--32651979 Score: 229
Period size: 58 Copynumber: 3.1 Consensus size: 57
32651788 CCTCCATAAA
* ** * *
32651798 GTGTCACCAACTCTAAACGTTAGCGTGTCACAGCCGTATCACACATTCCCACCATGGC
1 GTGTCACAAACTCTAAACCCT-GCGTGTCACAGCCGTGTCACACATTCCCACCATGTC
* * * *
32651856 ATGTCACAAATTCTAAACCCTGCAGTGTCACAGCCGTGTCACACATTTCAACCATGTC
1 GTGTCACAAACTCTAAACCCTGC-GTGTCACAGCCGTGTCACACATTCCCACCATGTC
* * *
32651914 GTGTCACAAACTCTAAACCCTGATGTGTCACAACCGTGTCACACATTCCCACAATGTC
1 GTGTCACAAACTCTAAACCCTG-CGTGTCACAGCCGTGTCACACATTCCCACCATGTC
32651972 GTGTCACA
1 GTGTCACA
32651980 CATTCCCAAC
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
57 2 0.02
58 104 0.98
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (57 bp):
GTGTCACAAACTCTAAACCCTGCGTGTCACAGCCGTGTCACACATTCCCACCATGTC
Found at i:32652001 original size:23 final size:23
Alignment explanation
Indices: 32651950--32652002 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
32651940 GTCACAACCG
*
32651950 TGTCACACATTCCCACAATGTCG
1 TGTCACACATTCCCACAATGTCA
32651973 TGTCACACATTCCCA-ACATGTCA
1 TGTCACACATTCCCACA-ATGTCA
*
32651996 TTTCACA
1 TGTCACA
32652003 AACTCTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.28
Consensus pattern (23 bp):
TGTCACACATTCCCACAATGTCA
Found at i:32673471 original size:3 final size:3
Alignment explanation
Indices: 32673457--32673500 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
32673447 AAAACAATTA
*
32673457 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32673501 AAGTTTAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.