Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015038.1 Kokia drynarioides strain JFW-HI SEQ_130082, 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: 531193
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 680 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:16257 original size:19 final size:20
Alignment explanation
Indices: 16233--16273 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
16223 ATCCTTCTAA
*
16233 TTAATTATTTATTAAT-TTT
1 TTAATTATTTAATAATATTT
16252 TTAATTATTTAATAATATTT
1 TTAATTATTTAATAATATTT
16272 TT
1 TT
16274 GTAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTAATTATTTAATAATATTT
Found at i:16305 original size:31 final size:30
Alignment explanation
Indices: 16245--16341 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 30
16235 AATTATTTAT
* *
16245 TAATTTTTTA-ATTATTTAATAATATTTTTG
1 TAATTTTTTATATTATTAAAT-ATAATTTTG
16275 TAATTTTTTATATTATTGAAATATAATTTTG
1 TAATTTTTTATATTATT-AAATATAATTTTG
* *
16306 ATAA-ATTTTATATT-TTAAATATTAAATTTG
1 -TAATTTTTTATATTATTAAATA-TAATTTTG
16336 -AATTTT
1 TAATTTT
16342 AAATTTCGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.04
29 7 0.12
30 19 0.33
31 23 0.40
32 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (30 bp):
TAATTTTTTATATTATTAAATATAATTTTG
Found at i:16342 original size:20 final size:21
Alignment explanation
Indices: 16307--16345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16297 ATAATTTTGA
*
16307 TAAATTTTATATTTTAAATAT
1 TAAATTTGATATTTTAAATAT
16328 TAAATTTGA-ATTTTAAAT
1 TAAATTTGATATTTTAAAT
16346 TTCGAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TAAATTTGATATTTTAAATAT
Found at i:16345 original size:13 final size:14
Alignment explanation
Indices: 16327--16359 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16317 ATTTTAAATA
16327 TTAAATTT-GAATT
1 TTAAATTTCGAATT
16340 TTAAATTTCGAATT
1 TTAAATTTCGAATT
*
16354 TCAAAT
1 TTAAAT
16360 ATTAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (14 bp):
TTAAATTTCGAATT
Found at i:16400 original size:20 final size:20
Alignment explanation
Indices: 16371--16455 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
16361 TTAAACTCAG
16371 GATTTAAGGTTCAAGTTTGA
1 GATTTAAGGTTCAAGTTTGA
*
16391 GATTTGAGGTTCAATGTTT-A
1 GATTTAAGGTTCAA-GTTTGA
* * * *
16411 AAGTTTAAAGTTGAGGTTTGA
1 GA-TTTAAGGTTCAAGTTTGA
* * * *
16432 GGTTTGAGGTTTAAGTTTGG
1 GATTTAAGGTTCAAGTTTGA
16452 GATT
1 GATT
16456 CGAGATTTGA
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
20 35 0.73
21 13 0.27
ACGTcount: A:0.26, C:0.02, G:0.29, T:0.42
Consensus pattern (20 bp):
GATTTAAGGTTCAAGTTTGA
Found at i:30395 original size:17 final size:18
Alignment explanation
Indices: 30361--30396 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30351 TGAATTTCTA
30361 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
30379 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
30396 T
1 T
30397 AACTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:41988 original size:15 final size:16
Alignment explanation
Indices: 41959--41997 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
41949 TACAGAATGT
*
41959 AATAAAAAAATTTAAA
1 AATATAAAAATTTAAA
*
41975 AATTTAAAAA-TTAAA
1 AATATAAAAATTTAAA
41990 AATATAAA
1 AATATAAA
41998 TAAATATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAAAATTTAAA
Found at i:41991 original size:7 final size:8
Alignment explanation
Indices: 41964--41997 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
41954 AATGTAATAA
41964 AAAAATTT
1 AAAAATTT
41972 AAAAATTT
1 AAAAATTT
41980 AAAAA-TT
1 AAAAATTT
*
41987 AAAAATAT
1 AAAAATTT
41995 AAA
1 AAA
41998 TAAATATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATTT
Found at i:45723 original size:96 final size:96
Alignment explanation
Indices: 45539--45730 Score: 264
Period size: 96 Copynumber: 2.0 Consensus size: 96
45529 AATTTTGGAA
** * *
45539 AAAGATATTTGAATATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCA
1 AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
45604 GAATCGAAGATAAGAAAACATTGCCTCGATT
66 GAATCGAAGATAAGAAAACATTGCCTCGATT
* * *
45635 AAAGTTATTTGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTC-
1 AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
*
45699 GAAACTCGAA-ATAA-AAGAATATTGCCTCGATT
66 G-AA-TCGAAGATAAGAA-AACATTGCCTCGATT
45731 TTAAAGTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
95 3 0.04
96 77 0.91
97 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (96 bp):
AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
GAATCGAAGATAAGAAAACATTGCCTCGATT
Found at i:46141 original size:30 final size:30
Alignment explanation
Indices: 46107--46202 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 30
46097 GTAAAAGGGT
*
46107 AATTTTTAAAAGTTTTTGGGTTAAAAATGG
1 AATTTTTAAAAGTTTTAGGGTTAAAAATGG
** * *
46137 AA-TTTTGGAAGTTTGAGGG-T-AAAATAGT
1 AATTTTTAAAAGTTTTAGGGTTAAAAAT-GG
* * *
46165 AATTTTTAAGAG-TTTCGATGTTAAAAATGG
1 AATTTTTAAAAGTTTTAG-GGTTAAAAATGG
46195 AATTTTTA
1 AATTTTTA
46203 GAGGTTCGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 20 0.41
30 12 0.24
31 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (30 bp):
AATTTTTAAAAGTTTTAGGGTTAAAAATGG
Found at i:46156 original size:29 final size:29
Alignment explanation
Indices: 46124--46381 Score: 102
Period size: 29 Copynumber: 8.8 Consensus size: 29
46114 AAAAGTTTTT
46124 GGGTTAAAAATGGAATTTTGGAAGTTTGA
1 GGGTTAAAAATGGAATTTTGGAAGTTTGA
* **
46153 GGG-T-AAAATAGTAATTTTTAAGAGTTTCGA
1 GGGTTAAAAAT-GGAATTTTGGA-AGTTT-GA
* * * *
46183 -TGTTAAAAATGGAATTTTTAGAGGTTCGA
1 GGGTTAAAAATGGAA-TTTTGGAAGTTTGA
*
46212 GGG-T-AAAATGGTAATTTTTGGAAGTTTCA
1 GGGTTAAAAATGG-AA-TTTTGGAAGTTTGA
* ** * * *
46241 AGGACAAAATTGGGATTTTTTGGAAG-TTCA
1 GGGTTAAAAAT-GGA-ATTTTGGAAGTTTGA
* ** *
46271 GGGGT-AAAATGGTAATTTTAAAAAGTTTCA
1 GGGTTAAAAATGG-AATTTT-GGAAGTTTGA
* * * *
46301 AGGTCAAAATTGAGATTTTTGGAAGTTTG-
1 GGGTTAAAAATG-GAATTTTGGAAGTTTGA
* *
46330 GGGGTAAAAATGTAATTTTTGGAAGTTTCGA
1 GGGTTAAAAATGGAA-TTTTGGAAGTTT-GA
* *
46361 -GGTCAAAAGTGGAATTTTGGA
1 GGGTTAAAAATGGAATTTTGGA
46382 GAAGTTTGGA
Statistics
Matches: 166, Mismatches: 43, Indels: 40
0.67 0.17 0.16
Matches are distributed among these distances:
27 5 0.03
28 23 0.14
29 62 0.37
30 39 0.23
31 34 0.20
32 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (29 bp):
GGGTTAAAAATGGAATTTTGGAAGTTTGA
Found at i:46238 original size:59 final size:59
Alignment explanation
Indices: 46079--46387 Score: 272
Period size: 59 Copynumber: 5.2 Consensus size: 59
46069 TCAAAAACGA
* *
46079 AATTTTTGGACA--TCGAGGGTAAAAGGGTAATTTTTAAAAGTTTTTG-GGTTAAAAATGG
1 AATTTTTGGA-AGTTCGAGGGTAAAATGGTAATTTTTAAAAG-TTTCGAGGTTAAAAATGG
* * * *
46137 AA-TTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTAAGAGTTTCGATGTTAAAAATGG
1 AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTTAAAAATGG
* * ** * ** *
46195 AATTTTTAGAGGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCAAGGACAAAATTGGG
1 AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTTAAAAAT-GG
* * * * *
46255 ATTTTTTGGAAGTTC-AGGGGTAAAATGGTAATTTTAAAAAGTTTCAAGG-TCAAAATTG
1 AATTTTTGGAAGTTCGA-GGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTTAAAAATGG
* * ** * *
46313 AGATTTTTGGAAGTTTGGGGGTAAAAAT-GTAATTTTTGGAAGTTTCGAGGTCAAAAGTGG
1 A-ATTTTTGGAAGTTCGAGGGT-AAAATGGTAATTTTTAAAAGTTTCGAGGTTAAAAATGG
*
46373 AATTTTGGAGAAGTT
1 AATTTTTG-GAAGTT
46388 TGGAGGTCAA
Statistics
Matches: 200, Mismatches: 40, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
56 1 0.00
57 11 0.05
58 41 0.20
59 87 0.44
60 60 0.30
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (59 bp):
AATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTTAAAAATGG
Found at i:46387 original size:119 final size:117
Alignment explanation
Indices: 46091--46381 Score: 291
Period size: 119 Copynumber: 2.5 Consensus size: 117
46081 TTTTTGGACA
* ** *** ** *
46091 TCGAGGGTAAAAGGGTAATTTTTAAAAGTTTTTGGGTTAAAAATGGAATTTTGGAAGTTTGAGGG
1 TCGAGGGTAAAATGGTAATTTTTGGAAGTTTCAAGGACAAAAATGGAATTTTGGAAGTTAGAGGG
* * * * * *
46156 TAAAATAGTAATTTTTAAGAGTTTCGATGTTAAAAATGGAATTTTTAGAGGT
66 TAAAATAGTAATTTTAAAAAGTTTCAAGGTCAAAAATGGAATTTTTAGAAGT
* *
46208 TCGAGGGTAAAATGGTAATTTTTGGAAGTTTCAAGGACAAAATTGGGATTTTTTGGAAGTTCAG-
1 TCGAGGGTAAAATGGTAATTTTTGGAAGTTTCAAGGACAAAAAT-GGA-ATTTTGGAAGTT-AGA
* * *
46272 GGGTAAAATGGTAATTTTAAAAAGTTTCAAGGTC-AAAATTGAGATTTTTGGAAGT
63 GGGTAAAATAGTAATTTTAAAAAGTTTCAAGGTCAAAAATGGA-ATTTTTAGAAGT
* * * * *
46327 TTGGGGGTAAAAAT-GTAATTTTTGGAAGTTTCGAGGTCAAAAGTGGAATTTTGGA
1 TCGAGGGT-AAAATGGTAATTTTTGGAAGTTTCAAGGACAAAAATGGAATTTTGGA
46382 GAAGTTTGGA
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
117 42 0.29
118 13 0.09
119 82 0.57
120 6 0.04
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (117 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAGTTTCAAGGACAAAAATGGAATTTTGGAAGTTAGAGGG
TAAAATAGTAATTTTAAAAAGTTTCAAGGTCAAAAATGGAATTTTTAGAAGT
Found at i:46394 original size:31 final size:29
Alignment explanation
Indices: 46130--46418 Score: 162
Period size: 30 Copynumber: 9.8 Consensus size: 29
46120 TTTTGGGTTA
46130 AAAATGGAA-TTTTGGAAGTTT-GAGGGT-
1 AAAATGGAATTTTTGGAAGTTTGGA-GGTC
* * * * *
46157 AAAATAGTAATTTTT-AAGAGTTTCGATGTTA
1 AAAAT-GGAATTTTTGGA-AGTTTGGA-GGTC
* * *
46188 AAAATGGAATTTTTAG-AGGTTCGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTGGA-GGTC
** *
46216 AAAATGGTAATTTTTGGAAGTTTCAAGGAC
1 AAAATGG-AATTTTTGGAAGTTTGGAGGTC
* *
46246 AAAATTGGGATTTTTTGGAAGTTCAGG-GGT-
1 AAAA-T-GGAATTTTTGGAAGTT-TGGAGGTC
*** **
46276 AAAATGGTAATTTTAAAAAGTTTCAAGGTC
1 AAAATGG-AATTTTTGGAAGTTTGGAGGTC
* * *
46306 AAAATTGAGATTTTTGGAAGTTTGGGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTGGAGGTC
* *
46336 AAAATGTAATTTTTGGAAGTTTCGAGGTC
1 AAAATGGAATTTTTGGAAGTTTGGAGGTC
*
46365 AAAAGTGGAATTTTGGAGAAGTTTGGAGGTC
1 AAAA-TGGAATTTTTG-GAAGTTTGGAGGTC
**
46396 AAAATATAATTTTTGGACAGTTT
1 AAAATGGAATTTTTGGA-AGTTT
46419 AGGGACCTTT
Statistics
Matches: 199, Mismatches: 44, Indels: 35
0.72 0.16 0.13
Matches are distributed among these distances:
27 5 0.03
28 13 0.07
29 67 0.34
30 74 0.37
31 38 0.19
32 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTGGAGGTC
Found at i:47998 original size:13 final size:13
Alignment explanation
Indices: 47977--48055 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
47967 TTCTGGATTC
47977 TTAAATTTAAAAT
1 TTAAATTTAAAAT
*
47990 TTAAGTTTAAAAT
1 TTAAATTTAAAAT
*
48003 CATTCCGAATTT-AAA-
1 --TT--AAATTTAAAAT
*
48018 CTAAATTT-AAAT
1 TTAAATTTAAAAT
48030 TTAAATTTAAAA-
1 TTAAATTTAAAAT
48042 -TAAATTT-AAAT
1 TTAAATTTAAAAT
48053 TTA
1 TTA
48056 TGAATAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
10 3 0.06
11 15 0.29
12 9 0.17
13 16 0.31
15 2 0.04
16 3 0.06
17 4 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:48026 original size:11 final size:11
Alignment explanation
Indices: 48010--48051 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
48000 AATCATTCCG
*
48010 AATTTAAACTA
1 AATTTAAAATA
*
48021 AATTTAAATTTA
1 AATTTAAA-ATA
48033 AATTTAAAATA
1 AATTTAAAATA
48044 AATTTAAA
1 AATTTAAA
48052 TTTATGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:48036 original size:23 final size:23
Alignment explanation
Indices: 48010--48055 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48000 AATCATTCCG
*
48010 AATTTAAACTAAATTTAAATTTA
1 AATTTAAAATAAATTTAAATTTA
48033 AATTTAAAATAAATTTAAATTTA
1 AATTTAAAATAAATTTAAATTTA
48056 TGAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTAAAATAAATTTAAATTTA
Found at i:48063 original size:18 final size:17
Alignment explanation
Indices: 48025--48069 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
48015 AAACTAAATT
48025 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
48042 TAAATTTAAATTTATGAA
1 TAAATTTAAATTTA-AAA
48060 TAAATTTAAA
1 TAAATTTAAA
48070 ACCAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:48069 original size:6 final size:6
Alignment explanation
Indices: 48010--48055 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
48000 AATCATTCCG
* *
48010 AATTTA AA-CTA AATTTA AATTTA AATTTA AA-ATA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
48056 TGAATAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 8 0.24
6 26 0.76
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:48734 original size:115 final size:115
Alignment explanation
Indices: 48534--48744 Score: 352
Period size: 115 Copynumber: 1.8 Consensus size: 115
48524 GATTTGGTTC
*
48534 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTTCTTCGACCTGCTTCTCAGTATCTCAT
1 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
48599 CAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAT
66 CAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAT
* * * *
48649 ACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGCCCTGCTTCTTAGTATCTCAT
1 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
*
48714 CAGGAAGCT-GGGATTTGAAGATTTGCTCACA
66 CAGGAAGCTAGGG-TTCGAAGATTTGCTCACA
48745 CTGAGCATGG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 3 0.03
115 86 0.97
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (115 bp):
ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
CAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAT
Found at i:49183 original size:115 final size:114
Alignment explanation
Indices: 48856--49184 Score: 487
Period size: 115 Copynumber: 2.9 Consensus size: 114
48846 ATTTAGTCCG
* * * *
48856 CTTCTCAGTATTTTATCAAGAAGCTAACTATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * *
48921 AGAAAACTGGGGTTCGAAGATTTGCTCACATCAAGCCCTGAGTTGGTATA
66 AGGAAGCT-GGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATA
* *
48971 CTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGCCCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
49036 AAGAAGCTGAGATTCGAAGATTTGATCACATCGAGCCTTGTGTTGGTATA
66 AGGAAGCTG-GGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATA
* *
49086 CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACTTGTTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
49151 AGGAAGCTAGGGTTCGAAGATTTGCTCACATCGA
66 AGGAAGCT-GGGTTCGAAGATTTGCTCACATCGA
49185 ACATGGGTTT
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
114 1 0.01
115 189 0.99
116 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (114 bp):
CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATA
Found at i:49346 original size:436 final size:436
Alignment explanation
Indices: 48534--49358 Score: 1282
Period size: 436 Copynumber: 1.9 Consensus size: 436
48524 GATTTGGTTC
*
48534 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTTCTTCGACCTGCTTCTCAGTATCTCAT
1 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
* * *
48599 CAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATACTTCTCTGTATCTC
66 CAAGAAGCTAGGATTCGAAGATTTGATCACATCGAGCCCTGAGTTGGTATACTTCTCTGTATCTC
* * *
48664 ATCAGGAAGCTAACCATTTTATTGCTTCGCCCTGCTTCTTAGTATCTCATCAGGAAGCTGGGATT
131 ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGATT
* * *
48729 TGAAGATTTGCTCACACTGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATAAGGAAGA
196 CGAAGATTTGCTCACACTGAACATGGGTTTGATTTGGTCTTCTTCTCAGTATATCATAAGGAAGA
** *
48794 TGACTGCGTCGTTTATTTCAATCCGCTTCTCCGTATCTCATCAAGAATACGAATTTAGTCCGCTT
261 TGACCACGTCGTTTATTTCAATCCGCTTCTCCGTATCTCATCAAGAAGACGAATTTAGTCCGCTT
* *
48859 CTCAGTATTTTATCAAGAAGCTAACTATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGA
326 CTCAGTATCTTATCAAGAAGCTAACTATTTTATTGCTTCGACCCGCTTCTCAGTATCTCATCAGA
48924 AAACTGGGGTTCGAAGATTTGCTCACATCAAGCCCTGAGTTGGTAT
391 AAACTGGGGTTCGAAGATTTGCTCACATCAAGCCCTGAGTTGGTAT
* * *
48970 ACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGCCCTGCTTCTCAGTATCTCAT
1 ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
* *
49035 CAAGAAGCT-GAGATTCGAAGATTTGATCACATCGAGCCTTGTGTTGGTATACTTCTCTGTATCT
66 CAAGAAGCTAG-GATTCGAAGATTTGATCACATCGAGCCCTGAGTTGGTATACTTCTCTGTATCT
* *
49099 CATCAAGAAGCTAACCATTTTATTGCTTCGACTTGTTTCTCAGTATCTCATCAGGAAGCTAGGG-
130 CATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGA
* * *
49163 TTCGAAGATTTGCTCACA-TCGAACATGGGTTTGATTTGGTCTTTTTCTCAGTATATTATCAGGA
194 TTCGAAGATTTGCTCACACT-GAACATGGGTTTGATTTGGTCTTCTTCTCAGTATATCATAAGGA
* * * * *
49227 AGATGACCACGTCGTTTGTTTCAATCTGTTTCTCCGTATCTTATCAGGAAGACGAATTT-GATCC
258 AGATGACCACGTCGTTTATTTCAATCCGCTTCTCCGTATCTCATCAAGAAGACGAATTTAG-TCC
* *
49291 GCTTCTCAGTATCTTATTAGGAAGCTAA-TCATTTTATTGCTTCGACCCGCTTCTCAGTATCTCA
322 GCTTCTCAGTATCTTATCAAGAAGCTAACT-ATTTTATTGCTTCGACCCGCTTCTCAGTATCTCA
49355 TCAG
386 TCAG
49359 GAAGATGACC
Statistics
Matches: 352, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
435 4 0.01
436 345 0.98
437 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (436 bp):
ACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
CAAGAAGCTAGGATTCGAAGATTTGATCACATCGAGCCCTGAGTTGGTATACTTCTCTGTATCTC
ATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGATT
CGAAGATTTGCTCACACTGAACATGGGTTTGATTTGGTCTTCTTCTCAGTATATCATAAGGAAGA
TGACCACGTCGTTTATTTCAATCCGCTTCTCCGTATCTCATCAAGAAGACGAATTTAGTCCGCTT
CTCAGTATCTTATCAAGAAGCTAACTATTTTATTGCTTCGACCCGCTTCTCAGTATCTCATCAGA
AAACTGGGGTTCGAAGATTTGCTCACATCAAGCCCTGAGTTGGTAT
Found at i:49459 original size:132 final size:133
Alignment explanation
Indices: 49207--49494 Score: 346
Period size: 132 Copynumber: 2.2 Consensus size: 133
49197 TTTGGTCTTT
* * * ***
49207 TTCTCAGTATATTATCAGGAAGATGACCACGTCGTTTGTTTCAATCTGTTTCTCCGTATCTTATC
1 TTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCCACTTCT-CGTATCTTATC
* * * * *
49272 AGGAAGACGAATTTGATCCGCTTCTCAGTATCTTATTAGGAAGCTAATCATTTTATTGCTTCGAC
65 AGGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGAC
49337 CCGC
130 CCGC
* ** *
49341 TTCTCAGTATCTCATCAGGAAGATGACCACGTTGCTTGTTTTGATCCACTTCT-GTGT-TTCATC
1 TTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCCACTTCTCGTATCTT-ATC
* * * * * *
49404 AGGAAGATGGATTTGGTTCACTTCTCCGTATCTCATCAGGGAGCTAACCACTTTATTGCTTCGAC
65 AGGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGAC
49469 CCGC
130 CCGC
*
49473 TTCTCAGTATCTCATCTGGAAG
1 TTCTCAGTATCTCATCAGGAAG
49495 CTGGGATTCG
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
131 2 0.02
132 85 0.65
134 44 0.34
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (133 bp):
TTCTCAGTATCTCATCAGGAAGATGACCACGTCGCTTGTTTCAATCCACTTCTCGTATCTTATCA
GGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACC
CGC
Found at i:49731 original size:78 final size:78
Alignment explanation
Indices: 49600--49874 Score: 313
Period size: 78 Copynumber: 3.5 Consensus size: 78
49590 TACCTCGTGA
* * * * * ** *
49600 TCGGGGTAGGAGTTTGGTTGACGATGATTTGCCCCAAACTCGAGGTAGGAGATCGAATGGCTGT-
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCT-TC
*
49664 AATCTGCCTTTGGC
65 AATCTGCCTTAGGC
* *
49678 TCGGGGTAAGAGGTTGGTTGATGATGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGACTTCA
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCTTC-
*
49743 AAT-TGCCTCAGGC
65 AATCTGCCTTAGGC
* * *
49756 TTGAGGTAAGAGATTGGTTGATGATGATCTG-CCCAATGCTCGGGGTAAAAGATCAAATGGCTTC
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAA-GCTCGAGGTAAAAGATCAAATGGCTTC
*
49820 AATCTGCCCTAGGC
65 AATCTGCCTTAGGC
** * * *
49834 TTAGGGTAAAAGATTGGTTGATGACGATCTGCCCCAGGCTC
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTC
49875 TGAGTAAGAG
Statistics
Matches: 169, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
77 9 0.05
78 153 0.91
79 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (78 bp):
TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCTTCA
ATCTGCCTTAGGC
Found at i:49864 original size:39 final size:39
Alignment explanation
Indices: 49821--49896 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
49811 AATGGCTTCA
* * *
49821 ATCTGCCCTAGGCT-TAGGGTAAAAGATTGGTTGATGACG
1 ATCTGCCCCAGGCTCT-GAGTAAAAGATTGGTTAATGACG
*
49860 ATCTGCCCCAGGCTCTGAGTAAGAGATTGGTTAATGA
1 ATCTGCCCCAGGCTCTGAGTAAAAGATTGGTTAATGA
49897 TGTAGCTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 31 0.97
40 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCTGAGTAAAAGATTGGTTAATGACG
Found at i:50466 original size:49 final size:49
Alignment explanation
Indices: 50347--50525 Score: 152
Period size: 49 Copynumber: 3.7 Consensus size: 49
50337 CACGGGCTGT
* * *
50347 CGTTACGACTTAAATCATTCCCTTT-TGTATCTTTGTGGTACT-GGATCCGC
1 CGTTGCGACTTAAATCTTTCCCTTTATG--TCTCTGTGGTACTAGG-TCCGC
* * * *
50397 CGTTGCG-TTCTAGATTTTTCCCTTTATGTCTCTGAGGTACTAGGTCCGC
1 CGTTGCGACT-TAAATCTTTCCCTTTATGTCTCTGTGGTACTAGGTCCGC
* * *
50446 CATTGCGACTTAAATCTTTCCC-TTATGTCT-TCGTGGTACTAGATCCAC
1 CGTTGCGACTTAAATCTTTCCCTTTATGTCTCT-GTGGTACTAGGTCCGC
** * *
50494 CGTTATGACTTAGATCTTTCCCTTCATGTCTC
1 CGTTGCGACTTAAATCTTTCCCTTTATGTCTC
50526 ATGGTGTTGA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
47 1 0.01
48 39 0.38
49 40 0.39
50 21 0.20
51 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (49 bp):
CGTTGCGACTTAAATCTTTCCCTTTATGTCTCTGTGGTACTAGGTCCGC
Found at i:51754 original size:26 final size:29
Alignment explanation
Indices: 51724--51778 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
51714 GACCTCTCCC
*
51724 TTTTTTCTATTTTTGT-TTTC-CTTCTTG
1 TTTTTGCTATTTTTGTCTTTCTCTTCTTG
* *
51751 TTTTTGCTTTTTTTTTCTTTCTCTTCTT
1 TTTTTGCTATTTTTGTCTTTCTCTTCTT
51779 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.57
28 4 0.17
29 6 0.26
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.76
Consensus pattern (29 bp):
TTTTTGCTATTTTTGTCTTTCTCTTCTTG
Found at i:57178 original size:96 final size:96
Alignment explanation
Indices: 56984--57179 Score: 227
Period size: 96 Copynumber: 2.0 Consensus size: 96
56974 AATTTTGGAA
* ** * **
56984 AAAGATATTTGAATATCTCGATTTGAAGGAAGGTTGCCCCTAGTAAGTTAAGGTGCAAATTTTCA
1 AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCA
57049 GAATCGAAGATAAGAAAATATTGCCTCGATT
66 GAATCGAAGATAAGAAAATATTGCCTCGATT
* * * * * *
57080 AAAGGTATTTGATTATTTCGATTTGAAGAAAAATTGCACTTAGTAAGTTACGGCACAAAATTTTG
1 AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCAC-AAATTTTC
*
57145 A-AACTCGAA-ATAA-AGAATATTGCCTCGATTT
65 AGAA-TCGAAGATAAGAAAATATTGCCTCGA-TT
57176 AAAG
1 AAAG
57180 TTTTTATAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
95 14 0.17
96 57 0.68
97 13 0.15
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (96 bp):
AAAGATATTTGAATATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCA
GAATCGAAGATAAGAAAATATTGCCTCGATT
Found at i:57618 original size:58 final size:58
Alignment explanation
Indices: 57556--57976 Score: 270
Period size: 58 Copynumber: 7.2 Consensus size: 58
57546 CAGTAAAAGG
* **
57556 GTAATTTTTAAAAGTTTTTGGGTCAAAAAT-GAAATTTTGGAAGTTTAAGGGTAAAATA
1 GTAATTTTTGAAAG-TTTTGGGTCAAAAATGGAAATTTTGGAAGTTCGAGGGTAAAATA
* * * * ** *
57614 GTAATTTTTGAGAGTTTCGAGGTTAAAAGTAAAAATTTT-GAAGGTTCGAGGGTAAAATG
1 GTAATTTTTGAAAGTTTTG-GGTCAAAAATGGAAATTTTGGAA-GTTCGAGGGTAAAATA
* * * * ** * *
57673 GTAA-TTTTGGAATTTTTGGGGTTAAAATTGGGATTTTTTGGAAGTTCGGGGGTAAAATG
1 GTAATTTTTGAAAGTTTT-GGGTCAAAAAT-GGAAATTTTGGAAGTTCGAGGGTAAAATA
** * * * *
57732 GTAATTTTCAAAAGTTTCGAGGTC-AAAAT-CAAGATTTTTGAAGTTCGAGGGTAAAATG
1 GTAATTTTTGAAAGTTTTG-GGTCAAAAATGGAA-ATTTTGGAAGTTCGAGGGTAAAATA
* * * * **
57790 GTAATTTTTGGAAGTTTTGGGTTAAAATTAGG-ATTTTTAAAAGTTCGAGGGTAAAAATA
1 GTAATTTTTGAAAGTTTTGGGTCAAAAAT-GGAAATTTTGGAAGTTCGAGGGT-AAAATA
* * * * *
57849 -TAATTTTTGGAAGTTTTAGGGTCAGAAGTGGAATTTTTGAGAAGTTTGAGGGTTAAAAT-
1 GTAATTTTTGAAAGTTTT-GGGTCAAAAATGGAAATTTTG-GAAGTTCGAGGG-TAAAATA
* * * *
57908 TTAA-TTTTGAAAGTTTTGAGGTCGAAAATGG-AATTTTGAAGAAGTTTGGGGGTCAAAATA
1 GTAATTTTTGAAAGTTTTG-GGTCAAAAATGGAAATTTTG--GAAGTTCGAGGGT-AAAATA
57968 -TAATTTTTG
1 GTAATTTTTG
57977 GACAGTTTAG
Statistics
Matches: 286, Mismatches: 54, Indels: 44
0.74 0.14 0.11
Matches are distributed among these distances:
57 8 0.03
58 125 0.44
59 115 0.40
60 37 0.13
61 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.38
Consensus pattern (58 bp):
GTAATTTTTGAAAGTTTTGGGTCAAAAATGGAAATTTTGGAAGTTCGAGGGTAAAATA
Found at i:57622 original size:29 final size:29
Alignment explanation
Indices: 57590--57984 Score: 162
Period size: 29 Copynumber: 13.4 Consensus size: 29
57580 AAAAATGAAA
*
57590 TTTTGGAAGTTTAAGGGTAAAATAGTAAT
1 TTTTGGAAGTTTGAGGGTAAAATAGTAAT
* * *
57619 TTTT-GAGAGTTTCGAGGTTAAAAGTA-AAAA
1 TTTTGGA-AGTTT-GAGGGTAAAA-TAGTAAT
* *
57649 TTTT-GAAGGTTCGAGGGTAAAATGGTAA-
1 TTTTGGAA-GTTTGAGGGTAAAATAGTAAT
* * * *
57677 TTTTGGAATTTTTG-GGGTTAAAATTGGGATT
1 TTTTGGAA-GTTTGAGGG-TAAAA-TAGTAAT
* * *
57708 TTTTGGAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGAAGTTTGAGGGTAAAATAGTAAT
***
57737 TTTCAAAAGTTTCGA-GGTCAAAATCA--AGAT
1 TTTTGGAAGTTT-GAGGGT-AAAAT-AGTA-AT
* *
57767 TTTT-GAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAGTTTGAGGGTAAAATAGTAAT
* *
57795 TTTTGGAAGTTTTG-GGTTAAAATTAG-GAT
1 TTTTGGAAG-TTTGAGGGTAAAA-TAGTAAT
** *
57824 TTTTAAAAGTTCGAGGGTAAAAATA-TAAT
1 TTTTGGAAGTTTGAGGGT-AAAATAGTAAT
* * *
57853 TTTTGGAAGTTTTAGGGTCAGAAGT-GGAAT
1 TTTTGGAAGTTTGAGGGT-A-AAATAGTAAT
*
57883 TTTTGAGAAGTTTGAGGGTTAAAAT-TTAA-
1 TTTTG-GAAGTTTGAGGG-TAAAATAGTAAT
* *
57912 TTTTGAAAGTTTTGA-GGTCGAAAAT-GGAA-
1 TTTTGGAAG-TTTGAGGGT--AAAATAGTAAT
*
57941 TTTTGAAGAAGTTTGGGGGTCAAAATA-TAAT
1 TTTTG--GAAGTTTGAGGGT-AAAATAGTAAT
57972 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
57985 AGAGACCTCC
Statistics
Matches: 276, Mismatches: 54, Indels: 71
0.69 0.13 0.18
Matches are distributed among these distances:
27 1 0.00
28 31 0.11
29 124 0.45
30 83 0.30
31 36 0.13
32 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
TTTTGGAAGTTTGAGGGTAAAATAGTAAT
Found at i:57816 original size:87 final size:85
Alignment explanation
Indices: 57707--57986 Score: 214
Period size: 87 Copynumber: 3.2 Consensus size: 85
57697 AAATTGGGAT
** *
57707 TTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTCAAAAGTTTCGAGGTCAAAATCA-AGATTTTT
1 TTTTTGGAAGTTTAGGGTTAAAAT--TAATTTT-AAAAGTTTCGAGGTCAAAAT-ATA-ATTTTT
57771 -GAAGTTCGAGGGT-A-AAATGGTAA
61 GGAAGTTCGAGGGTCAGAAATGG-AA
* *
57794 TTTTTGGAAGTTTTGGGTTAAAATTAGGATTTTTAAAAG-TTCGAGGGTAAAAATATAATTTTTG
1 TTTTTGGAAGTTTAGGGTTAAAATTA--A-TTTTAAAAGTTTCGA-GGTCAAAATATAATTTTTG
** *
57858 GAAGTTTTAGGGTCAGAAGTGGAA
62 GAAGTTCGAGGGTCAGAAATGGAA
* * **
57882 TTTTTGAGAAGTTTGAGGGTTAAAATTTAATTTTGAAAGTTTTGAGGTCGAAAATGGAA-TTTTG
1 TTTTTG-GAAGTTT-AGGGTTAAAA-TTAATTTTAAAAGTTTCGAGGTC-AAAATATAATTTTTG
* * **
57946 AAGAAGTTTGGGGGTCA-AAATATAA
62 --GAAGTTCGAGGGTCAGAAATGGAA
57971 TTTTTGGACAGTTTAG
1 TTTTTGGA-AGTTTAG
57987 AGACCTCCAG
Statistics
Matches: 159, Mismatches: 18, Indels: 31
0.76 0.09 0.15
Matches are distributed among these distances:
85 2 0.01
86 12 0.08
87 47 0.30
88 33 0.21
89 40 0.25
90 22 0.14
91 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (85 bp):
TTTTTGGAAGTTTAGGGTTAAAATTAATTTTAAAAGTTTCGAGGTCAAAATATAATTTTTGGAAG
TTCGAGGGTCAGAAATGGAA
Found at i:57940 original size:59 final size:59
Alignment explanation
Indices: 57548--57953 Score: 256
Period size: 59 Copynumber: 6.9 Consensus size: 59
57538 ACATCCGACA
* * * * **
57548 GTAAAAGGGTAATTTTTAAAAGTTTTTG-GGTCAAAAAT-GAAATTTTG-GAAGTTTAAGG
1 GTAAAATGGTAA-TTTTGAAAG-TTTTGAGGTCTAAAATGGAATTTTTGAGAAGTTCGAGG
* * * ** * *
57606 GTAAAATAGTAATTTTTGAGAGTTTCGAGGT-TAAAAGTAAAAATTTTGA-AGGTTCGAGG
1 GTAAAATGGTAA-TTTTGAAAGTTTTGAGGTCTAAAA-TGGAATTTTTGAGAAGTTCGAGG
* * * * *
57665 GTAAAATGGTAATTTTGGAATTTTTGGGGT-TAAAATTGGGATTTTTTG-GAAGTTCGGGG
1 GTAAAATGGTAATTTTGAAAGTTTTGAGGTCTAAAA-T-GGAATTTTTGAGAAGTTCGAGG
* * **
57724 GTAAAATGGTAATTTTCAAAAGTTTCGAGGTC-AAAATCAAGATTTTT--GAAGTTCGAGG
1 GTAAAATGGTAATTTT-GAAAGTTTTGAGGTCTAAAATGGA-ATTTTTGAGAAGTTCGAGG
* *
57782 GTAAAATGGTAATTTTTGGAAGTTTTG-GGT-TAAAATTAGG-ATTTTT-AAAAGTTCGAGG
1 GTAAAATGGTAA-TTTTGAAAGTTTTGAGGTCTAAAA-T-GGAATTTTTGAGAAGTTCGAGG
* * * *
57840 GTAAAAAT-ATAATTTTTGGAAGTTTT-AGGGTC-AGAAGTGGAATTTTTGAGAAGTTTGAGG
1 GT-AAAATGGTAA-TTTTGAAAGTTTTGA-GGTCTA-AAATGGAATTTTTGAGAAGTTCGAGG
* *
57900 GTTAAAAT-TTAATTTTGAAAGTTTTGAGGTCGAAAATGGAA-TTTTGAAGAAGTT
1 G-TAAAATGGTAATTTTGAAAGTTTTGAGGTCTAAAATGGAATTTTTG-AGAAGTT
57954 TGGGGGTCAA
Statistics
Matches: 278, Mismatches: 45, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
57 21 0.08
58 108 0.39
59 112 0.40
60 36 0.13
61 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (59 bp):
GTAAAATGGTAATTTTGAAAGTTTTGAGGTCTAAAATGGAATTTTTGAGAAGTTCGAGG
Found at i:69515 original size:28 final size:26
Alignment explanation
Indices: 69472--69531 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
69462 AAATGAGACT
*
69472 TTTTGGATACTTGGGGGCAAAATGGTAA
1 TTTTGGATAC-TCGGGG-AAAATGGTAA
*
69500 TTTTGGATTCTCGGGGAAAATGGTAA
1 TTTTGGATACTCGGGGAAAATGGTAA
69526 TTTTGG
1 TTTTGG
69532 GAAATTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 16 0.53
27 5 0.17
28 9 0.30
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.37
Consensus pattern (26 bp):
TTTTGGATACTCGGGGAAAATGGTAA
Found at i:69636 original size:29 final size:28
Alignment explanation
Indices: 69604--69888 Score: 240
Period size: 29 Copynumber: 9.8 Consensus size: 28
69594 AATCGAGATA
*
69604 AAAAATAGAATTTTTGGACA-TTCGAGGGT
1 AAAAATGGAATTTTTGGA-AGTTCG-GGGT
*
69633 -AAAATGGTAATTTTT-GAGAGTTTTGGGGT
1 AAAAATGG-AATTTTTGGA-AG-TTCGGGGT
* *
69662 CAAAAATGGAGTTTTTGGACA-TCCGTGGGT
1 -AAAAATGGAATTTTTGGA-AGTTCG-GGGT
* * *
69692 AAAAATGTAATTTTTGGAAGTTTTGGGTTT
1 AAAAATGGAATTTTTGGAAG-TTCGGG-GT
* *
69722 AAAAATAGAATTTTTGGAGGTTCAGGGGT
1 AAAAATGGAATTTTTGGAAGTTC-GGGGT
* *
69751 -ACAATGTAATTTTTGGAAGTTCGGAGGT
1 AAAAATGGAATTTTTGGAAGTTCGG-GGT
* *
69779 -AAAATGTAATTTTTGAAAGTTTCGGGGT
1 AAAAATGGAATTTTTGGAAG-TTCGGGGT
69807 CAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 -AAAAATGGAATTTTTGGAAGTTCG-GGGT
**
69837 AAAAATATAATTTTTGGAAGTTTCGGGGT
1 AAAAATGGAATTTTTGGAAG-TTCGGGGT
69866 AAAAATGGAATTTTTGGATAGTT
1 AAAAATGGAATTTTTGGA-AGTT
69889 TAGGGACCTC
Statistics
Matches: 209, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.01
28 51 0.24
29 83 0.40
30 63 0.30
31 10 0.05
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (28 bp):
AAAAATGGAATTTTTGGAAGTTCGGGGT
Found at i:69667 original size:59 final size:58
Alignment explanation
Indices: 69516--69889 Score: 225
Period size: 59 Copynumber: 6.4 Consensus size: 58
69506 ATTCTCGGGG
* * ** * * *
69516 AAAATGGTAATTTTGGGAAATTTTGGGGTTTAAAATGGAA-TTTTAGACATCCGAGGGT
1 AAAAT-GTAATTTTTGGAAGTTTTGGGGTCAAAAATAGAATTTTTGGACATTCGAGGGT
* * *** * * * *
69574 AAAACAGTAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATTCGAGGGT
1 AAAA-TGTAATTTTTGGAAGTTTTGGGGTCAAAAATAGAATTTTTGGACATTCGAGGGT
* * * *
69633 AAAATGGTAATTTTT-GAGAGTTTTGGGGTCAAAAATGGAGTTTTTGGACATCCGTGGGT
1 AAAAT-GTAATTTTTGGA-AGTTTTGGGGTCAAAAATAGAATTTTTGGACATTCGAGGGT
* * **
69692 AAAAATGTAATTTTTGGAAGTTTTGGGTTTAAAAATAGAATTTTTGGAGGTTC-AGGGGT
1 -AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATAGAATTTTTGGACATTCGA-GGGT
* * *
69751 ACAATGTAATTTTTGGAAG-TTCGGAGGT--AAAAT-GTAATTTTT-GAAAGTTTCG-GGGT
1 AAAATGTAATTTTTGGAAGTTTTGG-GGTCAAAAATAG-AATTTTTGGACA--TTCGAGGGT
* * *
69807 CAAAAATGGAATTTTTGGAAG-TTCGAGGGT-AAAAATATAATTTTTGGA-AGTTTCG-GGGT
1 --AAAATGTAATTTTTGGAAGTTTTG-GGGTCAAAAATAGAATTTTTGGACA--TTCGAGGGT
*
69866 AAAAATGGAATTTTTGGATAGTTT
1 -AAAATGTAATTTTTGGA-AGTTT
69890 AGGGACCTCC
Statistics
Matches: 255, Mismatches: 41, Indels: 38
0.76 0.12 0.11
Matches are distributed among these distances:
55 3 0.01
56 16 0.06
57 7 0.03
58 92 0.36
59 126 0.49
60 11 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATAGAATTTTTGGACATTCGAGGGT
Found at i:69726 original size:118 final size:118
Alignment explanation
Indices: 69512--69765 Score: 277
Period size: 118 Copynumber: 2.2 Consensus size: 118
69502 TTGGATTCTC
* **
69512 GGGG-AAAATGGTAA-TTTTGGGAAATTTTGGGGTTTAAAATGGAATTTTAGACATCCGAGGGTA
1 GGGGTAAAATGGTAATTTTTGAGAAATTTTGGGGTCAAAAATGGAATTTTAGACATCCGAGGGTA
69575 AAACAGTAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATTC-
66 AAACAGTAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATTCA
* * * *
69627 GAGGGTAAAATGGTAATTTTTGAG-AGTTTTGGGGTCAAAAATGGAGTTTTTGGACATCCGTGGG
1 G-GGGTAAAATGGTAATTTTTGAGAAATTTTGGGGTCAAAAATGGA-ATTTTAGACATCCGAGGG
* *** * * * * **
69691 TAAAA-ATGTAATTTTTGGAAGTTTTGGGTTTAAAAATAGAATTTTTGGAGGTTCA
64 TAAAACA-GTAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATTCA
*
69746 GGGGTACAAT-GTAATTTTTG
1 GGGGTAAAATGGTAATTTTTG
69766 GAAGTTCGGA
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
115 1 0.01
116 3 0.03
117 39 0.34
118 71 0.62
119 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (118 bp):
GGGGTAAAATGGTAATTTTTGAGAAATTTTGGGGTCAAAAATGGAATTTTAGACATCCGAGGGTA
AAACAGTAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATTCA
Found at i:71138 original size:3 final size:3
Alignment explanation
Indices: 71118--71170 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
71108 TGTTACTTAA
* * * * * *
71118 TAT TAT TAA TAT TTT TAT TAT TAG TGT TAT TAG TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71166 TAT TA
1 TAT TA
71171 CCAGTGATGA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:71821 original size:11 final size:11
Alignment explanation
Indices: 71805--71830 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71795 GGACTTCTTT
71805 AATTCAATTTA
1 AATTCAATTTA
71816 AATTCAATTTA
1 AATTCAATTTA
71827 AATT
1 AATT
71831 TAAACTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCAATTTA
Found at i:71830 original size:6 final size:6
Alignment explanation
Indices: 71810--71858 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
71800 TCTTTAATTC
* *
71810 AATTTA AA-TTC AATTTA AATTTA AACTT- AATTTA AATTTA AACTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA-TTTA
71857 AA
1 AA
71859 AGAAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.22
6 22 0.61
7 6 0.17
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:71832 original size:17 final size:17
Alignment explanation
Indices: 71810--71854 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
71800 TCTTTAATTC
71810 AATTTAAA-TTCAATTTA
1 AATTTAAACTT-AATTTA
71827 AATTTAAACTTAATTTA
1 AATTTAAACTTAATTTA
71844 AATTTAAACTT
1 AATTTAAACTT
71855 TAAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAAACTTAATTTA
Found at i:71888 original size:17 final size:17
Alignment explanation
Indices: 71826--71889 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
71816 AATTCAATTT
* *
71826 AAATTTAAACTTAATTT
1 AAATTTAAACTTAAATA
*
71843 AAATTTAAACTTTAAAAGA
1 AAATTTAAAC-TT-AAATA
*
71862 AAATTTTAAACTTAAATC
1 AAA-TTTAAACTTAAATA
71880 AAATTTAAAC
1 AAATTTAAAC
71890 CCAAAATGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 17 0.44
18 8 0.21
19 7 0.18
20 7 0.18
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTTAAACTTAAATA
Found at i:78148 original size:13 final size:13
Alignment explanation
Indices: 78132--78158 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78122 ATTGCCTAAC
78132 TTGAAACTGATAT
1 TTGAAACTGATAT
78145 TTGAAACTGATAT
1 TTGAAACTGATAT
78158 T
1 T
78159 AGTTTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGAAACTGATAT
Found at i:81651 original size:16 final size:18
Alignment explanation
Indices: 81613--81654 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
81603 TTTTTGTATA
81613 ATATAAAATAAATTTTATT
1 ATATAAAAT-AATTTTATT
81632 -TATAAAAT-ATTTT-TT
1 ATATAAAATAATTTTATT
81647 ATATAAAA
1 ATATAAAA
81655 ATTCGACTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
18 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAAAATAATTTTATT
Found at i:82978 original size:6 final size:6
Alignment explanation
Indices: 82967--83016 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
82957 GTTGAGTTCA
82967 AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC
1 AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC AACCCC
83015 AA
1 AA
83017 TACATGCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCCC
Found at i:88969 original size:21 final size:21
Alignment explanation
Indices: 88931--88970 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
88921 GGTTTAATAA
*
88931 ATTATATGATCTGTTTATTTG
1 ATTATATGATCTGATTATTTG
88952 ATTATATTGAT-TGATTATT
1 ATTATA-TGATCTGATTATT
88971 GGTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
ATTATATGATCTGATTATTTG
Found at i:89102 original size:26 final size:28
Alignment explanation
Indices: 89030--89102 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 28
89020 TACACATTTT
* *
89030 TATATTTTATAATATATAAGTTGGTTAAA
1 TATATTTTATAATACATTAGTT-GTTAAA
* *
89059 TATA-TTTATATTTTCATTAG-T-TTAAA
1 TATATTTTATA-ATACATTAGTTGTTAAA
89085 TATATTTTATAATACATT
1 TATATTTTATAATACATT
89103 TATTGAAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
26 14 0.39
27 6 0.17
28 7 0.19
29 9 0.25
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (28 bp):
TATATTTTATAATACATTAGTTGTTAAA
Found at i:95737 original size:2 final size:2
Alignment explanation
Indices: 95730--95760 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95720 TTATTGAGCA
95730 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 A
95761 AGGTCTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99070 original size:16 final size:16
Alignment explanation
Indices: 99051--99085 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
99041 TAGTAATTTT
99051 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
99067 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
99083 AAT
1 AAT
99086 TACGAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:106813 original size:269 final size:272
Alignment explanation
Indices: 106313--106852 Score: 978
Period size: 269 Copynumber: 2.0 Consensus size: 272
106303 TTTTCCTTGC
106313 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
1 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
* *
106378 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTTACTGGAAAAAGCATGGCTCATCC
66 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
* *
106443 TTGTTTTAAGCAAATATAGTTTAGCGTGCTTGCTTGGCATGTTCTATTGGGAAACCTTGATCTGC
131 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACA-GTTCTATTGGGAAACCTTGATCTGC
*
106508 CCAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATAGCCTCAGGTGCAAGGCACATAACA
195 CCAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATAGCCTCAGGTGCAAGGCACATAAAA
106573 AGTGTTAGCTTAG
260 AGTGTTAGCTTAG
*
106586 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTG-TTTTCAGTTTGATGTGTGCTTC
1 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
*
106650 AAATGCATTCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCG-AAAAGCATGGCTCATCC
66 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
106714 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACA-TTCTATTGGGAAACCTTGATCTGCC
131 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACAGTTCTATTGGGAAACCTTGATCTGCC
*
106778 CAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACATAAAAA
196 CAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATAGCCTCAGGTGCAAGGCACATAAAAA
106843 GTGTTAGCTT
261 GTGTTAGCTT
106853 GCATGAAGTA
Statistics
Matches: 259, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
269 98 0.38
271 54 0.21
272 65 0.25
273 42 0.16
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (272 bp):
TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACAGTTCTATTGGGAAACCTTGATCTGCC
CAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATAGCCTCAGGTGCAAGGCACATAAAAA
GTGTTAGCTTAG
Found at i:114928 original size:15 final size:15
Alignment explanation
Indices: 114908--114974 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 15
114898 CCGGTCCCCA
*
114908 AATAAATTAAAACCC
1 AATAAATTAAAATCC
114923 AATAAA-T-AAA--C
1 AATAAATTAAAATCC
* *
114934 AA-AAAATAAAGTCC
1 AATAAATTAAAATCC
114948 AATAAATTAAAATCC
1 AATAAATTAAAATCC
*
114963 ATTAAATTAAAA
1 AATAAATTAAAA
114975 AGTTCAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 3 0.07
11 4 0.09
12 2 0.05
13 3 0.07
14 4 0.09
15 27 0.63
ACGTcount: A:0.64, C:0.12, G:0.01, T:0.22
Consensus pattern (15 bp):
AATAAATTAAAATCC
Found at i:116141 original size:4 final size:4
Alignment explanation
Indices: 116134--116158 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
116124 ACCAAGCTCT
116134 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
116159 AAATTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:124962 original size:21 final size:22
Alignment explanation
Indices: 124933--124975 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
124923 ACTTTCATCA
*
124933 TTAAGCCTTAATTAACCCATTT
1 TTAAGCCTTAATCAACCCATTT
*
124955 TTAA-CCTTAATCAACCTATTT
1 TTAAGCCTTAATCAACCCATTT
124976 ATACTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAGCCTTAATCAACCCATTT
Found at i:128458 original size:20 final size:21
Alignment explanation
Indices: 128433--128488 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
128423 CAATAAGTTG
*
128433 TACCAAAATTTCTAATGC-TA
1 TACCAAAATTTCTAATGCAAA
*
128453 TACCAATATTTCTAA--CAAA
1 TACCAAAATTTCTAATGCAAA
*
128472 TACCAAAATTTTTAATG
1 TACCAAAATTTCTAATG
128489 GAAGATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 14 0.48
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.36
Consensus pattern (21 bp):
TACCAAAATTTCTAATGCAAA
Found at i:132995 original size:17 final size:17
Alignment explanation
Indices: 132973--133006 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
132963 CTAACTCAAA
132973 ACCAAATCCTGAAAGAT
1 ACCAAATCCTGAAAGAT
132990 ACCAAATCCTGAAAGAT
1 ACCAAATCCTGAAAGAT
133007 TTCGTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
ACCAAATCCTGAAAGAT
Found at i:133030 original size:13 final size:13
Alignment explanation
Indices: 133014--133038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133004 GATTTCGTTG
133014 AAATCAATATAGT
1 AAATCAATATAGT
133027 AAATCAATATAG
1 AAATCAATATAG
133039 ATTTATAGTA
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATCAATATAGT
Found at i:137982 original size:2 final size:2
Alignment explanation
Indices: 137970--138002 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
137960 TCCACTAACT
*
137970 TA TA AA 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
138003 TAATAATAAT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:139754 original size:2 final size:2
Alignment explanation
Indices: 139747--139772 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
139737 AAATTTGTTC
139747 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
139773 TTACGTGCAC
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:140808 original size:12 final size:12
Alignment explanation
Indices: 140782--140846 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
140772 GTTTTTACTA
* *
140782 TTTTGGTATTGT
1 TTTTGCTATTAT
*
140794 TTTTGCTGTTAT
1 TTTTGCTATTAT
* * *
140806 TTTTGTTGTTGT
1 TTTTGCTATTAT
* *
140818 TTTTGTTAATAT
1 TTTTGCTATTAT
140830 TTTTGCTATTAT
1 TTTTGCTATTAT
140842 TTTTG
1 TTTTG
140847 TTACTGTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.11, C:0.03, G:0.17, T:0.69
Consensus pattern (12 bp):
TTTTGCTATTAT
Found at i:140830 original size:24 final size:24
Alignment explanation
Indices: 140803--140849 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
140793 TTTTTGCTGT
* * *
140803 TATTTTTGTTGTTGTTTTTGTTAA
1 TATTTTTGCTATTATTTTTGTTAA
140827 TATTTTTGCTATTATTTTTGTTA
1 TATTTTTGCTATTATTTTTGTTA
140850 CTGTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.02, G:0.13, T:0.70
Consensus pattern (24 bp):
TATTTTTGCTATTATTTTTGTTAA
Found at i:140833 original size:36 final size:36
Alignment explanation
Indices: 140793--140875 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
140783 TTTGGTATTG
** *
140793 TTTTTGCTGTTATTTTTGTTGTTGTTTTTGTTAATA
1 TTTTTGCTGTTATTTTTGTTACTGTTTTTATTAATA
* **
140829 TTTTTGCTATTATTTTTGTTACTGTTTTTATTTCTA
1 TTTTTGCTGTTATTTTTGTTACTGTTTTTATTAATA
*
140865 TTTTTGTTGTT
1 TTTTTGCTGTT
140876 TTGCTGCTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.71
Consensus pattern (36 bp):
TTTTTGCTGTTATTTTTGTTACTGTTTTTATTAATA
Found at i:140856 original size:12 final size:12
Alignment explanation
Indices: 140803--140872 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
140793 TTTTTGCTGT
**
140803 TATTTTTGTTGT
1 TATTTTTGTTAC
* *
140815 TGTTTTTGTTAA
1 TATTTTTGTTAC
* *
140827 TATTTTTGCTAT
1 TATTTTTGTTAC
140839 TATTTTTGTTAC
1 TATTTTTGTTAC
* * *
140851 TGTTTTTATTTC
1 TATTTTTGTTAC
140863 TATTTTTGTT
1 TATTTTTGTT
140873 GTTTTGCTGC
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.13, C:0.04, G:0.11, T:0.71
Consensus pattern (12 bp):
TATTTTTGTTAC
Found at i:140919 original size:32 final size:31
Alignment explanation
Indices: 140854--140920 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
140844 TTGTTACTGT
* * * *
140854 TTTTATTTCTATTTTTGTTGTTTTGCTGCTA
1 TTTTATTCCTATTTTGGTTGTTTGGATGCTA
*
140885 TTTTAGTTCCTATTTTGGTTGTTTGGATGTTA
1 TTTTA-TTCCTATTTTGGTTGTTTGGATGCTA
140917 TTTT
1 TTTT
140921 TATGCGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.10, C:0.07, G:0.16, T:0.66
Consensus pattern (31 bp):
TTTTATTCCTATTTTGGTTGTTTGGATGCTA
Found at i:142395 original size:27 final size:27
Alignment explanation
Indices: 142365--142431 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
142355 TAAAATAAGT
* ** *
142365 ATTAAAAAAATTACTTTAATTACCTGA
1 ATTAAAAAAATTAATAGAATTACCCGA
**
142392 ATTAATCAAATTAATAGAATTACCCGA
1 ATTAAAAAAATTAATAGAATTACCCGA
142419 ATT-AAAAAATTAA
1 ATTAAAAAAATTAA
142432 CCAAATTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTAAAAAAATTAATAGAATTACCCGA
Found at i:142411 original size:18 final size:17
Alignment explanation
Indices: 142390--142442 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
142380 TTAATTACCT
*
142390 GAATTAATCAAATTAATA
1 GAATTAACCAAATTAA-A
* *
142408 GAATTACCCGAATTAAA
1 GAATTAACCAAATTAAA
*
142425 AAATTAACCAAATTAAA
1 GAATTAACCAAATTAAA
142442 G
1 G
142443 TATTGACTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (17 bp):
GAATTAACCAAATTAAA
Found at i:148049 original size:3 final size:3
Alignment explanation
Indices: 148041--148075 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
148031 TTTATTTTCT
148041 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
148076 TAGGCTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:149455 original size:29 final size:29
Alignment explanation
Indices: 149422--149479 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
149412 CAAACGACGA
*
149422 ATCAAAGTGTCAAGAATCAATTGGAAGTT
1 ATCAAAGTGTCAAGAACCAATTGGAAGTT
*
149451 ATCAAAGTGTCAAGAACCAGTTGGAAGTT
1 ATCAAAGTGTCAAGAACCAATTGGAAGTT
149480 CTACGGTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (29 bp):
ATCAAAGTGTCAAGAACCAATTGGAAGTT
Found at i:152200 original size:21 final size:22
Alignment explanation
Indices: 152174--152215 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
152164 AATCAAAAAG
152174 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
152195 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
152216 ATGTGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:153861 original size:17 final size:17
Alignment explanation
Indices: 153839--153872 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
153829 GTAGTTGCAA
153839 TTAA-TTTTACTTAATTT
1 TTAATTTTTAC-TAATTT
153856 TTAATTTTTACTAATTT
1 TTAATTTTTACTAATTT
153873 GTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATTTTTACTAATTT
Found at i:153895 original size:21 final size:21
Alignment explanation
Indices: 153860--153904 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
153850 TAATTTTTAA
153860 TTTTTACTAATTTGTTATTATT
1 TTTTTACTAATTTGTT-TTATT
* *
153882 TTTTTTCTAA-TTGTTTTCTT
1 TTTTTACTAATTTGTTTTATT
153902 TTT
1 TTT
153905 CAGATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTACTAATTTGTTTTATT
Found at i:154895 original size:48 final size:48
Alignment explanation
Indices: 154824--154923 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
154814 TCTGCATTGT
154824 CAGCGTAGGTATCTTCACTGGCCAATATCATAAAGAATATGAAAGGAA
1 CAGCGTAGGTATCTTCACTGGCCAATATCATAAAGAATATGAAAGGAA
154872 CAGCGTAGGTATCTTCACTGGCCAATATCATAAAGAATATGAAAGGAA
1 CAGCGTAGGTATCTTCACTGGCCAATATCATAAAGAATATGAAAGGAA
154920 CAGC
1 CAGC
154924 TATGAAGAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (48 bp):
CAGCGTAGGTATCTTCACTGGCCAATATCATAAAGAATATGAAAGGAA
Found at i:165011 original size:18 final size:19
Alignment explanation
Indices: 164951--165011 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
164941 CAAAATTTTT
*
164951 AAAATATAAAAAAATTAT-
1 AAAATATAAAAATATTATA
* *
164969 AAATTATAAAAATATATCTGA
1 AAAATATAAAAATAT-TAT-A
164990 AAAAT-TAAAAATATTATA
1 AAAATATAAAAATATTATA
165008 AAAA
1 AAAA
165012 AATCTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 18 0.51
19 4 0.11
20 9 0.26
21 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATATAAAAATATTATA
Found at i:167953 original size:26 final size:26
Alignment explanation
Indices: 167941--168024 Score: 118
Period size: 25 Copynumber: 3.2 Consensus size: 26
167931 ACAGAGTTTA
167941 GCTCTTACGAGCCTAGACAGAATATC
1 GCTCTTACGAGCCTAGACAGAATATC
*
167967 GCTCTTATGAG-CTAGACAGAATATC
1 GCTCTTACGAGCCTAGACAGAATATC
*
167992 GCTCTTACGAGCC-AGAATTAGAATATC
1 GCTCTTACGAGCCTAG-A-CAGAATATC
168019 GCTCTT
1 GCTCTT
168025 TCAAGCCAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
25 26 0.50
26 12 0.23
27 14 0.27
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (26 bp):
GCTCTTACGAGCCTAGACAGAATATC
Found at i:168022 original size:27 final size:27
Alignment explanation
Indices: 167941--168197 Score: 231
Period size: 27 Copynumber: 9.6 Consensus size: 27
167931 ACAGAGTTTA
*
167941 GCTCTTACGAGCCTAG-A-CAGAATATC
1 GCTCTTTCGAGCC-AGAATCAGAATATC
*
167967 GCTCTTAT-GAGCTAG-A-CAGAATATC
1 GCTCTT-TCGAGCCAGAATCAGAATATC
* *
167992 GCTCTTACGAGCCAGAATTAGAATATC
1 GCTCTTTCGAGCCAGAATCAGAATATC
* *
168019 GCTCTTTCAAGCCAGAATTAGAATAAT-
1 GCTCTTTCGAGCCAGAATCAGAAT-ATC
* *
168046 GCTTTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATATC
* * * *
168073 GCTTTTTCGAGCCAGAACCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATATC
* *
168100 GCTCTTTCGAACCAGAATCAAAATAAT-
1 GCTCTTTCGAGCCAGAATCAGAAT-ATC
* * *
168127 GCTCTTTCGAGCTAGAATAAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATATC
* *
168154 GCTCTTTCGAGCCAGAATCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATATC
* * *
168181 ACTATTTTGAGCCAGAA
1 GCTCTTTCGAGCCAGAA
168198 GCAAATTACT
Statistics
Matches: 195, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.12
26 13 0.07
27 155 0.79
28 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATATC
Found at i:168196 original size:81 final size:81
Alignment explanation
Indices: 167984--168202 Score: 276
Period size: 81 Copynumber: 2.7 Consensus size: 81
167974 TGAGCTAGAC
* * * * * * * *
167984 AGAATATCGCTCTTACGAGCCAGAATTAGAATATCGCTCTTTCAAGCCAGAATTAGAATAATGCT
1 AGAATAACGCTCTTTCGAGCCAGAATCAAAATAACGCTCTTTCGAGCCAGAATCAAAATAATGCT
* *
168049 TTTTCGAGCCAGAATC
66 CTTTCGAGCCAGAATA
* * *
168065 AGAATAACGCTTTTTCGAGCCAGAACCAAAATAACGCTCTTTCGAACCAGAATCAAAATAATGCT
1 AGAATAACGCTCTTTCGAGCCAGAATCAAAATAACGCTCTTTCGAGCCAGAATCAAAATAATGCT
*
168130 CTTTCGAGCTAGAATA
66 CTTTCGAGCCAGAATA
* * * *
168146 AGAATAACGCTCTTTCGAGCCAGAATCAAAATAACACTATTTTGAGCCAGAAGCAAA
1 AGAATAACGCTCTTTCGAGCCAGAATCAAAATAACGCTCTTTCGAGCCAGAATCAAA
168203 TTACTCCTCA
Statistics
Matches: 117, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (81 bp):
AGAATAACGCTCTTTCGAGCCAGAATCAAAATAACGCTCTTTCGAGCCAGAATCAAAATAATGCT
CTTTCGAGCCAGAATA
Found at i:168202 original size:27 final size:27
Alignment explanation
Indices: 167986--168202 Score: 238
Period size: 27 Copynumber: 8.0 Consensus size: 27
167976 AGCTAGACAG
* * * *
167986 AATATCGCTCTTACGAGCCAGAATTAG
1 AATAACGCTCTTTCGAGCCAGAATCAA
* * * *
168013 AATATCGCTCTTTCAAGCCAGAATTAG
1 AATAACGCTCTTTCGAGCCAGAATCAA
* * *
168040 AATAATGCTTTTTCGAGCCAGAATCAG
1 AATAACGCTCTTTCGAGCCAGAATCAA
* *
168067 AATAACGCTTTTTCGAGCCAGAACCAA
1 AATAACGCTCTTTCGAGCCAGAATCAA
*
168094 AATAACGCTCTTTCGAACCAGAATCAA
1 AATAACGCTCTTTCGAGCCAGAATCAA
* *
168121 AATAATGCTCTTTCGAGCTAGAAT-AA
1 AATAACGCTCTTTCGAGCCAGAATCAA
168147 GAATAACGCTCTTTCGAGCCAGAATCAA
1 -AATAACGCTCTTTCGAGCCAGAATCAA
* * * *
168175 AATAACACTATTTTGAGCCAGAAGCAA
1 AATAACGCTCTTTCGAGCCAGAATCAA
168202 A
1 A
168203 TTACTCCTCA
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 162 0.98
28 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (27 bp):
AATAACGCTCTTTCGAGCCAGAATCAA
Found at i:168840 original size:23 final size:23
Alignment explanation
Indices: 168814--168860 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
168804 AGTTTAGTTG
*
168814 ATTTTACATATT-TTATTTAATTT
1 ATTTTACAT-TTATTATTCAATTT
168837 ATTTTACATTTATTATTCAATTT
1 ATTTTACATTTATTATTCAATTT
168860 A
1 A
168861 ACACTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTACATTTATTATTCAATTT
Found at i:172850 original size:52 final size:52
Alignment explanation
Indices: 172793--173078 Score: 374
Period size: 52 Copynumber: 5.5 Consensus size: 52
172783 TAATACTTAT
* * * * * * *
172793 GATGACACATAATCATCGGACCTCTTATTCCGTGAAGGAATCATATACTCAC
1 GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
* * *
172845 GATGACACATAGTCATCACACCTTTTAATCCATAAAGTATTCATATACTCAT
1 GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
* * * *
172897 GATGGCACATAGTCATCAAACTTTTTAATCCATAAAGGATTCATATACTCAT
1 GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
* *
172949 GATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATTCTCAC
1 GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
* * *
173001 GATGACACTTATTCATCAGATCTTTTAATCCATAAAGGATTCATATACTCAC
1 GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
* **
173053 GATGATACATAGTCATTGGACCTTTT
1 GATGACACATAGTCATCAGACCTTTT
173079 CATTATTTAC
Statistics
Matches: 203, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 203 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (52 bp):
GATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCAC
Found at i:178160 original size:52 final size:52
Alignment explanation
Indices: 178096--178388 Score: 435
Period size: 52 Copynumber: 5.7 Consensus size: 52
178086 ATTTCATTTA
* * * * *
178096 ATACTCATGATGACACATAGTCATCGGACCTGTTAATCCGTGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
178148 ATACTCACGATGACACATAGTCATCAGACCTTTTAATCCATAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* * *
178200 ATACTCACAATGGCACATAGTCATCGGAGCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
*
178252 ATACTCACGATGATACAT-GTCATCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
*
178303 ATTCTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* * * *
178355 ATACTCACAATAACTCATAGTCATCAGACCTTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTTT
178389 CTTTATTTAC
Statistics
Matches: 217, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
51 48 0.22
52 169 0.78
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
Found at i:178325 original size:103 final size:104
Alignment explanation
Indices: 178096--178388 Score: 437
Period size: 103 Copynumber: 2.8 Consensus size: 104
178086 ATTTCATTTA
* * * * *
178096 ATACTCATGATGACACATAGTCATCGGACCTGTTAATCCGTGAAGGAATCATATACTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACGATGA
* *
178161 CACATAGTCATCAGACCTTTTAATCCATAAAGGATTTAT
66 TACATAGTCATCAGACCTTTTAATCCATAAAGGATTCAT
* * *
178200 ATACTCACAATGGCACATAGTCATCGGAGCTTTTAATCCATAAAGGATTCATATACTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACGATGA
*
178265 TACAT-GTCATCGGACCTTTTAATCCATAAAGGATTCAT
66 TACATAGTCATCAGACCTTTTAATCCATAAAGGATTCAT
* * *
178303 ATTCTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACAATAA
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACGATGA
178368 CT-CATAGTCATCAGACCTTTT
66 -TACATAGTCATCAGACCTTTT
178389 CTTTATTTAC
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
103 93 0.55
104 76 0.45
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (104 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACGATGA
TACATAGTCATCAGACCTTTTAATCCATAAAGGATTCAT
Found at i:178327 original size:155 final size:156
Alignment explanation
Indices: 178096--178388 Score: 453
Period size: 155 Copynumber: 1.9 Consensus size: 156
178086 ATTTCATTTA
* * *
178096 ATACTCATGATGACACATAGTCATCGGACCTGTTAATCCGTGAAGGAATCATATACTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTGTTAATCCATAAAGGAATCATATACTCACGATGA
* ** *
178161 CACATAGTCATCAGACCTTTTAATCCATAAAGGATTTATATACTCACAATGGCACATAGTCATCG
66 CACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCACAATAACACATAGTCATCA
*
178226 GAGCTTTTAATCCATAAAGGATTCAT
131 GACCTTTTAATCCATAAAGGATTCAT
* * * *
178252 ATACTCACGATGATACAT-GTCATCGGACCTTTTAATCCATAAAGGATTCATATTCTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTGTTAATCCATAAAGGAATCATATACTCACGATGA
* *
178316 CACATAGTCATCGGACCTTTTAATCCATAAAGGATTCATATACTCACAATAACTCATAGTCATCA
66 CACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCACAATAACACATAGTCATCA
178381 GACCTTTT
131 GACCTTTT
178389 CTTTATTTAC
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
155 107 0.87
156 16 0.13
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (156 bp):
ATACTCACGATGACACATAGTCATCGGACCTGTTAATCCATAAAGGAATCATATACTCACGATGA
CACATAGTCATCAGACCTTTTAATCCATAAAGGATTCATATACTCACAATAACACATAGTCATCA
GACCTTTTAATCCATAAAGGATTCAT
Found at i:180207 original size:26 final size:26
Alignment explanation
Indices: 180164--180213 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
180154 TTCCAAAAAC
*
180164 TTAGCTCATATGAACCCAGACAGAGT
1 TTAGCTCATACGAACCCAGACAGAGT
* *
180190 TTAGCTCTTACGAGCCCAGACAGA
1 TTAGCTCATACGAACCCAGACAGA
180214 ATATCGCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (26 bp):
TTAGCTCATACGAACCCAGACAGAGT
Found at i:180236 original size:51 final size:50
Alignment explanation
Indices: 180181--180334 Score: 139
Period size: 50 Copynumber: 3.0 Consensus size: 50
180171 ATATGAACCC
* * *
180181 AGACAGAGTTTAGCTCTTACGAGCCCAGACAGAATATCGC-CTTTACGAGCT
1 AGACAGAATATAGCTCTTACGAG-CCACACAGAATATCGCTC-TTACGAGCT
* **
180232 AGACAGAATATCGCTCTTACGAGTTACACAGAATATCGCTCTTACGAGCT
1 AGACAGAATATAGCTCTTACGAGCCACACAGAATATCGCTCTTACGAGCT
* ** * * *
180282 AGAATCAGAATATCGCTCAAACGAGCCAAAATCAGAATATCGCTTTTTCGAGC
1 AG-A-CAGAATATAGCTCTTACGAGCC-ACA-CAGAATATCGCTCTTACGAGC
180335 CAGAATTAGA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
50 24 0.28
51 22 0.26
52 18 0.21
53 2 0.02
54 19 0.22
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (50 bp):
AGACAGAATATAGCTCTTACGAGCCACACAGAATATCGCTCTTACGAGCT
Found at i:180239 original size:25 final size:25
Alignment explanation
Indices: 180193--180299 Score: 144
Period size: 25 Copynumber: 4.2 Consensus size: 25
180183 ACAGAGTTTA
*
180193 GCTCTTACGAGCCCAGACAGAATATC
1 GCTCTTACGAG-CTAGACAGAATATC
180219 GC-CTTTACGAGCTAGACAGAATATC
1 GCTC-TTACGAGCTAGACAGAATATC
* *
180244 GCTCTTACGAGTTACACAGAATATC
1 GCTCTTACGAGCTAGACAGAATATC
180269 GCTCTTACGAGCTAGAATCAGAATATC
1 GCTCTTACGAGCTAG-A-CAGAATATC
180296 GCTC
1 GCTC
180300 AAACGAGCCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
25 48 0.67
26 11 0.15
27 13 0.18
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (25 bp):
GCTCTTACGAGCTAGACAGAATATC
Found at i:180298 original size:27 final size:27
Alignment explanation
Indices: 180193--180506 Score: 220
Period size: 27 Copynumber: 11.8 Consensus size: 27
180183 ACAGAGTTTA
180193 GCTCTTACGAGCCCAG-A-CAGAATATC
1 GCTCTTACGAG-CCAGAATCAGAATATC
*
180219 GC-CTTTACGAGCTAG-A-CAGAATATC
1 GCTC-TTACGAGCCAGAATCAGAATATC
** *
180244 GCTCTTACGAGTTA-CA-CAGAATATC
1 GCTCTTACGAGCCAGAATCAGAATATC
*
180269 GCTCTTACGAGCTAGAATCAGAATATC
1 GCTCTTACGAGCCAGAATCAGAATATC
** *
180296 GCTCAAACGAGCCAAAATCAGAATATC
1 GCTCTTACGAGCCAGAATCAGAATATC
* * *
180323 GCTTTTTCGAGCCAGAATTAGAATAAT-
1 GCTCTTACGAGCCAGAATCAGAAT-ATC
180350 GCTCTTTA-GAGCCAGAATCA-AAGTAAT-
1 GCTC-TTACGAGCCAGAATCAGAA-T-ATC
* * *
180377 GCTCTTTA-AAGCCAGAATCAGAGTAAC
1 GCTC-TTACGAGCCAGAATCAGAATATC
* *
180404 GCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTACGAGCCAGAATCAGAATATC
* * * *
180431 GCTCTTTCGATCCAGAATCAAAATAAC
1 GCTCTTACGAGCCAGAATCAGAATATC
** * * *
180458 ATTCTTTCGATCCAGAATCAGAATAAC
1 GCTCTTACGAGCCAGAATCAGAATATC
* ** *
180485 ACTCTTTTGAGCCATAATCAGA
1 GCTCTTACGAGCCAGAATCAGA
180507 TTACTCCTCA
Statistics
Matches: 245, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
25 48 0.20
26 16 0.07
27 176 0.72
28 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (27 bp):
GCTCTTACGAGCCAGAATCAGAATATC
Found at i:193044 original size:153 final size:153
Alignment explanation
Indices: 192872--193178 Score: 596
Period size: 153 Copynumber: 2.0 Consensus size: 153
192862 TAAAATTAAT
192872 TTTTTTGTTATATATTATTATATAGTCTCGTTATGTCTTTTAATAGAATCCAAGTTTTTATTTAT
1 TTTTTTGTTATATATTATTATATAGTCTCGTTATGTCTTTTAATAGAATCCAAGTTTTTATTTAT
192937 AAATACAATAAACCTCTTTTCTAGTAATCTTATTTAACCAAATATTTCAAATATCAAAATTATAC
66 AAATACAATAAACCTCTTTTCTAGTAATCTTATTTAACCAAATATTTCAAATATCAAAATTATAC
193002 ATGAACTTTGATACAATTGACAG
131 ATGAACTTTGATACAATTGACAG
193025 TTTTTTGTTATATATTATTATATAGTCTCGTTATGTCTTTTAATAGAATCCAAGTTTTTATTTAT
1 TTTTTTGTTATATATTATTATATAGTCTCGTTATGTCTTTTAATAGAATCCAAGTTTTTATTTAT
193090 AAATACAATAAACCTCTTTTCTAGTAATCTTATTTAACCAAATATTTCAAATATCAAAATTATAC
66 AAATACAATAAACCTCTTTTCTAGTAATCTTATTTAACCAAATATTTCAAATATCAAAATTATAC
* *
193155 ATGAACTTTGATATAATTGGCAG
131 ATGAACTTTGATACAATTGACAG
193178 T
1 T
193179 GTTATATACA
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (153 bp):
TTTTTTGTTATATATTATTATATAGTCTCGTTATGTCTTTTAATAGAATCCAAGTTTTTATTTAT
AAATACAATAAACCTCTTTTCTAGTAATCTTATTTAACCAAATATTTCAAATATCAAAATTATAC
ATGAACTTTGATACAATTGACAG
Found at i:193853 original size:26 final size:26
Alignment explanation
Indices: 193814--193865 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
193804 ACAAATCATA
*
193814 CAACTCTAATAAAAA-AAACAGAGATG
1 CAACTCTAACAAAAAGAAA-AGAGATG
193840 CAACTCTAACAAAAAGAAAAGAGATG
1 CAACTCTAACAAAAAGAAAAGAGATG
193866 GAGTATAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.58, C:0.15, G:0.13, T:0.13
Consensus pattern (26 bp):
CAACTCTAACAAAAAGAAAAGAGATG
Found at i:195923 original size:10 final size:10
Alignment explanation
Indices: 195901--195940 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
195891 GTTGAATAAG
195901 TAATATT-AA
1 TAATATTAAA
195910 TAATATTAAA
1 TAATATTAAA
195920 TAATATTAAA
1 TAATATTAAA
195930 TAATATTAAA
1 TAATATTAAA
195940 T
1 T
195941 TATAAGATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATATTAAA
Found at i:203358 original size:50 final size:50
Alignment explanation
Indices: 203296--203402 Score: 178
Period size: 50 Copynumber: 2.1 Consensus size: 50
203286 TATTTTGGTG
* *
203296 GTTGAATCATCAAATCTCTCTTTCATTTTGTGTTGTGTTATTAAATTTTT
1 GTTGAATAATCAAATCTCTCTTTCATTTTGTGTCGTGTTATTAAATTTTT
* *
203346 GTTGAATAATCAAATTTCTCTTTCATTTTGTGTCGTGTTATTCAATTTTT
1 GTTGAATAATCAAATCTCTCTTTCATTTTGTGTCGTGTTATTAAATTTTT
203396 GTTGAAT
1 GTTGAAT
203403 TGATAGATGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.53
Consensus pattern (50 bp):
GTTGAATAATCAAATCTCTCTTTCATTTTGTGTCGTGTTATTAAATTTTT
Found at i:208143 original size:3 final size:3
Alignment explanation
Indices: 208135--208168 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
208125 CCAAACGCAA
208135 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
208169 GTAGACCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:211216 original size:55 final size:55
Alignment explanation
Indices: 211156--211285 Score: 183
Period size: 58 Copynumber: 2.3 Consensus size: 55
211146 TTGATAATTA
211156 TTCTAATTTGG-CTCCTA-TTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATTT
1 TTCTAATTTGGTC-CCTATTTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGA-TT
* *
211211 TTCTAATTTGGTCCCTATTTTTTTTTTGTTTACATTAGTCCCAAAACTTGGTAGATT
1 TTCTAATTTGGTCCCTA--TTTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATT
211268 TTCTGAATTTGGTCCCTA
1 TTCT-AATTTGGTCCCTA
211286 ACTTGGATTC
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
55 15 0.22
56 1 0.01
57 6 0.09
58 46 0.68
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (55 bp):
TTCTAATTTGGTCCCTATTTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATT
Found at i:211253 original size:58 final size:58
Alignment explanation
Indices: 211173--211285 Score: 192
Period size: 58 Copynumber: 1.9 Consensus size: 58
211163 TTGGCTCCTA
211173 TTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATTTTTCT-AATTTGGTCCCTATTT
1 TTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGA-TTTTCTGAATTTGGTCCCTATTT
* *
211231 TTTTTTTGTTTACATTAGTCCCAAAACTTGGTAGATTTTCTGAATTTGGTCCCTA
1 TTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATTTTCTGAATTTGGTCCCTA
211286 ACTTGGATTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 6 0.12
58 46 0.88
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (58 bp):
TTTTTTTGTCTACATTAGTCCCAAAACTTAGTAGATTTTCTGAATTTGGTCCCTATTT
Found at i:212028 original size:21 final size:22
Alignment explanation
Indices: 212004--212056 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
211994 GCAAATGATT
*
212004 TTAAAATTATTTTTTTAAA-AA
1 TTAAAATTATTTTTTGAAATAA
212025 TTAAAATTATTTTTTGAAATAA
1 TTAAAATTATTTTTTGAAATAA
212047 -TAAAATTATT
1 TTAAAATTATT
212057 AAATAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAAATTATTTTTTGAAATAA
Found at i:213081 original size:31 final size:30
Alignment explanation
Indices: 213046--213119 Score: 121
Period size: 30 Copynumber: 2.4 Consensus size: 30
213036 ATTAAAATTA
213046 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTA-TATTTCAAAAAAATAAT
*
213077 TTTAATAATTTTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAAATAAT
*
213107 TTTTATAATTTTA
1 TTTAATAATTTTA
213120 AAATTATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 28 0.68
31 13 0.32
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAATAATTTTATATTTCAAAAAAATAAT
Found at i:213104 original size:21 final size:23
Alignment explanation
Indices: 213080--213122 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
213070 AAATAATTTT
213080 AATAA-TTTTAT-ATTTTAAAAA
1 AATAATTTTTATAATTTTAAAAA
213101 AATAATTTTTATAATTTTAAAA
1 AATAATTTTTATAATTTTAAAA
213123 TTATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAATTTTTATAATTTTAAAAA
Found at i:215068 original size:22 final size:22
Alignment explanation
Indices: 215038--215082 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
215028 TTATGCTCAA
*
215038 ACACGAAAGATCATACATTACC
1 ACACAAAAGATCATACATTACC
215060 ACACAAAAGATCATACATTACC
1 ACACAAAAGATCATACATTACC
215082 A
1 A
215083 AGCTTTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.27, G:0.07, T:0.18
Consensus pattern (22 bp):
ACACAAAAGATCATACATTACC
Found at i:217441 original size:23 final size:21
Alignment explanation
Indices: 217399--217442 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
217389 AAATTAATTC
217399 TAATTATTTTAATATTTTATT
1 TAATTATTTTAATATTTTATT
217420 TAATTATTCTTAATTATTTTATT
1 TAATTATT-TTAA-TATTTTATT
217443 ATCTAACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TAATTATTTTAATATTTTATT
Found at i:219679 original size:18 final size:18
Alignment explanation
Indices: 219656--219691 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
219646 ATGACTAGTG
219656 GCCACATTTACTTTTCAT
1 GCCACATTTACTTTTCAT
219674 GCCACATTTACTTTTCAT
1 GCCACATTTACTTTTCAT
219692 CAATCATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (18 bp):
GCCACATTTACTTTTCAT
Found at i:227370 original size:27 final size:27
Alignment explanation
Indices: 227329--227386 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
227319 AAACTTATGG
*
227329 AAAA-AATCTTTAAAATTCAAAAAA-TC
1 AAAATAATCTTTAAAA-TAAAAAAACTC
*
227355 AAAATAATTTTTAAAATAAAAAAACTC
1 AAAATAATCTTTAAAATAAAAAAACTC
227382 AAAAT
1 AAAAT
227387 CCAATGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAATAATCTTTAAAATAAAAAAACTC
Found at i:228786 original size:29 final size:31
Alignment explanation
Indices: 228754--228812 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
228744 AACTTTTTAT
228754 TTTCCC-CCAAAACTTTTACTCC-CTCTCAC
1 TTTCCCTCCAAAACTTTTACTCCTCTCTCAC
*
228783 TTTCCCTTCAAAACTTTTACTCCTCTCTCA
1 TTTCCCTCCAAAACTTTTACTCCTCTCTCA
228813 TCTCACCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 6 0.22
30 15 0.56
31 6 0.22
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTCCCTCCAAAACTTTTACTCCTCTCTCAC
Found at i:234929 original size:21 final size:20
Alignment explanation
Indices: 234892--234931 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
234882 TAAAAAATTA
*
234892 AAAAAATTTATAATTTAAAC
1 AAAAAATTAATAATTTAAAC
*
234912 AAAAAATTAAATATTTTAAA
1 AAAAAATT-AATAATTTAAA
234932 AGACATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTAATAATTTAAAC
Found at i:243436 original size:2 final size:2
Alignment explanation
Indices: 243429--243465 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
243419 GTGAGTCATA
*
243429 AT AT AT AT AT AT AT AT AT AT AT AT AC 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
243466 AGACTTTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:245161 original size:28 final size:27
Alignment explanation
Indices: 245130--245184 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
245120 TTACAATTTA
245130 CTAAT-TTTTTATAACATTTTAATAAATT
1 CTAATATTTTT-TAA-ATTTTAATAAATT
*
245158 CTAATAATTTTTTAAGTTTTAATAAAT
1 CTAAT-ATTTTTTAAATTTTAATAAAT
245185 ACTGTTACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 16 0.67
29 3 0.12
30 5 0.21
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (27 bp):
CTAATATTTTTTAAATTTTAATAAATT
Found at i:245548 original size:35 final size:36
Alignment explanation
Indices: 245477--245568 Score: 102
Period size: 35 Copynumber: 2.6 Consensus size: 36
245467 ACTTTTTAAA
245477 TTAT-TTTTTATATTTTTTCTAAAACTTTTGATTTT
1 TTATATTTTTATATTTTTTCTAAAACTTTTGATTTT
*
245512 TTATATTTTTA-ATTTTTTCT-ATACTTTCT-ATATTT
1 TTATATTTTTATATTTTTTCTAAAACTTT-TGAT-TTT
*
245547 TTATAATATTTATATATTTTTC
1 TTAT-ATTTTTATAT-TTTTTC
245569 ATAATATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
34 8 0.16
35 21 0.43
36 12 0.24
37 2 0.04
38 6 0.12
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (36 bp):
TTATATTTTTATATTTTTTCTAAAACTTTTGATTTT
Found at i:245567 original size:20 final size:18
Alignment explanation
Indices: 245507--245567 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
245497 AAAACTTTTG
245507 ATTTTTTATAT-TTTTA-
1 ATTTTTTATATATTTTAT
*
245523 ATTTTTTCTATACTTTCTAT
1 ATTTTTTATATA-TTT-TAT
245543 A-TTTTTATAATATTTATAT
1 ATTTTTTAT-ATATTT-TAT
245562 ATTTTT
1 ATTTTT
245568 CATAATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 10 0.28
18 3 0.08
19 15 0.42
20 8 0.22
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTATATATTTTAT
Found at i:247296 original size:18 final size:18
Alignment explanation
Indices: 247273--247313 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
247263 TTCTCGAGAA
* *
247273 ATTTTATATCCTTTGGGG
1 ATTTTAAATCCTTTAGGG
*
247291 ATTTTAAATCTTTTAGGG
1 ATTTTAAATCCTTTAGGG
247309 ATTTT
1 ATTTT
247314 CTTATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.54
Consensus pattern (18 bp):
ATTTTAAATCCTTTAGGG
Found at i:251648 original size:9 final size:9
Alignment explanation
Indices: 251623--251665 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
251613 TAATGAAACG
*
251623 TATAAAAAA
1 TATAAAAAT
*
251632 TATTAAAAT
1 TATAAAAAT
251641 TATAAAAAT
1 TATAAAAAT
*
251650 TATTAGAAAT
1 TA-TAAAAAT
251660 TATAAA
1 TATAAA
251666 TTATTGCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:251648 original size:19 final size:19
Alignment explanation
Indices: 251623--251665 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
251613 TAATGAAACG
251623 TATAAAAAATATTA-AAAT
1 TATAAAAAATATTAGAAAT
*
251641 TATAAAAATTATTAGAAAT
1 TATAAAAAATATTAGAAAT
251660 TATAAA
1 TATAAA
251666 TTATTGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAAAAAATATTAGAAAT
Found at i:252014 original size:73 final size:73
Alignment explanation
Indices: 251925--252080 Score: 294
Period size: 73 Copynumber: 2.1 Consensus size: 73
251915 TGAGCTCGTA
* *
251925 ATTATTTAATATTAATATTTATGAGGATGCTATAATAGTAAATTAAAGTTAGGTCTAGTAATTGT
1 ATTAGTTAATATTAATATTTATGAGGATGATATAATAGTAAATTAAAGTTAGGTCTAGTAATTGT
251990 GTTGAATT
66 GTTGAATT
251998 ATTAGTTAATATTAATATTTATGAGGATGATATAATAGTAAATTAAAGTTAGGTCTAGTAATTGT
1 ATTAGTTAATATTAATATTTATGAGGATGATATAATAGTAAATTAAAGTTAGGTCTAGTAATTGT
252063 GTTGAATT
66 GTTGAATT
252071 ATTAGTTAAT
1 ATTAGTTAAT
252081 TTAGGTCTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (73 bp):
ATTAGTTAATATTAATATTTATGAGGATGATATAATAGTAAATTAAAGTTAGGTCTAGTAATTGT
GTTGAATT
Found at i:254060 original size:26 final size:26
Alignment explanation
Indices: 254022--254091 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
254012 AAGTTCTAAG
* *
254022 TATT-TTTA-TATATGTTAATATATT
1 TATTATTTATTATATATTAATATAAT
254046 TATTATTTATTATATATTAATATAAT
1 TATTATTTATTATATATTAATATAAT
* *
254072 TATTAATTATTTATTTATTA
1 TATTATTTA-TTATATATTA
254092 CTCCTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 4 0.10
25 4 0.10
26 22 0.56
27 9 0.23
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
TATTATTTATTATATATTAATATAAT
Found at i:255211 original size:30 final size:29
Alignment explanation
Indices: 255177--255384 Score: 151
Period size: 30 Copynumber: 7.2 Consensus size: 29
255167 TTGGACCCCG
* * *
255177 AACTTATCAAAAATTACATTTTGCCCATTA
1 AACTTCTCAAAAATTAAATTTTGCCC-TCA
* *
255207 AACTTCTCAAAAATTATATTTTTACCCTCA
1 AACTTCTCAAAAATTA-AATTTTGCCCTCA
*
255237 AACTTCTCAAAAATTATAATTTTGCTCTCA
1 AACTTCTCAAAAATTA-AATTTTGCCCTCA
*
255267 AACTTCTTAAAAATTTAAATTTTG-CCTCCA
1 AACTTCTCAAAAA-TTAAATTTTGCCCT-CA
* * * *
255297 AATTTC-CAAAAATTACATTTTCCCCT-G
1 AACTTCTCAAAAATTAAATTTTGCCCTCA
* * * *
255324 AACTT-TTAAAAAATAACA-TTTGCCCCCG
1 AACTTCTCAAAAATTAA-ATTTTGCCCTCA
* *
255352 AACTT-TCAAAAATCACATTTTGACCC-CA
1 AACTTCTCAAAAATTAAATTTTG-CCCTCA
255380 AACTT
1 AACTT
255385 TCCCAAAGTC
Statistics
Matches: 143, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
27 18 0.13
28 32 0.22
29 13 0.09
30 70 0.49
31 10 0.07
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (29 bp):
AACTTCTCAAAAATTAAATTTTGCCCTCA
Found at i:255370 original size:27 final size:27
Alignment explanation
Indices: 255303--255386 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
255293 TCCAAATTTC
* * *
255303 CAAAAATTACATTTTCCCCTGAACTTTT
1 CAAAAATAACATTTGCCCCCGAAC-TTT
*
255331 AAAAAATAACATTTGCCCCCGAACTTT
1 CAAAAATAACATTTGCCCCCGAACTTT
* * *
255358 CAAAAATCACATTTTGACCCCAAACTTT
1 CAAAAATAACA-TTTGCCCCCGAACTTT
255386 C
1 C
255387 CCAAAGTCGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.26
28 35 0.74
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (27 bp):
CAAAAATAACATTTGCCCCCGAACTTT
Found at i:261565 original size:3 final size:3
Alignment explanation
Indices: 261557--261616 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
261547 TTATGATATT
*
261557 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
261605 GAA AAA GAA GAA
1 GAA GAA GAA GAA
261617 AGAAATGACC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:262928 original size:42 final size:42
Alignment explanation
Indices: 262869--262954 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
262859 TCACCTAACG
* *
262869 AAAAAAAGAGATTGAGATGAAAACCCATAAAAGGCGTCTCGA
1 AAAAAAAGAGATCGAGATGAAAACCCACAAAAGGCGTCTCGA
* * * *
262911 AAAAAAAGGGATCGAGATGAAAACCCGCAAAGGGCGTCTTGA
1 AAAAAAAGAGATCGAGATGAAAACCCACAAAAGGCGTCTCGA
262953 AA
1 AA
262955 CTAATAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (42 bp):
AAAAAAAGAGATCGAGATGAAAACCCACAAAAGGCGTCTCGA
Found at i:264000 original size:99 final size:99
Alignment explanation
Indices: 263698--264478 Score: 367
Period size: 99 Copynumber: 8.0 Consensus size: 99
263688 AATACCCTGG
* * *
263698 AGATATGATGGG-AAGGATTGAGGCCGCAACGGTGAA-TCTAGTACCTTAAAAGATGTGATGGGA
1 AGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTC-GGTACCTTAGAAGATGTGATGGGA
*** * * * ***
263761 AAGGTTGAGGCCACCACGACAAACTTGGTACC----
64 AAGGTTGAGGCCGTAATGGCGAACCCAGTACCATGA
* * * * * *
263793 --ATACGAAGGGAAAGGTTGAGACCACAACGGTGAACCCGGTA-CTTAAGACGATGCGATGGGAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTT-AGAAGATGTGATGGGAA
* * *
263855 AGGTTGAGGTCGTAATGGCGAACCCTA-TACCACGG
65 AGGTTGAGGCCGTAATGGCGAACCC-AGTACCATGA
* *
263890 AGATATAAAGGGAAAGGTGGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAAA
* *
263955 AGTTGAGGCCGTAATGGTGAACCCAGTACCATGA
66 GGTTGAGGCCGTAATGGCGAACCCAGTACCATGA
* * * ** ** * * * *
263989 AGATTTGAAGGG-AAGGATTCAGGTCGTGAC-GACAAATCTGGTACCTTAAAATATGTGATAGGA
1 AGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTC-GGTACCTTAGAAGATGTGATGGGA
* * * * *
264052 AAGGTTGAGGCCGTAACGACAAACTCGGTACCATGA
64 AAGGTTGAGGCCGTAATGGCGAACCCAGTACCATGA
* * ** * * * *
264088 AGATACGAAGGGAAATGTTGAGGCCGCAACGGCAAAC-CTTGTACCAT-GAAGATATGAAGGGAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC-GGTACCTTAGAAGATGTGATGGGAA
* * * * * **
264151 AGGTTGAGACTGTAACGACGAACCCCGTACCTAAAA
65 AGGTTGAGGCCGTAATGGCGAACCCAGTACC-ATGA
** * * ** * * * * * *
264187 AGATGCGATGGGAAAGGATGAGGCCGCAACGACGAACCCGATA-C-TACGGAGATATAAAGGGAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTA-GAAGATGTGATGGGAA
* * * * * ** * *
264250 AGATTGAGGCCGTGACGACGAATCTGGTACCTTAAA
65 AGGTTGAGGCCGTAATGGCGAACCCAGTACCAT-GA
* * * * * * ** *
264286 AGATGTGATGGGAAAGGTTGAGGCTGCAACGATGAACTCGATACCAT-GAAGATAAGAAGGGAAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAAA
**** * *
264350 GGTTGAGGCCGTAACAATGAACCCGGTACCTAAGA
66 GGTTGAGGCCGTAATGGCGAACCCAGTACC-ATGA
** * * * ** ** * *
264385 AGATGCG-AGAGGAAAGGTTGAGGCTGTAATGGTGAACTCGGTACCACAG-AGACATAAAGGGAA
1 AGATATGAAG-GGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAA
* * *
264448 AGGTTGAGGCCGTAACGACGAACCCGGTACC
65 AGGTTGAGGCCGTAATGGCGAACCCAGTACC
264479 TTAAAAGATG
Statistics
Matches: 536, Mismatches: 124, Indels: 48
0.76 0.18 0.07
Matches are distributed among these distances:
92 3 0.01
93 62 0.12
94 5 0.01
97 1 0.00
98 49 0.09
99 403 0.75
100 12 0.02
101 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (99 bp):
AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAAA
GGTTGAGGCCGTAATGGCGAACCCAGTACCATGA
Found at i:264169 original size:148 final size:149
Alignment explanation
Indices: 263900--264219 Score: 340
Period size: 148 Copynumber: 2.2 Consensus size: 149
263890 AGATATAAAG
* *** * ** *
263900 GGAAAGGTGGAGGCCGCAACGGTGAACTCGGTACCTTAGAAGATGTGATGGGAAAAGTTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCATAGAAGATACGAAGGGAAAAGTTGAGGCC
* * ** * * * * **
263965 GTAATGGTGAACCCAGTACCATGAAGATTTGAAGGGAAGGATTCAGGTCGTGACGACAAATCTGG
66 GCAACGGCAAACCCAGTACCATGAAGATATGAAGGGAAGGATTCAGCTCGTAACGACAAACCCCG
* * *
264030 TACCTTAAAATATGTGATA
131 TACCTAAAAAGATGCGATA
* *
264049 GGAAAGGTTGAGGCCGTAACGACAAACTCGGTACCAT-GAAGATACGAAGGGAAATGTTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCATAGAAGATACGAAGGGAAAAGTTGAGGCC
** * *
264113 GCAACGGCAAACCTTGTACCATGAAGATATGAAGGGAAAGG-TTGAGACT-GTAACGACGAACCC
66 GCAACGGCAAACCCAGTACCATGAAGATATGAAGGG-AAGGATTCAG-CTCGTAACGACAAACCC
*
264176 CGTACCTAAAAAGATGCGATG
129 CGTACCTAAAAAGATGCGATA
*
264197 GGAAAGGATGAGGCCGCAACGAC
1 GGAAAGGTTGAGGCCGCAACGAC
264220 GAACCCGATA
Statistics
Matches: 139, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
148 103 0.74
149 36 0.26
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (149 bp):
GGAAAGGTTGAGGCCGCAACGACAAACTCGGTACCATAGAAGATACGAAGGGAAAAGTTGAGGCC
GCAACGGCAAACCCAGTACCATGAAGATATGAAGGGAAGGATTCAGCTCGTAACGACAAACCCCG
TACCTAAAAAGATGCGATA
Found at i:264370 original size:49 final size:49
Alignment explanation
Indices: 263793--264556 Score: 362
Period size: 49 Copynumber: 15.4 Consensus size: 49
263783 ACTTGGTACC
* ** ** * * * *
263793 ATACGAAGGGAAAGGTTGAGACCACAACGGTGAACCCGGTACTTAAGACG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTAC-CATGAAG
* * * * * * ** * *
263843 ATGCGATGGGAAAGGTTGAGGTCGTAATGGCGAACCCTATACCACGGAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
** * * ** *
263892 ATATAAAGGGAAAGGTGGAGGCCGCAACGGTGAACTCGGTACCTTAGAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCAT-GAAG
** * * * ** * *
263942 ATGTGATGGGAAAAGTTGAGGCCGTAATGGTGAACCCAGTACCATGAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
** * * * * * *
263991 ATTTGAAGGG-AAGGATTCAGGTCGTGACGAC-AAATCTGGTACC-TTAAA
1 ATACGAAGGGAAAGG-TTGAGGCCGTAACGACGAACTC-GGTACCATGAAG
* *
264039 ATATGTGATA-GGAAAGGTTGAGGCCGTAACGACAAACTCGGTACCATGAAG
1 ATA--CGA-AGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
* * * * *
264090 ATACGAAGGGAAATGTTGAGGCCGCAACGGCAAAC-CTTGTACCATGAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTC-GGTACCATGAAG
* * * * * **
264139 ATATGAAGGGAAAGGTTGAGACTGTAACGACGAACCCCGTACCTAAAAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACC-ATGAAG
* * * * * * * * *
264189 ATGCGATGGGAAAGGATGAGGCCGCAACGACGAACCCGATACTACGGAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
** * * * *
264238 ATATAAAGGGAAAGATTGAGGCCGTGACGACGAA-TCTGGTACCTTAAAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTC-GGTACCAT-GAAG
** * * * * *
264288 ATGTGATGGGAAAGGTTGAGGCTGCAACGATGAACTCGATACCATGAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
* * * * *
264337 ATAAGAAGGGAAAGGTTGAGGCCGTAACAATGAACCCGGTACCTAAGAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACC-ATGAAG
* * * ** * *
264387 ATGCG-AGAGGAAAGGTTGAGGCTGTAATGGTGAACTCGGTACCACAGAGAC
1 ATACGAAG-GGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCA-TGA-AG
* * *
264438 ATA--AAGGGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTTAAAAG
1 ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCAT-GAAG
* ** * * * * *
264486 ATGCGATTGG-AAGGATTGAGGTCGCAACAACGAA-TCCGATACCATAAAG
1 ATACGAAGGGAAAGG-TTGAGGCCGTAACGACGAACT-CGGTACCATGAAG
*
264535 ATATGAAGGGAAAGGTTGAGGC
1 ATACGAAGGGAAAGGTTGAGGC
264557 TGCAATAGCG
Statistics
Matches: 532, Mismatches: 155, Indels: 55
0.72 0.21 0.07
Matches are distributed among these distances:
48 17 0.03
49 256 0.48
50 239 0.45
51 20 0.04
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (49 bp):
ATACGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGGTACCATGAAG
Found at i:264430 original size:346 final size:346
Alignment explanation
Indices: 263797--264464 Score: 781
Period size: 346 Copynumber: 1.9 Consensus size: 346
263787 GGTACCATAC
** * * * * *
263797 GAAGGGAAAGGTTGAGACCACAACGGTGAACCCGGTACTTAAGACGATGCGATGGGAAAGGTTGA
1 GAAGGGAAAGGTTGAGACCACAACGACGAACCCCGTACCTAAAAAGATGCGATGGGAAAGGATGA
* * * * * * **
263862 GGTCGTAATGGCGAACCCTATACCACGGAGATATAAAGGGAAAGGTGGAGGCCGCAACGGTGAAC
66 GGCCGCAACGACGAACCCGATACCACGGAGATATAAAGGGAAAGATGGAGGCCGCAACGACGAAC
* * * *
263927 TCGGTACCTTAGAAGATGTGATGGGAAAAGTTGAGGCCGTAATGGTGAACCCAGTACCATGAAGA
131 TCGGTACCTTAAAAGATGTGATGGGAAAAGTTGAGGCCGCAACGATGAACCCAGTACCATGAAGA
** * * * * * * * *
263992 TTTGAAGGGAAGGATTCAGGTCGTGACGACAAATCTGGTACCTTAAAATATGTGATAGGAAAGGT
196 TAAGAAGGGAAGGATTCAGGCCGTAACAACAAACCCGGTACCTTAAAAGATGCGAGAGGAAAGGT
* * *
264057 TGAGGCCGTAACGACAAACTCGGTACCA-TGA-AGATACGAAGGGAAATGTTGAGGCCGCAACGG
261 TGAGGCCGTAACGACAAACTCGGTACCACAGAGACATA--AAGGGAAAGGTTGAGGCCGCAACGG
264120 CAAACCTTGTACCATGAAGATAT
324 CAAACCTTGTACCATGAAGATAT
***
264143 GAAGGGAAAGGTTGAGACTGTAACGACGAACCCCGTACCTAAAAAGATGCGATGGGAAAGGATGA
1 GAAGGGAAAGGTTGAGACCACAACGACGAACCCCGTACCTAAAAAGATGCGATGGGAAAGGATGA
* * **
264208 GGCCGCAACGACGAACCCGATACTACGGAGATATAAAGGGAAAGATTGAGGCCGTGACGACGAA-
66 GGCCGCAACGACGAACCCGATACCACGGAGATATAAAGGGAAAGATGGAGGCCGCAACGACGAAC
* * *
264272 TCTGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGATGAACTC-GATACCATGAA
131 TC-GGTACCTTAAAAGATGTGATGGGAAAAGTTGAGGCCGCAACGATGAACCCAG-TACCATGAA
* **
264336 GATAAGAAGGGAAAGG-TTGAGGCCGTAACAATGAACCCGGTACC-TAAGAAGATGCGAGAGGAA
194 GATAAGAAGGG-AAGGATTCAGGCCGTAACAACAAACCCGGTACCTTAA-AAGATGCGAGAGGAA
* * *** *
264399 AGGTTGAGGCTGTAATGGTGAACTCGGTACCACAGAGACATAAAGGGAAAGGTTGAGGCCGTAAC
257 AGGTTGAGGCCGTAACGACAAACTCGGTACCACAGAGACATAAAGGGAAAGGTTGAGGCCGCAAC
264464 G
322 G
264465 ACGAACCCGG
Statistics
Matches: 265, Mismatches: 51, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
345 6 0.02
346 249 0.94
347 6 0.02
348 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (346 bp):
GAAGGGAAAGGTTGAGACCACAACGACGAACCCCGTACCTAAAAAGATGCGATGGGAAAGGATGA
GGCCGCAACGACGAACCCGATACCACGGAGATATAAAGGGAAAGATGGAGGCCGCAACGACGAAC
TCGGTACCTTAAAAGATGTGATGGGAAAAGTTGAGGCCGCAACGATGAACCCAGTACCATGAAGA
TAAGAAGGGAAGGATTCAGGCCGTAACAACAAACCCGGTACCTTAAAAGATGCGAGAGGAAAGGT
TGAGGCCGTAACGACAAACTCGGTACCACAGAGACATAAAGGGAAAGGTTGAGGCCGCAACGGCA
AACCTTGTACCATGAAGATAT
Found at i:264444 original size:198 final size:198
Alignment explanation
Indices: 264129--264556 Score: 549
Period size: 198 Copynumber: 2.2 Consensus size: 198
264119 GCAAACCTTG
* * *
264129 TACCATGAAGATATGAAGGGAAAGGTTGAGACTGTAACGACGAACCCCGTACCTAAAAAGATGCG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGTAACAACGAACCCCGTACCTAAAAAGATGCG
* * *
264194 ATGGGAAAGGATGAGGCCGCAACGACGAACCCGATACTACGGAGATATAAAGGGAAAGATTGAGG
66 ATGGGAAAGGATGAGGCCGCAACGACGAACCCGATACCACAGAGACATAAAGGGAAAGATTGAGG
* * * * * *
264259 CCGTGACGACGAATCTGGTACCTTAAAAGATGTGATGGGAAAGG-TTGAGG-CTGCAACGATGAA
131 CCGTAACGACGAACCCGGTACCTTAAAAGATGCGATGGG-AAGGATTGAGGTC-GCAACAACGAA
264322 -CTCGA
194 TC-CGA
* * * *
264327 TACCATGAAGATAAGAAGGGAAAGGTTGAGGCCGTAACAATGAACCCGGTACCTAAGAAGATGCG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGTAACAACGAACCCCGTACCTAAAAAGATGCG
* * * * ** * * *
264392 A-GAGGAAAGGTTGAGGCTGTAATGGTGAACTCGGTACCACAGAGACATAAAGGGAAAGGTTGAG
66 ATG-GGAAAGGATGAGGCCGCAACGACGAACCCGATACCACAGAGACATAAAGGGAAAGATTGAG
*
264456 GCCGTAACGACGAACCCGGTACCTTAAAAGATGCGATTGGAAGGATTGAGGTCGCAACAACGAAT
130 GCCGTAACGACGAACCCGGTACCTTAAAAGATGCGATGGGAAGGATTGAGGTCGCAACAACGAAT
264521 CCGA
195 CCGA
*
264525 TACCATAAAGATATGAAGGGAAAGGTTGAGGC
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGC
264557 TGCAATAGCG
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
197 5 0.03
198 191 0.96
199 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (198 bp):
TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGTAACAACGAACCCCGTACCTAAAAAGATGCG
ATGGGAAAGGATGAGGCCGCAACGACGAACCCGATACCACAGAGACATAAAGGGAAAGATTGAGG
CCGTAACGACGAACCCGGTACCTTAAAAGATGCGATGGGAAGGATTGAGGTCGCAACAACGAATC
CGA
Found at i:264479 original size:99 final size:97
Alignment explanation
Indices: 264049--264556 Score: 488
Period size: 99 Copynumber: 5.1 Consensus size: 97
264039 ATATGTGATA
* * * * * *
264049 GGAAAGGTTGAGGCCGTAACGACAAACTCGGTACC-ATGAAGATACGAAGGGAAATGTTGAGGCC
1 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTA-AAAGATGCGATGGGAAAGGTTGAGGCC
* * * *
264113 GCAACGGCAAACCTTG-TACCATGAAGATATGAAG
65 GCAACGACGAA-CTCGATACCATG-AGATATAAAG
* * * *
264147 GGAAAGGTTGAGACTGTAACGACGAACCCCGTACCTAAAAAGATGCGATGGGAAAGGATGAGGCC
1 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCT-AAAAGATGCGATGGGAAAGGTTGAGGCC
* * *
264212 GCAACGACGAACCCGATACTACGGAGATATAAAG
65 GCAACGACGAACTCGATACCA-TGAGATATAAAG
* * * * * *
264246 GGAAAGATTGAGGCCGTGACGACGAATCTGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCT
1 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACC-TAAAAGATGCGATGGGAAAGGTTGAGGCC
*
264311 GCAACGATGAACTCGATACCATGAAGATA-AGAAG
65 GCAACGACGAACTCGATACCATG-AGATATA-AAG
* *
264345 GGAAAGGTTGAGGCCGTAACAATGAACCCGGTACCTAAGAAGATGCGA-GAGGAAAGGTTGAGGC
1 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTAA-AAGATGCGATG-GGAAAGGTTGAGGC
* * * ** * * *
264409 TGTAATGGTGAACTCGGTACCACAGAGACATAAAG
64 CGCAACGACGAACTCGATACCA-TGAGATATAAAG
* *
264444 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTTAAAAGATGCGATTGG-AAGGATTGAGGT
1 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACC-TAAAAGATGCGATGGGAAAGG-TTGAGGC
* * *
264508 CGCAACAACGAA-TCCGATACCATAAAGATATGAAG
64 CGCAACGACGAACT-CGATACCAT-GAGATATAAAG
264543 GGAAAGGTTGAGGC
1 GGAAAGGTTGAGGC
264557 TGCAATAGCG
Statistics
Matches: 335, Mismatches: 59, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
98 43 0.13
99 284 0.85
100 8 0.02
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.16
Consensus pattern (97 bp):
GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTAAAAGATGCGATGGGAAAGGTTGAGGCCG
CAACGACGAACTCGATACCATGAGATATAAAG
Found at i:265104 original size:16 final size:16
Alignment explanation
Indices: 265083--265121 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
265073 AGCCCAATTA
*
265083 CAAACCTTAAATATTC
1 CAAACCCTAAATATTC
265099 CAAACCCTAAATATTC
1 CAAACCCTAAATATTC
265115 CAAACCC
1 CAAACCC
265122 AATTACACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (16 bp):
CAAACCCTAAATATTC
Done.