Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 108 of 292
Found at i:33005583 original size:13 final size:13
Alignment explanation
Indices: 33005565--33005589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33005555 TGGTCATCAT
33005565 GGTGTGAACACAA
1 GGTGTGAACACAA
33005578 GGTGTGAACACA
1 GGTGTGAACACA
33005590 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:33006158 original size:30 final size:30
Alignment explanation
Indices: 33006073--33006160 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
33006063 TAAACTAAAA
** *
33006073 TGAGCTAATCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * *
33006103 TGAGCT-GGGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGG-TTTAGCTCGTGAGCTGAAGT
33006133 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
33006161 TATGGGTTAG
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
30 41 0.95
31 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:33010198 original size:41 final size:40
Alignment explanation
Indices: 33010070--33010208 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
33010060 AAGCCAAGTA
* * * * *
33010070 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33010109 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33010149 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
33010190 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33010209 TTATCATCCA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
39 12 0.14
40 45 0.53
41 24 0.28
42 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33018453 original size:41 final size:40
Alignment explanation
Indices: 33018321--33018460 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
33018311 TGCTCGAAGA
*
33018321 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
33018361 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
33018401 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
33018442 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33018461 TTATCTTCCA
Statistics
Matches: 95, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.69
41 24 0.25
42 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:33033149 original size:17 final size:17
Alignment explanation
Indices: 33033127--33033160 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33033117 GATAAGCATA
*
33033127 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
33033144 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
33033161 CTTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:33038446 original size:34 final size:34
Alignment explanation
Indices: 33038403--33038469 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
33038393 CTGCACTGAT
*
33038403 ACTGATACTGTTACTG-AACTGGGCTAAGGCCCAC
1 ACTGATACTGGTACTGTAA-TGGGCTAAGGCCCAC
*
33038437 ACTGATACTGGTACTGTGATGGGCTAAGGCCCA
1 ACTGATACTGGTACTGTAATGGGCTAAGGCCCA
33038470 ACTAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (34 bp):
ACTGATACTGGTACTGTAATGGGCTAAGGCCCAC
Found at i:33049311 original size:40 final size:40
Alignment explanation
Indices: 33049264--33049360 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
33049254 CTATCTCGGT
*
33049264 ATCGCACACTTAGTGCCTCAGATAGCCGAAACTATTTTGA
1 ATCGCACACTTAGTGCCTCAAATAGCCGAAACTATTTTGA
* *
33049304 ATCGCACACTTAGTGCCTCAAATAGCTGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAAATAGCCGAAACTATTTTGA
*
33049344 ATCACACACTTAGTGCC
1 ATCGCACACTTAGTGCC
33049361 AAATACCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAAATAGCCGAAACTATTTTGA
Found at i:33052116 original size:93 final size:93
Alignment explanation
Indices: 33052009--33052179 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
33051999 GCCCCTAAGT
* *
33052009 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33052074 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
33052102 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33052167 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33052180 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:33052176 original size:46 final size:46
Alignment explanation
Indices: 33052004--33052176 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
33051994 AACCCGCCCC
* * *
33052004 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
33052050 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
33052098 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
33052143 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33052177 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:33065179 original size:17 final size:19
Alignment explanation
Indices: 33065137--33065180 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33065127 ATGAAATTTT
*
33065137 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33065156 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33065174 AA-TATTA
1 AATTATTA
33065181 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33067059 original size:27 final size:28
Alignment explanation
Indices: 33066995--33067061 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
33066985 GTAGATCACG
*
33066995 AAATTACCCCTAAAGAGCAAAATTACCC
1 AAATTACCCCTAAAGAACAAAATTACCC
*
33067023 AAATTACCCCTAAATAACAAAATTA-CC
1 AAATTACCCCTAAAGAACAAAATTACCC
33067050 -AATATACCCCTA
1 AAAT-TACCCCTA
33067062 GGGTTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 10 0.28
28 23 0.64
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (28 bp):
AAATTACCCCTAAAGAACAAAATTACCC
Found at i:33073936 original size:29 final size:29
Alignment explanation
Indices: 33073860--33073924 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
33073850 AATCATACTC
* * * *
33073860 ATATGGCCCATTAGGCCCAAATAACCTGT
1 ATATGGCCAATTAGGCCCAAATCACATTT
33073889 ATATGGCCAATTAGGCCCAAATCACATTT
1 ATATGGCCAATTAGGCCCAAATCACATTT
33073918 ATATGGC
1 ATATGGC
33073925 TTGTTAGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCAATTAGGCCCAAATCACATTT
Found at i:33074193 original size:16 final size:16
Alignment explanation
Indices: 33074142--33074176 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33074132 GTAGCCAAAC
33074142 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
33074158 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
33074174 TTT
1 TTT
33074177 TTGGCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:33077643 original size:2 final size:2
Alignment explanation
Indices: 33077636--33077666 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33077626 GAGACTAGTC
33077636 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
33077667 CATGTCATGA
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:33077743 original size:31 final size:32
Alignment explanation
Indices: 33077691--33077755 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
33077681 TATCATTCTC
33077691 TTTCTGTTTTCTTAAAAACACATATCATTTAT
1 TTTCTGTTTTCTTAAAAACACATATCATTTAT
33077723 TTTCTGTTTTCTT-AAAACACATATCATTTAT
1 TTTCTGTTTTCTTAAAAACACATATCATTTAT
33077754 TT
1 TT
33077756 CATTATATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 20 0.61
32 13 0.39
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTCTGTTTTCTTAAAAACACATATCATTTAT
Found at i:33084234 original size:30 final size:30
Alignment explanation
Indices: 33084200--33084256 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33084190 GCCTAGGGGA
33084200 AAAATCGTAATTCTATAAAAGTTTAAGGGC
1 AAAATCGTAATTCTATAAAAGTTTAAGGGC
* * * *
33084230 AAAATTGTAATTTTTTCAAAGTTTAAG
1 AAAATCGTAATTCTATAAAAGTTTAAG
33084257 TTAGGAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (30 bp):
AAAATCGTAATTCTATAAAAGTTTAAGGGC
Found at i:33085027 original size:47 final size:47
Alignment explanation
Indices: 33084968--33085089 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
33084958 GCATTGGCAC
*
33084968 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
33085015 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* * *
33085062 TAAGATAAGGATATCATGTAAGAACATG
1 TAAGACAAGGATACCATGTAAGACCATG
33085090 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:33085222 original size:55 final size:54
Alignment explanation
Indices: 33085068--33085262 Score: 214
Period size: 55 Copynumber: 3.6 Consensus size: 54
33085058 TTGGTAAGAT
* * * *
33085068 AAGGATATCATGTAAGAACATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * *
33085122 AAGGAAATCATGTGAGACAAATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGAC-CATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
33085178 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
33085231 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
33085263 ACAATGGTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 29 0.25
54 16 0.14
55 46 0.39
56 18 0.15
57 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:33089961 original size:50 final size:51
Alignment explanation
Indices: 33089886--33090111 Score: 216
Period size: 50 Copynumber: 4.5 Consensus size: 51
33089876 TGAATACACG
* * *
33089886 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-ATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATACTGTTGAGTCACA
* ** * *
33089936 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAAT-ACTGTTGAGTCACA
* * * * *
33089987 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT--GGTGGGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ATACTGTTGAGTCACA
* * *
33090037 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCGAAT--TGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AATACTGTTGAGTCACA
33090086 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33090112 TGCGTATTAG
Statistics
Matches: 146, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
49 31 0.21
50 72 0.49
51 36 0.25
52 4 0.03
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATACTGTTGAGTCACA
Found at i:33090241 original size:27 final size:26
Alignment explanation
Indices: 33090211--33090262 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
33090201 GGGAAAATCG
33090211 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
33090238 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
33090263 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:33096287 original size:28 final size:28
Alignment explanation
Indices: 33096255--33096314 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
33096245 GGTTTATGAT
33096255 ATGATTTCATGATTGAGTGAAAATTTCG
1 ATGATTTCATGATTGAGTGAAAATTTCG
33096283 ATGATTTCATGATTGAGTGAAAATTTCG
1 ATGATTTCATGATTGAGTGAAAATTTCG
33096311 -TGAT
1 ATGAT
33096315 GAAATTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (28 bp):
ATGATTTCATGATTGAGTGAAAATTTCG
Found at i:33097473 original size:49 final size:48
Alignment explanation
Indices: 33097401--33097575 Score: 185
Period size: 49 Copynumber: 3.5 Consensus size: 48
33097391 TGGCTACACG
33097401 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTT-AGTCGA
* * *
33097450 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGATC-A
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CATACTG--TTAG-TCGA
* ** * *
33097499 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAGTCG-A
33097550 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33097576 TGCGAATCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
48 2 0.02
49 62 0.57
50 10 0.09
51 32 0.30
52 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAGTCGA
Found at i:33097570 original size:100 final size:100
Alignment explanation
Indices: 33097397--33097579 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
33097387 ATTGTGGCTA
* *
33097397 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTAAGTCGATGTGTAGTACTA
33097462 AGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
* * *
33097497 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTAAGTCG-ATGTGTAGTACT
33097561 AAGTGCAGGCTACTATGCG
65 AAGTGCAGGCTACTATGCG
33097580 AATCAAATAG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 4 0.05
100 73 0.95
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTAAGTCGATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
Found at i:33107219 original size:46 final size:45
Alignment explanation
Indices: 33107152--33107323 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 45
33107142 AACCCGCCCC
* * *
33107152 TAAGTGAACTCCGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* *
33107198 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * * *
33107246 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
*
33107291 TAAGTGAACTCGGACTCAACTCAACAAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33107324 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 56 0.55
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:33107266 original size:93 final size:93
Alignment explanation
Indices: 33107157--33107327 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
33107147 GCCCCTAAGT
* * * *
33107157 GAACTCCGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCCGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33107222 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* * *
33107250 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCCGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33107315 CAAGTTCGGATGC
66 CAAGTTCGGATGC
33107328 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCCGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:33117941 original size:46 final size:46
Alignment explanation
Indices: 33117891--33118066 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
33117881 TGGTTGAGCA
33117891 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
33117937 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33117982 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33118030 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33118067 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33118047 original size:93 final size:93
Alignment explanation
Indices: 33117888--33118058 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
33117878 GGATGGTTGA
* * *
33117888 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
33117953 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
33117981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
33118046 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33118059 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:33123956 original size:15 final size:17
Alignment explanation
Indices: 33123938--33123969 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
33123928 TAGCATATTT
33123938 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
33123953 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
33123970 CAAGTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:33130322 original size:21 final size:21
Alignment explanation
Indices: 33130298--33130344 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
33130288 AACTTTACGT
33130298 ACATACCTGTACGAACTCGTA
1 ACATACCTGTACGAACTCGTA
33130319 ACATACCTGTACGAACTCGTA
1 ACATACCTGTACGAACTCGTA
33130340 ACATA
1 ACATA
33130345 GTCATATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (21 bp):
ACATACCTGTACGAACTCGTA
Found at i:33130608 original size:42 final size:42
Alignment explanation
Indices: 33130448--33130609 Score: 137
Period size: 42 Copynumber: 3.8 Consensus size: 42
33130438 CAAGACGCCA
* ** * * *
33130448 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATTTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
* * * **
33130490 ATGCCGATAGCCTAGCTATGGTCTTACACGATGTC-TCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCAT-ATATCG
* * * * * *
33130533 ATGTCATGTCTCAGACATGGTCTTATACAAAATCATATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
*
33130575 ATGCCATATCCCAGATATGGTCTTACATGAAATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCA
33130610 CACATAACCC
Statistics
Matches: 89, Mismatches: 28, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
42 58 0.65
43 31 0.35
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
Found at i:33135893 original size:17 final size:17
Alignment explanation
Indices: 33135871--33135905 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33135861 TGAAAATAGG
33135871 CTCATTAAGAATATTAA
1 CTCATTAAGAATATTAA
*
33135888 CTCATTAAGAATTTTAA
1 CTCATTAAGAATATTAA
33135905 C
1 C
33135906 CCCTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (17 bp):
CTCATTAAGAATATTAA
Found at i:33137854 original size:49 final size:50
Alignment explanation
Indices: 33137774--33138006 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
33137764 ATCTATTGTG
* *
33137774 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * ** * *
33137824 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACCTGAAAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * *
33137874 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
33137924 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
33137974 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
33138007 TGCGTACTAG
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 69 0.45
50 49 0.32
51 36 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:33140466 original size:42 final size:42
Alignment explanation
Indices: 33140354--33140517 Score: 141
Period size: 42 Copynumber: 3.9 Consensus size: 42
33140344 TAAGATGCCA
* **** *
33140354 ATGCCATATCCCAAATATGGTCTTACATGGGATCACATATCA
1 ATGCCATATCCCAAACATGGTCTTACACAAAATCACATATCG
* * * * *
33140396 ATGCCGATAGCCC-AGCTATGGTCTTACACGATATCTCATATCG
1 ATGCC-ATATCCCAAAC-ATGGTCTTACACAAAATCACATATCG
* *
33140439 ATTCCATGTCCCAAACATGGTCTTACACAAAATCACATATCG
1 ATGCCATATCCCAAACATGGTCTTACACAAAATCACATATCG
* * * * *
33140481 ATGCCATATCCCAGATATTGTTTTACACTAAATCACA
1 ATGCCATATCCCAAACATGGTCTTACACAAAATCACA
33140518 CATAACCCTA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACACAAAATCACATATCG
Found at i:33142207 original size:43 final size:43
Alignment explanation
Indices: 33142160--33142275 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
33142150 TATCACATAT
* * * * *
33142160 CGATGCCACTGTCCTAGACAGGGTCTTACACGAAATC-GATTAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-A
* * *
33142203 CGATGCCAATGTCCCAAACATGGTCCTACACGTAATCTCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
*
33142246 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
33142276 TGTAAACACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
Found at i:33144593 original size:13 final size:13
Alignment explanation
Indices: 33144577--33144603 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33144567 ATCCTGATAT
33144577 AAAATCCATAGTC
1 AAAATCCATAGTC
33144590 AAAATCCATAGTC
1 AAAATCCATAGTC
33144603 A
1 A
33144604 TTCTATCCCA
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:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
AAAATCCATAGTC
Found at i:33153042 original size:16 final size:16
Alignment explanation
Indices: 33153021--33153054 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33153011 AACATTGTTC
*
33153021 TGGTTCTTAATATGCT
1 TGGTTCTTAAGATGCT
33153037 TGGTTCTTAAGATGCT
1 TGGTTCTTAAGATGCT
33153053 TG
1 TG
33153055 CTATAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (16 bp):
TGGTTCTTAAGATGCT
Found at i:33155294 original size:88 final size:88
Alignment explanation
Indices: 33155135--33155315 Score: 335
Period size: 88 Copynumber: 2.1 Consensus size: 88
33155125 GCATCCAAAA
*
33155135 TCCCGTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
1 TCCCTTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
*
33155200 TAGGTTCTCAACTTTTGTTGTGT
66 TAGGTTCTCAACATTTGTTGTGT
33155223 TCCCTTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
1 TCCCTTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
*
33155288 TTGGTTCTCAACATTTGTTGTGT
66 TAGGTTCTCAACATTTGTTGTGT
33155311 TCCCT
1 TCCCT
33155316 GGTAGGAAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (88 bp):
TCCCTTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
TAGGTTCTCAACATTTGTTGTGT
Found at i:33158570 original size:14 final size:15
Alignment explanation
Indices: 33158551--33158589 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
33158541 TAAGTAAAAA
33158551 ATAATATAAA-ATTT
1 ATAATATAAACATTT
33158565 ATAATATATAACATTT
1 ATAATATA-AACATTT
33158581 ATAA-ATAAA
1 ATAATATAAA
33158590 GTTTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATAAACATTT
Found at i:33158573 original size:16 final size:16
Alignment explanation
Indices: 33158554--33158584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33158544 GTAAAAAATA
33158554 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
33158570 ATATAACATTTATAA
1 ATATAAAATTTATAA
33158585 ATAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:33162208 original size:26 final size:26
Alignment explanation
Indices: 33162161--33162212 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
33162151 TATCCTCCTA
** *
33162161 TTTGAGTTGGTTGGAGGTCCCTTGAG
1 TTTGAGTTGGTCAGAGGACCCTTGAG
*
33162187 TTTGAGTTGGTCAGATGACCCTTGAG
1 TTTGAGTTGGTCAGAGGACCCTTGAG
33162213 GTTAAACTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.37
Consensus pattern (26 bp):
TTTGAGTTGGTCAGAGGACCCTTGAG
Found at i:33165701 original size:15 final size:16
Alignment explanation
Indices: 33165683--33165712 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33165673 CTGTAAAGAT
33165683 TATACATT-TCATATA
1 TATACATTCTCATATA
33165698 TATACATTCTCATAT
1 TATACATTCTCATAT
33165713 CTCTTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:33172914 original size:15 final size:16
Alignment explanation
Indices: 33172894--33172923 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33172884 CTGTAAAGAT
33172894 TATACATT-TCATATA
1 TATACATTCTCATATA
33172909 TATACATTCTCATAT
1 TATACATTCTCATAT
33172924 CTCTTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:33173089 original size:42 final size:43
Alignment explanation
Indices: 33173031--33173140 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 43
33173021 TCGATGTCTC
* * * *
33173031 TGTCCCTGACAGGGTCTTACAC-AAA-ATCAGATACGATACCGA
1 TGTCCCAGACACGGTCTTACACGAAATATCAAAT-CGAGACCGA
* * * *
33173073 TGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAGGCCTA
1 TGTCCCAGACACGGTCTTACACG-AAATATCAAATCGAGACCGA
33173117 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
33173141 TATCTTCGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 20 0.35
43 1 0.02
44 31 0.54
45 5 0.09
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTACACGAAATATCAAATCGAGACCGA
Found at i:33175271 original size:20 final size:20
Alignment explanation
Indices: 33175225--33175272 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33175215 AGTAAGCTCG
33175225 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** * *
33175245 AACGAGCTTAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
33175265 GTTGAGCT
1 GTTGAGCT
33175273 GGAGGAAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:33176820 original size:6 final size:6
Alignment explanation
Indices: 33176811--33176868 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
33176801 GATCTCGATC
* * ** **
33176811 TCTTTT TCTTTC TCCTTT TCTTTT TCACTT TCTTTT TCAATT TCATTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT
33176860 TCTTTT TCT
1 TCTTTT TCT
33176869 CATTCTCTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
6 35 0.90
7 4 0.10
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:33176824 original size:12 final size:12
Alignment explanation
Indices: 33176809--33176887 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
33176799 TCGATCTCGA
33176809 TCTCTTTTTCTT
1 TCTCTTTTTCTT
*
33176821 TCTCCTTTTCTT
1 TCTCTTTTTCTT
* **
33176833 TTTCACTTTCTT
1 TCTCTTTTTCTT
* **
33176845 TTTCAATTTCATT
1 TCTCTTTTTC-TT
*
33176858 TTTCTTTTTCTCAT
1 TCTCTTTTTCT--T
33176872 TCTCTTTTTACTT
1 TCTCTTTTT-CTT
33176885 TCT
1 TCT
33176888 TTCAAACTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
12 30 0.55
13 14 0.25
14 9 0.16
15 2 0.04
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTCTTTTTCTT
Found at i:33176911 original size:21 final size:20
Alignment explanation
Indices: 33176856--33176911 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
33176846 TTCAATTTCA
* **
33176856 TTTTTCTTTTTCTCATTCTC
1 TTTTTCTTTTTTTCAAACTC
*
33176876 TTTTTACTTTCTTTCAAACTC
1 TTTTT-CTTTTTTTCAAACTC
33176897 TTTTTCTTTTGTTTC
1 TTTTTCTTTT-TTTC
33176912 TTTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTCTTTTTTTCAAACTC
Found at i:33182075 original size:3 final size:3
Alignment explanation
Indices: 33182069--33182273 Score: 88
Period size: 3 Copynumber: 69.3 Consensus size: 3
33182059 TACTACTACC
* * * *
33182069 AAT AAT AAT AAT AGTT AA- AA- AAT AAT AAT ACT AGT AAT AGT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
33182113 TAC AAC AAT GAT AAA AAT AAT AA- AAT AA- GAT GAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
33182158 CAAT TAT AAC AA- AAGT AAA AGAT AA- AAT AGT AAT AAT AAT AAT AAC
1 -AAT AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
33182204 AAT AAT AAGT -AT GTT AAT AAT AGT AAT AAT AAC AAT AAT ACA- AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
33182249 AAT AAT -AT ATAT AAA AAT AAT AAT A
1 AAT AAT AAT A-AT AAT AAT AAT AAT A
33182274 GTTAGAAATA
Statistics
Matches: 151, Mismatches: 35, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
2 17 0.11
3 121 0.80
4 13 0.09
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:33184284 original size:20 final size:20
Alignment explanation
Indices: 33184259--33184297 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33184249 AAACGTTAAC
*
33184259 ATGATTAATAATAATAATAA
1 ATGATTAATAATAAAAATAA
*
33184279 ATGATTATTAATAAAAATA
1 ATGATTAATAATAAAAATA
33184298 TGACGGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATGATTAATAATAAAAATAA
Found at i:33187219 original size:41 final size:41
Alignment explanation
Indices: 33187068--33187281 Score: 254
Period size: 41 Copynumber: 5.2 Consensus size: 41
33187058 CAGAGCAATA
* * *
33187068 GCCGCTAAGAACCAGAGCATTAGCGGCGTTTTTCGCTAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTCGATAAAAC
* * * * *
33187110 GCCGCTAAAAA-TAGAGCAATAGGGGCGCTTTCGGTAAAAT
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
* *
33187150 GCCACT-AAAACCAAAGCATTAGCGGCGCTTTC-AGTAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAAC
**
33187190 GCCGCTAAAAACCAGAGCATTAGTAGCGCTTTCGATAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
* *
33187231 GCCGCTAAAAACTAGAGCATTAGTGGCGCTTTCGATAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
*
33187272 TCCGCTAAAA
1 GCCGCTAAAA
33187282 GTCATATAAC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 42 0.29
41 90 0.61
42 11 0.07
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
Found at i:33187219 original size:81 final size:80
Alignment explanation
Indices: 33187072--33187281 Score: 251
Period size: 81 Copynumber: 2.6 Consensus size: 80
33187062 GCAATAGCCG
* * * *
33187072 CTAAGAACCAGAGCATTAGCGGCGTTTTTCGCTAAAACGCCGCTAAAAATAGAGCAATAGGGGCG
1 CTAA-AACCAGAGCATTAGCGGCG-CTTTCGATAAAACGCCGCTAAAAACAGAGCAATAGGAGCG
* *
33187137 CTTTCGGTAAAATGCCA
64 CTTTCGATAAAACGCCA
* * *
33187154 CTAAAACCAAAGCATTAGCGGCGCTTTC-AGTAAAACGCCGCTAAAAACCAGAGCATTAGTAGCG
1 CTAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAACGCCGCTAAAAA-CAGAGCAATAGGAGCG
*
33187218 CTTTCGATAAAACGCCG
64 CTTTCGATAAAACGCCA
* * *
33187235 CTAAAAACTAGAGCATTAGTGGCGCTTTCGATAAAACTCCGCTAAAA
1 CT-AAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
33187282 GTCATATAAC
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 21 0.19
81 46 0.42
82 42 0.38
83 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (80 bp):
CTAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACAGAGCAATAGGAGCGCT
TTCGATAAAACGCCA
Found at i:33187365 original size:7 final size:7
Alignment explanation
Indices: 33187339--33187413 Score: 55
Period size: 7 Copynumber: 10.0 Consensus size: 7
33187329 AATCTATAAC
33187339 CCCTAAAA
1 CCCT-AAA
*
33187347 CACTAAA
1 CCCTAAA
33187354 CCCTTAAA
1 CCC-TAAA
*
33187362 CCTTAAAAA
1 CCCT--AAA
33187371 CCCTAAA
1 CCCTAAA
33187378 CCCTAAA
1 CCCTAAA
33187385 --CTATAA
1 CCCTA-AA
33187391 CCCTTAAAA
1 CCC-T-AAA
33187400 CCCTAAA
1 CCCTAAA
33187407 CCCTAAA
1 CCCTAAA
33187414 AAACATCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 26 0.47
8 11 0.20
9 12 0.22
10 1 0.02
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:33187415 original size:16 final size:16
Alignment explanation
Indices: 33187351--33187415 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
33187341 CTAAAACACT
*
33187351 AAACCCTTAAACCTTAA
1 AAACCC-TAAACCCTAA
33187368 AAACCCTAAACCCT--
1 AAACCCTAAACCCTAA
*
33187382 AAA--CTATAACCCTTA
1 AAACCCTA-AACCCTAA
33187397 AAACCCTAAACCCTAA
1 AAACCCTAAACCCTAA
33187413 AAA
1 AAA
33187416 ACATCATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.07
13 6 0.15
14 3 0.07
15 3 0.07
16 17 0.41
17 9 0.22
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACCCTAAACCCTAA
Found at i:33187532 original size:7 final size:7
Alignment explanation
Indices: 33187521--33187584 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
33187511 TTTATTTTTG
*
33187521 GGTTTAG
1 GGTTTAA
33187528 GGTTTAA
1 GGTTTAA
**
33187535 TATTTAA
1 GGTTTAA
33187542 GGTTTAA
1 GGTTTAA
*
33187549 GGTTTAT
1 GGTTTAA
33187556 GGTTTAA
1 GGTTTAA
* *
33187563 GTTTTTAT
1 G-GTTTAA
33187571 GGTTTAA
1 GGTTTAA
33187578 GGTTTAA
1 GGTTTAA
33187585 TGACCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 40 0.89
8 5 0.11
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
GGTTTAA
Found at i:33187579 original size:29 final size:28
Alignment explanation
Indices: 33187521--33187583 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
33187511 TTTATTTTTG
33187521 GGTTTAGGGTTTAATATTTAAGGTTTAA
1 GGTTTAGGGTTTAATATTTAAGGTTTAA
* * *
33187549 GGTTTATGGTTTAAGTTTTTATGGTTTAA
1 GGTTTAGGGTTTAA-TATTTAAGGTTTAA
33187578 GGTTTA
1 GGTTTA
33187584 ATGACCATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (28 bp):
GGTTTAGGGTTTAATATTTAAGGTTTAA
Found at i:33193921 original size:21 final size:21
Alignment explanation
Indices: 33193897--33193952 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
33193887 CACCATTGTT
33193897 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
33193918 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
33193939 ACTAATCTCACCGC
1 TCTAATCTCACCGC
33193953 CATCACTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.27
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:33199830 original size:40 final size:39
Alignment explanation
Indices: 33199665--33199848 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
33199655 AAATTGAATG
* * *
33199665 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33199705 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
33199745 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33199785 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33199824 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33199849 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33199873 original size:80 final size:81
Alignment explanation
Indices: 33199705--33199893 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
33199695 GCTGGAAATT
* * * *
33199705 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
33199770 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
33199786 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
33199849 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
33199865 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
33199894 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:33207949 original size:40 final size:39
Alignment explanation
Indices: 33207784--33207967 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
33207774 AAATTGAATG
* * *
33207784 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33207824 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
33207864 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33207904 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33207943 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33207968 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33207992 original size:80 final size:81
Alignment explanation
Indices: 33207824--33208012 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
33207814 GCTGGAAATT
* * * *
33207824 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
33207889 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
33207905 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
33207968 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
33207984 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
33208013 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:33210308 original size:33 final size:31
Alignment explanation
Indices: 33210263--33210342 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
33210253 TTAGCGGCGT
* *
33210263 TTTTTGCAGCGCTTGCAAAAACGCCTCAAATAG
1 TTTTAGCAGCGCTT--AAAAACGCCACAAATAG
* ** *
33210296 TTTTAGCGGCGCTTAAAAGTGCGACAAATAG
1 TTTTAGCAGCGCTTAAAAACGCCACAAATAG
33210327 TTTTAGCAGCGCTTAA
1 TTTTAGCAGCGCTTAA
33210343 GGCTTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 28 0.70
33 12 0.30
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (31 bp):
TTTTAGCAGCGCTTAAAAACGCCACAAATAG
Found at i:33210443 original size:18 final size:18
Alignment explanation
Indices: 33210422--33210464 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33210412 TCATTTGCTC
* *
33210422 AGTAGCAATCAGTTATTT
1 AGTAACAATCAATTATTT
*
33210440 AGTAACGATCAATTATTT
1 AGTAACAATCAATTATTT
33210458 AGTAACA
1 AGTAACA
33210465 GTCAGTCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
AGTAACAATCAATTATTT
Found at i:33212773 original size:9 final size:9
Alignment explanation
Indices: 33212759--33212844 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
33212749 ATAAGTATAA
33212759 AATTAACCG
1 AATTAACCG
33212768 AATTAACCG
1 AATTAACCG
*
33212777 AATTAATCG
1 AATTAACCG
33212786 AATTAACCG
1 AATTAACCG
* *
33212795 AATTACCCA
1 AATTAACCG
* *
33212804 AATTACCCA
1 AATTAACCG
33212813 AATTAACCG
1 AATTAACCG
*
33212822 AATTAACCT
1 AATTAACCG
33212831 AATTAACCG
1 AATTAACCG
33212840 AATTA
1 AATTA
33212845 TTTGTATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:33212875 original size:6 final size:6
Alignment explanation
Indices: 33212864--33212899 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
33212854 AATTATATGT
* *
33212864 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
33212900 GGTTGTGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:33219969 original size:26 final size:27
Alignment explanation
Indices: 33219878--33219962 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 27
33219868 ATAAGTAGCG
* *
33219878 AAAATTAATAAAACTTAATAAAAAAGTAAA
1 AAAATT-ATAAAA-TT-ATAAAAAAATATA
*
33219908 AATAATACTATAAAATTTTAAAAAAATATA
1 AA-AAT--TATAAAATTATAAAAAAATATA
33219938 AAAATTATAAAA-TATAAAAAAATAT
1 AAAATTATAAAATTATAAAAAAATAT
33219963 TTAAATTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
26 12 0.25
27 7 0.15
29 3 0.06
30 14 0.29
31 5 0.10
32 6 0.12
33 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.28
Consensus pattern (27 bp):
AAAATTATAAAATTATAAAAAAATATA
Found at i:33223271 original size:46 final size:46
Alignment explanation
Indices: 33223215--33223481 Score: 152
Period size: 46 Copynumber: 5.7 Consensus size: 46
33223205 GACGAGAGCT
* *
33223215 AGTGTAAGA-CATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATGTAAGTC
* * * * *
33223261 AGTGTCAGA-CATGTCTGGGACCTGCATCGGCTATGAGATGT--GTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGTAAGTC
* *
33223305 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGATGTAAGAATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGATGTAAG--TC
* * * ** * *
33223355 AGTGTAAGACCATGTTTGGGATATGGCGTCGGTTTCGA-TTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGATGT-A-AGTC
* * * * * * *
33223404 AGTGTAAGACCATGTATAGGACATGGCATTGACTTGTTGGATG--AGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGCCTCG--AGATGTAAGTC
33223451 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
33223482 GCATTACACC
Statistics
Matches: 172, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 44 0.26
47 33 0.19
48 4 0.02
49 29 0.17
50 34 0.20
51 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGTAAGTC
Found at i:33228603 original size:40 final size:40
Alignment explanation
Indices: 33228544--33228644 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
33228534 AAATTGAATG
* * *
33228544 ATATCTGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
33228583 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
33228623 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
33228645 GCATTCGTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 12 0.24
40 39 0.76
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:33228645 original size:40 final size:40
Alignment explanation
Indices: 33228582--33228710 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
33228572 TGCTGGAAAT
* * *
33228582 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
33228622 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
** * *
33228662 TCGATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
33228702 TATATCCGG
1 TATATCCGG
33228711 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:33230551 original size:28 final size:28
Alignment explanation
Indices: 33230511--33230581 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
33230501 TATGAGATTG
* *
33230511 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCAAGTTTAATTATTA-A
*
33230539 GCACTAAGTGTGCAAGTTTGATTATTAA
1 GCACTAAGTGTGCAAGTTTAATTATTAA
33230567 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
33230582 ACTTACTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTTAATTATTAA
Found at i:33239955 original size:28 final size:28
Alignment explanation
Indices: 33239911--33239979 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
33239901 TATGAGATTG
* *
33239911 GCACTAAGTGTGTGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
* *
33239939 GCATTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
33239967 GCACTAAGTGTGC
1 GCACTAAGTGTGC
33239980 AAACTTACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:33246024 original size:47 final size:45
Alignment explanation
Indices: 33245952--33246121 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
33245942 TCATTGGTGC
*
33245952 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-T-ACCACATTGACGAGA
* **
33245998 GCTAGTGTAAGACCATGTCTAGGACATGGCA-ACGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATACCACATT--GACGAGA
* * *
33246046 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAT-ATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-A-CCACATTGACG-AGA
* *
33246092 GCCAGTGTAAGACATATCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
33246122 CAGCTATGAC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
45 6 0.06
46 46 0.44
47 27 0.26
48 21 0.20
49 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATACCACATTGACGAGA
Found at i:33246112 original size:46 final size:49
Alignment explanation
Indices: 33246001--33246314 Score: 196
Period size: 46 Copynumber: 6.6 Consensus size: 49
33245991 TATGAGAGCT
* * * * * * * *
33246001 AGTGTAAGACCATGTCTAGGACATGGCAACGGCAT-TGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAATGTA-AGCC
*
33246049 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCA-ATATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAATGTAAGCC
* * *
33246095 AGTGTAAGA-CATATCTGGGACAT-GCATCAG-CT-ATGACATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCA-GAAATGTAAGCC
* *
33246139 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACAGAAATGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAATGT-A-AGCC
* * ** *
33246189 AATGTAAGACCATGTCTGGGACATGGCCTCAGCCTC-GATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAAT-GTA-AGCC
* * * * * *
33246238 AATGTAAGACCATGCCTGGGACATGGCATC-GACT-TG--TTGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAAT-G-TAAGCC
*
33246285 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
33246315 GGAATTACAC
Statistics
Matches: 217, Mismatches: 32, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
44 12 0.06
45 16 0.07
46 62 0.29
47 45 0.21
48 13 0.06
49 32 0.15
50 33 0.15
51 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGAAATGTAAGCC
Found at i:33247500 original size:21 final size:20
Alignment explanation
Indices: 33247474--33247513 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33247464 GTTATAACGA
*
33247474 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
*
33247495 CCACACAGGTGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
33247514 GTTCCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:33249662 original size:31 final size:31
Alignment explanation
Indices: 33249621--33249684 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33249611 CCTTTTCATA
*
33249621 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
33249652 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
33249683 TT
1 TT
33249685 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:33249930 original size:24 final size:24
Alignment explanation
Indices: 33249878--33250067 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
33249868 GCTTTATCAT
*
33249878 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
33249903 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33249927 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33249950 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33249974 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33249998 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33250022 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33250045 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33250068 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33249954 original size:47 final size:48
Alignment explanation
Indices: 33249877--33250068 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
33249867 TGCTTTATCA
* *
33249877 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
33249926 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
33249973 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
33250021 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
33250068 T
1 T
33250069 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:33249978 original size:71 final size:72
Alignment explanation
Indices: 33249878--33250068 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
33249868 GCTTTATCAT
* *
33249878 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
33249942 GCCC-TTTA
64 GCCCTTTTA
* * *
33249950 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
33250015 CCTTTTG
66 CCTTTTA
33250022 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
33250069 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:33250140 original size:9 final size:9
Alignment explanation
Indices: 33250126--33250202 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
33250116 ATCTCGTGTG
33250126 CATATCATA
1 CATATCATA
*
33250135 CATATCATGTG
1 CATATCA--TA
33250146 CATATCATA
1 CATATCATA
* *
33250155 CATGTCATGTG
1 CATATCA--TA
33250166 CATATCATA
1 CATATCATA
*
33250175 CATATCATGTG
1 CATATCA--TA
33250186 CATATCATA
1 CATATCATA
33250195 CATATCAT
1 CATATCAT
33250203 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33250145 original size:20 final size:20
Alignment explanation
Indices: 33250122--33250204 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
33250112 GAACATCTCG
33250122 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
33250142 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
33250162 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33250182 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33250202 TGT
1 TGT
33250205 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:33250151 original size:11 final size:11
Alignment explanation
Indices: 33250122--33250193 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
33250112 GAACATCTCG
33250122 TGTGCATATCA
1 TGTGCATATCA
*
33250133 --TACATATCA
1 TGTGCATATCA
33250142 TGTGCATATCA
1 TGTGCATATCA
* *
33250153 --TACATGTCA
1 TGTGCATATCA
33250162 TGTGCATATCA
1 TGTGCATATCA
*
33250173 --TACATATCA
1 TGTGCATATCA
33250182 TGTGCATATCA
1 TGTGCATATCA
33250193 T
1 T
33250194 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:33250287 original size:25 final size:25
Alignment explanation
Indices: 33250241--33250288 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33250231 ATATATAAAC
* * * *
33250241 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
33250266 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33250289 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33253644 original size:31 final size:31
Alignment explanation
Indices: 33253603--33253666 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33253593 CCTTTTCATA
*
33253603 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
33253634 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
33253665 TT
1 TT
33253667 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:33253912 original size:24 final size:24
Alignment explanation
Indices: 33253860--33254049 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
33253850 GCTTTATCAT
*
33253860 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
33253885 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33253909 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33253932 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33253956 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33253980 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33254004 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33254027 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33254050 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33253936 original size:47 final size:48
Alignment explanation
Indices: 33253859--33254050 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
33253849 TGCTTTATCA
* *
33253859 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
33253908 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
33253955 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
33254003 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
33254050 T
1 T
33254051 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:33253960 original size:71 final size:72
Alignment explanation
Indices: 33253860--33254050 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
33253850 GCTTTATCAT
* *
33253860 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
33253924 GCCC-TTTA
64 GCCCTTTTA
* * *
33253932 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
33253997 CCTTTTG
66 CCTTTTA
33254004 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
33254051 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:33254122 original size:9 final size:9
Alignment explanation
Indices: 33254108--33254184 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
33254098 ATCTCGTGTG
33254108 CATATCATA
1 CATATCATA
*
33254117 CATATCATGTG
1 CATATCA--TA
33254128 CATATCATA
1 CATATCATA
* *
33254137 CATGTCATGTG
1 CATATCA--TA
33254148 CATATCATA
1 CATATCATA
*
33254157 CATATCATGTG
1 CATATCA--TA
33254168 CATATCATA
1 CATATCATA
33254177 CATATCAT
1 CATATCAT
33254185 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33254127 original size:20 final size:20
Alignment explanation
Indices: 33254104--33254186 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
33254094 GAACATCTCG
33254104 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
33254124 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
33254144 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33254164 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
33254184 TGT
1 TGT
33254187 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:33254133 original size:11 final size:11
Alignment explanation
Indices: 33254104--33254175 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
33254094 GAACATCTCG
33254104 TGTGCATATCA
1 TGTGCATATCA
*
33254115 --TACATATCA
1 TGTGCATATCA
33254124 TGTGCATATCA
1 TGTGCATATCA
* *
33254135 --TACATGTCA
1 TGTGCATATCA
33254144 TGTGCATATCA
1 TGTGCATATCA
*
33254155 --TACATATCA
1 TGTGCATATCA
33254164 TGTGCATATCA
1 TGTGCATATCA
33254175 T
1 T
33254176 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:33254269 original size:25 final size:25
Alignment explanation
Indices: 33254223--33254270 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33254213 ATATATAAAC
* * * *
33254223 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
33254248 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33254271 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33257658 original size:40 final size:40
Alignment explanation
Indices: 33257575--33257794 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
33257565 ACCCAAGTAT
** * *
33257575 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33257613 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
33257653 CTTCGGGACTTAGCCCGAATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
33257693 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * * *
33257733 CTTCTGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
**
33257773 CTTCGGAACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
33257795 CATTCGAATA
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 120 0.79
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33257751 original size:120 final size:118
Alignment explanation
Indices: 33257575--33257794 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 118
33257565 ACCCAAGTAT
* * * *
33257575 CTTCGGGATTTAGCCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCACACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
* *
33257640 CTAGCATAAATGCCTTCGGGACTTAGCCCGAATATAATCGCTAGCACAAATGC
66 CTAGCATAAAAGCCTTCGGAACTTAGCCCGAATATAATCGCTAGCACAAATGC
* * * *
33257693 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGCCTTCTGATCTTAGTCCGGATATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCACAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
*
33257757 TCACTAGCATAAAAGCCTTCGGAACTTAGCCCGGATAT
63 TCACTAGCATAAAAGCCTTCGGAACTTAGCCCGAATAT
33257795 CATTCGAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 17 0.19
120 59 0.67
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCACACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCATAAAAGCCTTCGGAACTTAGCCCGAATATAATCGCTAGCACAAATGC
Found at i:33261787 original size:20 final size:19
Alignment explanation
Indices: 33261761--33261804 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
33261751 AAATCATAAA
33261761 ATTTATTTTTCTAAAAATATT
1 ATTTATTTTTC--AAAATATT
33261782 -TTTATTTTTCAAAATATT
1 ATTTATTTTTCAAAATATT
33261800 ATTTA
1 ATTTA
33261805 CTGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
20 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATTTTTCAAAATATT
Found at i:33263305 original size:51 final size:50
Alignment explanation
Indices: 33263239--33263444 Score: 184
Period size: 50 Copynumber: 4.1 Consensus size: 50
33263229 TGAGGTCGCA
* *
33263239 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACT-TGATCACG
* * * *** *
33263290 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTT-GATCACG
* * * * * * * *
33263340 TGTGTATTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTTGATCACG
* *
33263389 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGAAAACT-TGATCACG
33263440 TGTGT
1 TGTGT
33263445 TGTAATATCC
Statistics
Matches: 121, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
49 37 0.31
50 44 0.36
51 40 0.33
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTTGATCACG
Found at i:33263361 original size:50 final size:49
Alignment explanation
Indices: 33263239--33263414 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
33263229 TGAGGTCGCA
* * * * *
33263239 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
33263290 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * * *
33263340 TGTGTATTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
33263389 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33263415 TGCGTACCCA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 30 0.29
50 42 0.40
51 32 0.31
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:33263440 original size:49 final size:48
Alignment explanation
Indices: 33263237--33263442 Score: 146
Period size: 49 Copynumber: 4.1 Consensus size: 48
33263227 TGTGAGGTCG
* **
33263237 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGAT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACT-TGAT
* * * * *** *
33263286 CACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGT
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTT-GAT
* * * ** * *
33263336 CACGTGTGTATTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TTGGT
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTTGAT
*
33263385 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTGTGAT
1 --CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACT-TGAT
33263436 CATGTGT
1 CATGTGT
33263443 GTTGTAATAT
Statistics
Matches: 120, Mismatches: 29, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
49 46 0.38
50 40 0.33
51 34 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAAACTTGAT
Found at i:33264788 original size:46 final size:46
Alignment explanation
Indices: 33264735--33264910 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
33264725 TATTTGGGCA
33264735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
33264781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
33264828 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
33264874 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33264911 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:33264890 original size:93 final size:93
Alignment explanation
Indices: 33264731--33264902 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33264721 GGGATATTTG
* *
33264731 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33264796 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
33264824 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33264889 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
33264903 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:33268624 original size:56 final size:54
Alignment explanation
Indices: 33268530--33268642 Score: 131
Period size: 56 Copynumber: 2.1 Consensus size: 54
33268520 TATGAAAAAA
33268530 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
* *** *
33268584 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAGGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
33268640 AAA
1 AAA
33268643 AGGGGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 8 0.16
55 7 0.14
56 32 0.64
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:33269915 original size:40 final size:40
Alignment explanation
Indices: 33269833--33269999 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
33269823 AAATTGAATG
* * ** *
33269833 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* *
33269872 ATATCCGGG-TCAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCT-AAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
33269912 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
33269952 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
33269992 ATATCCGG
1 ATATCCGG
33270000 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 84 0.81
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:33276405 original size:18 final size:18
Alignment explanation
Indices: 33276375--33276431 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
33276365 GCCCATTTTC
*
33276375 GTAATAGTAATCAGTGCA
1 GTAACAGTAATCAGTGCA
* *
33276393 GTAACCA-TGATCAATGCA
1 GTAA-CAGTAATCAGTGCA
33276411 GTAACAGTAATCAGTGCA
1 GTAACAGTAATCAGTGCA
33276429 GTA
1 GTA
33276432 TGCAAGAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (18 bp):
GTAACAGTAATCAGTGCA
Found at i:33276716 original size:23 final size:23
Alignment explanation
Indices: 33276690--33276739 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
33276680 ACTCCATGCA
33276690 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
33276713 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
33276736 ATGC
1 ATGC
33276740 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:33276824 original size:27 final size:26
Alignment explanation
Indices: 33276774--33276890 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 26
33276764 GAACAAATCT
* * * *
33276774 GTCATTTTACCTTATCAGGCTATTACA
1 GTCATTTTACCCTA-CAGGGTATTTCG
33276801 GTCATTTTACCCTACAAGGGTATTTCG
1 GTCATTTTACCCTAC-AGGGTATTTCG
* * **
33276828 GTCATTCTACGCTATGGGGATATTTCG
1 GTCATTTTACCCTACAGGG-TATTTCG
*
33276855 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTA-CAGGGTATTTCG
33276882 GTCATTTTA
1 GTCATTTTA
33276891 TCACAGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.05
27 68 0.91
28 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGTATTTCG
Found at i:33282829 original size:29 final size:29
Alignment explanation
Indices: 33282787--33282911 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
33282777 GAAAGCATGT
33282787 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
33282816 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
33282845 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
33282874 ATATGAATGAGA-TTGGGCTTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
33282902 ATATGCATGT
1 ATATGAATGT
33282912 ATGTAGACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 22 0.25
29 67 0.75
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:33285575 original size:40 final size:40
Alignment explanation
Indices: 33285497--33285720 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
33285487 ACCCAAGTAT
* *
33285497 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33285536 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33285576 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33285616 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
33285659 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33285699 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33285721 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33285693 original size:83 final size:80
Alignment explanation
Indices: 33285497--33285720 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
33285487 ACCCAAGTAT
* * * *
33285497 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
33285561 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
33285576 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33285640 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
33285659 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33285721 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:33293793 original size:40 final size:40
Alignment explanation
Indices: 33293715--33293937 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
33293705 ACCCAAGTAT
* *
33293715 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33293754 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33293794 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33293834 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
33293877 CTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33293916 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33293938 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.21
40 93 0.57
41 1 0.01
42 12 0.07
43 23 0.14
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33297489 original size:50 final size:50
Alignment explanation
Indices: 33297414--33297525 Score: 215
Period size: 50 Copynumber: 2.2 Consensus size: 50
33297404 ATAATCACAA
33297414 CCAAAATACCACATCTAGCCTATACATGCCATATGCCAAATATGTATATT
1 CCAAAATACCACATCTAGCCTATACATGCCATATGCCAAATATGTATATT
33297464 CCAAAATACCACATCTAGCCTATACATGCCATATGCCAAATATGTATATT
1 CCAAAATACCACATCTAGCCTATACATGCCATATGCCAAATATGTATATT
33297514 CCAAAAGTACCA
1 CCAAAA-TACCA
33297526 AATTAGATGT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 56 0.92
51 5 0.08
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (50 bp):
CCAAAATACCACATCTAGCCTATACATGCCATATGCCAAATATGTATATT
Found at i:33297982 original size:41 final size:41
Alignment explanation
Indices: 33297888--33298037 Score: 144
Period size: 41 Copynumber: 3.7 Consensus size: 41
33297878 CATATTCGAT
* * * * *
33297888 ATCTCGCATACTAACTGCCGTACATAGCCGAAGCTATCTC-
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
** * * *
33297928 AAATCGCACACTAAGGGCCATATATA-CCGGAATCTATCTC-
1 ATCTCACACACTAAGTGCCATATATAGCC-GAAGCTATCTCG
* * *
33297968 AGTCTCCCACACTAAGTTCCATATATAGCCGAAGCTATTTCG
1 A-TCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
33298010 ATCTCACACACTAAGTGCCATATATAGC
1 ATCTCACACACTAAGTGCCATATATAGC
33298038 TGATTCATCA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 30 0.34
41 54 0.61
42 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (41 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
Found at i:33302967 original size:44 final size:46
Alignment explanation
Indices: 33302860--33303216 Score: 227
Period size: 47 Copynumber: 7.6 Consensus size: 46
33302850 GGGATATATT
* *
33302860 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGC--TCTCATATACGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTC-TGTA--AG
**
33302909 TGTTGATGCATGTCCCAGACATGTCTTACACTAGCATATCTCT-T-A-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATCTCTGTAAG
* *
33302954 GCCGATGCGTGTCCCAGACAAGTCTTACACTAGCTATCTCTGTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGT-AAG
*
33303001 GCCGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTCTGT---
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG--CT-ATCTCTGTAAG
* * * * * * *
33303047 GCTGATGCCATATGCCAGACATGGTCTTACATTGGCTATCAT-AGTATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-TCTGTAAG
** ** *
33303095 GTTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATC-TCTGTA-AG
* * * *
33303142 -CCGATACCATGTCCCAGACATGGTCTTACACTGGTTATCATAATGT--G
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCTATC-T-CTGTAAG
*
33303189 GCCGATGCATGTCCCAGCCATGTCTTAC
1 GCCGATGCATGTCCCAGACATGTCTTAC
33303217 TCTGGCGCAC
Statistics
Matches: 246, Mismatches: 38, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
43 7 0.03
44 31 0.13
45 5 0.02
46 35 0.14
47 83 0.34
48 49 0.20
49 18 0.07
50 14 0.06
51 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGTAAG
Found at i:33303118 original size:94 final size:94
Alignment explanation
Indices: 33302859--33303216 Score: 345
Period size: 94 Copynumber: 3.8 Consensus size: 94
33302849 TGGGATATAT
* * * * **
33302859 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA-TACGAGTGTTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTC
33302923 CCAGACATGTCTTACACTAGCA-T-ATCTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * * *
33302952 TAGCCGATG-CGTGTCCCAGACA-AGTCTTACACTAGCTATC-TCTGTCAAGGCCGATGCATGTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATGGCCGATGCATGTC
* *
33303014 CCAGACATGTCTTACACTGGTACTCATCTCTG
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * * **
33303046 TGCTGATGCCATATGCCAGACATGGTCTTACATTGGCTATCATAGTATGGTTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
* * *
33303111 GACATGTCTTACACTAGCCCTCGTCT-GG
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * *
33303139 ATACCGATACCATGTCCCAGACATGGTCTTACACTGGTTATCATAATGTGGCCGATGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCC
*
33303204 AGCCATGTCTTAC
65 AGACATGTCTTAC
33303217 TCTGGCGCAC
Statistics
Matches: 217, Mismatches: 37, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
91 32 0.15
92 19 0.09
93 26 0.12
94 122 0.56
95 17 0.08
96 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:33305256 original size:18 final size:18
Alignment explanation
Indices: 33305205--33305257 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
33305195 GGCTAAGGAC
33305205 TAAATTAGAAATCAAAATTAT
1 TAAA-TAGAAAT--AAATTAT
*
33305226 TAAA-AGATGATAAATTAT
1 TAAATAGA-AATAAATTAT
33305244 TAAATAGAAATAAA
1 TAAATAGAAATAAA
33305258 AATCATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 16 0.57
19 6 0.21
20 2 0.07
21 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
TAAATAGAAATAAATTAT
Found at i:33310121 original size:28 final size:27
Alignment explanation
Indices: 33310047--33310164 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
33310037 TACTAAAATG
** *
33310047 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
33310074 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
33310101 CCCTCGACTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
* **
33310129 CCCT-TATTTTACAAAATTATTATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
33310156 CCCTCGATT
1 CCCTCGATT
33310165 GTGAAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
27 57 0.72
28 22 0.28
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:33310226 original size:27 final size:27
Alignment explanation
Indices: 33310196--33310345 Score: 133
Period size: 27 Copynumber: 5.6 Consensus size: 27
33310186 TGTAGGATAG
*
33310196 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
*
33310223 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
* ** * *
33310250 AATTACCGAAATACCAC-TGGTTTTTGA
1 AATTACCAAAATACC-CTTAATTTGTAA
*** *
33310277 AATTATTGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
* * **
33310304 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAA
33310331 AATTA-CAGAAATACC
1 AATTACCA-AAATACC
33310346 TTTGACTTTT
Statistics
Matches: 98, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.03
27 94 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAATTTGTAA
Found at i:33310334 original size:54 final size:54
Alignment explanation
Indices: 33310196--33310345 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
33310186 TGTAGGATAG
* *
33310196 AATTACCAAAATA-CCCTTAGTTTGTAAAATTACCA-AAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTGA-TTTATAAAATTA-CAGAAATACCCCTAATTTGTAA
* * * * * **
33310250 AATTACCGAAATACCACTGGTTTTTGAAATTATTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACAGAAATACCCCT-AATTTGTAA
*
33310304 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACC
1 AATTACCAAAATACCCCTGATTTATAAAATTACAGAAATACC
33310346 TTTGACTTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
53 4 0.05
54 68 0.89
55 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTATAAAATTACAGAAATACCCCTAATTTGTAA
Found at i:33311371 original size:25 final size:24
Alignment explanation
Indices: 33311333--33311402 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
33311323 AGGAAGTGCT
* *
33311333 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
33311357 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
33311382 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
33311403 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:33311415 original size:24 final size:23
Alignment explanation
Indices: 33311333--33311429 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
33311323 AGGAAGTGCT
* * *
33311333 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
33311357 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
33311382 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
33311406 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
33311430 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:33311608 original size:42 final size:42
Alignment explanation
Indices: 33311549--33311680 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
33311539 TAGTCTCTCC
33311549 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
33311591 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
33311633 AAATGGGCTTGCATACATCCATTGACATTACA--TGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
33311673 AAATGGGC
1 AAATGGGC
33311681 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
40 16 0.18
42 73 0.82
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:33311739 original size:31 final size:31
Alignment explanation
Indices: 33311704--33311848 Score: 231
Period size: 31 Copynumber: 4.7 Consensus size: 31
33311694 CGTTTATAGT
33311704 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33311735 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
33311766 AAAGGCTTCAG-CCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
33311796 AAAGGCTTCGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33311827 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33311849 TCAAGACTAA
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
30 33 0.31
31 72 0.69
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33311848 original size:61 final size:62
Alignment explanation
Indices: 33311704--33311848 Score: 231
Period size: 61 Copynumber: 2.4 Consensus size: 62
33311694 CGTTTATAGT
33311704 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
* * * *
33311766 AAAGGCTTCAG-CCAATGATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33311827 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33311849 TCAAGACTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
61 61 0.81
62 14 0.19
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (62 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33314110 original size:27 final size:27
Alignment explanation
Indices: 33314080--33314196 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
33314070 TACTAAAATG
* *
33314080 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
33314107 CCCTCGATTTATAGAATTTCTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
33314134 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
33314161 CCCTCGCTTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
33314188 CCCTCGATT
1 CCCTCGATT
33314197 GTGTAATTAC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.27, C:0.26, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Done.