Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 147 of 320
Found at i:48283847 original size:27 final size:27
Alignment explanation
Indices: 48283791--48283891 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
48283781 AAATGATCAA
* *
48283791 AATACCCC-ATAGGGTAAAATCAAC-GA
1 AATACCCCTATAAGGTAAAAT-AACTGT
48283817 AATACCCCTATAAGGTAAAATAACTGT
1 AATACCCCTATAAGGTAAAATAACTGT
* * *
48283844 AATACCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTATAAGGTAAAATAACTGT
*
48283871 AATACCCCTGTAAGGTAAAAT
1 AATACCCCTATAAGGTAAAAT
48283892 GACTTATTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.16
27 56 0.84
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (27 bp):
AATACCCCTATAAGGTAAAATAACTGT
Found at i:48283892 original size:27 final size:27
Alignment explanation
Indices: 48283817--48283895 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
48283807 AAATCAACGA
* *
48283817 AATACCCCTATAAGGTAAAATAACTGT
1 AATACCCCTGTAAGGTAAAATGACTGT
*
48283844 AATACCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAAGGTAAAATGACTGT
48283871 AATACCCCTGTAAGGTAAAATGACT
1 AATACCCCTGTAAGGTAAAATGACT
48283896 TATTTGCCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
AATACCCCTGTAAGGTAAAATGACTGT
Found at i:48287168 original size:27 final size:27
Alignment explanation
Indices: 48287132--48287247 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
48287122 GGTCGAAATG
48287132 ATGACTGAAATACCCTC-ATAGGGTAAA
1 ATGACTGAAATACCC-CGATAGGGTAAA
* *
48287159 ATGACCGAAATACCCCGATAAGGTAAA
1 ATGACTGAAATACCCCGATAGGGTAAA
*
48287186 ATGACTGTAATACCCCTG-TAGGGTAAA
1 ATGACTGAAATACCCC-GATAGGGTAAA
* * *
48287213 ATAACTGTAATACCCCTG-TAAGGTAAA
1 ATGACTGAAATACCCC-GATAGGGTAAA
*
48287240 GTGACTGA
1 ATGACTGA
48287248 TTTTCCCTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (27 bp):
ATGACTGAAATACCCCGATAGGGTAAA
Found at i:48287212 original size:54 final size:54
Alignment explanation
Indices: 48287132--48287247 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
48287122 GGTCGAAATG
*
48287132 ATGACTGAAATACCCTCATAGGGTAAAATGACCGAAATACCCC-GATAAGGTAAA
1 ATGACTGAAATACCCTCATAGGGTAAAATAACCGAAATACCCCTG-TAAGGTAAA
* * * *
48287186 ATGACTGTAATACCC-CTGTAGGGTAAAATAACTGTAATACCCCTGTAAGGTAAA
1 ATGACTGAAATACCCTC-ATAGGGTAAAATAACCGAAATACCCCTGTAAGGTAAA
*
48287240 GTGACTGA
1 ATGACTGA
48287248 TTTTCCCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.02
54 51 0.96
55 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (54 bp):
ATGACTGAAATACCCTCATAGGGTAAAATAACCGAAATACCCCTGTAAGGTAAA
Found at i:48292619 original size:39 final size:39
Alignment explanation
Indices: 48292576--48292758 Score: 233
Period size: 39 Copynumber: 4.7 Consensus size: 39
48292566 GCACGTGGCT
* *
48292576 TGCGGACTTCAAGTCCGAATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
* * *
48292615 TGCGGACCTCATGTCTGGATATATTCCCAGCATATAGCC
1 TGCGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
* * * * *
48292654 TGTGGACTTCATGTTCGGATATATTTCCAGTATATAGCC
1 TGCGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
*
48292693 TACGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
**
48292732 TGTAGACCTCATGTCC-AGATATATTTC
1 TGCGGACCTCATGTCCGA-ATATATTTC
48292759 AAATACCATG
Statistics
Matches: 123, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
38 1 0.01
39 122 0.99
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (39 bp):
TGCGGACCTCATGTCCGAATATATTTCCAGCATATAGCC
Found at i:48292692 original size:78 final size:78
Alignment explanation
Indices: 48292579--48292758 Score: 261
Period size: 78 Copynumber: 2.3 Consensus size: 78
48292569 CGTGGCTTGC
* * * * *
48292579 GGACTTCAAGTCCGAATATATTTCCAGCATATAGCCTGCGGACCTCATGTCTGGATATATTCCCA
1 GGACTTCATGTCCGGATATATTTCCAGCATATAGCCTACGGACCTCATGTCCGAATATATTCCCA
48292644 GCATATAGCCTGT
66 GCATATAGCCTGT
* * *
48292657 GGACTTCATGTTCGGATATATTTCCAGTATATAGCCTACGGACCTCATGTCCGAATATATTTCCA
1 GGACTTCATGTCCGGATATATTTCCAGCATATAGCCTACGGACCTCATGTCCGAATATATTCCCA
48292722 GCATATAGCCTGT
66 GCATATAGCCTGT
* * *
48292735 AGACCTCATGTCCAGATATATTTC
1 GGACTTCATGTCCGGATATATTTC
48292759 AAATACCATG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
GGACTTCATGTCCGGATATATTTCCAGCATATAGCCTACGGACCTCATGTCCGAATATATTCCCA
GCATATAGCCTGT
Found at i:48299453 original size:119 final size:120
Alignment explanation
Indices: 48299271--48299493 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
48299261 TCCTCGTTCA
*
48299271 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
48299336 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
48299391 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
48299453 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
48299494 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:48299493 original size:40 final size:40
Alignment explanation
Indices: 48299269--48299493 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
48299259 GCTCCTCGTT
* *
48299269 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48299309 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48299349 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48299389 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
48299428 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
48299469 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48299494 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48310095 original size:29 final size:29
Alignment explanation
Indices: 48310032--48310099 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
48310022 TAATCAACCG
48310032 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
48310061 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
48310090 CGCACACTTA
1 CGCACACTTA
48310100 CCTTTCCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:48310212 original size:174 final size:174
Alignment explanation
Indices: 48309921--48310250 Score: 561
Period size: 174 Copynumber: 1.9 Consensus size: 174
48309911 AACTCAAGGT
* * *
48309921 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
48309986 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATAC
* *
48310051 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 AATTTAAACCCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
48310095 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
**
48310160 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCTGTAC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATAC
*
48310225 AATTTAAACCCGCACACTTAGTGCCA
131 AATTTAAACCCACACACTTAGTGCCA
48310251 ATCTCATGAC
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATAC
AATTTAAACCCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:48326102 original size:44 final size:44
Alignment explanation
Indices: 48326051--48326294 Score: 223
Period size: 44 Copynumber: 5.6 Consensus size: 44
48326041 TATGTGTTAT
*
48326051 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
* * * * * *
48326095 TGTGTAAGACCACATCTGGGATGCTGGCATTGACTCATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
* * *
48326139 CGTGTAAGACCACATCTAGGACGTTGTCA-CTGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC-GACTTATGATTTA
* * * *
48326183 CGTGTAAGACCACTTCTGGGACATTTGCTTCGTA-TT-TGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTA
* * * *
48326225 CGTGTAAGACCATGCCTGGGACAG-TGGCATTGA-TATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTA
* *
48326268 CATGTAAGACCACGTCTGAGACGTTGG
1 CGTGTAAGACCACGTCTGGGACGTTGG
48326295 TATTGTACGA
Statistics
Matches: 161, Mismatches: 31, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.01
42 28 0.17
43 30 0.19
44 99 0.61
45 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
Found at i:48326244 original size:42 final size:43
Alignment explanation
Indices: 48326176--48326280 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
48326166 CACTGACTTA
* * *
48326176 TGATTTACGTGTAAGACCACTTCTGGGACATTTGC-TTCG-TATT
1 TGATTT-CGTGTAAGACCACTCCTGGGACAGTGGCATT-GATATT
48326219 TGATTTCGTGTAAGACCA-TGCCTGGGACAGTGGCATTGATATT
1 TGATTTCGTGTAAGACCACT-CCTGGGACAGTGGCATTGATATT
* *
48326262 TGATTACATGTAAGACCAC
1 TGATTTCGTGTAAGACCAC
48326281 GTCTGAGACG
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.45
43 28 0.53
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACTCCTGGGACAGTGGCATTGATATT
Found at i:48332415 original size:55 final size:55
Alignment explanation
Indices: 48332284--48332415 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 55
48332274 CATGGTCGTA
* * **
48332284 GGCGAACCTGCTAAAACAACACGAGCGTGCAACATGCCAGTGCCTTGAAACCATG
1 GGCGAACCTGCCAAAACAACACGAGCGTGCAACACGCCAGTGCCAAGAAACCATG
* ** ** * * * *
48332339 GCCGAACCTATCAAATTAACACGAGTGTGCAACACGCCCGTGCCAAGCAACCGTG
1 GGCGAACCTGCCAAAACAACACGAGCGTGCAACACGCCAGTGCCAAGAAACCATG
48332394 GGCGAACCTGCCAAAACAACAC
1 GGCGAACCTGCCAAAACAACAC
48332416 AGGCGTGGCC
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (55 bp):
GGCGAACCTGCCAAAACAACACGAGCGTGCAACACGCCAGTGCCAAGAAACCATG
Found at i:48343529 original size:44 final size:42
Alignment explanation
Indices: 48343468--48343621 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
48343458 TGTGTTATCG
*
48343468 TGTAAGACCACGTCTGGGACGTTGGTATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGTATCGA-TT-TGATTTACA
* * * *
48343512 TGTAAGACCACTTCTGGGACATTGGCATTGTATTTGATTT-CA
1 TGTAAGACCACGTCTGGGACGTTGGTATCG-ATTTGATTTACA
*
48343554 TGTAAGACC-CTGCCTGGGACAG-TGGTATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGTATCG--ATTTGATTTACA
* *
48343597 TGTAACACCACGTCTAGGACGTTGG
1 TGTAAGACCACGTCTGGGACGTTGG
48343622 CATTGTACGA
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 33 0.37
44 29 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGTATCGATTTGATTTACA
Found at i:48353982 original size:68 final size:69
Alignment explanation
Indices: 48353910--48354057 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
48353900 CATCATGTGT
* * * *
48353910 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
48353972 ATGTAG
64 ATGTAG
* ** * *
48353978 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
48354041 GTAG
66 GTAG
48354045 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
48354058 GAGATAAACC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 20 0.30
65 7 0.11
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
GTAG
Found at i:48354014 original size:64 final size:64
Alignment explanation
Indices: 48353934--48354117 Score: 167
Period size: 67 Copynumber: 2.8 Consensus size: 64
48353924 AGACATTATG
* * *
48353934 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48353998 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48354063 AA
63 AA
* * * * * *
48354065 ACCG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATG-CGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48354118 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.32
68 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48356540 original size:29 final size:29
Alignment explanation
Indices: 48356498--48356557 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
48356488 CAATGAATCG
*
48356498 CTCACTGATGTATTTCTTTTGGAACTCCT
1 CTCACTGATGTATTTCTTTGGGAACTCCT
48356527 CTCACTGATGTATTTCTTTGGGAACTCCT
1 CTCACTGATGTATTTCTTTGGGAACTCCT
48356556 CT
1 CT
48356558 TGAAAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (29 bp):
CTCACTGATGTATTTCTTTGGGAACTCCT
Found at i:48362531 original size:15 final size:17
Alignment explanation
Indices: 48362501--48362532 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48362491 TTGATACTTG
48362501 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
48362518 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
48362533 AGTTATGCTA
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:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:48363123 original size:20 final size:21
Alignment explanation
Indices: 48363098--48363137 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
48363088 TGTTCATAGC
*
48363098 AAAAATTTTCTAAGT-TTTGT
1 AAAAATTTCCTAAGTGTTTGT
48363118 AAAAATTTCCTAAGTGTTTG
1 AAAAATTTCCTAAGTGTTTG
48363138 GTTTAGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
AAAAATTTCCTAAGTGTTTGT
Found at i:48376799 original size:40 final size:40
Alignment explanation
Indices: 48376722--48376939 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
48376712 AAACCAAGTA
* *
48376722 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48376761 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48376801 TCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48376841 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48376881 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48376921 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48376940 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48381705 original size:93 final size:93
Alignment explanation
Indices: 48381593--48381764 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
48381583 CGCACATAAG
*
48381593 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
48381657 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
48381686 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
48381751 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48381765 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48381759 original size:46 final size:46
Alignment explanation
Indices: 48381587--48381761 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
48381577 GTAACCCGCA
* *
48381587 CATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACATC
*
48381633 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATC
* *
48381682 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATC
*
48381726 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48381762 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATC
Found at i:48387882 original size:40 final size:40
Alignment explanation
Indices: 48387805--48388022 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
48387795 AAACCAAGTA
* * * *
48387805 CCTTCGAGATTTAG-CCGAATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48387844 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48387884 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48387924 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48387964 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48388004 CCTTCGGGACGTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48388023 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48391000 original size:50 final size:52
Alignment explanation
Indices: 48390913--48391011 Score: 166
Period size: 50 Copynumber: 1.9 Consensus size: 52
48390903 TGCTTTGACT
* *
48390913 TAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTTA
1 TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATGTTA
48390965 TAATTT-ATGATGCAAAC-TTAAATAACATGAGAGTTACATAATGCATG
1 TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATG
48391012 ACTTTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 28 0.62
51 11 0.24
52 6 0.13
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATGTTA
Found at i:48399764 original size:31 final size:31
Alignment explanation
Indices: 48399726--48399788 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
48399716 CTTTTCACAC
*
48399726 TTCATATTTCGTAACACTGGGCCCAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
** *
48399757 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
48399788 T
1 T
48399789 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCCAAGCCTT
Found at i:48400064 original size:25 final size:25
Alignment explanation
Indices: 48399973--48400102 Score: 160
Period size: 25 Copynumber: 5.2 Consensus size: 25
48399963 AGCATAGCTG
*
48399973 CTTTATCATTTAACTGGAGGCCT-AGCC
1 CTTTATCA--TAACTGG-GGCATAAGCC
*
48400000 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
48400024 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
48400048 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
48400073 CTTTTATCATAACTGGGGCATAAGCC
1 C-TTTATCATAACTGGGGCATAAGCC
48400099 CTTT
1 CTTT
48400103 TACACTTCCT
Statistics
Matches: 95, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.19
24 16 0.17
25 30 0.32
26 25 0.26
27 2 0.02
28 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:48400085 original size:26 final size:26
Alignment explanation
Indices: 48399974--48400104 Score: 168
Period size: 26 Copynumber: 5.2 Consensus size: 26
48399964 GCATAGCTGC
*
48399974 TTTATCATTTAACTGGAGGCCT-AGCCTCT
1 TTTATCA--TAACTGG-GGCATAAGCC-CT
48400003 TTTA--ATAACTGGGGCA-AAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
48400026 TTTA--ATAACTGGGGCATAAGCCC-
1 TTTATCATAACTGGGGCATAAGCCCT
48400049 TTTATCATAACTGGGGCATAAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
48400075 TTTATCATAACTGGGGCATAAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
48400101 TTTA
1 TTTA
48400105 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 1, Indels: 13
0.87 0.01 0.12
Matches are distributed among these distances:
23 22 0.23
24 13 0.14
25 26 0.27
26 30 0.31
27 1 0.01
29 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (26 bp):
TTTATCATAACTGGGGCATAAGCCCT
Found at i:48400092 original size:51 final size:48
Alignment explanation
Indices: 48400007--48400102 Score: 165
Period size: 51 Copynumber: 1.9 Consensus size: 48
48399997 GCCTCTTTTA
48400007 ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
48400055 ATAACTGGGGCATAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCA-AAGCCCTTTTA--ATAACTGGGGCATAAGCCCTTT
48400103 TACACTTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 12 0.27
49 11 0.24
51 22 0.49
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
Found at i:48400178 original size:20 final size:20
Alignment explanation
Indices: 48400153--48400219 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
48400143 TTATGAATAC
48400153 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48400173 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48400193 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48400213 ACCATGT
1 ATCATGT
48400220 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48400184 original size:11 final size:11
Alignment explanation
Indices: 48400153--48400208 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48400143 TTATGAATAC
48400153 ATCATGTGCAT
1 ATCATGTGCAT
*
48400164 ATCA--TACAT
1 ATCATGTGCAT
48400173 ATCATGTGCAT
1 ATCATGTGCAT
*
48400184 ATCA--TACAT
1 ATCATGTGCAT
*
48400193 GTCATGTGCAT
1 ATCATGTGCAT
48400204 ATCAT
1 ATCAT
48400209 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48401903 original size:46 final size:44
Alignment explanation
Indices: 48401850--48402025 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 44
48401840 TATTTGGGCA
48401850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
48401896 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
48401943 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAA-G
* *
48401989 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48402026 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.04
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:48402005 original size:93 final size:93
Alignment explanation
Indices: 48401846--48402017 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
48401836 AGGATATTTG
* *
48401846 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
48401911 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
48401939 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48402004 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48402018 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48404967 original size:15 final size:15
Alignment explanation
Indices: 48404947--48405002 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
48404937 GTATCTTGGG
48404947 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
48404962 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
48404977 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
48404992 TTTCTTTATTC
1 TTTCTTTATTC
48405003 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48407445 original size:46 final size:45
Alignment explanation
Indices: 48407392--48407567 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
48407382 TATTTGGGCA
48407392 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48407438 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
48407485 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
48407531 -CCTGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48407568 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 64 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48407550 original size:93 final size:93
Alignment explanation
Indices: 48407388--48407559 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
48407378 AGGATATTTG
* * *
48407388 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
48407453 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
48407481 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG-CCTGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGA
*
48407545 TTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
48407560 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48412058 original size:40 final size:40
Alignment explanation
Indices: 48412003--48412311 Score: 519
Period size: 40 Copynumber: 7.7 Consensus size: 40
48411993 TGAGCATTGG
48412003 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
48412043 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
48412083 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
48412123 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
48412163 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
48412203 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
48412243 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
48412283 GATATGTCCGGGTTAAAACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
48412312 ATGTGTTTGC
Statistics
Matches: 254, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:48415379 original size:48 final size:48
Alignment explanation
Indices: 48415209--48415380 Score: 181
Period size: 48 Copynumber: 3.6 Consensus size: 48
48415199 GAATTATTGC
*
48415209 TGCCATGTC-CGAAACATGGTCTTACA-TTAGCTCTCGTC-TCATTGCCGA
1 TGCCATGTCTC-AAACATGGTCTTACACTT-GCTCTC-ACATCATTGCCGA
* * * * *
48415257 TGCCATGTCTCAAACATGGTCTTACACTAGCGCACATATCAATGCCGA
1 TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
* * * *
48415305 TGCCATGTCTTAGACATGGTCTTACACTTGCTCTCACAACATTGCTGA
1 TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
*
48415353 TGCCATGT-TCCAAACTTGGTCTTACACT
1 TGCCATGTCT-CAAACATGGTCTTACACT
48415381 GGCACACATA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 99 0.97
49 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (48 bp):
TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
Found at i:48419849 original size:26 final size:27
Alignment explanation
Indices: 48419740--48419852 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
48419730 TCATCTCTTC
* *
48419740 TTCTGCTGGCTATGCCACATATATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
*
48419767 ATCTGGTGGCTCTGCCACATATATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
48419794 TTCTGGTGGCTCTGCCACA-ATTATCTG
1 TTCTGGTGGCTCTGCCACATA-TATCTG
* * *
48419821 TTCTGGTGACCCTGTCACAT-TATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
48419847 TTCTGG
1 TTCTGG
48419853 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 13 0.17
27 64 0.83
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACATATATCTG
Found at i:48427713 original size:54 final size:53
Alignment explanation
Indices: 48427631--48427738 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 53
48427621 AAGCGTCCTA
* *
48427631 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACAT-TATCTATTCTG
* * * *
48427685 GTGGCTCTGCCACAATTATCTGTTCTGGTGACCCTGTCACATTATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTATTCTG
48427738 G
1 G
48427739 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 11 0.23
54 37 0.77
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTATTCTG
Found at i:48427735 original size:26 final size:26
Alignment explanation
Indices: 48427631--48427738 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
48427621 AAGCGTCCTA
* *
48427631 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
*
48427658 GTGGCTCTGCCACATATATCTATTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
48427685 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* * *
48427712 GTGACCCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
48427738 G
1 G
48427739 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.22
27 54 0.75
28 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:48432554 original size:48 final size:47
Alignment explanation
Indices: 48432499--48432784 Score: 267
Period size: 48 Copynumber: 6.0 Consensus size: 47
48432489 AGGGTGAATT
* *
48432499 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-AG
* * * * * * *
48432547 GCTGATGCCATGTCCCAGACATAGTCTTACATTAGCTCTCGTCTCATT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA-G
* *
48432595 G-TCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACATATCAAT
1 GCT-GATGCCATGTCCCAAACATGGTCTTACACTAGCT-CACATATC-AG
** * **
48432643 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGATGTG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCAG
* * *
48432691 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATCA-
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCAC-ATATCAG
*
48432740 -CTGATGCCATG-CTCCAAACATGGTCTTACACTAGCACACATATCA
1 GCTGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCA
48432785 CCCAAATGTC
Statistics
Matches: 197, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
45 5 0.03
46 4 0.02
47 4 0.02
48 173 0.88
49 4 0.02
50 6 0.03
51 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAG
Found at i:48432747 original size:96 final size:93
Alignment explanation
Indices: 48432496--48432774 Score: 305
Period size: 96 Copynumber: 2.9 Consensus size: 93
48432486 AAAAGGGTGA
* * * *
48432496 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAG-CTCACATGTCGAGGCTGATGCCATGT
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATC-A--CTGATGCCATGT
* * * *
48432560 CCCAGACATAGTCTTACATTAGCTCTCGTCTC
63 CCCAAACATGGTCTTACACTAGCTCTCG-ATC
* * *
48432592 ATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGT-ACACATATCAATGCCAATGCCATGT
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCACTG---ATGCCATGT
*
48432656 CCCAAACATGGTCTTACACTAGCTCTC-ATG
63 CCCAAACATGGTCTTACACTAGCTCTCGATC
*
48432686 ATGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATCACTGATGCCATG
1 AT-T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCAC-ATATCACTGATGCCATG
48432751 -CTCCAAACATGGTCTTACACTAGC
62 TC-CCAAACATGGTCTTACACTAGC
48432775 ACACATATCA
Statistics
Matches: 157, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
93 2 0.01
94 3 0.02
95 3 0.02
96 138 0.88
97 1 0.01
98 3 0.02
99 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCACTGATGCCATGTCCC
AAACATGGTCTTACACTAGCTCTCGATC
Found at i:48432763 original size:144 final size:144
Alignment explanation
Indices: 48432503--48432784 Score: 392
Period size: 144 Copynumber: 2.0 Consensus size: 144
48432493 TGAATTGCTG
* *
48432503 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * * ** * *
48432568 TAGTCTTACATTAGCTCTCGTCTCATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTAC
66 TAGTCTTACACTAGCTCTCGACACATACTCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
48432633 ACATATCAATGCCA
131 ACATATCAATGCCA
* *
48432647 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATG-TCGAGGCCGATGCCATGTCCCAGAC
*
48432711 ATGGTCTTACACTAGCTCTC-ACAACATCACT-GATGCCATG-CTCCAAACATGGTCTTACACTA
65 ATAGTCTTACACTAGCTCTCGAC-ACAT-ACTCGATGCCATGTC-CCAAACATGGTCTTACACTA
48432773 GCACACATATCA
127 GCACACATATCA
48432785 CCCAAATGTC
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
143 2 0.02
144 118 0.97
145 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
TAGTCTTACACTAGCTCTCGACACATACTCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
ACATATCAATGCCA
Found at i:48435865 original size:130 final size:130
Alignment explanation
Indices: 48435585--48435996 Score: 495
Period size: 130 Copynumber: 3.1 Consensus size: 130
48435575 CGTGGGATTG
* * * * ** ** * **
48435585 TGCCCTAACGTGTTGGGTTGCAATCTCTCATTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
* ** * * * * * **
48435650 CACCCATGTCTTTTAAAAATTCTTTAAAATG-AGGCGATGTTCGATATTTGACAATTCGCGGAAT
66 CACTCATG-CTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATT-TAGGAAT
*
48435714 CG
129 CA
48435716 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
*
48435781 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATACTCGGTGTTTGGCAATTTAGGAATCA
66 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATTTAGGAATCA
* ** *
48435846 TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
* *
48435911 CACTCATGCTTTTAAAAATTCTCCAAAACGAAGGCAATGCTCGGTGTTTAGGAAATTTGAGGAAT
66 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTT-GGCAATTT-AGGAAT
48435976 CA
129 CA
*
48435978 TGTCCTA-CTGTGTTGGGTT
1 TGCCCTATC-GTGTTGGGTT
48435997 TCAGTTTTTC
Statistics
Matches: 245, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
130 134 0.55
131 88 0.36
132 23 0.09
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATTTAGGAATCA
Found at i:48438818 original size:11 final size:11
Alignment explanation
Indices: 48438804--48438853 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
48438794 CTTTAGATTT
48438804 AGTTTTCTCTA
1 AGTTTTCTCTA
*
48438815 AGTTTTCTTTA
1 AGTTTTCTCTA
48438826 A-TTTTCTCTA
1 AGTTTTCTCTA
*
48438836 CACTTTT-TCTA
1 -AGTTTTCTCTA
48438847 AGGTTTT
1 A-GTTTT
48438854 TATTTTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.27
11 20 0.61
12 4 0.12
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (11 bp):
AGTTTTCTCTA
Found at i:48442402 original size:29 final size:28
Alignment explanation
Indices: 48442366--48442443 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48442356 TCATGAGATT
48442366 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48442396 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48442423 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
48442444 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48442719 original size:173 final size:174
Alignment explanation
Indices: 48442396--48442722 Score: 548
Period size: 173 Copynumber: 1.9 Consensus size: 174
48442386 AAATTGTACA
* *
48442396 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
48442461 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
**
48442526 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCAAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
48442570 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
48442635 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
48442699 TTTTGGACAGCAAAAAAGGTAAGT
131 TTTTGGACAGCAAAAAAGGTAAGT
48442723 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 78 0.55
174 64 0.45
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCAAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:48444594 original size:25 final size:23
Alignment explanation
Indices: 48444542--48444596 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
48444532 TATAAATAGT
48444542 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
48444565 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
48444590 AATAGTG
1 AATAGTG
48444597 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:48444717 original size:22 final size:24
Alignment explanation
Indices: 48444657--48444726 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 24
48444647 AATAGATATA
*
48444657 AAAAATATATGTACATAATATAGTGT
1 AAAAATATA--TACATAATATAATGT
*
48444683 AAAAAATAAATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
48444707 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
48444727 CATGTAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 18 0.46
24 1 0.03
25 12 0.31
27 8 0.21
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:48444772 original size:25 final size:25
Alignment explanation
Indices: 48444742--48444875 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
48444732 AGAAAAAAAA
*
48444742 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
48444767 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * * *
48444792 ATATATACGTAATCTAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
48444816 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
48444838 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
48444863 AAATATA-ATAATA
1 ATATATACATAATA
48444876 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 19 0.23
24 23 0.27
25 34 0.40
26 5 0.06
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:48444956 original size:29 final size:29
Alignment explanation
Indices: 48444917--48444984 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
48444907 CGGCCACAAG
*
48444917 GCCGGCCACCGTCCGGTCACCGGACCGCC
1 GCCGGCCACCGTCCGGTCACCGAACCGCC
* *
48444946 GCCGGCCACCGTCCGGTCACTGAACCGCT
1 GCCGGCCACCGTCCGGTCACCGAACCGCC
48444975 GCCGGCCACC
1 GCCGGCCACC
48444985 ATCGGTGCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.12, C:0.50, G:0.29, T:0.09
Consensus pattern (29 bp):
GCCGGCCACCGTCCGGTCACCGAACCGCC
Found at i:48445221 original size:16 final size:16
Alignment explanation
Indices: 48445183--48445221 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
48445173 ATCTCCAAAA
*
48445183 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
48445199 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
48445215 AATAACT
1 AAAAACT
48445222 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:48445424 original size:30 final size:30
Alignment explanation
Indices: 48445388--48445473 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
48445378 AGGGTTGTGG
* *
48445388 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
48445418 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
48445448 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
48445474 CAAAGGCTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.50, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:48445431 original size:18 final size:18
Alignment explanation
Indices: 48445408--48445463 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
48445398 GTGGAGTAGG
48445408 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
48445426 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
48445438 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
48445456 TAGTGGAG
1 TAGTGGAG
48445464 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:48450306 original size:13 final size:13
Alignment explanation
Indices: 48450290--48450331 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
48450280 ATCATTAATA
48450290 TAATTTATTATTT
1 TAATTTATTATTT
*
48450303 TAA-TAATTATTT
1 TAATTTATTATTT
* *
48450315 TAATTTTTTATTC
1 TAATTTATTATTT
48450328 TAAT
1 TAAT
48450332 AATAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TAATTTATTATTT
Found at i:48450311 original size:25 final size:25
Alignment explanation
Indices: 48450283--48450334 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
48450273 TATTAATATC
*
48450283 ATTAATATAATTTATTATTTTAATA
1 ATTAATATAATTTATTATTCTAATA
* * *
48450308 ATTATTTTAATTTTTTATTCTAATA
1 ATTAATATAATTTATTATTCTAATA
48450333 AT
1 AT
48450335 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTAATATAATTTATTATTCTAATA
Found at i:48450341 original size:25 final size:25
Alignment explanation
Indices: 48450290--48450342 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48450280 ATCATTAATA
* * *
48450290 TAATTTATTATTTTAATAATTATTT
1 TAATTTATTATTCTAATAATAAATT
*
48450315 TAATTTTTTATTCTAATAATAAATT
1 TAATTTATTATTCTAATAATAAATT
48450340 TAA
1 TAA
48450343 AAATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATTTATTATTCTAATAATAAATT
Found at i:48451705 original size:21 final size:21
Alignment explanation
Indices: 48451664--48451705 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
48451654 CATTAAAAGT
* *
48451664 TAAAATTTAATTTTGACCTTC
1 TAAAATTAAATTTTGAACTTC
48451685 TAAAATTAAATTTCT-AACTTC
1 TAAAATTAAATTT-TGAACTTC
48451706 GTCCCTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAAATTAAATTTTGAACTTC
Found at i:48451865 original size:40 final size:40
Alignment explanation
Indices: 48451820--48451900 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
48451810 ATAATTGAAA
*
48451820 ATAAAAATATAAAATTAAATTATAGTTTCTACCTGTAATC
1 ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
*
48451860 ATAAAAATATAAAATTAAATTATAGTCTCTACTTGTAATC
1 ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
48451900 A
1 A
48451901 AACTAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (40 bp):
ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
Found at i:48458224 original size:46 final size:46
Alignment explanation
Indices: 48458144--48458370 Score: 269
Period size: 46 Copynumber: 4.9 Consensus size: 46
48458134 TTCGACATGA
* * * * * * *
48458144 TGCCATAGTGTCTTTCAACTATGGTATTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCACGT
* * ** * *
48458190 TGCCGTGGTATCATTCAACCATGGTCTTATTCATTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTATCACGT
* *
48458237 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCACGT
*
48458283 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCACGT
48458329 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATC
48458371 CGAGAGCACA
Statistics
Matches: 156, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 116 0.74
47 39 0.25
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCACGT
Found at i:48458303 original size:93 final size:91
Alignment explanation
Indices: 48458144--48458364 Score: 289
Period size: 93 Copynumber: 2.4 Consensus size: 91
48458134 TTCGACATGA
* * * * * ** *
48458144 TGCCATAGTGTCTTTCAACTATGGTATTACTCATTTTCTGTCATGTTGCCGTGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACATTGCCATGGTATCATTCAAC
** *
48458209 CATGGTCTTATTCATTTCCCCATCACGT
65 CATGGTCTTACACATTT-CACATCACGT
*
48458237 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACATTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACATTGCCATGGTATCATTCAAC
* *
48458302 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCACATCACGT
48458329 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
48458365 TCTATCCGAG
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
92 47 0.42
93 66 0.58
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACATTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACATCACGT
Found at i:48463445 original size:93 final size:91
Alignment explanation
Indices: 48463286--48463506 Score: 298
Period size: 93 Copynumber: 2.4 Consensus size: 91
48463276 TTCGACATGA
* * * * * *
48463286 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCGTGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACGTTGCCATGGTATCATTCAAC
** * *
48463351 CATGGTCTTATTCATTTCCCCGTCACGT
65 CATGGTCTTACACATTT-CACATCACGT
*
48463379 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACGTTGCCATGGTATCATTCAAC
* *
48463444 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCACATCACGT
48463471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
48463507 TCTATCAGAG
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 46 0.40
93 68 0.60
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACGTTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACATCACGT
Found at i:48463514 original size:46 final size:46
Alignment explanation
Indices: 48463286--48463509 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
48463276 TTCGACATGA
* * * * *
48463286 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
* * ** * *
48463332 TGCCGTGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTGTCACGT
48463379 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
* *
48463425 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
48463471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
48463510 ATCAGAGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 117 0.74
47 40 0.25
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
Found at i:48465637 original size:11 final size:11
Alignment explanation
Indices: 48465621--48465672 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
48465611 TATACTAAAT
48465621 AAATAATAATA
1 AAATAATAATA
*
48465632 AAATAAT-ATT
1 AAATAATAATA
* *
48465642 AAATATCTCATA
1 AAATA-ATAATA
*
48465654 AAATATTAATA
1 AAATAATAATA
48465665 AAATAATA
1 AAATAATA
48465673 CTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:48466802 original size:31 final size:30
Alignment explanation
Indices: 48466726--48466808 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
48466716 TTTATTCTTG
*
48466726 ACATATACTGGGCCGAAGCC-TTTCATTTA
1 ACATATACTGGGCCGAAGCCTTTTCATTAA
*
48466755 ACAGT-TACTGGACCGAAGCCTTTTCA-TAA
1 ACA-TATACTGGGCCGAAGCCTTTTCATTAA
48466784 ATCATATCACTGGGCCGAAGCCTTT
1 A-CATAT-ACTGGGCCGAAGCCTTT
48466809 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 21 0.46
30 9 0.20
31 16 0.35
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATATACTGGGCCGAAGCCTTTTCATTAA
Found at i:48466879 original size:42 final size:42
Alignment explanation
Indices: 48466832--48466923 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
48466822 TGGCCCTTAG
48466832 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
48466874 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
48466916 GCCCATTT
1 GCCCATTT
48466924 GCGGAGACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:48468075 original size:27 final size:26
Alignment explanation
Indices: 48468022--48468205 Score: 95
Period size: 27 Copynumber: 6.7 Consensus size: 26
48468012 TTTCATCCTA
* * **
48468022 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGT-AATTTTTAAAC
*
48468049 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTT-TAAAC
* * * *
48468076 CAATGGTATTCCT-ATAATTTTTAAAAAATT
1 CAAGGGTATT-TTGGTAATTTTT---AAA-C
*
48468106 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTT-TAAAC
* * *
48468133 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTT-TAAAC
** *
48468160 TGAGGGTATTTTGGTAATTTCTCAAAC
1 CAAGGGTATTTTGGTAATTT-TTAAAC
48468187 C-AGTGGTATTTTGGTAATT
1 CAAG-GGTATTTTGGTAATT
48468206 CTATCCTACA
Statistics
Matches: 126, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
26 8 0.06
27 92 0.73
28 5 0.04
29 3 0.02
30 17 0.13
31 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTTTAAAC
Found at i:48468151 original size:57 final size:56
Alignment explanation
Indices: 48468049--48468205 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 56
48468039 ATCTACAAAC
* * *
48468049 CAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTCCT-ATAATTTTTAAAAAATT
1 CAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTATT-TTGGTAATTTTT-AAAAATT
* * *
48468106 CAAGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAATT
1 CAAGGGTATTT-TAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAATT
* * *
48468161 -GAGGGTATTTTGGTAATTTCT-CAAACCAGTGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATTT-TGTAAACCAGTGGTATTTTGGTAATT
48468206 CTATCCTACA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
53 1 0.01
54 35 0.41
55 8 0.09
56 5 0.06
57 35 0.41
58 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (56 bp):
CAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAATT
Found at i:48468221 original size:27 final size:26
Alignment explanation
Indices: 48468106--48468233 Score: 82
Period size: 27 Copynumber: 4.8 Consensus size: 26
48468096 TTAAAAAATT
*
48468106 CAAGGGTATTTCT-GTAATTT-TGTAAA
1 CAAGGGTATTT-TGGTAATTTAT-CAAA
*
48468132 TCAGGGGTATTTTGGTAATTT-TACAAA
1 -CAAGGGTATTTTGGTAATTTAT-CAAA
** *
48468159 TTGAGGGTATTTTGGTAATTTCTCAAA
1 -CAAGGGTATTTTGGTAATTTATCAAA
* **
48468186 CCAGTGGTATTTTGGTAATTCTATCCTA
1 CAAG-GGTATTTTGGTAATT-TATCAAA
**
48468214 CAAGGGTATTTCAGTAATTT
1 CAAGGGTATTTTGGTAATTT
48468234 CACAATCGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
26 4 0.05
27 71 0.86
28 8 0.10
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTATCAAA
Found at i:48468274 original size:27 final size:27
Alignment explanation
Indices: 48468237--48468328 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
48468227 GTAATTTCAC
48468237 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
48468264 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
48468291 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
48468318 AATCGAGGGTA
1 AATCGAGGGTA
48468329 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:48468353 original size:54 final size:53
Alignment explanation
Indices: 48468227--48468345 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 53
48468217 GGGTATTTCA
* * * *
48468227 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
***
48468280 GTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATG
48468334 GTAATTTTACAA
1 GTAATTTTACAA
48468346 GTTGAGGGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
52 2 0.04
53 10 0.18
54 42 0.76
55 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:48470749 original size:42 final size:42
Alignment explanation
Indices: 48470702--48470793 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
48470692 TGGCCCTTAG
*
48470702 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGCCAATGAATGTATGCAA
48470744 GCCCATTTCAATATCACATGTAATGCCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGCCAATGAATGTATGCAA
48470786 GCCCATTT
1 GCCCATTT
48470794 GGGGAGATAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGCCAATGAATGTATGCAA
Found at i:48470991 original size:25 final size:26
Alignment explanation
Indices: 48470940--48471007 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
48470930 CTCTTTTAAT
48470940 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
48470965 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
48470990 AACTAAGGCAAAGGCCTT
1 AACTAGGGCAAAGCCCTT
48471008 GAGGTAGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (26 bp):
AACTAGGGCAAAGCCCTTTTCTGATA
Found at i:48472988 original size:20 final size:19
Alignment explanation
Indices: 48472943--48472980 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
48472933 GAGCGAAAGG
48472943 AACGAG-AAACGGGCCAAA
1 AACGAGAAAACGGGCCAAA
*
48472961 AACGGAGAAAATGGGCCAAA
1 AAC-GAGAAAACGGGCCAAA
48472981 GTACGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 3 0.18
20 11 0.65
ACGTcount: A:0.50, C:0.18, G:0.29, T:0.03
Consensus pattern (19 bp):
AACGAGAAAACGGGCCAAA
Found at i:48475072 original size:30 final size:30
Alignment explanation
Indices: 48475038--48475097 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48475028 CCCTAGTACG
48475038 AACTTTGGCAAAATTATCA-TTTTGCCCCTA
1 AACTTTGGCAAAATTA-CACTTTTGCCCCTA
* * *
48475068 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
48475098 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:48478340 original size:27 final size:27
Alignment explanation
Indices: 48478310--48478386 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
48478300 GGACCCCATG
*
48478310 AAATGACTATTATACCCCTATGAGGTA
1 AAATGACTATTATACCCCTATGAAGTA
* * *
48478337 AAATGACTGTTATACCACTATAAAGTA
1 AAATGACTATTATACCCCTATGAAGTA
*
48478364 AAATGACTGA-TATACCCTTATGA
1 AAATGACT-ATTATACCCCTATGA
48478387 TATGTATGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (27 bp):
AAATGACTATTATACCCCTATGAAGTA
Found at i:48481457 original size:40 final size:40
Alignment explanation
Indices: 48481374--48481676 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
48481364 TTGAATGCTG
* * * * * *
48481374 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
48481414 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
48481454 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
48481494 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
48481534 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
48481574 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48481614 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48481653 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48481677 TGACCGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:48489192 original size:40 final size:40
Alignment explanation
Indices: 48489109--48489411 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
48489099 TTGAATGCTG
* * * * * *
48489109 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
48489149 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
48489189 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
48489229 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
48489269 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
48489309 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48489349 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48489388 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48489412 TGACCGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:48499186 original size:26 final size:27
Alignment explanation
Indices: 48499156--48499229 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
48499146 CAGTTTGATG
* *
48499156 AAATGATTGTTATACCCCT-TGAGGTA
1 AAATGACTGTTATACCCCTATGAAGTA
48499182 AAATGACTGTTATACCCCTATGAAGTA
1 AAATGACTGTTATACCCCTATGAAGTA
**
48499209 AAATGACTAATATACCCCTAT
1 AAATGACTGTTATACCCCTAT
48499230 AATATGTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 18 0.42
27 25 0.58
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (27 bp):
AAATGACTGTTATACCCCTATGAAGTA
Found at i:48500653 original size:40 final size:40
Alignment explanation
Indices: 48500555--48500817 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
48500545 TCCTCGTTCA
* * * * *
48500555 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48500594 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48500634 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48500674 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
48500714 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
48500754 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
48500794 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48500818 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48507625 original size:16 final size:16
Alignment explanation
Indices: 48507604--48507634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48507594 TTGGGGCATA
*
48507604 AAAAAATTTACTTTTT
1 AAAAAATTTAATTTTT
48507620 AAAAAATTTAATTTT
1 AAAAAATTTAATTTT
48507635 CTCGCATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAAATTTAATTTTT
Found at i:48508891 original size:53 final size:54
Alignment explanation
Indices: 48508834--48509028 Score: 185
Period size: 55 Copynumber: 3.6 Consensus size: 54
48508824 CTTACCATTT
* ** *
48508834 CCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * * * ** * *
48508887 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTCACCAATG
* * * * *
48508942 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * * *
48508996 TCATGCCTTGGCATGGTCTTACTTTGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
48509029 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 34 0.31
54 35 0.32
55 40 0.37
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
Found at i:48512972 original size:27 final size:27
Alignment explanation
Indices: 48512942--48513083 Score: 99
Period size: 27 Copynumber: 5.3 Consensus size: 27
48512932 TTAGTTTACC
* *
48512942 AAATTACCAGAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
*
48512969 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
** * **
48512996 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
*** * *
48513023 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
* * *
48513050 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTAATTTGTA
*
48513077 GAATTAC
1 AAATTAC
48513084 TATTTTACCC
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
26 4 0.04
27 87 0.92
28 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:48513092 original size:27 final size:28
Alignment explanation
Indices: 48513062--48513191 Score: 144
Period size: 27 Copynumber: 4.8 Consensus size: 28
48513052 ATTACCAAAG
* *
48513062 TACCCCT-GATTTATAGAATTACTATTT
1 TACCCCTCGATTTACAGAATTACCATTT
*
48513089 TA-CCCTCGATTTATAGAATTACCATTT
1 TACCCCTCGATTTACAGAATTACCATTT
* *
48513116 TA-CCCTCGATTTACAGAATTACCGTCT
1 TACCCCTCGATTTACAGAATTACCATTT
* *
48513143 TA-CCCTTGATTTACAGAATTACCAATT
1 TACCCCTCGATTTACAGAATTACCATTT
* *
48513170 TA-CCCTCAATTTACAAAATTAC
1 TACCCCTCGATTTACAGAATTAC
48513192 TAAAATACCC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 4 0.04
27 87 0.96
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (28 bp):
TACCCCTCGATTTACAGAATTACCATTT
Found at i:48513120 original size:54 final size:55
Alignment explanation
Indices: 48513035--48513191 Score: 167
Period size: 54 Copynumber: 2.9 Consensus size: 55
48513025 ATTATTGAAA
* * * ** * * *
48513035 TACCCTCGACTTGTAAAATTACCAAAGTACCCCT-GATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCAATTTACCCCTCGATTTACAGAATTACCATCT
* *
48513089 TACCCTCGATTTATAGAATTACCATTTTA-CCCTCGATTTACAGAATTACCGTCT
1 TACCCTCGATTTATAGAATTACCAATTTACCCCTCGATTTACAGAATTACCATCT
* * * *
48513143 TACCCTTGATTTACAGAATTACCAATTTA-CCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCAATTTACCCCTCGATTTACAGAATTAC
48513192 TAAAATACCC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 4 0.05
54 83 0.95
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (55 bp):
TACCCTCGATTTATAGAATTACCAATTTACCCCTCGATTTACAGAATTACCATCT
Found at i:48513200 original size:27 final size:27
Alignment explanation
Indices: 48513151--48513280 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 27
48513141 CTTACCCTTG
* **
48513151 ATTTACAGAATTACCAATTTACCCTCA
1 ATTTACAAAATTACCAAAATACCCTCA
* *
48513178 ATTTACAAAATTACTAAAATACCCAT-T
1 ATTTACAAAATTACCAAAATACCC-TCA
* *
48513205 GTTTACAAAATTACCAAAATACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCA
* *
48513232 ATCT--AAAATTACCAAAATACCC-CTG
1 ATTTACAAAATTACCAAAATACCCTC-A
* **
48513257 GTTTGTAAAATTACCAAAATACCC
1 ATTTACAAAATTACCAAAATACCC
48513281 CTGATTTTTG
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.01
25 21 0.24
26 1 0.01
27 62 0.72
28 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (27 bp):
ATTTACAAAATTACCAAAATACCCTCA
Found at i:48513201 original size:54 final size:54
Alignment explanation
Indices: 48513089--48513253 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 54
48513079 ATTACTATTT
* * * * ****
48513089 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCT
1 TACCCTTGATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCAAAA
* *
48513143 TACCCTTGATTTACAGAATTACCAATTTACCCTCAATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCAAAA
* ** *
48513197 TACCCATTG-TTTACAAAATTACCAAAATACCCTCGATCT--AAAATTACCAAAA
1 TACCC-TTGATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCAAAA
48513249 TACCC
1 TACCC
48513254 CTGGTTTGTA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 17 0.18
54 74 0.79
55 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCAATTTACCCTCGATTTACAAAATTACCAAAA
Found at i:48513228 original size:81 final size:80
Alignment explanation
Indices: 48513032--48513246 Score: 191
Period size: 81 Copynumber: 2.7 Consensus size: 80
48513022 AAAATTATTG
* ** * * * * *
48513032 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATAGAATTACTATTTTACCCTCG
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTA-AGAATTACCAATTTACCCTCA
* *
48513097 ATTTATAGAATTACCA
65 ATTTACAAAATTACCA
*** * ****
48513113 TTTTACCCTCGATTTACAGAATTACCGTCTTACCCTTGATTTACAGAATTACCAATTTACCCTCA
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTA-AGAATTACCAATTTACCCTCA
*
48513178 ATTTACAAAATTACTA
65 ATTTACAAAATTACCA
* * *
48513194 AAATACCCATTG-TTTACAAAATTACCAAAATACCCTCGATCTAA-AATTACCAA
1 AAATACCC-TCGATTTACAAAATTACCAAAATACCCTTGATTTAAGAATTACCAA
48513247 AATACCCCTG
Statistics
Matches: 103, Mismatches: 30, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
79 9 0.09
80 1 0.01
81 91 0.88
82 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (80 bp):
AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTAAGAATTACCAATTTACCCTCAA
TTTACAAAATTACCA
Found at i:48513281 original size:27 final size:27
Alignment explanation
Indices: 48513179--48513307 Score: 118
Period size: 27 Copynumber: 4.9 Consensus size: 27
48513169 TTACCCTCAA
* * * *
48513179 TTTACAAAATTACTAAAATACCCATTG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
48513206 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
48513232 -ATCTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
48513258 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCTGG
* * * *
48513285 TTTTTGAAATTATCGAAATACCC
1 TTTATAAAATTACCAAAATACCC
48513308 TTGTAGGTTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 16 0.19
26 9 0.10
27 61 0.71
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:48513322 original size:27 final size:27
Alignment explanation
Indices: 48513292--48513495 Score: 293
Period size: 27 Copynumber: 7.6 Consensus size: 27
48513282 TGATTTTTGA
* *
48513292 AATTATCGAAATACCCTTGTAGGTTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
48513319 AATTATCGGAATACTCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
48513346 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
48513373 AATTACCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
48513400 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
48513427 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
48513454 AATTA-CTAAAATACCCCTGTAGGGTGG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* *
48513481 AATTACCGAGATACC
1 AATTATCGAAATACC
48513496 TTATGGGGTA
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
28 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:48513323 original size:54 final size:53
Alignment explanation
Indices: 48513213--48513495 Score: 199
Period size: 54 Copynumber: 5.3 Consensus size: 53
48513203 TTGTTTACAA
* * * * ** *
48513213 AATTACCAAAATA-CCCTCGATCTA-AAATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GATATAGAAATTATCGAAATACCCCT-GTAGGGTAG
* * * * *
48513265 AATTACCAAAATACCCCTGATTTTTGAAATTATCGAAATACCCTTGTAGGTTAG
1 AATTACCGAAATACCCCTGA-TATAGAAATTATCGAAATACCCCTGTAGGGTAG
* * *
48513319 AATTATCGGAATACTCCTG-TAGGGTAG-AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGATA---TAGAAATTATCGAAATACCCCTGTAGGGTAG
*
48513373 AATTACCGAAATACCCCT-ATAGGGTAG-AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGATA---TAGAAATTATCGAAATACCCCTGTAGGGTAG
* * *
48513427 AATTATCGAAATACCCCTG-TAGGGTAG-AATTA-CTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGATA---TAGAAATTATC-GAAATACCCCTGTAGGGTAG
*
48513481 AATTACCGAGATACC
1 AATTACCGAAATACC
48513496 TTATGGGGTA
Statistics
Matches: 194, Mismatches: 27, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
52 16 0.08
53 9 0.05
54 167 0.86
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (53 bp):
AATTACCGAAATACCCCTGATATAGAAATTATCGAAATACCCCTGTAGGGTAG
Found at i:48514192 original size:27 final size:27
Alignment explanation
Indices: 48514162--48514263 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
48514152 ATTCTGTTAA
* *
48514162 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
48514189 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
48514216 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
48514243 GTGACTCTGTCATAATATCTG
1 GTGGCTATGCCACAATATCTG
48514264 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 49 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:48514437 original size:6 final size:6
Alignment explanation
Indices: 48514399--48514530 Score: 110
Period size: 6 Copynumber: 21.3 Consensus size: 6
48514389 TTGCATTCAC
* * *
48514399 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
48514449 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
48514499 ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48514531 AATGTTTCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
5 7 0.07
6 77 0.75
7 15 0.15
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48514445 original size:31 final size:31
Alignment explanation
Indices: 48514399--48514510 Score: 206
Period size: 31 Copynumber: 3.6 Consensus size: 31
48514389 TTGCATTCAC
48514399 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
48514431 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
48514462 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
48514493 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
48514511 ATTCTGATTC
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
31 72 0.91
32 7 0.09
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:48529688 original size:50 final size:49
Alignment explanation
Indices: 48529555--48529676 Score: 208
Period size: 50 Copynumber: 2.4 Consensus size: 49
48529545 GTATGAGATC
48529555 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAT
*
48529604 CTCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGTGAAT
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTG-AT
*
48529655 CCATGTAAGACCATATCTGGGA
1 CCATGTAAGACCATGTCTGGGA
48529677 TACGACATTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 64 0.94
51 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAT
Found at i:48540427 original size:22 final size:22
Alignment explanation
Indices: 48540402--48540449 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
48540392 GTAATTATAG
48540402 AAAATTAAAGTGGCTAACATAA
1 AAAATTAAAGTGGCTAACATAA
48540424 AAAATTAAAGTGGCTAACATAA
1 AAAATTAAAGTGGCTAACATAA
48540446 AAAA
1 AAAA
48540450 AAGTAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.21
Consensus pattern (22 bp):
AAAATTAAAGTGGCTAACATAA
Found at i:48543093 original size:25 final size:21
Alignment explanation
Indices: 48543067--48543108 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48543057 AAAGATAAAG
48543067 AAAGAAAAACAAAGTTTTAGT
1 AAAGAAAAACAAAGTTTTAGT
48543088 AAAGAAAAACAAAGTTTTAGT
1 AAAGAAAAACAAAGTTTTAGT
48543109 TGTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAGAAAAACAAAGTTTTAGT
Found at i:48545833 original size:27 final size:27
Alignment explanation
Indices: 48545755--48545862 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
48545745 TAAGACCCCA
**
48545755 ATTTGTAAAATTACCGAAATATCCCCAG
1 ATTTGTAAAATTACCGAAATA-CCCTTG
*
48545783 -TTTTTAAAATTACCGAAATACCCTTG
1 ATTTGTAAAATTACCGAAATACCCTTG
*
48545809 ATTTGTAAAATTATCGAAATACCCTT-
1 ATTTGTAAAATTACCGAAATACCCTTG
* *
48545835 A-TAGCATAAAATTATCGAAATACCCTTG
1 ATTTG--TAAAATTACCGAAATACCCTTG
48545863 TAAGGTAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.03
26 5 0.07
27 63 0.90
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACCGAAATACCCTTG
Found at i:48547669 original size:23 final size:23
Alignment explanation
Indices: 48547643--48547690 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
48547633 AGGTAAGTTC
48547643 ATACATTATGAATCTATTCGTTT
1 ATACATTATGAATCTATTCGTTT
48547666 ATACATTATGAATCTATTCGTTT
1 ATACATTATGAATCTATTCGTTT
48547689 AT
1 AT
48547691 GTTTGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (23 bp):
ATACATTATGAATCTATTCGTTT
Found at i:48547922 original size:46 final size:46
Alignment explanation
Indices: 48547872--48547969 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
48547862 TGAGATCCTA
* *
48547872 CATATGCTGCAGACTCGAGAATA-GAGGATTAGGTTCCAAGCTCTTG
1 CATATGCTGCAGACTCAAGAATATG-GGATCAGGTTCCAAGCTCTTG
* ** * *
48547918 CATATGTTGTGGACTCAAGAATATGGGATCAGGTTCCGAGTTCTTG
1 CATATGCTGCAGACTCAAGAATATGGGATCAGGTTCCAAGCTCTTG
*
48547964 TATATG
1 CATATG
48547970 TTGTGAACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (46 bp):
CATATGCTGCAGACTCAAGAATATGGGATCAGGTTCCAAGCTCTTG
Found at i:48547985 original size:46 final size:46
Alignment explanation
Indices: 48547884--48547986 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
48547874 TATGCTGCAG
* *
48547884 ACTCGAGAATAGAGGATTAGGTTCCAAGCTCTTGCATATGTTGTGG
1 ACTCGAGAATAGAGGATCAGGTTCCAAGCTCTTGCATATGTTGTGA
* * * *
48547930 ACTCAAGAATATG-GGATCAGGTTCCGAGTTCTTGTATATGTTGTGA
1 ACTCGAGAATA-GAGGATCAGGTTCCAAGCTCTTGCATATGTTGTGA
*
48547976 ACTTGAGAATA
1 ACTCGAGAATA
48547987 CATGAATATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 47 0.98
47 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (46 bp):
ACTCGAGAATAGAGGATCAGGTTCCAAGCTCTTGCATATGTTGTGA
Found at i:48553288 original size:45 final size:45
Alignment explanation
Indices: 48553229--48553319 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
48553219 GCCTAGGTCT
*
48553229 CAAGCTCCTGCATATGTTGCAAACTCGAGAATACA-GAATAGGTTC
1 CAAGCTCCTACATATGTTGCAAACTCGAG-ATACAGGAATAGGTTC
* *
48553274 CAAGCTCCTACATATGTTGCAGACTCGAGATACAGGATTAGGTTC
1 CAAGCTCCTACATATGTTGCAAACTCGAGATACAGGAATAGGTTC
48553319 C
1 C
48553320 GAGATCTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 5 0.12
45 37 0.88
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (45 bp):
CAAGCTCCTACATATGTTGCAAACTCGAGATACAGGAATAGGTTC
Found at i:48553334 original size:45 final size:45
Alignment explanation
Indices: 48553229--48553359 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
48553219 GCCTAGGTCT
* * *
48553229 CAAGCTCCTGCATATGTTGCAAACTCGAGAATACAGAATAGGTTC
1 CAAGATCCTACATATGTTGCAGACTCGAGAATACAGAATAGGTTC
* *
48553274 CAAGCTCCTACATATGTTGCAGACTCGAG-ATACAGGATTAGGTTC
1 CAAGATCCTACATATGTTGCAGACTCGAGAATACA-GAATAGGTTC
* * ** * *
48553319 CGAGATCTTGTATATGTTTCGGACTCGAGAATACAAGAATA
1 CAAGATCCTACATATGTTGCAGACTCGAGAATAC-AGAATA
48553360 TTAAGCCCCA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 5 0.07
45 58 0.81
46 8 0.11
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (45 bp):
CAAGATCCTACATATGTTGCAGACTCGAGAATACAGAATAGGTTC
Found at i:48555827 original size:48 final size:49
Alignment explanation
Indices: 48555756--48556019 Score: 290
Period size: 48 Copynumber: 5.5 Consensus size: 49
48555746 TAAAGTACCA
* *
48555756 ATGCCATGTCCCTGACATGGTCTTACA-T-GAATCCACATATC-ATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAATCGCCG
* * * *
48555804 ATGCCATGTCCCAAACATGGTCTTACACCGGCACACATATCAA-CACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATCGCCG
* * * *
48555852 ATGCCATGTCCTAGACATAGTCTTACATTGGCACACATATCGA-CGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATCGCCG
* * * *
48555900 ATGCCATGTACTAGACATGGTCTTACACTAGCACACATATCAAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATCGCCG
* * * *
48555948 ATGCCATGTCCCAGATAGGGTCTTACACGGGCACACATATCAAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATCGCCG
*
48555996 ATGCCATGTCCTAGACATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
48556020 TTACAGGCAC
Statistics
Matches: 183, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 180 0.98
49 1 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATCGCCG
Found at i:48556019 original size:144 final size:143
Alignment explanation
Indices: 48555756--48556019 Score: 356
Period size: 144 Copynumber: 1.8 Consensus size: 143
48555746 TAAAGTACCA
*
48555756 ATGCCATGTCCCTGACATGGTCTTACATGAATCCACATATCATCGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCACTGACATGGTCTTACATGAA-CCACATATCATCGCCGATGCCATGTCCCAAACA
*
48555821 TGGTCTTACACCGGCACACATATCAACACTGATGCCATGTCCTAGACATAGTCTTACATTGGCAC
65 GGGTCTTACACCGGCACACATATCAACACTGATGCCATGTCCTAGACATAGTCTTACATTGGCAC
48555886 ACATATCGACGCCG
130 ACATATCGACGCCG
* * *
48555900 ATGCCATGT-ACTAGACATGGTCTTACACT-AGCACACATATCAAT-GTCGATGCCATGTCCCAG
1 ATGCCATGTCACT-GACATGGTCTTACA-TGAAC-CACATATC-ATCGCCGATGCCATGTCCCAA
* * ** *
48555962 ATAGGGTCTTACACGGGCACACATATCAA-TGTCGATGCCATGTCCTAGACATGGTCTT
62 ACAGGGTCTTACACCGGCACACATATCAACACT-GATGCCATGTCCTAGACATAGTCTT
48556020 TTACAGGCAC
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
143 4 0.04
144 98 0.93
145 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (143 bp):
ATGCCATGTCACTGACATGGTCTTACATGAACCACATATCATCGCCGATGCCATGTCCCAAACAG
GGTCTTACACCGGCACACATATCAACACTGATGCCATGTCCTAGACATAGTCTTACATTGGCACA
CATATCGACGCCG
Found at i:48558459 original size:41 final size:40
Alignment explanation
Indices: 48558402--48558513 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
48558392 TGGATGATAA
**
48558402 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTGACTACAT
* *
48558443 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTACAT
*
48558483 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
48558514 CTACCATTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 37 0.57
41 24 0.37
42 4 0.06
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTACAT
Found at i:48558523 original size:16 final size:16
Alignment explanation
Indices: 48558502--48558533 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48558492 GTCCCGAAGG
48558502 CATTTGTGCGAGCTAC
1 CATTTGTGCGAGCTAC
48558518 CATTTGTGCGAGCTAC
1 CATTTGTGCGAGCTAC
48558534 TATATCCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (16 bp):
CATTTGTGCGAGCTAC
Found at i:48558556 original size:56 final size:56
Alignment explanation
Indices: 48558462--48558573 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
48558452 GTCCCGAAGG
* *
48558462 CATTTGTGCGAGTTATTACATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTAC
1 CATTTGTGCGAGCTACTACATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTAC
* * * *
48558518 CATTTGTGCGAGCTACTATATCCGGGCTCAGTCTCGAAGGCATTTGTGCGAGCTAC
1 CATTTGTGCGAGCTACTACATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTAC
48558574 TATATCCGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (56 bp):
CATTTGTGCGAGCTACTACATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTAC
Found at i:48558573 original size:40 final size:39
Alignment explanation
Indices: 48558518--48558660 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 39
48558508 TGCGAGCTAC
*
48558518 CATTTGTGCGAGCTACTATATCCGGGCTCAGTCTCGAAGG
1 CATTTGTGCGAGCTACTATATCCGGGCT-AGTCCCGAAGG
48558558 CATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGG
1 CATTTGTGCGAGCTACTATATCCGGGCT-AGTCCCGAAGG
* * *
48558598 CATTGGTGTGAGTTACTATATCCGGGCTATGTCCCGAAGG
1 CATTTGTGCGAGCTACTATATCCGGGCTA-GTCCCGAAGG
* *
48558638 CATTCGAGCGAG-TAGCTATATCC
1 CATTTGTGCGAGCTA-CTATATCC
48558661 AGTTAAATCC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 90 0.97
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
CATTTGTGCGAGCTACTATATCCGGGCTAGTCCCGAAGG
Found at i:48558649 original size:136 final size:136
Alignment explanation
Indices: 48558402--48558649 Score: 349
Period size: 136 Copynumber: 1.8 Consensus size: 136
48558392 TGGATGATAA
*
48558402 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTG
* * *
48558467 GTGCGAGTTATTACATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCATTTGTGCGAGCT
65 GTGCGAGTTACTACATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACCATTTGTGCGAGCT
48558532 ACTATAT
130 ACTATAT
* *
48558539 CCGGGCTCAGTCTCGAAGGCATTTGTGCG-AGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
* * * *
48558601 TGGTGTGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAG
63 TGGTGCGAGTTACTACATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAG
48558650 TAGCTATATC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
135 1 0.01
136 70 0.71
137 23 0.23
138 4 0.04
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (136 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACCATTTGTGCGAGCTA
CTATAT
Found at i:48566675 original size:40 final size:40
Alignment explanation
Indices: 48566580--48566877 Score: 381
Period size: 40 Copynumber: 7.5 Consensus size: 40
48566570 TGGATGATCA
*
48566580 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
48566621 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48566661 CCGGGCTAAGTCCCGAAAGCATTTGTGCTAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48566701 CCGGGCTAAGTCCCGAAGGCA-TTGTACGAGCTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48566740 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48566780 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48566820 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48566860 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48566878 TACTTGGCTT
Statistics
Matches: 231, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 51 0.22
40 152 0.66
41 24 0.10
42 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48566767 original size:79 final size:78
Alignment explanation
Indices: 48566580--48566877 Score: 386
Period size: 79 Copynumber: 3.7 Consensus size: 78
48566570 TGGATGATCA
48566580 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGT-ACTA-TATCCGGGCTAAGTCCCGAAGGCA-
* *
48566643 TTGTGCGAGTTATTACAT
61 TTGTGCGAGTTACTATAT
* *
48566661 CCGGGCTAAGTCCCGAAAGCATTTGTGCTAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTGT
* * *
48566726 ACGAGCTGCTATAT
65 GCGAGTTACTATAT
48566740 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATT-G
48566805 TGCGAGTTACTATAT
64 TGCGAGTTACTATAT
* * * * *
48566820 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCCCGAAGG
48566878 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 17, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
79 91 0.47
80 77 0.39
81 24 0.12
82 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTGTG
CGAGTTACTATAT
Found at i:48566793 original size:119 final size:118
Alignment explanation
Indices: 48566580--48566877 Score: 395
Period size: 119 Copynumber: 2.5 Consensus size: 118
48566570 TGGATGATCA
* *
48566580 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGTACG--AGTG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
* * * *
48566644 TGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAAGCATTTGTGCTAGCTACTATAT
62 TGTGCGAGCTACTACATCCGGGCTAAGTCCCGAAAGCATTGGTGCGAGCTACTATAT
48566701 CCGGGCTAAGTCCCGAAGGCATTGTACGAGCTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTACGAG-TGCTATATCCGGGCTAAGTCCCGAAGGCATTTGT
* * *
48566766 GCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
65 GCGAGCTACTACATCCGGGCTAAGTCCCGAAAGCATTGGTGCGAGCTACTATAT
* * *
48566820 CCGGGCTATGTCCCGAAGGCATTCG-AGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTA-CGAGT-GCTATATCCGGGCTAAGTCCCGAAGG
48566878 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
118 1 0.01
119 117 0.73
120 16 0.10
121 26 0.16
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTGTACGAGTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGCTACTACATCCGGGCTAAGTCCCGAAAGCATTGGTGCGAGCTACTATAT
Found at i:48571416 original size:73 final size:72
Alignment explanation
Indices: 48571250--48571430 Score: 193
Period size: 73 Copynumber: 2.5 Consensus size: 72
48571240 TGGCTCTTCG
* * * **
48571250 TGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTCCCTAATTAATGGCTCTCCGGAGCTACTTGATA
1 TGAGCTTCTTGATT-ATGGCTCTTTG-GAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATA
*
48571315 TGGCTCGCT
64 TGGCTCGCA
* * * * * * *
48571324 TGAACTTCTCGATAAATGGCTATTTGGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTAT
1 TGAGCTTCTTGAT-TATGGCTCTTTGGAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATA-
48571389 TGGCTCGCA
64 TGGCTCGCA
48571398 TGAGCTTCTTGATTATGGCTCTTAT-GAGCTTCC
1 TGAGCTTCTTGATTATGGCTCTT-TGGAGCTTCC
48571431 CATTATACAA
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
73 48 0.55
74 39 0.45
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (72 bp):
TGAGCTTCTTGATTATGGCTCTTTGGAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATG
GCTCGCA
Found at i:48571477 original size:25 final size:25
Alignment explanation
Indices: 48571411--48571493 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
48571401 GCTTCTTGAT
*
48571411 TATGGCTCTTATGAGCTTCCCATTA
1 TATGGCTCATATGAGCTTCCCATTA
*** * * *
48571436 TACAACCCAAATAAGCTTCCCATTA
1 TATGGCTCATATGAGCTTCCCATTA
* **
48571461 CATGGCTCATATGAGCTTGTCATTA
1 TATGGCTCATATGAGCTTCCCATTA
48571486 TATGGCTC
1 TATGGCTC
48571494 GAGAGAGGGC
Statistics
Matches: 41, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (25 bp):
TATGGCTCATATGAGCTTCCCATTA
Found at i:48573746 original size:27 final size:27
Alignment explanation
Indices: 48573716--48573893 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
48573706 ATATCGAGTC
* *
48573716 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
48573743 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48573770 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
48573798 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
48573825 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
48573852 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
48573879 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48573894 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48573855 original size:82 final size:81
Alignment explanation
Indices: 48573737--48573892 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48573727 TGCTATATAA
*
48573737 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48573802 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48573819 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48573883 CACTTAGTGC
65 CACTTAGTGC
48573893 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48580958 original size:27 final size:27
Alignment explanation
Indices: 48580928--48581105 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
48580918 ATATCGAGTC
* *
48580928 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
48580955 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48580982 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
48581010 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
48581037 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
48581064 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
48581091 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48581106 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48581067 original size:82 final size:81
Alignment explanation
Indices: 48580949--48581104 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48580939 TGCTATATAA
*
48580949 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48581014 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48581031 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48581095 CACTTAGTGC
65 CACTTAGTGC
48581105 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48587133 original size:19 final size:19
Alignment explanation
Indices: 48587097--48587135 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
48587087 CTAGAACTCC
* *
48587097 TCTCACGTTCCTATTTTTT
1 TCTCACGTTACTAGTTTTT
*
48587116 TCTCACGTTAGTAGTTTTT
1 TCTCACGTTACTAGTTTTT
48587135 T
1 T
48587136 TTTCAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.10, T:0.56
Consensus pattern (19 bp):
TCTCACGTTACTAGTTTTT
Done.