Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 184 of 378
Found at i:53809924 original size:45 final size:45
Alignment explanation
Indices: 53809856--53809941 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
53809846 CCTTAATCAA
*
53809856 TACCGATGCCATGTATTGACATGGTCTTACATGGGATCCTTGCCT
1 TACCAATGCCATGTATTGACATGGTCTTACATGGGATCCTTGCCT
* *
53809901 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTATTGACATGGTCTTACATGGGATCCTT
53809942 AACTGTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (45 bp):
TACCAATGCCATGTATTGACATGGTCTTACATGGGATCCTTGCCT
Found at i:53810264 original size:29 final size:29
Alignment explanation
Indices: 53810222--53810279 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
53810212 AATATGTTAG
53810222 TCGATACTTCCTTGTTATCATACAAAGCC
1 TCGATACTTCCTTGTTATCATACAAAGCC
53810251 TCGATACTTCCTTGTTATCATACAAAGCC
1 TCGATACTTCCTTGTTATCATACAAAGCC
53810280 ATAATACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (29 bp):
TCGATACTTCCTTGTTATCATACAAAGCC
Found at i:53818111 original size:41 final size:41
Alignment explanation
Indices: 53818065--53818178 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 41
53818055 AGCCATGGTC
* * * * *
53818065 GTGTGAGACACACAACTTGTCACATGGGTGTGTGTGAGGTT
1 GTGTGACACACACAACCTATCACATGGGCGTGTGTGAGATT
* *
53818106 GTGTGACCCACACGACCTATCACATGGGCGTGTGTGAGATT
1 GTGTGACACACACAACCTATCACATGGGCGTGTGTGAGATT
* * *
53818147 ATGTGATC-CACATATCCTCA-CACATGGGCGTG
1 GTGTGA-CACACACAACCT-ATCACATGGGCGTG
53818179 AGAGAAGTGA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 58 0.97
42 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
GTGTGACACACACAACCTATCACATGGGCGTGTGTGAGATT
Found at i:53819056 original size:15 final size:15
Alignment explanation
Indices: 53819036--53819069 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53819026 GTTTATTAGC
53819036 TATTGTTCATATTAT
1 TATTGTTCATATTAT
**
53819051 TATTGTTGTTATTAT
1 TATTGTTCATATTAT
53819066 TATT
1 TATT
53819070 AGTGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.65
Consensus pattern (15 bp):
TATTGTTCATATTAT
Found at i:53826543 original size:19 final size:19
Alignment explanation
Indices: 53826519--53826557 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53826509 TTTCTGTTAC
53826519 ACGCCTTATTATTTTTTGA
1 ACGCCTTATTATTTTTTGA
53826538 ACGCCTTATTATTTTTTGA
1 ACGCCTTATTATTTTTTGA
53826557 A
1 A
53826558 GCAATCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (19 bp):
ACGCCTTATTATTTTTTGA
Found at i:53830118 original size:40 final size:40
Alignment explanation
Indices: 53830063--53830272 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53830053 AACATTGGAA
53830063 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53830103 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53830143 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53830183 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53830222 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53830263 CTATATCCGG
1 ATATATCCGG
53830273 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53838253 original size:40 final size:40
Alignment explanation
Indices: 53838198--53838407 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53838188 AACATTGGAA
53838198 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53838238 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53838278 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53838318 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53838357 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53838398 CTATATCCGG
1 ATATATCCGG
53838408 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53840700 original size:53 final size:52
Alignment explanation
Indices: 53840517--53840770 Score: 232
Period size: 55 Copynumber: 4.8 Consensus size: 52
53840507 ATTAGGGTTT
* * * *
53840517 AAGGATACCGTGTAAGACCATACCAAGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGGC
* * * *
53840572 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGGC
* * *
53840627 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGGC
* *
53840680 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCT-AAGGC
* * * *
53840728 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
53840771 GTACCGCGTA
Statistics
Matches: 169, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
48 30 0.18
49 9 0.05
50 1 0.01
51 2 0.01
52 15 0.09
53 34 0.20
54 8 0.05
55 66 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
Found at i:53840981 original size:16 final size:16
Alignment explanation
Indices: 53840960--53840990 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53840950 ATAAATTTGA
53840960 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
53840976 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
53840991 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:53848142 original size:55 final size:54
Alignment explanation
Indices: 53848055--53848309 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
53848045 ATTAGGGTTT
* *
53848055 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
53848110 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
53848165 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
53848218 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
53848267 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
53848310 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
52 7 0.04
53 41 0.24
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:53848261 original size:108 final size:110
Alignment explanation
Indices: 53848065--53848262 Score: 321
Period size: 108 Copynumber: 1.8 Consensus size: 110
53848055 AAGGATACCG
*
53848065 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
53848130 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
53848175 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
53848237 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
53848263 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:53848522 original size:16 final size:16
Alignment explanation
Indices: 53848501--53848531 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53848491 ATAAATTTGA
53848501 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
53848517 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
53848532 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:53854588 original size:40 final size:40
Alignment explanation
Indices: 53854544--53854642 Score: 189
Period size: 40 Copynumber: 2.5 Consensus size: 40
53854534 AGACTAAGAT
53854544 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
*
53854584 CCGAAGGCATTTGTGCGAGTTCCCAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
53854624 CCGAAGGCATTTGTGCGAG
1 CCGAAGGCATTTGTGCGAG
53854643 CTATTATAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
Found at i:53854656 original size:40 final size:40
Alignment explanation
Indices: 53854544--53854682 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
53854534 AGACTAAGAT
* * *
53854544 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGCTACCAAATCTGGGTTAAGTC
* *
53854584 CCGAAGGCATTTGTGCGAGTTCCCAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGCTACCAAATCTGGGTTAAGTC
** * *
53854624 CCGAAGGCATTTGTGCGAGCTATTATAA-CTGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGCTACCA-AATCTGGGTTAAGTC
* *
53854664 CCGAAGGCTTTTGAGCGAG
1 CCGAAGGCATTTGTGCGAG
53854683 TCGCTATATC
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGCTACCAAATCTGGGTTAAGTC
Found at i:53856706 original size:37 final size:37
Alignment explanation
Indices: 53856656--53856756 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
53856646 CAAATAGTCC
53856656 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
*
53856693 CCACACGTAGTTATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
*
53856730 CCACACGTAGTCATC--GTCTTACCCGGA
1 CCACACGTAGTTATCGGGTCTTACCCGGA
53856757 ATATATTTCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 12 0.19
37 50 0.81
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
Found at i:53856955 original size:48 final size:48
Alignment explanation
Indices: 53856897--53857391 Score: 846
Period size: 48 Copynumber: 10.3 Consensus size: 48
53856887 ATATACACAC
*
53856897 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
53856945 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
53856993 ATCCCATTCATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53857041 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53857089 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53857137 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
53857185 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53857233 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53857281 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
53857329 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATCCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
53857377 ATCTCTTATATATTT
1 ATCTCATACATATTT
53857392 ATCTTGTACA
Statistics
Matches: 428, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 428 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:53860797 original size:40 final size:40
Alignment explanation
Indices: 53860753--53861030 Score: 459
Period size: 40 Copynumber: 7.0 Consensus size: 40
53860743 GAATGCACAT
* * *
53860753 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
53860793 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
53860833 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
53860873 CACCAGCAAGAATGCT-TTCGGGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
53860912 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
53860952 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
53860992 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
53861031 TAACTCTCAA
Statistics
Matches: 225, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.16
40 189 0.84
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:53860981 original size:119 final size:120
Alignment explanation
Indices: 53860753--53861030 Score: 459
Period size: 119 Copynumber: 2.3 Consensus size: 120
53860743 GAATGCACAT
* * *
53860753 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCAAGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
* *
53860818 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
* *
53860873 CACCAGCAAGAATGCT-TTCGGGACTTAGCTCGGATATAACATCAGCACGAATGCTCTTCGGGAC
1 CACCAGCAAGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
*
53860937 TTAGCCCGGACATAACATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
66 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
* *
53860992 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCAAGAATGCTCTTCGGGACTTAGCCCGGATATA
53861031 TAACTCTCAA
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
119 112 0.77
120 34 0.23
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (120 bp):
CACCAGCAAGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:53862357 original size:37 final size:37
Alignment explanation
Indices: 53862304--53862406 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
53862294 CAAATAGTCC
*
53862304 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
53862341 CTACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
**
53862378 CCACACGTAGTCATCAAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
53862407 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:53862605 original size:48 final size:48
Alignment explanation
Indices: 53862547--53862943 Score: 708
Period size: 48 Copynumber: 8.3 Consensus size: 48
53862537 AGATACACAC
*
53862547 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
53862595 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862643 ATC-CATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
53862690 ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862738 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862786 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862834 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA-ATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
53862881 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862929 ATCTCATATATATTT
1 ATCTCATACATATTT
53862944 ATCTTGTACA
Statistics
Matches: 340, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 92 0.27
48 248 0.73
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:53862766 original size:191 final size:191
Alignment explanation
Indices: 53862547--53862943 Score: 706
Period size: 191 Copynumber: 2.1 Consensus size: 191
53862537 AGATACACAC
*
53862547 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
53862612 CACTAGCCATTCGGCTTTACCACATATACATATC-CATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
53862676 TACCACATATACATATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
131 TACCA-ATATACATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862738 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
53862803 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
53862868 TACCAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
131 TACCAATATACATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
53862929 ATCTCATATATATTT
1 ATCTCATACATATTT
53862944 ATCTTGTACA
Statistics
Matches: 197, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
191 164 0.83
192 33 0.17
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (191 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCAATATACATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:53862877 original size:143 final size:144
Alignment explanation
Indices: 53862547--53862943 Score: 717
Period size: 143 Copynumber: 2.8 Consensus size: 144
53862537 AGATACACAC
* *
53862547 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
53862612 CACTAGCCATTCGGCTTTACCACATATACATATC-CATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
53862676 TACCACATATACAT
131 TACCACATATACAT
*
53862690 ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
53862755 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
53862820 TACCACATATACAT
131 TACCACATATACAT
53862834 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA-ATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
53862898 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
53862944 ATCTTGTACA
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
143 164 0.67
144 80 0.33
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACAT
Found at i:53862990 original size:143 final size:142
Alignment explanation
Indices: 53862556--53862993 Score: 474
Period size: 143 Copynumber: 3.1 Consensus size: 142
53862546 CATCTCCTAC
*
53862556 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
* * *
53862621 TTCGGCTTTACCACATATACATATC-CAT-TCATATTTCACACTAG-CCATTCGGCTTTACCA-C
66 TTCGGCTTTACCACATATACATATCTCATAT-ATATTT--CACTTGTACA-TC--ATTT--CAGC
* *
53862682 ATATACATAT-CGC-A-T-AC
123 A-ATACATATAAGCAACTCAA
*
53862699 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
* * * **
53862764 TTCGGCTTTACCACATATACATATCTCATACATATTTCACAT-TAGC--CA-TTCGGCTTTACCA
66 TTCGGCTTTACCACATATACATATCTCATATATATTTCACTTGTA-CATCATTTCAGCAATA-CA
*
53862825 CATATA-CATATCTCATA
129 TATA-AGCA-A-CTCA-A
53862842 CATATTTCACATTAGCCATTCGGCTTTACCA-ATATACATATCTCATACATATTTCACACTAGCC
1 -ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
53862906 ATTCGGCTTTACCACATATACATATCTCATATATATTT-ATCTTGTACATCAATTTCAGCAATAG
65 ATTCGGCTTTACCACATATACATATCTCATATATATTTCA-CTTGTACATC-ATTTCAGCAATA-
*
53862970 CTTATAAGCAACTCAA
127 CATATAAGCAACTCAA
53862986 ATATTTCA
1 ATATTTCA
53862994 TCAATGTTTA
Statistics
Matches: 251, Mismatches: 22, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
135 3 0.01
136 5 0.02
137 3 0.01
139 1 0.00
140 1 0.00
141 1 0.00
142 5 0.02
143 169 0.67
144 42 0.17
145 5 0.02
146 3 0.01
147 13 0.05
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (142 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATATATTTCACTTGTACATCATTTCAGCAATACATA
TAAGCAACTCAA
Found at i:53869516 original size:18 final size:18
Alignment explanation
Indices: 53869479--53869516 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
53869469 TTGTAACACT
*
53869479 GGTTGAACGAGCTTGCAA
1 GGTTGAACGAGCTTGAAA
53869497 GGTTGAA-GAGCTTGGAAA
1 GGTTGAACGAGCTT-GAAA
53869515 GG
1 GG
53869517 AGAAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.29, C:0.11, G:0.39, T:0.21
Consensus pattern (18 bp):
GGTTGAACGAGCTTGAAA
Found at i:53874959 original size:24 final size:24
Alignment explanation
Indices: 53874870--53874956 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
53874860 AAGAAATTTC
* *
53874870 AGCACTATGTGTGCAAGGTTATGT
1 AGCACTATGTGTGCAAGATTATAT
* * *
53874894 -GACACTATGTGTGCAAAAACTACAT
1 AG-CACTATGTGTGC-AAGATTATAT
* *
53874919 TGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCAAGATTATAT
53874943 AGCACTATGTGTGC
1 AGCACTATGTGTGC
53874957 GAGGAAACGC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.02
24 31 0.62
25 17 0.34
26 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (24 bp):
AGCACTATGTGTGCAAGATTATAT
Found at i:53880280 original size:18 final size:19
Alignment explanation
Indices: 53880245--53880293 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
53880235 TGATTAAGGT
53880245 ATGATTTTTGATCGGTTTTTG
1 ATGATTTTT-A-CGGTTTTTG
53880266 ATGATTTTTAC-GTTTTTG
1 ATGATTTTTACGGTTTTTG
*
53880284 -TGATTATTAC
1 ATGATTTTTAC
53880294 TTCGTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 1 0.04
20 1 0.04
21 9 0.33
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.57
Consensus pattern (19 bp):
ATGATTTTTACGGTTTTTG
Found at i:53881035 original size:43 final size:42
Alignment explanation
Indices: 53880987--53881153 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
53880977 ATCGTGATGT
53880987 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
* *
53881029 AGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATT-
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATTG
* * * * * **
53881073 GATTTCGTGTAAGACCCTGTTTGGGACAATGGCA-TCAATATG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TG
* * *
53881115 TGATTACATGTAAGACCATATCTAGGATA-TGGCATTGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
53881154 CAACTTATAT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 5 0.05
43 88 0.88
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
Found at i:53884351 original size:42 final size:42
Alignment explanation
Indices: 53884300--53884449 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
53884290 TAAGACTACA
*
53884300 TGTAAGACCATACCTGGGATGTGCCATCAATATGAGACTTCG
1 TGTAAGACCATACCTGGGATATGCCATCAATATGAGACTTCG
* * *
53884342 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTG
1 TGTAAGACCATACCTGGGATATGCCATCAATATGAGACTTCG
* * * ** * *
53884384 TGTAAGACCATAGCTGGGTTATTGGCATCGGTACGAGA-TTACA
1 TGTAAGACCATACCTGGGATA-TGCCATCAATATGAGACTT-CG
*
53884427 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATACCTGGGATATG
53884450 GCATTGGTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
42 61 0.66
43 32 0.34
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATACCTGGGATATGCCATCAATATGAGACTTCG
Found at i:53893780 original size:41 final size:40
Alignment explanation
Indices: 53893676--53893793 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 40
53893666 TGTGTTCTCA
*
53893676 TGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGA-AT-TGATTACG
* * *
53893719 TGTAAAACCATGTCTAGGACATCGGCATCGTAATTGATT-TG
1 TGTAAGACCATGTCTGGGACAT-GGCATCG-AATTGATTACG
*
53893760 TGTAAGACCCTGTCTGGGACAGTGGCATCGAATT
1 TGTAAGACCATGTCTGGGACA-TGGCATCGAATT
53893794 ATCGATATGT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
40 4 0.06
41 26 0.40
42 7 0.11
43 27 0.42
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGACATGGCATCGAATTGATTACG
Found at i:53904260 original size:48 final size:48
Alignment explanation
Indices: 53904185--53904330 Score: 193
Period size: 48 Copynumber: 3.0 Consensus size: 48
53904175 TGTTACATGT
*
53904185 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * *
53904233 GATTCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGACATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * *
53904281 GATCCCATGTAAGACCATATCAGGGATATAGTATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
53904329 GA
1 GA
53904331 CATCATGGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:53920421 original size:24 final size:24
Alignment explanation
Indices: 53920388--53920461 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
53920378 AAGACTGTCA
53920388 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
53920412 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
53920436 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
53920461 G
1 G
53920462 AGCAGGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:53922159 original size:33 final size:32
Alignment explanation
Indices: 53922082--53922174 Score: 80
Period size: 32 Copynumber: 2.8 Consensus size: 32
53922072 TATGAGCCGT
* *
53922082 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGGA-AA-GGGCTAAGGCCCAGTTC
* * **
53922116 AATGTAATCTGGAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTGGAAAGGGCTAAGGCCCAGT-TC
* *
53922149 ACTGTTATCT-GAATGGGCTTAGGCCC
1 ACTGTTATCTGGAAAGGGCTAAGGCCC
53922175 GATGGGCTTG
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
32 26 0.55
33 11 0.23
34 10 0.21
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (32 bp):
ACTGTTATCTGGAAAGGGCTAAGGCCCAGTTC
Found at i:53926537 original size:22 final size:22
Alignment explanation
Indices: 53926509--53926562 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
53926499 ATTCCCCACA
53926509 TGGAGTGTAGGGCTGGTACGGG
1 TGGAGTGTAGGGCTGGTACGGG
53926531 TGGAGTGTAGGGCTGGTACGGG
1 TGGAGTGTAGGGCTGGTACGGG
53926553 TGGAGTGTAG
1 TGGAGTGTAG
53926563 CGGTTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.15, C:0.07, G:0.54, T:0.24
Consensus pattern (22 bp):
TGGAGTGTAGGGCTGGTACGGG
Found at i:53931414 original size:79 final size:81
Alignment explanation
Indices: 53931305--53931487 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
53931295 TACTCGTTCA
* *
53931305 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
53931368 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
53931385 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
53931448 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
53931464 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53931488 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:53931487 original size:40 final size:40
Alignment explanation
Indices: 53931303--53931487 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
53931293 GCTACTCGTT
* *
53931303 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53931343 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
53931383 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
53931422 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
53931463 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53931488 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 81 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53938116 original size:27 final size:26
Alignment explanation
Indices: 53938072--53938123 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53938062 CTCGCTGCAA
*
53938072 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
53938099 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
53938124 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:53938163 original size:2 final size:2
Alignment explanation
Indices: 53938156--53938195 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
53938146 GCTTCACCAC
53938156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53938196 TCTGGTGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53948621 original size:2 final size:2
Alignment explanation
Indices: 53948614--53948647 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53948604 GCTTCGCCAC
53948614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53948648 CTGGTGGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53954881 original size:48 final size:48
Alignment explanation
Indices: 53954805--53954938 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
53954795 CCCATGTAAC
** ** * *
53954805 GGCATTGGCATCGTTATGAGATTTCATGTAAGACCATGTCTGGGACAT
1 GGCATTGGCATCGACATGAGATCACATGTAAGACCATATCAGGGACAT
* *
53954853 GGCATTGGCATCGACATGTGATCACATGTAAGACCATATCAGGGATAT
1 GGCATTGGCATCGACATGAGATCACATGTAAGACCATATCAGGGACAT
* * *
53954901 GGCATTGGCATCGATATGA-AACATCGTGTAAGACCATA
1 GGCATTGGCATCGACATGAGATCA-CATGTAAGACCATA
53954939 GTTGGGCTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 3 0.04
48 70 0.96
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
GGCATTGGCATCGACATGAGATCACATGTAAGACCATATCAGGGACAT
Found at i:53960545 original size:2 final size:2
Alignment explanation
Indices: 53960538--53960568 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53960528 GAGACTAGTC
53960538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53960569 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53962462 original size:30 final size:30
Alignment explanation
Indices: 53962428--53962488 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53962418 TCCTTAACTC
53962428 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53962458 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53962488 A
1 A
53962489 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53965891 original size:47 final size:47
Alignment explanation
Indices: 53965779--53966002 Score: 168
Period size: 47 Copynumber: 4.8 Consensus size: 47
53965769 GGTTTATTGT
* ** *
53965779 GAGCTAGTGTAAGACATGCCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAAGACGA
* * *
53965825 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAAGACGA
* ** * * *
53965873 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATAAGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAAGACGA
* * * * * *** *
53965919 TAGTTAGTGTAAGACCATGTCTTGGACATGACATCGACTTGAA-A-TA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAAGACGA
* *
53965965 TGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGG
53966003 AACCTTACCC
Statistics
Matches: 138, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
46 37 0.27
47 69 0.50
48 32 0.23
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAAGACGA
Found at i:53965946 original size:94 final size:94
Alignment explanation
Indices: 53965781--53965954 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 94
53965771 TTTATTGTGA
** *
53965781 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGCCTGGGACATGCATAAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
*
53965846 TGGGACATGGCATCGGCCTCAAGACGAGT
66 TGGGACATGACATCGGCCTCAAGACGAGT
* * * **
53965875 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCTACGA-GATGATAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGCCTGGGACATGCATAAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGT
53965939 CTT-GGACATGACATCG
65 -TTGGGACATGACATCG
53965955 ACTTGAAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 66 0.96
95 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGCCTGGGACATGCATAAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGACATCGGCCTCAAGACGAGT
Found at i:53975407 original size:46 final size:46
Alignment explanation
Indices: 53975357--53975482 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
53975347 TGGTTGAGCA
*
53975357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
53975403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
53975449 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53975483 GGGGCTGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53975811 original size:41 final size:41
Alignment explanation
Indices: 53975766--53975848 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
53975756 GTTAAAGTTG
53975766 TTTGGTATATTTGTATTGTTATGTTACTTGTTATTTACATA
1 TTTGGTATATTTGTATTGTTATGTTACTTGTTATTTACATA
53975807 TTTGGTATATTTGTATTGTTATGTTACTTGTTATTTACATA
1 TTTGGTATATTTGTATTGTTATGTTACTTGTTATTTACATA
53975848 T
1 T
53975849 GAACTTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (41 bp):
TTTGGTATATTTGTATTGTTATGTTACTTGTTATTTACATA
Found at i:53979262 original size:75 final size:75
Alignment explanation
Indices: 53979139--53979351 Score: 372
Period size: 75 Copynumber: 2.8 Consensus size: 75
53979129 GAAAATAGTA
* * *
53979139 TAGTTCATAGGCCACCTACTATTTACACAATTTGTCCAATTTTACATTTCATACAAACTAAACAA
1 TAGTTCATAGGCCACCTGCTATTTACATAATTTGTCCAATTTTACATTTCATGCAAACTAAACAA
*
53979204 ATTATTTAAT
66 ATTATCTAAT
53979214 TAGTTCATAGGCCACCTGCTATTTACATAATTTGTCCAATTTTACATTTCATGCAAACTAAACAA
1 TAGTTCATAGGCCACCTGCTATTTACATAATTTGTCCAATTTTACATTTCATGCAAACTAAACAA
53979279 ATTATCTAAT
66 ATTATCTAAT
* *
53979289 TAGTTCATAAGCCACCTGCTATTTACATAATTTATCCAATTTTACATTTCATGCAAACTAAAC
1 TAGTTCATAGGCCACCTGCTATTTACATAATTTGTCCAATTTTACATTTCATGCAAACTAAAC
53979352 TCATGATTAA
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 132 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.37
Consensus pattern (75 bp):
TAGTTCATAGGCCACCTGCTATTTACATAATTTGTCCAATTTTACATTTCATGCAAACTAAACAA
ATTATCTAAT
Found at i:53979893 original size:18 final size:17
Alignment explanation
Indices: 53979872--53979927 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
53979862 CAAATTAAAT
* *
53979872 AGTTCACATAGAATAGGC
1 AGTTCACATAAAATA-AC
*
53979890 AGTTCGCATAAAATAAC
1 AGTTCACATAAAATAAC
*
53979907 AGTTCAC-TCAATATAAC
1 AGTTCACAT-AAAATAAC
53979924 AGTT
1 AGTT
53979928 TATACATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 13 0.41
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (17 bp):
AGTTCACATAAAATAAC
Found at i:53979922 original size:17 final size:16
Alignment explanation
Indices: 53979902--53979956 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
53979892 TTCGCATAAA
53979902 ATAACAGTTCACTCAAT
1 ATAACAGTTCA-TCAAT
* *
53979919 ATAACAGTTTATACATT
1 ATAACAGTTCAT-CAAT
53979936 ATAACAGTTCATTCAAT
1 ATAACAGTTCA-TCAAT
53979953 ATAA
1 ATAA
53979957 TAATCCATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 30 0.94
18 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (16 bp):
ATAACAGTTCATCAAT
Found at i:53980638 original size:18 final size:18
Alignment explanation
Indices: 53980615--53980675 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
53980605 ATTTTGAAAA
*
53980615 ATTAATACAGTTCGTCAT
1 ATTAATACAGTTCGCCAT
* * *
53980633 ATTAATACAGATCACCAA
1 ATTAATACAGTTCGCCAT
*
53980651 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
53980669 AATAATA
1 ATTAATA
53980676 TAATTTGCTA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:53982777 original size:19 final size:19
Alignment explanation
Indices: 53982715--53982767 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
53982705 TTTTTTTTGC
*
53982715 AAAATCAAAGTTTTCTTTAA
1 AAAATCAAAATTTT-TTTAA
**
53982735 AAAATCACTATTTTTTTAA
1 AAAATCAAAATTTTTTTAA
53982754 AAAATCAAAATTTT
1 AAAATCAAAATTTT
53982768 ATTTCAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATCAAAATTTTTTTAA
Found at i:53982979 original size:119 final size:120
Alignment explanation
Indices: 53982783--53983002 Score: 327
Period size: 119 Copynumber: 1.8 Consensus size: 120
53982773 AAAATAGTTG
* * * *
53982783 AAAAAGACCAAAATTTTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAAACATATT
1 AAAAAGACCAAAACTTTATTTTAAAAAATTTAAACTTTTCCGTTAAAATGACTAAAAAACAAATT
* *
53982848 TTTTTTTTAAAAATCTAAACTCTCT-TTATTTTAAAATTTTAAAATTTTCCTTTAA
66 TTTATTTAAAAAATCTAAACTCTCTATT-TTTTAAAATTTTAAAATTTTCCTTTAA
* * *
53982903 AAAAAGATCAAAACTTTATTTT-AAAATTTTAAACTTTTCCGTTAATATGACTAAAAAACAAATT
1 AAAAAGACCAAAACTTTATTTTAAAAAATTTAAACTTTTCCGTTAAAATGACTAAAAAACAAATT
*
53982967 TTTATTTAAAAAATCTAAACTTTCTATTTTTTAAAA
66 TTTATTTAAAAAATCTAAACTCTCTATTTTTTAAAA
53983003 AAAATCAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 68 0.76
120 21 0.24
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (120 bp):
AAAAAGACCAAAACTTTATTTTAAAAAATTTAAACTTTTCCGTTAAAATGACTAAAAAACAAATT
TTTATTTAAAAAATCTAAACTCTCTATTTTTTAAAATTTTAAAATTTTCCTTTAA
Found at i:53983180 original size:7 final size:7
Alignment explanation
Indices: 53983168--53983212 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
53983158 TGTATATGGC
53983168 AAAAAGA
1 AAAAAGA
53983175 AAAAAGA
1 AAAAAGA
53983182 AAAAAGAA
1 AAAAAG-A
53983190 AAAAAGA
1 AAAAAGA
53983197 AAAAA-A
1 AAAAAGA
53983203 AAAAGAGA
1 AAAA-AGA
53983211 AA
1 AA
53983213 CTAGAATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.14
7 20 0.57
8 10 0.29
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:53983187 original size:14 final size:14
Alignment explanation
Indices: 53983168--53983212 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
53983158 TGTATATGGC
53983168 AAAAAGAAAAAAGA
1 AAAAAGAAAAAAGA
53983182 AAAAAGAAAAAAAGA
1 AAAAAG-AAAAAAGA
53983197 AAAAA-AAAAAGAGA
1 AAAAAGAAAAA-AGA
53983211 AA
1 AA
53983213 CTAGAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 13 0.45
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:53983194 original size:22 final size:22
Alignment explanation
Indices: 53983168--53983212 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
53983158 TGTATATGGC
53983168 AAAAAGAAAAAAGAAAAA-AGAA
1 AAAAAGAAAAAA-AAAAAGAGAA
53983190 AAAAAGAAAAAAAAAAAGAGAA
1 AAAAAGAAAAAAAAAAAGAGAA
53983212 A
1 A
53983213 CTAGAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAAGAGAA
Found at i:53983361 original size:3 final size:3
Alignment explanation
Indices: 53983353--53983390 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
53983343 GTAAAAAATG
53983353 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
53983391 TTTAATAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:53988390 original size:39 final size:39
Alignment explanation
Indices: 53988336--53988479 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
53988326 GAATGTTCGA
* *
53988336 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGTAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
53988375 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
53988414 ATGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
53988453 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
53988480 CTTTGTGCGG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 85 0.91
40 8 0.09
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:53988431 original size:78 final size:79
Alignment explanation
Indices: 53988337--53988507 Score: 245
Period size: 78 Copynumber: 2.2 Consensus size: 79
53988327 AATGTTCGAG
* * *
53988337 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGTAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
53988401 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
53988415 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
53988480 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** *
53988494 CCATAACCGGGCTA
1 TGATATCCGGGCTA
53988508 TGTCCTGAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 51 0.62
79 31 0.38
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:53993624 original size:20 final size:20
Alignment explanation
Indices: 53993559--53993624 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
53993549 ATTTTAGTAA
53993559 ACATG-TATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
53993578 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
53993598 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53993618 ACATGAT
1 ACATGAT
53993625 GTATTCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53993756 original size:24 final size:24
Alignment explanation
Indices: 53993672--53993815 Score: 143
Period size: 25 Copynumber: 6.0 Consensus size: 24
53993662 GGAGGAAGTG
53993672 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
53993696 GATAAATGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
53993721 GATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* * *
53993746 TAAAAGGGCTTATACGCCTAATTAT
1 TAAAAGGGCTTATGC-CCCAGTTAT
*
53993771 T-AAAGGG-TTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53993793 TAAAAGAGGC-TA-GCTCCAGTTAT
1 TAAAAG-GGCTTATGCCCCAGTTAT
53993816 ACGATAAAGC
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
22 8 0.08
23 18 0.18
24 22 0.22
25 54 0.53
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:53994064 original size:30 final size:31
Alignment explanation
Indices: 53994009--53994067 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
53993999 TGTTTACAGT
53994009 AAAGGCTTCAGCCTAGTAATATGAAATATAA
1 AAAGGCTTCAGCCTAGTAATATGAAATATAA
* **
53994040 AAAGGCTTCGGCC-AGTGTTATGAAATAT
1 AAAGGCTTCAGCCTAGTAATATGAAATAT
53994068 GAAGTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCTAGTAATATGAAATATAA
Found at i:54005743 original size:29 final size:29
Alignment explanation
Indices: 54005710--54005841 Score: 174
Period size: 29 Copynumber: 4.6 Consensus size: 29
54005700 GTGACGAGAT
* *
54005710 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
54005739 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
54005768 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* * *
54005797 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
**
54005826 TGGCACTGGGTGTGCA
1 TGGCACTAAGTGTGCA
54005842 AGATCGAAGG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:54015051 original size:20 final size:21
Alignment explanation
Indices: 54015015--54015057 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
54015005 TCACAAACCA
54015015 CATAACTCATGTACATTT-CG
1 CATAACTCATGTACATTTGCG
*
54015035 CATATACTCAT-TTCATTTGCG
1 CATA-ACTCATGTACATTTGCG
54015056 CA
1 CA
54015058 AATAACATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (21 bp):
CATAACTCATGTACATTTGCG
Found at i:54015346 original size:43 final size:43
Alignment explanation
Indices: 54015226--54015384 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 43
54015216 ATCTCGTACA
* * * *
54015226 ATGCCAATGTCCCAAATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATAT-G
* * *
54015269 ATGCC-ACTATACCAGATAG-GGTCTTACACG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAATATG
54015311 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCA--
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-T-ATG
*
54015355 ATGCCAACGTCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
54015385 ATAACACATA
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 38 0.39
44 32 0.33
45 1 0.01
46 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATG
Found at i:54022317 original size:40 final size:40
Alignment explanation
Indices: 54022243--54022461 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
54022233 AACCCAAGTA
* *
54022243 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
54022282 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
54022322 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
54022362 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
54022402 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
54022441 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
54022462 GTCATCCGAA
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 36 0.21
40 133 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:54024127 original size:40 final size:40
Alignment explanation
Indices: 54024068--54024236 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
54024058 CGGGACTTTA
* * *
54024068 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
54024108 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
54024148 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
54024188 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
54024228 CCCGGATAT
1 CCCGGATAT
54024237 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:54033459 original size:92 final size:92
Alignment explanation
Indices: 54033348--54033518 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 92
54033338 CGCCCATAAG
* *
54033348 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54033412 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGA-TTCGGATGCCTAGTTACATCTCA
*
54033440 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54033505 ACGATTCGGATGCC
66 ACGATTCGGATGCC
54033519 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 41 0.55
93 34 0.45
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGATTCGGATGCCTAGTTACATCTCA
Found at i:54037103 original size:35 final size:35
Alignment explanation
Indices: 54037064--54037134 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
54037054 GTTATGTGAA
54037064 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
54037099 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
54037134 T
1 T
54037135 TATAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
Found at i:54038051 original size:2 final size:2
Alignment explanation
Indices: 54038044--54038074 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
54038034 TCATGACATG
54038044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54038075 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54043294 original size:34 final size:34
Alignment explanation
Indices: 54043234--54043308 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
54043224 TCTTTGTATG
* *
54043234 CACATTGATACTGTTACTATATTGGGCTAAGGCC
1 CACACTGATACTGCTACTATATTGGGCTAAGGCC
* *
54043268 CACACTGATATTGCTACTGATA-TGGGCTTAGGCC
1 CACACTGATACTGCTACT-ATATTGGGCTAAGGCC
*
54043302 CAGACTG
1 CACACTG
54043309 TTAAACTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 32 0.91
35 3 0.09
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
CACACTGATACTGCTACTATATTGGGCTAAGGCC
Found at i:54045869 original size:6 final size:6
Alignment explanation
Indices: 54045815--54045889 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
54045805 AAGAAACATT
* * * * *
54045815 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATTAGA ATCATGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
54045864 ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
54045890 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.04
6 50 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:54046642 original size:27 final size:27
Alignment explanation
Indices: 54046597--54046655 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
54046587 ACTTGCCAAC
*
54046597 AAGGGCAAAACAGTCATTTAACACCC-T
1 AAGGGCAAAACAGTAATTTAAC-CCCAT
** *
54046624 AAGGGCAAAATGGTAATTTTACCCCAT
1 AAGGGCAAAACAGTAATTTAACCCCAT
54046651 AAGGG
1 AAGGG
54046656 TATATCGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
AAGGGCAAAACAGTAATTTAACCCCAT
Found at i:54046665 original size:27 final size:27
Alignment explanation
Indices: 54046635--54046778 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
54046625 AGGGCAAAAT
* * *
54046635 GGTAATTTTACCCCATAAGGGTATATC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
54046662 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
54046689 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
54046716 GGTAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
54046743 AGTAATTTTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
54046770 AATAATTTT
1 GGTAATTTT
54046779 GTAAATCGAA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:54046776 original size:54 final size:54
Alignment explanation
Indices: 54046636--54046769 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
54046626 GGGCAAAATG
* * * *
54046636 GTAATTTTACCCCATAAGGGTATATCGGTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
54046690 GT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTGTTTCA
1 GTAATTT-TACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
54046744 GTAATTTTACCCTATAAGGGTATTTC
1 GTAATTTTACCCTATAAGGGTATTTC
54046770 AATAATTTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
53 4 0.06
54 63 0.89
55 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:54054794 original size:3 final size:3
Alignment explanation
Indices: 54054786--54054822 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
54054776 ATAATCAAAC
54054786 ATT ATT ATT ATT ATT ATT ATT ATTT ATT -TT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT
54054823 ACTTTTCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:54055127 original size:28 final size:28
Alignment explanation
Indices: 54055096--54055165 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
54055086 ATATTTTCTT
*
54055096 TCGCATACTTAGTGCTCGA-TAATCAAAC
1 TCGCATACTTAGTGCTC-ATTAACCAAAC
*
54055124 TCGCACACTTAGTGCTCATTAACCAAAC
1 TCGCATACTTAGTGCTCATTAACCAAAC
*
54055152 TCGCATGCTTAGTG
1 TCGCATACTTAGTG
54055166 AAATTTTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
TCGCATACTTAGTGCTCATTAACCAAAC
Found at i:54058288 original size:49 final size:49
Alignment explanation
Indices: 54058191--54058610 Score: 619
Period size: 49 Copynumber: 8.8 Consensus size: 49
54058181 CTTCCACTTC
* * * * *
54058191 CATCACATTGACCATTCGGCCTAAT--CATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
*
54058238 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCATCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
* * * *
54058287 CATCACATTGGCCATTCGGCCTTATCATATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
*
54058336 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCGCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
*
54058385 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCATCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
* *
54058434 CATCACATTGGCCATTCGGCCTTATCATATATACAT--ACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
54058481 CATCACATTGGCCATTCGGCCTTATCAC--ATA-ATACA-CTTGCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTT-CACATT
54058527 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACA-CTTGCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTT-CACATT
54058574 CATCACATTGGCCATTCGGCCTTATCACATATACATA
1 CATCACATTGGCCATTCGGCCTTATCACATATACATA
54058611 TCTTGTACAT
Statistics
Matches: 342, Mismatches: 23, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.01
45 5 0.01
46 38 0.11
47 102 0.30
49 195 0.57
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
Found at i:54058365 original size:22 final size:22
Alignment explanation
Indices: 54058337--54058414 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
54058327 TTTCACATTC
54058337 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
54058359 ATCACATAT-ACATACACCTTC-GCATT
1 ATCACAT-TGGC---CA--TTCGGCCTT
54058385 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54058408 ATCACAT
1 ATCACAT
54058415 ATACATACAC
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 18 0.42
23 5 0.12
24 2 0.05
25 2 0.05
26 5 0.12
27 11 0.26
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54058380 original size:27 final size:27
Alignment explanation
Indices: 54058350--54058425 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 27
54058340 ACATTGGCCA
54058350 TTCGGCCTTATCACATATACATACACC
1 TTCGGCCTTATCACATATACATACACC
* *
54058377 TTC-GCATTCATCACAT-TGGC---CA--
1 TTCGGCCTT-ATCACATAT-ACATACACC
54058399 TTCGGCCTTATCACATATACATACACC
1 TTCGGCCTTATCACATATACATACACC
54058426 ATCACATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
22 11 0.31
23 5 0.14
24 2 0.06
25 2 0.06
26 5 0.14
27 11 0.31
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (27 bp):
TTCGGCCTTATCACATATACATACACC
Found at i:54058507 original size:22 final size:22
Alignment explanation
Indices: 54058482--54058556 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
54058472 TTTCACATTC
54058482 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
****
54058504 ATCACATAATACACTT--GCACATT
1 ATCACATTGGCCA-TTCGGC-C-TT
54058527 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54058550 ATCACAT
1 ATCACAT
54058557 ACATACACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 2 0.05
22 17 0.44
23 8 0.21
24 10 0.26
25 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54061242 original size:20 final size:21
Alignment explanation
Indices: 54061203--54061242 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54061193 TTGAAATGGT
* *
54061203 ATGTTTAAGTGTGTTTGAATG
1 ATGTTTAAGTCTGCTTGAATG
54061224 ATGTTTAAGTCT-CTTGAAT
1 ATGTTTAAGTCTGCTTGAAT
54061243 CTGTGCACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (21 bp):
ATGTTTAAGTCTGCTTGAATG
Found at i:54064210 original size:41 final size:41
Alignment explanation
Indices: 54064031--54064197 Score: 168
Period size: 41 Copynumber: 4.1 Consensus size: 41
54064021 GCTAATCGGG
54064031 GTCTA-AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCTATAA-CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
* * * *
54064072 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGT
1 GTCT-ATAACCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
* * *
54064113 GTC-ATAACCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTCTATAACCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT
*
54064153 GGTCTA-ATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 -GTCTATAACCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
54064194 -TCTA
1 GTCTA
54064198 AGAATCGGGC
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
39 5 0.05
40 33 0.31
41 62 0.58
42 6 0.06
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
GTCTATAACCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:54072537 original size:29 final size:29
Alignment explanation
Indices: 54072504--54072585 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
54072494 TGACGAGATC
54072504 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
54072533 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
54072562 GGCACTAAGTGTGCAAGCTGGAAA
1 GGCACTAAGTGTGCGTGCTGGAAA
54072586 AAAATACGGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:54075597 original size:13 final size:15
Alignment explanation
Indices: 54075566--54075607 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
54075556 GGATATTTTC
* *
54075566 TTCTAGATTTCTTTA
1 TTCTGGATTTCTATA
54075581 TAT-TGGATTTCTATA
1 T-TCTGGATTTCTATA
54075596 TTCTGGATTTCT
1 TTCTGGATTTCT
54075608 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (15 bp):
TTCTGGATTTCTATA
Found at i:54092197 original size:25 final size:25
Alignment explanation
Indices: 54092169--54092263 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
54092159 CTCTTTTAAT
* *
54092169 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTTGGTA
* *
54092194 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
*
54092219 AACTAGGGCAAATCCCTTTTTGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
* *
54092244 AACTAGGGTATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
54092264 AGCACTTCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGGTA
Found at i:54092199 original size:50 final size:50
Alignment explanation
Indices: 54092156--54092263 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
54092146 CTGGAGGCCT
*
54092156 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
** * * * * *
54092205 AGCCCTTTTCGGTAAACTAGGGCAAATCCCTTTTTGGTAAACTAGGGTAT
1 AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
54092255 AGCCCTTTT
1 AGCCCTTTT
54092264 AGCACTTCCC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 39 0.80
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
Found at i:54092495 original size:27 final size:27
Alignment explanation
Indices: 54092465--54092708 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
54092455 GGGGCAAAAT
* * * *
54092465 GGTAATTATACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54092492 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54092519 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54092546 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54092573 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54092600 GGTAGTTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54092627 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54092654 GGTAATTCTATCGTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54092681 AGTAATTCTACCCTACAGCGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54092708 G
1 G
54092709 ATATTTTACA
Statistics
Matches: 186, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54092749 original size:27 final size:27
Alignment explanation
Indices: 54092701--54092772 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
54092691 CCCTACAGCG
* *
54092701 GTATTTCGAT-ATTTTACAAATCAAGA
1 GTATTTTGATAATTTCACAAATCAAGA
* * *
54092727 GTATTTTGATAATTTCATAAATCAGGG
1 GTATTTTGATAATTTCACAAATCAAGA
*
54092754 GTATTTTGGTAATTT-ACAA
1 GTATTTTGATAATTTCACAA
54092773 GCTAGGGATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 12 0.32
27 26 0.68
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTTGATAATTTCACAAATCAAGA
Found at i:54092804 original size:27 final size:26
Alignment explanation
Indices: 54092711--54092902 Score: 138
Period size: 27 Copynumber: 7.2 Consensus size: 26
54092701 GTATTTCGAT
* * *
54092711 ATTTTACAAATCAAGAGTATTTTGATA
1 ATTTTACAAA-CTAGGGTATTTTGGTA
* *
54092738 ATTTCATAAA-TCAGGGGTATTTTGGTA
1 ATTTTACAAACT-A-GGGTATTTTGGTA
* *
54092765 A-TTTACAAGCTAGGGATGTTTTGGTA
1 ATTTTACAAACTAGGG-TATTTTGGTA
* *
54092791 ATTTTACAAACTAGGGGTATTTTAGTT
1 ATTTTACAAACTA-GGGTATTTTGGTA
*
54092818 ATTTTACAAACCAGAGGTATTTTGGTA
1 ATTTTACAAACTAG-GGTATTTTGGTA
* * *
54092845 ATTTTACTGATCGAGGGTATTTTGGT-
1 ATTTTAC-AAACTAGGGTATTTTGGTA
** * *
54092871 ATTTTGTAAACGAAGGGTATTTTAGTA
1 ATTTTACAAAC-TAGGGTATTTTGGTA
54092898 ATTTT
1 ATTTT
54092903 GTAAATCGAG
Statistics
Matches: 130, Mismatches: 25, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
25 5 0.04
26 35 0.27
27 83 0.64
28 7 0.05
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
ATTTTACAAACTAGGGTATTTTGGTA
Found at i:54092863 original size:54 final size:53
Alignment explanation
Indices: 54092700--54092902 Score: 162
Period size: 53 Copynumber: 3.8 Consensus size: 53
54092690 ACCCTACAGC
* * * * * * *
54092700 GGTATTTCGATATTTTACAAATCAAGAGTATTTTGATAATTTCATAAATC-AGG
1 GGTATTTTGGTATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAA-CGAGG
* * * * *
54092753 GGTATTTTGGTAATTTAC-AAGCTAGGGATGTTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTATTTTACAAACCAAGGG-TATTTTGGTAATTTTACAAACGAGG
* * *
54092806 GGTATTTTAGTTATTTTACAAACC-AGAGGTATTTTGGTAATTTTACTGATCGA-G
1 GGTATTTT-GGTATTTTACAAACCAAG-GGTATTTTGGTAATTTTAC-AAACGAGG
** * *
54092860 GGTATTTTGGTATTTTGTAAACGAAGGGTATTTTAGTAATTTT
1 GGTATTTTGGTATTTTACAAACCAAGGGTATTTTGGTAATTTT
54092903 GTAAATCGAG
Statistics
Matches: 121, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
52 7 0.06
53 69 0.57
54 37 0.31
55 8 0.07
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (53 bp):
GGTATTTTGGTATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACGAGG
Found at i:54092875 original size:80 final size:80
Alignment explanation
Indices: 54092711--54092902 Score: 194
Period size: 80 Copynumber: 2.4 Consensus size: 80
54092701 GTATTTCGAT
* * * * *
54092711 ATTTTACAAATC-AAGAGTATTTT-GATAATTTCATAAATCAGGGGTATTTTGGTAATTTACAAG
1 ATTTTACAAA-CGAAGGGTATTTTAG-TAATTTTACAAACCAGAGGTATTTTGGTAATTTACAAG
* *
54092774 CTAGGGATGTTTTGGTA
64 CGAGGGATATTTTGGTA
* * * * *
54092791 ATTTTACAAACTAGGGGTATTTTAGTTATTTTACAAACCAGAGGTATTTTGGTAATTTTACTGAT
1 ATTTTACAAACGAAGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGTAA-TTTAC-AAG
54092856 CGAGGG-TATTTTGGT-
64 CGAGGGATATTTTGGTA
**
54092871 ATTTTGTAAACGAAGGGTATTTTAGTAATTTT
1 ATTTTACAAACGAAGGGTATTTTAGTAATTTT
54092903 GTAAATCGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
79 1 0.01
80 71 0.77
81 14 0.15
82 6 0.07
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (80 bp):
ATTTTACAAACGAAGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGTAATTTACAAGCG
AGGGATATTTTGGTA
Found at i:54092907 original size:27 final size:26
Alignment explanation
Indices: 54092805--54092916 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
54092795 TACAAACTAG
* ** *
54092805 GGGTATTTTAGTTATTTTACAAACCA
1 GGGTATTTTAGTAATTTTGTAAACGA
* * * *
54092831 GAGGTATTTTGGTAATTTTACTGATCGA
1 G-GGTATTTTAGTAATTTT-GTAAACGA
*
54092859 GGGTATTTTGGT-ATTTTGTAAACGAA
1 GGGTATTTTAGTAATTTTGTAAACG-A
54092885 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAA-CGA
54092912 GGGTA
1 GGGTA
54092917 AAACGGTAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.06
26 18 0.26
27 42 0.60
28 6 0.09
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTGTAAACGA
Found at i:54093076 original size:27 final size:27
Alignment explanation
Indices: 54092895--54093062 Score: 255
Period size: 27 Copynumber: 6.2 Consensus size: 27
54092885 GGGTATTTTA
*
54092895 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
** *
54092922 GTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54092949 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54092976 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54093003 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
54093030 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
54093057 GTAATT
1 GTAATT
54093063 TTACAAATTG
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:54093089 original size:54 final size:54
Alignment explanation
Indices: 54092905--54093096 Score: 159
Period size: 54 Copynumber: 3.6 Consensus size: 54
54092895 GTAATTTTGT
* ** * ** ** *
54092905 AAATCGAGGGTAAAACGGTAATTCTGTAAATTAAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGCAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAC
* ** * ** *
54092959 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGCAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAC
* ** *
54093013 AAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTAC
1 AAATCGAGGGCAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAC
* *** *
54093067 AAATTGAGGGCATTTCAATAATTTGGTAAA
1 AAATCGAGGGCAAAACAATAATTTTGTAAA
54093097 CTAAAGTATT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
AAATCGAGGGCAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAC
Found at i:54095476 original size:25 final size:25
Alignment explanation
Indices: 54095448--54095542 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
54095438 CTCTTTTAAT
* *
54095448 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
54095473 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
54095498 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
54095523 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
54095543 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:54095743 original size:27 final size:27
Alignment explanation
Indices: 54095713--54095955 Score: 353
Period size: 27 Copynumber: 9.0 Consensus size: 27
54095703 GGGGCAAAAT
* * * * *
54095713 GGTAATTATACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54095740 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54095767 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54095794 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54095821 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54095848 GATAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54095875 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54095902 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54095929 GGT-ATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54095955 G
1 G
54095956 ATATTTTACA
Statistics
Matches: 193, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 23 0.12
27 170 0.88
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54096163 original size:27 final size:27
Alignment explanation
Indices: 54095958--54096299 Score: 190
Period size: 27 Copynumber: 12.7 Consensus size: 27
54095948 GTATTTCGAT
* * *
54095958 ATTTTACAAATCGAGAGTATTTTGATA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * * *
54095985 ATTTCACAAATC-AGGGTTATTTTAGAA
1 ATTTTATAAATCGAGGG-TATTTTGGTA
* * *
54096012 ATTTTA-CAAGCTAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
* * *
54096039 ATTTTACAAA-CTAGGGGTATTTTAGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
* *
54096066 ATTTTACAAA-CCAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTA
*** * * *
54096093 ATTTTACCGATCAAGGATATGTTGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * * *
54096120 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
****
54096147 ATTTTATAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* * ***
54096174 ATTCTGTAAATCGAGGGTAAAATGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* ****
54096201 ATTCTATAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
* ***
54096228 ATTTTATAAATCGAGGGCAAAATGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
***
54096255 A-TTTATAAATCGAGGGTAAAATGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTA
*
54096281 ATTCTATAAATCGAGGGTA
1 ATTTTATAAATCGAGGGTA
54096300 AAACGATAAT
Statistics
Matches: 264, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 31 0.12
27 226 0.86
28 7 0.03
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTTATAAATCGAGGGTATTTTGGTA
Found at i:54096174 original size:54 final size:54
Alignment explanation
Indices: 54096116--54096353 Score: 280
Period size: 54 Copynumber: 4.4 Consensus size: 54
54096106 AGGATATGTT
* * *** *
54096116 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
* *
54096170 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
* * *
54096224 GGTAATTTTATAAATCGAGGGCAAAATGGTAA-TTTATAAATCGAGGGTAAAAT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
* * * * * *
54096277 GGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
* ** *
54096331 GATAATTTTACAAATTGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
54096354 TTTCAATAAT
Statistics
Matches: 159, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 47 0.30
54 112 0.70
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC
Found at i:54096200 original size:81 final size:80
Alignment explanation
Indices: 54096115--54096353 Score: 264
Period size: 80 Copynumber: 3.0 Consensus size: 80
54096105 AAGGATATGT
* * **** * *
54096115 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTG
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGCAAAACGGTAATT-TA
54096180 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * *
54096196 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGCAAAATGGTAATTTAT
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGCAAAACGGTAATTTAT
54096261 AAATCGAGGGTAAAA
66 AAATCGAGGGTAAAA
* * * * * *
54096276 TGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACGATAATTTT
1 TGGTAATTCTATAAACCAAGGGTAAAACAG-TAATTTTATAAATCGAGGGCAAAACGGTAA-TTT
* *
54096340 ACAAATTGAGGGTA
64 ATAAATCGAGGGTA
54096354 TTTCAATAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 70 0.51
81 66 0.48
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (80 bp):
TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGCAAAACGGTAATTTAT
AAATCGAGGGTAAAA
Found at i:54096285 original size:107 final size:108
Alignment explanation
Indices: 54096144--54096351 Score: 337
Period size: 107 Copynumber: 1.9 Consensus size: 108
54096134 GGGTATTTTA
* * *
54096144 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
* *
54096209 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGCAAAATG
66 AATCGAGGGTAAAACGATAATTTTACAAATCGAGGGCAAAATG
* *
54096252 GTAA-TTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
*
54096316 AATCGAGGGTAAAACGATAATTTTACAAATTGAGGG
66 AATCGAGGGTAAAACGATAATTTTACAAATCGAGGG
54096352 TATTTCAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 88 0.96
108 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (108 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAACGATAATTTTACAAATCGAGGGCAAAATG
Found at i:54096300 original size:27 final size:27
Alignment explanation
Indices: 54096144--54096353 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
54096134 GGGTATTTTA
*
54096144 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
54096171 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
54096198 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
54096225 GTAATTTTATAAATCGAGGGCAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
54096252 GTAATT-TATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
54096278 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
54096305 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
54096332 ATAATTTTACAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
54096354 TTTCAATAAT
Statistics
Matches: 166, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 25 0.15
27 141 0.85
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:54096364 original size:107 final size:106
Alignment explanation
Indices: 54096133--54096365 Score: 313
Period size: 107 Copynumber: 2.2 Consensus size: 106
54096123 TTGTAAACCA
* *
54096133 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTA-TTTAGTAA-TTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
54096198 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCG
64 ATAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCG
* ** * *
54096241 AGGGCAAAATGGTAATTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGA
1 AGGG-TATTTAGTAATTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* *
54096306 TAATTCTGTAAATCGAGGGTAAAACGATAATTTTACAAATTG
65 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCG
*
54096348 AGGGTATTTCAATAATTT
1 AGGGTATTT-AGTAATTT
54096366 GGTAAAACGC
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
106 2 0.02
107 94 0.89
108 9 0.08
109 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.31
Consensus pattern (106 bp):
AGGGTATTTAGTAATTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAT
AATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCG
Found at i:54125745 original size:19 final size:19
Alignment explanation
Indices: 54125721--54125760 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
54125711 ACGGGCCAAA
*
54125721 AAAGGATAAATTGGGCCTC
1 AAAGGACAAATTGGGCCTC
54125740 AAAGGACAAATTGGGCCTC
1 AAAGGACAAATTGGGCCTC
54125759 AA
1 AA
54125761 TCAGTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (19 bp):
AAAGGACAAATTGGGCCTC
Found at i:54129635 original size:27 final size:26
Alignment explanation
Indices: 54129592--54129707 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
54129582 CAGCATAGCT
* *
54129592 ACCAGAATAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
* *
54129618 ACCAGATACAGTTATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* *
54129645 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCC
* * *
54129672 ACTAGAAACAGATATTTGTGGCATAGCC
1 ACCAG-AACAGATA-TTGTGACAGAGCC
*
54129700 ACTAGAAC
1 ACCAGAAC
54129708 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.15
27 41 0.51
28 27 0.34
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:54129690 original size:28 final size:28
Alignment explanation
Indices: 54129632--54129706 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
54129622 GATACAGTTA
* *
54129632 TTGTGGCAGAGCCACCAG-AACAGATAT
1 TTGTGGCATAGCCACTAGAAACAGATAT
54129659 TTGTGGCATAGCCACTAGAAACAGATAT
1 TTGTGGCATAGCCACTAGAAACAGATAT
54129687 TTGTGGCATAGCCACTAGAA
1 TTGTGGCATAGCCACTAGAA
54129707 CGCTTCCTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 16 0.36
28 29 0.64
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (28 bp):
TTGTGGCATAGCCACTAGAAACAGATAT
Found at i:54129701 original size:55 final size:53
Alignment explanation
Indices: 54129584--54129707 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 53
54129574 AGAAATTGCA
* * * * *
54129584 GCATAGCTACCAGAATAGATATTGTGACAGAGTCACCAGATACAGTTATTGTG
1 GCATAGCCACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTG
* * * *
54129637 GCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACTAGAAACAGATATTTGTG
1 GCATAGCCACCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATA-TTGTG
*
54129692 GCATAGCCACTAGAAC
1 GCATAGCCACCAGAAC
54129708 GCTTCCTCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 18 0.31
54 21 0.36
55 19 0.33
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (53 bp):
GCATAGCCACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTG
Found at i:54135196 original size:46 final size:45
Alignment explanation
Indices: 54135143--54135317 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
54135133 TGGTTGAGCA
54135143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
** * * * * *
54135189 TTTGAACTTGTTGAGTTGAATCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
54135234 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
54135282 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
54135318 GGCGGGTTAC
Statistics
Matches: 102, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.55
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:54135299 original size:93 final size:93
Alignment explanation
Indices: 54135140--54135309 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
54135130 GGATGGTTGA
* *** *
54135140 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTTGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
54135205 TGAATCCGAGTTCGTGAGATGTAACTAG
66 TGAATCCGAGTTCGTGAGATGTAACTAG
* *
54135233 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
54135298 TGAGTCCGAGTT
66 TGAATCCGAGTT
54135310 TACTTAGGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGTGAGATGTAACTAG
Found at i:54148390 original size:53 final size:53
Alignment explanation
Indices: 54148196--54148402 Score: 233
Period size: 53 Copynumber: 3.8 Consensus size: 53
54148186 ATTAGGGTTT
* * *
54148196 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGTTTTC-TAA-GC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAAG--TTCATAAGGC
* *
54148250 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTGTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGT-TC-ATAAGGC
* * *
54148305 AAAGG-TCCCATGTTAGACCATGTCAATG-CATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAA-GACATGGCATTGGTAAGTTCATAAGGC
* *
54148358 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
54148403 TCAAAAGGAT
Statistics
Matches: 130, Mismatches: 15, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
51 1 0.01
52 7 0.05
53 48 0.37
54 35 0.27
55 34 0.26
56 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:54148401 original size:108 final size:108
Alignment explanation
Indices: 54148203--54148401 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 108
54148193 TTTAAGGATA
*
54148203 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGTTTTCTAAGCAAGGATATCATGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAG-TTTCTAAGCAAGGATACCATGTAAGAC
*
54148268 CATGTCAAGACATGGCATTGATAAGTGTCTATAAGGCAAAGGTC
65 CATGTCAAGACATGGCAATGATAAGTGTCTATAAGGCAAAGGTC
* * * * *
54148312 CCATGTTAGACCATGTCAATGCATGG-CATTGGTGAG-TTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGTTTC-TAA-GCAAGGATACCATGTAAGA
* *
54148375 CCATGTCGAGACATGGCAATGGTAAGT
64 CCATGTCAAGACATGGCAATGATAAGT
54148402 TTCAAAAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
106 3 0.04
107 3 0.04
108 50 0.63
109 23 0.29
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (108 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGTTTCTAAGCAAGGATACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTGTCTATAAGGCAAAGGTC
Found at i:54151481 original size:40 final size:40
Alignment explanation
Indices: 54151374--54151596 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
54151364 CGGATGATAA
* * *
54151374 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
* *
54151414 CCGGCCTAAGT-CCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
54151453 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
54151493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
54151532 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
54151572 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54151597 AGCTAGTGGC
Statistics
Matches: 164, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 63 0.38
40 101 0.62
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:54151585 original size:119 final size:119
Alignment explanation
Indices: 54151374--54151596 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
54151364 CGGATGATAA
* * *
54151374 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGCCTAAGTCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGCCTAAGTCCGAAGGCATTCGT
* * * *
54151439 GCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 GCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * * * *
54151493 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGCCTAAGT-CCGAAGGCATTC
*
54151556 GTGCAAGTTACCATAACCGGGCTAAGTCCCGAAGGCATTTG
64 GTGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTG
54151597 AGCTAGTGGC
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 14 0.16
119 75 0.84
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGCCTAAGTCCGAAGGCATTCGT
GCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:54151595 original size:79 final size:80
Alignment explanation
Indices: 54151414--54151596 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 80
54151404 GTGGCTAATT
* * *
54151414 CCGGCCTAAGT-CCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* ** *
54151478 TGCGAGCTATTATAT
66 TGCAAGCTACCATAA
* *
54151493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
54151557 TGCAAGTTACCATAA
66 TGCAAGCTACCATAA
54151572 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54151597 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 69 0.74
80 24 0.26
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCAAGCTACCATAA
Found at i:54151611 original size:119 final size:119
Alignment explanation
Indices: 54151374--54151628 Score: 286
Period size: 119 Copynumber: 2.2 Consensus size: 119
54151364 CGGATGATAA
* * *
54151374 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATTCCGGCCTAAGTCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGTGGATAATACCGGCCTAAGTCCGAAGGCATTCG
* * * * * *
54151438 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
65 TGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
* * * * *
54151493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGATAATACCGGCCTAAGT-CCGAAGGCATTCG
* * *
54151557 TGCAAGTTACCATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGGCTATAT
65 TGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCT-ACTATAT
*
54151612 CC-GGCTAA-ACCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54151629 TACTTGGTTT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
117 8 0.07
118 20 0.17
119 85 0.74
120 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGATAATACCGGCCTAAGTCCGAAGGCATTCGT
GCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
Found at i:54151618 original size:79 final size:80
Alignment explanation
Indices: 54151414--54151628 Score: 251
Period size: 79 Copynumber: 2.7 Consensus size: 80
54151404 GTGGCTAATT
* * * *
54151414 CCGGCCTAAGT-CCGAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAGGCGTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTT
* ** *
54151477 GTGCGAGCTATTATAT
65 GTGCAAGCTACCATAA
* * *
54151493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
54151557 TGCAAGTTACCATAA
66 TGCAAGCTACCATAA
* * *
54151572 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA-ACCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGG
54151629 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 8 0.07
79 85 0.72
80 25 0.21
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCAAGCTACCATAA
Found at i:54156465 original size:40 final size:40
Alignment explanation
Indices: 54156357--54156566 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54156347 CGGGATTTAA
* * * * *
54156357 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54156397 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54156437 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54156477 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54156517 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54156557 CCGGATATAT
1 CCGGATATAT
54156567 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54168891 original size:40 final size:40
Alignment explanation
Indices: 54168783--54168992 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54168773 CGGGATTTAA
* * * * *
54168783 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54168823 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54168863 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54168903 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54168943 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54168983 CCGGATATAT
1 CCGGATATAT
54168993 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54175267 original size:39 final size:39
Alignment explanation
Indices: 54175223--54175357 Score: 148
Period size: 39 Copynumber: 3.4 Consensus size: 39
54175213 CTAGGATCCA
*
54175223 AAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CCCG
1 AAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTCCCG
* * *
54175262 AAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTCCCG
* **
54175302 AAGGCATTCG-GCGAGTCACTATAACCGGGCTTCGTCCCG
1 AAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAGTCCCG
* *
54175341 AAGGCATTTGAGCGAGT
1 AAGGCATTCGTGCGAGT
54175358 CGTTATATCC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 60 0.74
40 21 0.26
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
AAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGTCCCG
Found at i:54179116 original size:27 final size:26
Alignment explanation
Indices: 54179068--54179127 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
54179058 GCGAGGCTGC
*
54179068 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
54179095 CAGATATTGTGTCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
54179121 CAGATAT
1 CAGATAT
54179128 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54185390 original size:48 final size:48
Alignment explanation
Indices: 54185317--54185413 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
54185307 TGACTGTTTT
* *
54185317 GCGTATACCTAGTTTCAATATTTTGAGTATGGCATGTATAGGGACTTG
1 GCGTATACCCAGTTTCAATAGTTTGAGTATGGCATGTATAGGGACTTG
*
54185365 GCGTATACCCGGTTTCAATAGTTTGAGTATGGCATGTATAGGGACTTG
1 GCGTATACCCAGTTTCAATAGTTTGAGTATGGCATGTATAGGGACTTG
54185413 G
1 G
54185414 TCATTTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (48 bp):
GCGTATACCCAGTTTCAATAGTTTGAGTATGGCATGTATAGGGACTTG
Found at i:54187164 original size:17 final size:16
Alignment explanation
Indices: 54187146--54187184 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
54187136 ATTGTAACAC
54187146 CCCAAAAAACTCGAAA
1 CCCAAAAAACTCGAAA
* *
54187162 CCCGAAAATCTCGAAA
1 CCCAAAAAACTCGAAA
54187178 TCCCAAA
1 -CCCAAA
54187185 CTTTCCTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.49, C:0.33, G:0.08, T:0.10
Consensus pattern (16 bp):
CCCAAAAAACTCGAAA
Done.