Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 122 of 438
Found at i:35944707 original size:93 final size:92
Alignment explanation
Indices: 35944545--35944713 Score: 207
Period size: 93 Copynumber: 1.8 Consensus size: 92
35944535 CTTGTGTGAG
* * * * *
35944545 CTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGAGAGCTAGTGTAAGACATATCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGCCAGTGTAAGACATATCTA
35944610 GGACATGGCATCGACATTAATAAGAGTT
66 GGACAT-GCATCGACATTAATAAGAGTT
* * * * *
35944638 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGGCATGTT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGACG-AGAGCCAGTGTAAGACATATC
35944701 TAGGACATGCATC
64 TAGGACATGCATC
35944714 AGCTACGAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
92 5 0.08
93 57 0.89
94 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGCCAGTGTAAGACATATCTA
GGACATGCATCGACATTAATAAGAGTT
Found at i:35945815 original size:13 final size:13
Alignment explanation
Indices: 35945799--35945833 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
35945789 CTGTGTGAAA
**
35945799 GACACGGGTGAGG
1 GACACGGGCCAGG
35945812 GACACGGGCCAGG
1 GACACGGGCCAGG
35945825 GACACGGGC
1 GACACGGGC
35945834 TTGTGCCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.49, T:0.03
Consensus pattern (13 bp):
GACACGGGCCAGG
Found at i:35957138 original size:30 final size:30
Alignment explanation
Indices: 35957094--35957182 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35957084 CAAAGATAAC
35957094 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35957123 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35957153 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35957183 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35957142 original size:15 final size:15
Alignment explanation
Indices: 35957094--35957173 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35957084 CAAAGATAAC
*
35957094 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35957108 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35957123 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35957138 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35957153 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35957168 AAGAAA
1 AAGAAA
35957174 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35957182 original size:15 final size:15
Alignment explanation
Indices: 35957105--35957182 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35957095 AGAAAACCGA
35957105 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35957120 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35957134 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35957149 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35957165 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35957180 ATA
1 ATA
35957183 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35960181 original size:93 final size:93
Alignment explanation
Indices: 35960069--35960240 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
35960059 GCCCATAAGT
* *
35960069 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35960134 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
35960162 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35960227 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35960241 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35960236 original size:46 final size:46
Alignment explanation
Indices: 35960061--35960236 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
35960051 TGTAACCCGC
* * * *
35960061 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
35960107 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
35960157 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
35960200 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35960237 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:35960255 original size:46 final size:46
Alignment explanation
Indices: 35960112--35960255 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
35960102 CGCATCCATA
* * *
35960112 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
35960160 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
35960205 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
35960251 AGTGA
1 AGTGA
35960256 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:35962200 original size:62 final size:62
Alignment explanation
Indices: 35962097--35962217 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 62
35962087 GCCATGTCCC
* *
35962097 AGACATAGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCTCAGACATGGTCTT
1 AGACATAGTCTTACACTAGCTCTCACATATCCGTACCGATGCCATGTCTCACACATGGTCTT
*
35962159 AGACATAGTCTTACACTAGCTCTCACATATCCGTACTGATGCCATGTCTCACACATGGT
1 AGACATAGTCTTACACTAGCTCTCACATATCCGTACCGATGCCATGTCTCACACATGGT
35962218 TTTACACTGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (62 bp):
AGACATAGTCTTACACTAGCTCTCACATATCCGTACCGATGCCATGTCTCACACATGGTCTT
Found at i:35962246 original size:46 final size:45
Alignment explanation
Indices: 35962196--35962399 Score: 164
Period size: 46 Copynumber: 4.4 Consensus size: 45
35962186 TATCCGTACT
* *
35962196 GATGCCATGTCTCACACATGGTTTTACACTGGC-ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTTTTACACTGGCTACATCTCG-AGGCC
*
35962242 GATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTTGAGGCC
1 GATGCATGTCCCAGACATGTTTTACACTGGC-TACATCTCGAGGCC
* * * * * *
35962288 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATTG-C
1 GATGCATGTCCCAGACATGTTTTACACTGGCT-ACATCTCGA-GGCC
* * * * *
35962334 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTTTTACACTGGCT-ACAT-CTCGAGGCC
35962382 GATGCATGTCCCAGACAT
1 GATGCATGTCCCAGACAT
35962400 ATCCTACACT
Statistics
Matches: 131, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
44 13 0.10
45 14 0.11
46 52 0.40
47 30 0.23
48 21 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTTTTACACTGGCTACATCTCGAGGCC
Found at i:35962390 original size:47 final size:46
Alignment explanation
Indices: 35962239--35962409 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
35962229 ACATCTCGTA
* ** *
35962239 GCCGATGCATGTCCCAGACATGTTTTACACTGGCT-TACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGTG
* *
35962285 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATGTG
*
35962332 G-CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTG
* *
35962379 GCCGATGCATGTCCCAGACATATCCTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
35962410 AGCGTACACA
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 3 0.03
46 48 0.46
47 31 0.30
48 21 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
Found at i:35962431 original size:94 final size:90
Alignment explanation
Indices: 35962246--35962425 Score: 211
Period size: 94 Copynumber: 1.9 Consensus size: 90
35962236 GTAGCCGATG
* ** * *
35962246 CATGTCCCAGACATGTTTTACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGACATATCCT
* *
35962311 ACACTAGCTCTCGTCTCAATTGCAATGC
66 ACACTAG--C-CGTCACAATCGCAATGC
*
35962339 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGACATATC
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCCGATGCATGTCCCAGACATATC
35962403 CTACACTAG-CGTACACACATCGC
64 CTACACTAGCCGT-CACA-ATCGC
35962426 CCAATGTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
90 3 0.04
91 3 0.04
92 4 0.05
93 14 0.19
94 50 0.67
95 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGACATATCCT
ACACTAGCCGTCACAATCGCAATGC
Found at i:35970985 original size:14 final size:14
Alignment explanation
Indices: 35970966--35970993 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35970956 GAGGCTCGAT
35970966 ACCTTGACCCCAAA
1 ACCTTGACCCCAAA
35970980 ACCTTGACCCCAAA
1 ACCTTGACCCCAAA
35970994 TTTAGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.43, G:0.07, T:0.14
Consensus pattern (14 bp):
ACCTTGACCCCAAA
Found at i:35972868 original size:11 final size:11
Alignment explanation
Indices: 35972854--35972897 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35972844 AGATAAATAT
35972854 TATTTTATTAA
1 TATTTTATTAA
*
35972865 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
35972878 TATTTTATTAT
1 TATTTTATTAA
35972889 TATTTTATT
1 TATTTTATT
35972898 TAGTATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:35974986 original size:103 final size:101
Alignment explanation
Indices: 35974809--35975050 Score: 358
Period size: 103 Copynumber: 2.4 Consensus size: 101
35974799 TGAATTGATG
*
35974809 GATAAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGCTGGACCATAACAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGCTGGACCATAACAGTGTTT
*
35974874 ATATGTAAGACCATAATTTGGCTATGGCATTCTAAT
66 ATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
* ** * **
35974910 GATAAAACCATAACTTAGTTATGGCACTATGAACGTGTAAGACCATGGTTGGACCATGGCAGTGT
1 GATAAGACCATAACTGGGTTATGGCACTATGAAC--GTAAGACCATGGCTGGACCATAACAGTGT
* *
35974975 TTATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
64 TTATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
* *
35975013 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
35975051 ATAACGAATT
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
101 34 0.27
103 90 0.73
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGCTGGACCATAACAGTGTTT
ATATGTAAGACCATAATTGGGCTATGGCATTCTAAT
Found at i:35978673 original size:45 final size:45
Alignment explanation
Indices: 35978615--35978704 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
35978605 AAGGGAAATG
35978615 GCTTGAACACAACTTTTTCGCTTCTCCAAGTATGAAATTTGGCTA
1 GCTTGAACACAACTTTTTCGCTTCTCCAAGTATGAAATTTGGCTA
* *
35978660 GCTTGAACACAACTTTTTCTCTTCTCCAAGTGTGAAATTTGGCTA
1 GCTTGAACACAACTTTTTCGCTTCTCCAAGTATGAAATTTGGCTA
35978705 TGGCATGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (45 bp):
GCTTGAACACAACTTTTTCGCTTCTCCAAGTATGAAATTTGGCTA
Found at i:35980567 original size:25 final size:26
Alignment explanation
Indices: 35980539--35980598 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
35980529 CTGGAGGCCT
35980539 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCAAA
** *
35980564 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCAAA
35980590 AGCCCTTTT
1 AGCCCTTTT
35980599 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 5 0.17
26 20 0.67
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCAAA
Found at i:35980673 original size:20 final size:20
Alignment explanation
Indices: 35980648--35980734 Score: 149
Period size: 20 Copynumber: 4.3 Consensus size: 20
35980638 TTATGAATAC
35980648 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35980668 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
35980688 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35980708 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
35980728 ATCATGT
1 ATCATGT
35980735 ATATCAAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35980679 original size:11 final size:11
Alignment explanation
Indices: 35980648--35980723 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
35980638 TTATGAATAC
35980648 ATCATGTGCAT
1 ATCATGTGCAT
*
35980659 ATCA--TACAT
1 ATCATGTGCAT
35980668 ATCATGTGCAT
1 ATCATGTGCAT
*
35980679 ATC--GTACAT
1 ATCATGTGCAT
35980688 ATCATGTGCAT
1 ATCATGTGCAT
*
35980699 ATCA--TACAT
1 ATCATGTGCAT
35980708 ATCATGTGCAT
1 ATCATGTGCAT
35980719 ATCAT
1 ATCAT
35980724 ATCAATCATG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:35980740 original size:9 final size:10
Alignment explanation
Indices: 35980648--35980740 Score: 72
Period size: 9 Copynumber: 9.4 Consensus size: 10
35980638 TTATGAATAC
35980648 ATCATGTGCAT
1 ATCATGT-CAT
*
35980659 ATCAT-ACAT
1 ATCATGTCAT
35980668 ATCATGTGCAT
1 ATCATGT-CAT
35980679 ATC--GTACAT
1 ATCATGT-CAT
35980688 ATCATGTGCAT
1 ATCATGT-CAT
*
35980699 ATCAT-ACAT
1 ATCATGTCAT
35980708 ATCATGTGCAT
1 ATCATGT-CAT
*
35980719 ATCATATCA-
1 ATCATGTCAT
35980728 ATCATGT-AT
1 ATCATGTCAT
35980737 ATCA
1 ATCA
35980741 AAATCCCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
8 1 0.01
9 34 0.51
10 2 0.03
11 30 0.45
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:35988684 original size:26 final size:26
Alignment explanation
Indices: 35988654--35988752 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
35988644 CTCTTTTAAT
* *
35988654 AACTGGGGCAAAATCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35988680 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35988706 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
35988732 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
35988753 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:35988827 original size:20 final size:20
Alignment explanation
Indices: 35988802--35988868 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
35988792 TTATGAATAC
35988802 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35988822 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35988842 ATCATATGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
35988862 ATCATGT
1 ATCATGT
35988869 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35988858 original size:11 final size:11
Alignment explanation
Indices: 35988802--35988859 Score: 70
Period size: 11 Copynumber: 5.6 Consensus size: 11
35988792 TTATGAATAC
*
35988802 ATCATGTGCAT
1 ATCATATGCAT
35988813 ATCATA--CAT
1 ATCATATGCAT
*
35988822 ATCATGTGCAT
1 ATCATATGCAT
35988833 ATCATA--CAT
1 ATCATATGCAT
35988842 ATCATATGCAT
1 ATCATATGCAT
35988853 ATCATAT
1 ATCATAT
35988860 CAATCATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 17 0.43
11 23 0.57
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:35988865 original size:9 final size:10
Alignment explanation
Indices: 35988810--35988866 Score: 66
Period size: 9 Copynumber: 5.8 Consensus size: 10
35988800 ACATCATGTG
35988810 CATATCATA-
1 CATATCATAT
*
35988819 CATATCATGT
1 CATATCATAT
35988829 GCATATCATA-
1 -CATATCATAT
35988839 CATATCATAT
1 CATATCATAT
35988849 GCATATCATAT
1 -CATATCATAT
35988860 CA-ATCAT
1 CATATCAT
35988867 GTATATCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 22 0.52
10 2 0.05
11 18 0.43
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (10 bp):
CATATCATAT
Found at i:35990881 original size:17 final size:17
Alignment explanation
Indices: 35990859--35990891 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35990849 TAGCTGTCAC
35990859 TTGAATTAAATTAATTA
1 TTGAATTAAATTAATTA
*
35990876 TTGAATTAATTTAATT
1 TTGAATTAAATTAATT
35990892 TTATAGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGAATTAAATTAATTA
Found at i:35993491 original size:30 final size:30
Alignment explanation
Indices: 35993456--35993520 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
35993446 ATAATAATGT
* *
35993456 AGAGGGCTTAATTGATTCTTAATTATTTTA
1 AGAGGGCTTAAATAATTCTTAATTATTTTA
* *
35993486 CGAGGGCTTAAATAATTTTTAATTATTTTA
1 AGAGGGCTTAAATAATTCTTAATTATTTTA
35993516 AGAGG
1 AGAGG
35993521 ACTTCTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.43
Consensus pattern (30 bp):
AGAGGGCTTAAATAATTCTTAATTATTTTA
Found at i:35993713 original size:22 final size:23
Alignment explanation
Indices: 35993660--35993732 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 23
35993650 AAATATAAAC
35993660 AATTAAAGAAAATTTATTAAAATGTTA
1 AATT-AAGAAAA-TTATTAAAA--TTA
*
35993687 AATT-AGAAAATTATTAAAAATA
1 AATTAAGAAAATTATTAAAATTA
*
35993709 AATTAAGAAAACT-TTAAAATTA
1 AATTAAGAAAATTATTAAAATTA
35993731 AA
1 AA
35993733 AAATTACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.38
23 7 0.17
24 9 0.21
25 6 0.14
27 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (23 bp):
AATTAAGAAAATTATTAAAATTA
Found at i:35997553 original size:16 final size:16
Alignment explanation
Indices: 35997528--35997565 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
35997518 TCAGTTCCAA
*
35997528 AGATGAAAATTCTTTT
1 AGATGGAAATTCTTTT
35997544 AGATGGAAATTCTTTT
1 AGATGGAAATTCTTTT
35997560 AGATGG
1 AGATGG
35997566 TCATATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (16 bp):
AGATGGAAATTCTTTT
Found at i:36002471 original size:49 final size:49
Alignment explanation
Indices: 36002408--36002538 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 49
36002398 ACATCAAAGT
* *
36002408 CGATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
36002457 CGATGTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* *
36002506 GGATGCCATGTCCCAGACAGGTCTTGCACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
36002539 ACACAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:36002631 original size:48 final size:46
Alignment explanation
Indices: 36002547--36002721 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 46
36002537 ACACACAACA
* * * * *
36002547 AGCTGACGCCATGTCCCAGATAGGTTTTACAGTAGCTTGTATATCTCG
1 AGCTGATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCG
* * ** *
36002595 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCA
1 A-GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCG
* * * * *
36002641 ATGCTAATGCATGTCCCAAACATGTCTTACACTGGCTCTCATA-AT-G
1 A-GCTGATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCG
*
36002687 TAGCTGATGCATGTCCCAGACATGCCTTACACTAG
1 -AGCTGATGCATGTCCCAGACATGTCTTACACTAG
36002722 TACACATATC
Statistics
Matches: 98, Mismatches: 25, Indels: 10
0.74 0.19 0.08
Matches are distributed among these distances:
46 65 0.66
47 3 0.03
48 25 0.26
49 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
AGCTGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCG
Found at i:36002664 original size:46 final size:46
Alignment explanation
Indices: 36002601--36002721 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
36002591 CTCGAGGCCG
* *
36002601 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAATGCTA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAA-GCTA
* * ** *
36002647 ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTAGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAAGCTA
*
36002693 ATGCATGTCCCAGACATGCCTTACACTAG
1 ATGCATGTCCCAGACATGTCTTACACTAG
36002722 TACACATATC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 62 0.97
47 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATCAAGCTA
Found at i:36003404 original size:20 final size:20
Alignment explanation
Indices: 36003379--36003417 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36003369 ACAATTTCAA
36003379 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
36003399 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
36003418 AATAGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:36004008 original size:26 final size:25
Alignment explanation
Indices: 36003979--36004062 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 25
36003969 TGGTACAAAT
*
36003979 TGATAATAGGTTAGGTAAATGTTTTA
1 TGATAAT-GGTTAGGTAAATGTTTCA
*
36004005 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTTCA
36004031 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
36004057 TGATAA
1 TGATAA
36004063 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 51 0.96
27 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:36006191 original size:12 final size:12
Alignment explanation
Indices: 36006174--36006216 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
36006164 ACTCGGGGAA
*
36006174 GAGGCCGTAGTC
1 GAGGCCGTGGTC
36006186 GAGGCCGTGGTC
1 GAGGCCGTGGTC
36006198 GAGGCCGTGGTC
1 GAGGCCGTGGTC
36006210 GAGGCCG
1 GAGGCCG
36006217 AGGTAGTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.12, C:0.26, G:0.49, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:36011070 original size:26 final size:26
Alignment explanation
Indices: 36011031--36011114 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
36011021 TGATACAAAT
*
36011031 TGATAATAGG-TTAGGTAAATGTTTTA
1 TGATAAT-GGATTAGGTAAATGTTTCA
*
36011057 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTTCA
*
36011083 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTTCA
36011109 TGATAA
1 TGATAA
36011115 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 1 0.02
26 52 0.98
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTTCA
Found at i:36013323 original size:12 final size:12
Alignment explanation
Indices: 36013306--36013348 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
36013296 AGTACTACCT
36013306 CGGCCTCGACCA
1 CGGCCTCGACCA
36013318 CGGCCTCGACCA
1 CGGCCTCGACCA
*
36013330 CAGCCTCGACCA
1 CGGCCTCGACCA
36013342 CGGCCTC
1 CGGCCTC
36013349 TTCCCCGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.16, C:0.51, G:0.23, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:36015931 original size:32 final size:32
Alignment explanation
Indices: 36015895--36015960 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
36015885 AGGGGGGAGT
*
36015895 AAATACGCGTTGTACTCTTTTTCCCTTAATCA
1 AAATAAGCGTTGTACTCTTTTTCCCTTAATCA
36015927 AAATAAGCGTTGTACTCTTTTTCCCTTAATCA
1 AAATAAGCGTTGTACTCTTTTTCCCTTAATCA
36015959 AA
1 AA
36015961 GTTTTGTCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (32 bp):
AAATAAGCGTTGTACTCTTTTTCCCTTAATCA
Found at i:36016660 original size:17 final size:18
Alignment explanation
Indices: 36016638--36016684 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
36016628 AAAAACTCTA
36016638 TATTTTTTTATAAA-TTT
1 TATTTTTTTATAAATTTT
36016655 TATTTTTTTATAAATTTT
1 TATTTTTTTATAAATTTT
*
36016673 TAATTTTTTATA
1 TATTTTTTTATA
36016685 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTTTATAAATTTT
Found at i:36016681 original size:26 final size:26
Alignment explanation
Indices: 36016660--36016718 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
36016650 AATTTTATTT
*
36016660 TTTTATAAATTTTTAAT-TTTTTATA
1 TTTTATAAAATTTTAATATTTTTATA
*
36016685 TTTTATAAAATTTTATTATTTTTAATAA
1 TTTTATAAAATTTTAATATTTTT-AT-A
36016713 TTTTAT
1 TTTTAT
36016719 CATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.52
26 5 0.17
27 2 0.07
28 7 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTATAAAATTTTAATATTTTTATA
Found at i:36016698 original size:18 final size:19
Alignment explanation
Indices: 36016668--36016716 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
36016658 TTTTTTATAA
36016668 ATTTTTAAT--TTTTTA-T
1 ATTTTTAATAATTTTTATT
36016684 ATTTTATAA-AA-TTTTATT
1 ATTTT-TAATAATTTTTATT
36016702 ATTTTTAATAATTTT
1 ATTTTTAATAATTTT
36016717 ATCATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 8 0.30
19 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATAATTTTTATT
Found at i:36016717 original size:18 final size:18
Alignment explanation
Indices: 36016668--36016723 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
36016658 TTTTTTATAA
*
36016668 ATTTTTAAT-TTTTTA-T
1 ATTTTTAATAATTTTATT
36016684 ATTTTATAA-AATTTTATT
1 ATTTT-TAATAATTTTATT
*
36016702 ATTTTTAATAATTTTATC
1 ATTTTTAATAATTTTATT
36016720 ATTT
1 ATTT
36016724 AAATTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.15
17 11 0.32
18 18 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTAATAATTTTATT
Found at i:36016880 original size:21 final size:20
Alignment explanation
Indices: 36016855--36016893 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36016845 TATTTTAATT
36016855 TAATAGTTTTAATAGTTTTTA
1 TAATAGTTTTAATA-TTTTTA
* *
36016876 TAATATTTTTGATATTTT
1 TAATAGTTTTAATATTTT
36016894 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
TAATAGTTTTAATATTTTTA
Found at i:36019691 original size:93 final size:93
Alignment explanation
Indices: 36019525--36019700 Score: 248
Period size: 93 Copynumber: 1.9 Consensus size: 93
36019515 TGGTATTTAT
* *
36019525 TGACCAAGATAGCTTTCCTTGTAAAGGTTCATGGACACTGAACTTAAATATTGACTCTTCTAGCG
1 TGACCAAGATAGCTTTCCTTGTAAAGGTTCATAGACACTGAACTTAAATATTAACTCTTCTAGCG
36019590 GTTCTTTATCATGCATGTATGTGATTGC
66 GTTCTTTATCATGCATGTATGTGATTGC
* * * * *
36019618 TGACGAAGATAGCTTTTCTTGTAGA-GTCTCATAGACACTGGACTTAAATATTAACTCTTCTAGT
1 TGACCAAGATAGCTTTCCTTGTAAAGGT-TCATAGACACTGAACTTAAATATTAACTCTTCTAGC
*
36019682 GG-TCATTTATTATGCATGT
65 GGTTC-TTTATCATGCATGT
36019701 GTTGTGAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (93 bp):
TGACCAAGATAGCTTTCCTTGTAAAGGTTCATAGACACTGAACTTAAATATTAACTCTTCTAGCG
GTTCTTTATCATGCATGTATGTGATTGC
Found at i:36026003 original size:2 final size:2
Alignment explanation
Indices: 36025998--36026026 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36025988 GTGTGCACAC
36025998 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 T
36026027 GTAACTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36026259 original size:18 final size:19
Alignment explanation
Indices: 36026228--36026269 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
36026218 AATTATTAAA
36026228 TATAA-TAAAATATT-TTT
1 TATAATTAAAATATTATTT
*
36026245 TATAATTAAATTATTATTT
1 TATAATTAAAATATTATTT
36026264 TA-AATT
1 TATAATT
36026270 TATTCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 12 0.55
19 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATAATTAAAATATTATTT
Found at i:36028225 original size:46 final size:46
Alignment explanation
Indices: 36028170--36028345 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
36028160 TATTTGGGCA
36028170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *** * * * *
36028216 TTCGAACTCGTTGAGTTGAGTCCGAGTTTGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCGA-GCG
* *
36028263 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
36028309 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36028346 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:36028325 original size:93 final size:93
Alignment explanation
Indices: 36028166--36028336 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
36028156 GGGATATTTG
* **
36028166 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36028231 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* *
36028259 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36028324 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
36028337 CACTTATGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:36031567 original size:29 final size:27
Alignment explanation
Indices: 36031535--36031599 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
36031525 TATATCTTAA
*
36031535 AATTATATATGAACTTTGATTCAATATGC
1 AATTATATATGAACTTTGATT--AGATGC
*
36031564 AATTTGATATATGAATTTTGATTAGATGC
1 AA-TT-ATATATGAACTTTGATTAGATGC
36031593 AATTATA
1 AATTATA
36031600 CACATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
28 2 0.06
29 9 0.28
30 2 0.06
31 16 0.50
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (27 bp):
AATTATATATGAACTTTGATTAGATGC
Found at i:36033229 original size:21 final size:20
Alignment explanation
Indices: 36033183--36033231 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36033173 TGAATCCTTT
36033183 TAAA-ATTTTATATTATTTA
1 TAAATATTTTATATTATTTA
* *
36033202 AATAATATTTTATTTTATTTTA
1 TA-AATATTTTATATTA-TTTA
36033224 TAAATATT
1 TAAATATT
36033232 ATATCTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 16 0.67
22 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAATATTTTATATTATTTA
Found at i:36035764 original size:19 final size:19
Alignment explanation
Indices: 36035740--36035778 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36035730 TGTTCACAGG
36035740 CCTAAGTGTAAAAGTGATT
1 CCTAAGTGTAAAAGTGATT
36035759 CCTAAGTGTAAAAGTGATT
1 CCTAAGTGTAAAAGTGATT
36035778 C
1 C
36035779 ATATGTATTA
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:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (19 bp):
CCTAAGTGTAAAAGTGATT
Found at i:36035979 original size:49 final size:49
Alignment explanation
Indices: 36035843--36035979 Score: 199
Period size: 47 Copynumber: 2.8 Consensus size: 49
36035833 TGGGAAGTAT
*
36035843 GTGGCAGTTTATCTGCAAATCAGTGATGGCTTGTCCACAAAGTGTTCCA
1 GTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTCCA
* * *
36035892 GTGGCAGTATATCTGCATAT--GTGGTGGATTGTCCACAAAGT-TTACCA
1 GTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-CCA
*
36035939 GTGGCAGTTTATCTACAAATCAGTGGTGGCTTGTCCACAAA
1 GTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAA
36035980 TGGTGTTCTG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
46 2 0.03
47 39 0.51
49 36 0.47
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (49 bp):
GTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTCCA
Found at i:36036915 original size:16 final size:16
Alignment explanation
Indices: 36036890--36036924 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
36036880 TTTAGATTTG
36036890 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
36036906 AAACTGTAGACTGTGA
1 AAACTATAGACTGTGA
36036922 AAA
1 AAA
36036925 ATCTAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:36036931 original size:16 final size:16
Alignment explanation
Indices: 36036896--36036940 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
36036886 TTTGAAACTA
* *
36036896 TAGACTGTGAAAACTG
1 TAGACTGTGAAAAATC
36036912 TAGACTGTGAAAAATC
1 TAGACTGTGAAAAATC
36036928 TAGA-TGGTGAAAA
1 TAGACT-GTGAAAA
36036941 TGATAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (16 bp):
TAGACTGTGAAAAATC
Found at i:36040221 original size:22 final size:22
Alignment explanation
Indices: 36040196--36040242 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
36040186 GGACAAGCCA
*
36040196 CCACTGATTTGCAGATATATTG
1 CCACTGATTTGCAGATAAATTG
36040218 CCACTGATTTGCAGATAAATTG
1 CCACTGATTTGCAGATAAATTG
36040240 CCA
1 CCA
36040243 TTGCTAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (22 bp):
CCACTGATTTGCAGATAAATTG
Found at i:36041715 original size:25 final size:25
Alignment explanation
Indices: 36041686--36041748 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
36041676 GGACTCACCA
36041686 TAGCTCGTATGAGCTTACCG-ATAT
1 TAGCTCGTATGAGCTTACCGTATAT
* *
36041710 TCAGCTCGGA-GAAGCTTACCGTTTAT
1 T-AGCTCGTATG-AGCTTACCGTATAT
36041736 T-GCTCGTATGAGC
1 TAGCTCGTATGAGC
36041749 CTACATGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 11 0.34
25 17 0.53
26 4 0.12
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (25 bp):
TAGCTCGTATGAGCTTACCGTATAT
Found at i:36045441 original size:43 final size:44
Alignment explanation
Indices: 36045321--36045492 Score: 108
Period size: 43 Copynumber: 4.0 Consensus size: 44
36045311 AGCTCATACA
* * *
36045321 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * * * * *
36045364 ATGCCACTATCCTAGATAGGGTTTTACAC-AAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
36045406 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCATAA-ATTG
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAAATCA-AATATCG
* * * * *
36045450 ATGCCAAC-GTCCCAAACGTGGTCTTATACG-AAAACACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
36045493 GATCCTATGT
Statistics
Matches: 96, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
42 24 0.25
43 46 0.48
44 26 0.27
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:36051651 original size:24 final size:24
Alignment explanation
Indices: 36051624--36051672 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
36051614 CACATGGCCT
36051624 GACACATGCCTGTGTTTATGGTCC
1 GACACATGCCTGTGTTTATGGTCC
36051648 GACACATGCCTGTGTTTATGGTCC
1 GACACATGCCTGTGTTTATGGTCC
36051672 G
1 G
36051673 TGTCCCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (24 bp):
GACACATGCCTGTGTTTATGGTCC
Found at i:36052757 original size:47 final size:48
Alignment explanation
Indices: 36052688--36052959 Score: 215
Period size: 47 Copynumber: 5.7 Consensus size: 48
36052678 AGGGTATAAT
* *
36052688 GTCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-TATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
* * * *
36052735 GTCGATGCCATGTCCCAAACATGGTCTTATACT-GACT-ATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC-ATATC-AA
* **
36052784 GCCGACACCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATTCATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT--CATA-TCA-A
* * * * *
36052835 CT-GATGCCGTGTCCCATACATGGTCTTACACTA--ACA-CATCTCATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCA-A
* * * *
36052880 GACGATG-CATATCCCAGACAT-GTCTTGCACTAGCTC-TCATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
*
36052925 TGCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTA
36052960 ACACACAAAT
Statistics
Matches: 177, Mismatches: 30, Indels: 35
0.73 0.12 0.14
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 25 0.14
47 45 0.25
48 14 0.08
49 32 0.18
50 31 0.18
51 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATATCAA
Found at i:36073357 original size:47 final size:47
Alignment explanation
Indices: 36073281--36073440 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 47
36073271 GTTATACGTG
*
36073281 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
** * *
36073328 TAATATGGTGCTAAGTGGATATACTACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
36073366 TAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
36073413 TAACGTGGTGCTAAGTGGATATACCACG
1 TAACGTGGTGCTAAGTGGATATACCACG
36073441 ATTAAACATG
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
38 27 0.30
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 54 0.59
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:36073384 original size:38 final size:38
Alignment explanation
Indices: 36073333--36073489 Score: 152
Period size: 38 Copynumber: 3.9 Consensus size: 38
36073323 TTCATTAATA
*
36073333 TGGTGCTAAGTGGATATACTACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
* * *
36073371 TGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAACG
* *
36073418 TGGTGCTAAGTGGATATACCACGATTAAACATGTAATG
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
* * *
36073456 TGGTGCTAAGTGGATATGCCACGATTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGT
36073490 TAATTTGAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
38 60 0.61
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 29 0.29
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
Found at i:36073391 original size:85 final size:85
Alignment explanation
Indices: 36073248--36073478 Score: 381
Period size: 85 Copynumber: 2.7 Consensus size: 85
36073238 GAAAAAAACG
* * *
36073248 TGGTGCTAAGTGAATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
*
36073313 CATATATTGATTCATTAATA
66 CATATATTGATTCATTAACA
* *
36073333 TGGTGCTAAGTGGATATACTACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
*
36073398 CATATATTGATTCATTAACG
66 CATATATTGATTCATTAACA
* *
36073418 TGGTGCTAAGTGGATATACCACGATTAAACATGTAATGTGGTGCTAAGTGGATATGCCACG
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
36073479 ATTATACATG
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 135 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
CATATATTGATTCATTAACA
Found at i:36075917 original size:624 final size:624
Alignment explanation
Indices: 36074729--36075980 Score: 2470
Period size: 624 Copynumber: 2.0 Consensus size: 624
36074719 ATGGTTGGTA
36074729 ATATGTTATGTGTTGTTGTAAGAATGTCATGCTTGTGTCTTGATTGTGAATATATAATTACTCAA
1 ATATGTTATGTGTTGTTGTAAGAATGTCATGCTTGTGTCTTGATTGTGAATATATAATTACTCAA
36074794 ATATGCCGTGTCAATTGCTATGAAAATGTATAAGTGTATGTAGGTAATTAAGGGTGACAATTGGC
66 ATATGCCGTGTCAATTGCTATGAAAATGTATAAGTGTATGTAGGTAATTAAGGGTGACAATTGGC
36074859 TTGGAAAATAGCCTTGAAATTGACCACACGACCCAATCCACATGGGCGTGTGACTCTCCGAAGCA
131 TTGGAAAATAGCCTTGAAATTGACCACACGACCCAATCCACATGGGCGTGTGACTCTCCGAAGCA
36074924 AGAAAATTAGTTAAGTTGCCCAAAGATTTTCAAAGTTCTTGGTTTAGTCCTGAACCACCCCAATG
196 AGAAAATTAGTTAAGTTGCCCAAAGATTTTCAAAGTTCTTGGTTTAGTCCTGAACCACCCCAATG
36074989 TATGTTATAGATTTCGAAGACCTATATAAGGGACGATATGCATGTGTTCGAGATGTTTTAATTTT
261 TATGTTATAGATTTCGAAGACCTATATAAGGGACGATATGCATGTGTTCGAGATGTTTTAATTTT
*
36075054 TGGTGAAATTTTGTGGCCTGATTTTGCATGTTGTGAATGTTTAAGTCCGGTAACGCCTCGAACCG
326 TGGTGAAATTTTGTGGCCCGATTTTGCATGTTGTGAATGTTTAAGTCCGGTAACGCCTCGAACCG
36075119 TGTCCCGACGTTGGATACGGGTGAGGGGTGTTACAGAGTATGAGCCTGAATATACCTCAACCAAA
391 TGTCCCGACGTTGGATACGGGTGAGGGGTGTTACAGAGTATGAGCCTGAATATACCTCAACCAAA
36075184 GTTCTTTCCCTCCTATCCTTGAATGGGAAACCCAAAGTCGGTCGTTGGTTGTCTGTCCTTTATTT
456 GTTCTTTCCCTCCTATCCTTGAATGGGAAACCCAAAGTCGGTCGTTGGTTGTCTGTCCTTTATTT
36075249 CCTCGAATTTAAATTTATTTTTCTCCCTATTTCCTAATGAATTGCTCATCCCAAGATAGTCCTTG
521 CCTCGAATTTAAATTTATTTTTCTCCCTATTTCCTAATGAATTGCTCATCCCAAGATAGTCCTTG
36075314 ATGGACTCTTTCGAGTACCAACTTGGGCAACTTAACCCC
586 ATGGACTCTTTCGAGTACCAACTTGGGCAACTTAACCCC
36075353 ATATGTTATGTGTTGTTGTAAGAATGTCATGCTTGTGTCTTGATTGTGAATATATAATTACTCAA
1 ATATGTTATGTGTTGTTGTAAGAATGTCATGCTTGTGTCTTGATTGTGAATATATAATTACTCAA
36075418 ATATGCCGTGTCAATTGCTATGAAAATGTATAAGTGTATGTAGGTAATTAAGGGTGACAATTGGC
66 ATATGCCGTGTCAATTGCTATGAAAATGTATAAGTGTATGTAGGTAATTAAGGGTGACAATTGGC
36075483 TTGGAAAATAGCCTTGAAATTGACCACAC-AGCCCAATCCACATGGGCGTGTGACTCTCCGAAGC
131 TTGGAAAATAGCCTTGAAATTGACCACACGA-CCCAATCCACATGGGCGTGTGACTCTCCGAAGC
36075547 AAGAAAATTAGTTAAGTTGCCCAAAGATTTTCAAAGTTCTTGGTTTAGTCCTGAACCACCCCAAT
195 AAGAAAATTAGTTAAGTTGCCCAAAGATTTTCAAAGTTCTTGGTTTAGTCCTGAACCACCCCAAT
36075612 GTATGTTATAGATTTCGAAGACCTATATAAGGGACGATATGCATGTGTTCGAGATGTTTTAATTT
260 GTATGTTATAGATTTCGAAGACCTATATAAGGGACGATATGCATGTGTTCGAGATGTTTTAATTT
36075677 TTGGTGAAATTTTGTGGCCCGATTTTGCATGTTGTGAATGTTTAAGTCCGGTAACGCCTCGAACC
325 TTGGTGAAATTTTGTGGCCCGATTTTGCATGTTGTGAATGTTTAAGTCCGGTAACGCCTCGAACC
36075742 GTGTCCCGACGTTGGATACGGGTGAGGGGTGTTACAGAGTATGAGCCTGAATATACCTCAACCAA
390 GTGTCCCGACGTTGGATACGGGTGAGGGGTGTTACAGAGTATGAGCCTGAATATACCTCAACCAA
36075807 AGTTCTTTCCCTCCTATCCTTGAATGGGAAACCCAAAGTCGGTCGTTGGTTGTCTGTCCTTTATT
455 AGTTCTTTCCCTCCTATCCTTGAATGGGAAACCCAAAGTCGGTCGTTGGTTGTCTGTCCTTTATT
36075872 TCCTCGAATTTAAATTTATTTTTCTCCCTATTTCCTAATGAATTGCTCATCCCAAGATAGTCCTT
520 TCCTCGAATTTAAATTTATTTTTCTCCCTATTTCCTAATGAATTGCTCATCCCAAGATAGTCCTT
*
36075937 GATGGACTCTTTCGAGTACCAACTTGGGCAACTTAACCCT
585 GATGGACTCTTTCGAGTACCAACTTGGGCAACTTAACCCC
36075977 ATAT
1 ATAT
36075981 AACCTCGACA
Statistics
Matches: 625, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
623 1 0.00
624 624 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (624 bp):
ATATGTTATGTGTTGTTGTAAGAATGTCATGCTTGTGTCTTGATTGTGAATATATAATTACTCAA
ATATGCCGTGTCAATTGCTATGAAAATGTATAAGTGTATGTAGGTAATTAAGGGTGACAATTGGC
TTGGAAAATAGCCTTGAAATTGACCACACGACCCAATCCACATGGGCGTGTGACTCTCCGAAGCA
AGAAAATTAGTTAAGTTGCCCAAAGATTTTCAAAGTTCTTGGTTTAGTCCTGAACCACCCCAATG
TATGTTATAGATTTCGAAGACCTATATAAGGGACGATATGCATGTGTTCGAGATGTTTTAATTTT
TGGTGAAATTTTGTGGCCCGATTTTGCATGTTGTGAATGTTTAAGTCCGGTAACGCCTCGAACCG
TGTCCCGACGTTGGATACGGGTGAGGGGTGTTACAGAGTATGAGCCTGAATATACCTCAACCAAA
GTTCTTTCCCTCCTATCCTTGAATGGGAAACCCAAAGTCGGTCGTTGGTTGTCTGTCCTTTATTT
CCTCGAATTTAAATTTATTTTTCTCCCTATTTCCTAATGAATTGCTCATCCCAAGATAGTCCTTG
ATGGACTCTTTCGAGTACCAACTTGGGCAACTTAACCCC
Found at i:36078154 original size:21 final size:17
Alignment explanation
Indices: 36078115--36078159 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
36078105 GTAGTTCACA
36078115 GCTCGCATGCATTGTTT
1 GCTCGCATGCATTGTTT
36078132 GCTCGCATGCATTGTTT
1 GCTCGCATGCATTGTTT
*
36078149 GCTTGCATGCA
1 GCTCGCATGCA
36078160 GTTCACAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.38
Consensus pattern (17 bp):
GCTCGCATGCATTGTTT
Found at i:36078300 original size:27 final size:27
Alignment explanation
Indices: 36078270--36078329 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
36078260 TTACACTTCA
* *
36078270 ACACTTTGCA-AAGCATTTCACACTTTG
1 ACACTTCGCAGAA-CATCTCACACTTTG
36078297 ACACTTCGCAGAACATCTCACACTTTG
1 ACACTTCGCAGAACATCTCACACTTTG
36078324 ACACTT
1 ACACTT
36078330 GTGGAGACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (27 bp):
ACACTTCGCAGAACATCTCACACTTTG
Found at i:36078343 original size:27 final size:27
Alignment explanation
Indices: 36078287--36078375 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
36078277 GCAAAGCATT
* * *
36078287 TCACACTTTGACACTT-CGCAGAACATC
1 TCACACTTTGACACTTGTGGAG-ACAAC
36078314 TCACACTTTGACACTTGTGGAGACAAC
1 TCACACTTTGACACTTGTGGAGACAAC
* *
36078341 TCACACTTT-ACCACTTGTAGAGACAGC
1 TCACACTTTGA-CACTTGTGGAGACAAC
36078368 TCACACTT
1 TCACACTT
36078376 CACCACGAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.93
28 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
TCACACTTTGACACTTGTGGAGACAAC
Found at i:36078380 original size:27 final size:27
Alignment explanation
Indices: 36078325--36078381 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
36078315 CACACTTTGA
* *
36078325 CACTTGTGGAGACAACTCACACTTTAC
1 CACTTGTAGAGACAACTCACACTTCAC
*
36078352 CACTTGTAGAGACAGCTCACACTTCAC
1 CACTTGTAGAGACAACTCACACTTCAC
36078379 CAC
1 CAC
36078382 GAGCTGCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (27 bp):
CACTTGTAGAGACAACTCACACTTCAC
Found at i:36079222 original size:3 final size:3
Alignment explanation
Indices: 36079214--36079260 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
36079204 ATCCAACTGA
*
36079214 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
36079261 AATGGGTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36085511 original size:94 final size:92
Alignment explanation
Indices: 36085397--36085567 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 92
36085387 TATGTACGCC
* **
36085397 AGTGTTAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTATGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGA-CATGTATGG
36085462 GACATGACATCGGCATTGAGACGAGGGCT
65 GACATG-CATCGGCATTGAGACGAGGGCT
* * * *
36085491 AGTGTAAGATATGTCTGGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACTTGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACATGTATGGG
36085556 ACATGCATCGGC
66 ACATGCATCGGC
36085568 CTCAAGATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 50 0.71
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACATGTATGGG
ACATGCATCGGCATTGAGACGAGGGCT
Found at i:36085585 original size:46 final size:45
Alignment explanation
Indices: 36085394--36085694 Score: 193
Period size: 46 Copynumber: 6.6 Consensus size: 45
36085384 AGATATGTAC
* *
36085394 GCCAGTGTTAGACATGTCTGGGACATGCATCGGCC-ACATA-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACA-AGAT--GT
* * * * *
36085440 GCCAGTGTAAGACCATGTATGGGACATGACATCGGCATTGAGACGA-GG
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CT-ACAAGATGT
* * ** *
36085488 GCTAGTGTAAGATATGTCTGGGACATGCATCAACC-ACATTATGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACA--A-GATGT
* *
36085534 GCCAGTGTAAGACTTGTTTGGGACATGCATCGGCCT-CAAGATGTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATG-T
* * * *
36085579 ATCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATGT
* * **** *
36085624 GCTAGTGTAAGACATGTCTGGGACATACATCGGCACGGTTACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTACAAGATGT
* *
36085670 GTCAGTGTAAGACCTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
36085695 CGGTATCGAC
Statistics
Matches: 198, Mismatches: 41, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.02
44 30 0.15
45 3 0.02
46 112 0.57
47 27 0.14
48 19 0.10
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATGT
Found at i:36088055 original size:36 final size:36
Alignment explanation
Indices: 36088007--36088076 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
36087997 CTAAAAATAG
36088007 AATAAAAGAAAGAAAAGAAAGATATCATCTTTTCAT
1 AATAAAAGAAAGAAAAGAAAGATATCATCTTTTCAT
*
36088043 AATAAAATAAAGAAAAGAAAGATATCATCTTTTC
1 AATAAAAGAAAGAAAAGAAAGATATCATCTTTTC
36088077 TTCATCTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.26
Consensus pattern (36 bp):
AATAAAAGAAAGAAAAGAAAGATATCATCTTTTCAT
Found at i:36096165 original size:42 final size:42
Alignment explanation
Indices: 36096004--36096158 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
36095994 TACCATACCA
* * *
36096004 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * * * *
36096046 ATGCCAATAGCCCAGCTATAGTCTTAAACGAAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
36096089 ATGCCATATCGCAAATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
36096131 ATGCCATATCTCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
36096159 ATAGTCTTAG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 60 0.65
43 32 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:36102039 original size:26 final size:26
Alignment explanation
Indices: 36102003--36102164 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
36101993 ACATGAAATT
36102003 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
36102029 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
36102055 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
36102081 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
36102107 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
36102133 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
36102159 TTATCA
1 TTATCA
36102165 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 125 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:36102136 original size:78 final size:78
Alignment explanation
Indices: 36102003--36102164 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
36101993 ACATGAAATT
*
36102003 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
36102068 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
36102081 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
36102146 TTTACCTAACCTA
66 TTTACCTAACCTA
36102159 TTATCA
1 TTATCA
36102165 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:36103559 original size:46 final size:46
Alignment explanation
Indices: 36103509--36103684 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
36103499 TGGTTGAGCA
36103509 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36103555 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
36103600 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
36103648 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36103685 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36103665 original size:93 final size:93
Alignment explanation
Indices: 36103506--36103676 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
36103496 GGATGGTTGA
* *
36103506 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36103571 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
36103599 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36103664 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36103677 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36106656 original size:15 final size:15
Alignment explanation
Indices: 36106636--36106704 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36106626 GTATCTTGGG
36106636 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36106651 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36106666 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36106681 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36106696 TTTCTTTAT
1 TTTCTTTAT
36106705 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36106705 original size:30 final size:30
Alignment explanation
Indices: 36106627--36106714 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
36106617 CATAGTATCG
* * * *
36106627 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
36106657 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
36106687 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
36106715 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:36108874 original size:46 final size:46
Alignment explanation
Indices: 36108824--36108999 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
36108814 TGGTTGAGCA
36108824 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36108870 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
36108915 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
36108963 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36109000 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36108980 original size:93 final size:93
Alignment explanation
Indices: 36108821--36108991 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
36108811 GGATGGTTGA
* *
36108821 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36108886 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
36108914 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36108979 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36108992 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36114517 original size:20 final size:21
Alignment explanation
Indices: 36114479--36114525 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
36114469 TATATAAGTT
* *
36114479 ATATATGTTATAATTAATCTTA
1 ATATATGTTACAA-TAATCATA
36114501 ATATATGTTACAA-AATCATA
1 ATATATGTTACAATAATCATA
36114521 ATATA
1 ATATA
36114526 ATAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATGTTACAATAATCATA
Found at i:36116601 original size:10 final size:10
Alignment explanation
Indices: 36116583--36116616 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
36116573 TTGAATGGTA
36116583 TTTGGCATGT
1 TTTGGCATGT
* *
36116593 TTTGACATGA
1 TTTGGCATGT
36116603 TTTGGCATGT
1 TTTGGCATGT
36116613 TTTG
1 TTTG
36116617 TAATGGGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.50
Consensus pattern (10 bp):
TTTGGCATGT
Found at i:36119290 original size:40 final size:38
Alignment explanation
Indices: 36119241--36119380 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 38
36119231 TGCTGGAAAT
* * *
36119241 TATAACCGGGTTAAGACCCGAAGGTAATTGTGCTAGTAG
1 TATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTAG
* *
36119280 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TATATCCGGGCTAAGACCCGAAGGAATT-GTGCAAGTAG
* * * *
36119320 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTAG
* *
36119360 TGATATCCGGGTTAAGTCCCG
1 T-ATATCCGGGCTAAGACCCG
36119381 TAGGCCTTGG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
39 4 0.05
40 77 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGAATTGTGCAAGTAG
Found at i:36127359 original size:40 final size:39
Alignment explanation
Indices: 36127271--36127453 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
36127261 AAATTGAATG
* * * *
36127271 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGCAA-T-TG-TGCAAGTCGT
* * * *
36127311 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCG-T
*
36127351 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTCGT
* *
36127390 -TAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 AT-ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
* * *
36127429 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
36127454 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
37 4 0.03
38 3 0.03
39 36 0.31
40 74 0.63
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
Found at i:36147861 original size:44 final size:44
Alignment explanation
Indices: 36147798--36147888 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
36147788 TTGTTGCTGA
36147798 TGCTTTAAGTTGAAAATTACTGTTTGTTTTGCGTTCAATGAATG
1 TGCTTTAAGTTGAAAATTACTGTTTGTTTTGCGTTCAATGAATG
36147842 TGCTTTAAGTTGAAAATTACTGTTTGTTTTGCGTTCAATGAATG
1 TGCTTTAAGTTGAAAATTACTGTTTGTTTTGCGTTCAATGAATG
36147886 TGC
1 TGC
36147889 ATATGACCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (44 bp):
TGCTTTAAGTTGAAAATTACTGTTTGTTTTGCGTTCAATGAATG
Found at i:36155411 original size:41 final size:41
Alignment explanation
Indices: 36155354--36155436 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
36155344 AAAATAGGTA
36155354 TGGTTGATAAATGGGTTTAATGTAGAGTTTGGATTATATGC
1 TGGTTGATAAATGGGTTTAATGTAGAGTTTGGATTATATGC
36155395 TGGTTGATAAATGGGTTTAATGTAGAGTTTGGATTATATGC
1 TGGTTGATAAATGGGTTTAATGTAGAGTTTGGATTATATGC
36155436 T
1 T
36155437 CGTAAGTCAA
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:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (41 bp):
TGGTTGATAAATGGGTTTAATGTAGAGTTTGGATTATATGC
Found at i:36159183 original size:46 final size:46
Alignment explanation
Indices: 36159111--36159288 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
36159101 TGTAACCCGC
* *
36159111 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
* *
36159157 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TTGCAT
* * * **
36159207 -C-TCA-CGAACTCGGACTCAACTCAACTAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
36159250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
36159289 CCTAAACATC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
Found at i:36159278 original size:93 final size:93
Alignment explanation
Indices: 36159119--36159292 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
36159109 GCCCATAAGT
*** *
36159119 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
36159184 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
36159212 GAACTCGGACTCAACTCAACTAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
36159277 CGAGTTCGGATGCCTA
66 CGAGTTCGGATGCCTA
36159293 AACATCCTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:36161723 original size:30 final size:30
Alignment explanation
Indices: 36161688--36161767 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
36161678 CAAGGAAACC
*
36161688 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* * *
36161718 GAATAAAG-AATTCTAGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
36161748 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
36161768 TGATACTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 6 0.15
30 29 0.73
31 5 0.12
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:36161727 original size:15 final size:15
Alignment explanation
Indices: 36161688--36161758 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
36161678 CAAGGAAACC
36161688 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
36161703 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
* *
36161718 GAATAAAGAATTCTA
1 GAATAAAGAAATCCA
*
36161733 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
36161748 GGATAAAGAAA
1 GAATAAAGAAA
36161759 CCCAAGATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:36161767 original size:15 final size:15
Alignment explanation
Indices: 36161690--36161767 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
36161680 AGGAAACCGA
36161690 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
36161705 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
36161719 AATAAAG-AATTCTAG
1 -ATAAAGAAATCCAAG
* *
36161734 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
36161750 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
36161765 ATA
1 ATA
36161768 TGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 6 0.12
15 40 0.80
16 4 0.08
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:36162321 original size:21 final size:21
Alignment explanation
Indices: 36162297--36162341 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
36162287 CAGTTAAATT
36162297 ATTCAATTACAGAAATATTTC
1 ATTCAATTACAGAAATATTTC
36162318 ATTCAATTACAGAAATATTTC
1 ATTCAATTACAGAAATATTTC
36162339 ATT
1 ATT
36162342 TCAGTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTCAATTACAGAAATATTTC
Found at i:36167707 original size:28 final size:28
Alignment explanation
Indices: 36167667--36167721 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
36167657 CATCGGGTGG
36167667 GAAAATCCATTTTCTTTTAGTCATTTAA
1 GAAAATCCATTTTCTTTTAGTCATTTAA
36167695 GAAAATCCATTTTCTTTTAGTCATTTA
1 GAAAATCCATTTTCTTTTAGTCATTTA
36167722 GGATGCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (28 bp):
GAAAATCCATTTTCTTTTAGTCATTTAA
Found at i:36174193 original size:27 final size:27
Alignment explanation
Indices: 36174175--36174226 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
36174165 ATAGTGAGTC
36174175 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
36174202 CGCACACTTAGTGCTATATGATCAA
1 CGCACACTCAGTGCTATATAATCAA
36174227 ACTCAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:36182015 original size:26 final size:27
Alignment explanation
Indices: 36181998--36182048 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
36181988 ATAGTGAGTC
36181998 CGCACAC-TAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
36182024 CGCACACTTAGTGCTATATGATCAA
1 CGCACACTTAGTGCTATATAATCAA
36182049 ACTCAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36185138 original size:17 final size:17
Alignment explanation
Indices: 36185107--36185140 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36185097 GATTTGCAAA
**
36185107 GAACCTAAATCAGTTGT
1 GAACCTAAAAAAGTTGT
36185124 GAACCTAAAAAAGTTGT
1 GAACCTAAAAAAGTTGT
36185141 TGCTATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (17 bp):
GAACCTAAAAAAGTTGT
Found at i:36185463 original size:15 final size:15
Alignment explanation
Indices: 36185445--36185485 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
36185435 TTAGTTTAAA
36185445 ATTATTTTTTGAATT
1 ATTATTTTTTGAATT
36185460 ATTATTTTTT--A-T
1 ATTATTTTTTGAATT
36185472 A-TATTTTTTGAATT
1 ATTATTTTTTGAATT
36185486 TTTTAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
ATTATTTTTTGAATT
Found at i:36188061 original size:8 final size:8
Alignment explanation
Indices: 36188048--36188073 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36188038 ATTACAGTCC
36188048 AAAATAAT
1 AAAATAAT
36188056 AAAATAAT
1 AAAATAAT
36188064 AAAATAAT
1 AAAATAAT
36188072 AA
1 AA
36188074 GGTTTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:36188449 original size:21 final size:21
Alignment explanation
Indices: 36188403--36188449 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
36188393 TGGACAAGCT
*
36188403 ACCAGATATTGTAGATATACT
1 ACCAGATATTGTAGATATACC
* *
36188424 TCCAGA-ATATGTGGATATACC
1 ACCAGATAT-TGTAGATATACC
36188445 ACCAG
1 ACCAG
36188450 GATGTGCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (21 bp):
ACCAGATATTGTAGATATACC
Found at i:36189417 original size:19 final size:19
Alignment explanation
Indices: 36189393--36189430 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36189383 TATAAATTTA
36189393 TTAACAATTTAAGAAAAGT
1 TTAACAATTTAAGAAAAGT
*
36189412 TTAACAATTTTAGAAAAGT
1 TTAACAATTTAAGAAAAGT
36189431 AAAAGGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (19 bp):
TTAACAATTTAAGAAAAGT
Found at i:36192871 original size:38 final size:38
Alignment explanation
Indices: 36192807--36192987 Score: 170
Period size: 38 Copynumber: 4.7 Consensus size: 38
36192797 ATTTGATGTG
* *
36192807 TATCTGGGCTTAAAGACCTGCAGGCTTTATGCTGGAATTA
1 TATCTGGG-TTAAA-TCCCGCAGGCTTTATGCTGGAATTA
** *
36192847 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCTGGGTTAAATCCCGCAGGCTTTATGCTGGAATTA
* * *
36192885 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
1 TATCTGGGTTAAATCCCGCAGGCTTTATGCTGGAATTA
* *
36192923 TAT-TCGGGTTAAATCCTGCAGGC-CTAGTGCT-GATATTA
1 TATCT-GGGTTAAATCCCGCAGGCTTTA-TGCTGGA-ATTA
* *
36192961 TATCTGAGTTTAAAGTCCCGTAGGCTT
1 TATCTG-GGTTAAA-TCCCGCAGGCTT
36192988 CGTGCTGGTG
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.02
38 88 0.75
39 12 0.10
40 16 0.14
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (38 bp):
TATCTGGGTTAAATCCCGCAGGCTTTATGCTGGAATTA
Found at i:36192953 original size:76 final size:78
Alignment explanation
Indices: 36192816--36193010 Score: 234
Period size: 76 Copynumber: 2.5 Consensus size: 78
36192806 GTATCTGGGC
* * * * * * *
36192816 TTAAAGACCTGCAGGCTTTATGCTGGAATTATA-TCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATTC-GGGTTAAATCCCGCAGGCCTAGTGCTGA
36192880 TATTATATCCG-GG
65 TATTATATCCGAGG
*
36192893 TTAAA-TCCCGCAGGCTTTGTGCTGGTATTATATTCGGGTTAAATCCTGCAGGCCTAGTGCTGAT
1 TTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATTCGGGTTAAATCCCGCAGGCCTAGTGCTGAT
* *
36192957 ATTATATCTGAGT
66 ATTATATCCGAGG
* * * *
36192970 TTAAAGTCCCGTAGGCTTCGTGCTGGTGTTATGTTCGGGTT
1 TTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATTCGGGTT
36193011 TATACCTCGC
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
76 57 0.56
77 13 0.13
78 31 0.31
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (78 bp):
TTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATTCGGGTTAAATCCCGCAGGCCTAGTGCTGAT
ATTATATCCGAGG
Found at i:36204910 original size:39 final size:39
Alignment explanation
Indices: 36204867--36205028 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
36204857 TATGGTAACC
** *
36204867 CGCACAAACGCCTTCGGGACTTA-ACCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
36204906 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
36204945 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
36204984 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
36205023 CGCACA
1 CGCACA
36205029 TTCATTCACA
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 4 0.04
39 110 0.96
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:36211158 original size:4 final size:4
Alignment explanation
Indices: 36211149--36211248 Score: 110
Period size: 4 Copynumber: 25.0 Consensus size: 4
36211139 TTAAAAGTAC
* * * * * *
36211149 ACAT ACAT ACAT ACGT ACAT ACAT GCAT ACAT GCAT GCAT GCAT CCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
36211197 GCAT GCAT ACAT GCAT ACAA ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
36211245 ACAT
1 ACAT
36211249 CCAAGCTGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 84 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:36211503 original size:21 final size:21
Alignment explanation
Indices: 36211454--36211503 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36211444 CTTGTAAGCA
*
36211454 AGATACACGGCTGTGTGGCTG
1 AGATACACGGCTGTGTGACTG
*
36211475 AGACACAC-GCTCGTGTGACTG
1 AGATACACGGCT-GTGTGACTG
*
36211496 AGGTACAC
1 AGATACAC
36211504 AACCGTGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (21 bp):
AGATACACGGCTGTGTGACTG
Found at i:36213021 original size:165 final size:162
Alignment explanation
Indices: 36212743--36213075 Score: 465
Period size: 165 Copynumber: 2.0 Consensus size: 162
36212733 GTTTTTAATA
* ** *
36212743 ATTTTTATGTTTTTGAAGTCGTTGTAGCTTTTTCTAGCTAGCCTAGAGACTATTTTGCAAAAATA
1 ATTTTTATGTTTTTGAAGTCGCTGTAGCTTAATCTAGCTAGCCTAGAGACTAATTTGCAAAAATA
* * *
36212808 TTAAAGTTTTAGGGTTTTTCCATGAGAATTTTTGCATGATTTTTGAAATTTAATGAAATATTATG
66 TTAAAGGTTTAGGGTTTTTCCATGAGAATTTTTGCATGATTCTTGAAATTTAATGAAAGATTATG
36212873 AGTCATTGTTGTTAAATAAACAAGTTTTGTAAAT-G
131 AG----TGTTGTTAAATAAACAAGTTTTGTAAATGG
* *
36212908 ATTTTTATGTTTTTGAAGTCGCTGTAGCTTAATCTAGCTAGCCTAGGGACTAATTTGC-AAAATT
1 ATTTTTATGTTTTTGAAGTCGCTGTAGCTTAATCTAGCTAGCCTAGAGACTAATTTGCAAAAATA
* * * *
36212972 TATAAAGGTTTAGGGTTTTTCCTTGAGCATATTTT-CTTGATTCTTGAAATTTAATGAACGATTA
66 T-TAAAGGTTTAGGGTTTTTCCATGAGAAT-TTTTGCATGATTCTTGAAATTTAATGAAAGATTA
*
36213036 TGAGTGTTGTTAAATAAACAAGTTTTTTAAATGG
129 TGAGTGTTGTTAAATAAACAAGTTTTGTAAATGG
36213070 ATTTTT
1 ATTTTT
36213076 GATGAAATTA
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
161 27 0.18
162 7 0.05
164 6 0.04
165 107 0.71
166 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (162 bp):
ATTTTTATGTTTTTGAAGTCGCTGTAGCTTAATCTAGCTAGCCTAGAGACTAATTTGCAAAAATA
TTAAAGGTTTAGGGTTTTTCCATGAGAATTTTTGCATGATTCTTGAAATTTAATGAAAGATTATG
AGTGTTGTTAAATAAACAAGTTTTGTAAATGG
Found at i:36215472 original size:40 final size:40
Alignment explanation
Indices: 36215428--36215613 Score: 306
Period size: 39 Copynumber: 4.7 Consensus size: 40
36215418 GCTACTTGCT
36215428 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
36215468 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
36215507 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
36215547 CAAATGCCTTC-GGACTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
36215585 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
36215614 CATCCGAATA
Statistics
Matches: 135, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 20 0.15
39 65 0.48
40 50 0.37
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:36215526 original size:79 final size:78
Alignment explanation
Indices: 36215428--36215613 Score: 318
Period size: 79 Copynumber: 2.4 Consensus size: 78
36215418 GCTACTTGCT
* **
36215428 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGAA
*
36215493 TATAGTAACTCGCA
66 T-TAGTAACTAGCA
36215507 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGAA
*
36215572 TTAGTCACTAGCA
66 TTAGTAACTAGCA
36215585 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
36215614 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 39 0.38
79 63 0.62
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGAA
TTAGTAACTAGCA
Found at i:36218503 original size:40 final size:40
Alignment explanation
Indices: 36218458--36218624 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36218448 CGGAATATAA
36218458 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36218498 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36218538 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
36218578 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36218617 CCGGATAT
1 CCGGATAT
36218625 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36226500 original size:40 final size:40
Alignment explanation
Indices: 36226455--36226622 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36226445 CGGAATATAA
36226455 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36226495 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36226535 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
36226575 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36226615 CCGGATAT
1 CCGGATAT
36226623 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36227875 original size:56 final size:55
Alignment explanation
Indices: 36227814--36227918 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 55
36227804 CCTTAGTATT
36227814 TTCGGCC-AAGAAGATGAGAAAGGATGAACAAATTTTTCTTTT-CTTTCTTTAGGACA
1 TTCGGCCAAAG-AGATGAGAAAGGATGAAC-AATTTTT-TTTTCCTTTCTTTAGGACA
* * * *
36227870 TTCGGCCAAAGTGTTTAGAATGGATGAACAATTTTTTTTTCCTTTCTTT
1 TTCGGCCAAAGAGATGAGAAAGGATGAACAATTTTTTTTTCCTTTCTTT
36227919 TTCCTTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
54 4 0.09
55 15 0.35
56 21 0.49
57 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (55 bp):
TTCGGCCAAAGAGATGAGAAAGGATGAACAATTTTTTTTTCCTTTCTTTAGGACA
Found at i:36233229 original size:40 final size:40
Alignment explanation
Indices: 36233172--36233329 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
36233162 CGGATATGGC
* * *
36233172 AACTCGCTCAAAGGCCTTCGGGACATAGCCCGG-TTATAAT
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAT
* * **
36233212 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGT
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAT
* * **
36233252 AACTCGCACAATTGCCTTCGGGA-ATTAACCTGGATTTGGT
1 AACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTAAT
*
36233292 AACTTGCACAAATGCCTTCGGGA-ATTAACCCGGATTTA
1 AACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTA
36233330 GCCACTTAGC
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
40 99 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAT
Found at i:36233365 original size:41 final size:40
Alignment explanation
Indices: 36233217--36233354 Score: 195
Period size: 40 Copynumber: 3.4 Consensus size: 40
36233207 ATAATAGCTC
* *
36233217 GCACAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTC
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTT
* *
36233257 GCACAATTGCCTTCGGGAATTAACCTGGATTTGGTAACTT
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTT
* **
36233297 GCACAAATGCCTTCGGGAATTAACCCGGATTTAGCCACTT
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTT
*
36233337 AGCACAAAAGCCTTCGGG
1 -GCACAAATGCCTTCGGG
36233355 GCTTAGCCCG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 71 0.82
41 16 0.18
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTT
Found at i:36238341 original size:43 final size:41
Alignment explanation
Indices: 36238198--36238353 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 41
36238188 ATATCGTACA
* * * * * * *
36238198 ATGCCAACGTCCCAGACGTGGCCTTACATGCCATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATA-CG
* * * *
36238241 ATGCCACTATCCCAGATAGGGTCTTACACGAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATACG
* * *
36238282 ATGCCAATGTCCCAGACATGGTTTTACACGTAATTACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATA-CG
* * *
36238325 ATGCTAATGTCTCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
36238354 AAGAACACAT
Statistics
Matches: 89, Mismatches: 22, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
41 26 0.29
42 14 0.16
43 49 0.55
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATACG
Found at i:36241554 original size:50 final size:49
Alignment explanation
Indices: 36241468--36241583 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 49
36241458 GTGAGAACAC
** *
36241468 GTGTAGTACTAAGTGCAGGCTACTACGTGTGTCAGATGGTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT-GGTCACAT
* * * *
36241518 GTGTAGTACCAAGTGTAGGCTACTACGTGTACCAGATTGTTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGGTCACAT
*
36241567 GTGTACTACTAAGTGCA
1 GTGTAGTACTAAGTGCA
36241584 AGTTACTATA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 20 0.36
50 36 0.64
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGGTCACAT
Found at i:36241824 original size:16 final size:15
Alignment explanation
Indices: 36241803--36241832 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36241793 GAATGGAGTA
36241803 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
36241819 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
36241833 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:36244663 original size:53 final size:53
Alignment explanation
Indices: 36244595--36244699 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
36244585 TTCCTTTTTA
* * * *
36244595 AACTTACCATTGCCATGTCTTGACATGGTATTCCGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTATTCCATGGGATCCTTGCCTTATG
* * *
36244648 AACTCACCATTGCCATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTATTCCATGGGATCCTTGCCTTAT
36244700 AGTAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTATTCCATGGGATCCTTGCCTTATG
Found at i:36256689 original size:40 final size:40
Alignment explanation
Indices: 36256590--36256780 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
36256580 TGGATGATAA
* * * * **
36256590 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
36256630 CCGGGC-AAGTCCCAAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
36256669 CCGGGCTAAGTCCCGAAGGCAGTTGTGCCAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
36256709 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
36256749 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
36256781 AGCTATATCC
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 32 0.24
40 99 0.74
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:36263001 original size:50 final size:49
Alignment explanation
Indices: 36262880--36263061 Score: 161
Period size: 50 Copynumber: 3.7 Consensus size: 49
36262870 ATTGTGAGAA
* * * * * *
36262880 CACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCTGAAA-ACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG--TGCATCAAATAGTT-GGT
* *
36262931 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAAATAGTT-GGT
* * * ** *
36262981 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAAATAGTTGGT
* *
36263030 CGA-ATGTATAATACTAAGTGCAGGCTACTATG
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTATG
36263062 CGTACCAGGT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 36 0.33
50 44 0.40
51 30 0.27
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAAATAGTTGGT
Found at i:36263067 original size:49 final size:50
Alignment explanation
Indices: 36262942--36263068 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 50
36262932 ACGTGTGTAG
* * * *
36262942 TACTAAGTGCAGGCTACTATGTGCATCAAATGGTTAGGTCACATGTGTAG
1 TACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGTCACATGTATAA
* ** *
36262992 TACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGA-ATGTATAA
1 TACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGTC-ACATGTATAA
*
36263041 TACTAAGTGCAGGCTACTATGCGTACCA
1 TACTAAGTGCAGGCTACTATGTGTACCA
36263069 GGTAGCTTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 35 0.54
50 30 0.46
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGTCACATGTATAA
Found at i:36268100 original size:2 final size:2
Alignment explanation
Indices: 36268093--36268125 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
36268083 CCAATGCCAC
36268093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36268126 GGGCTTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.