Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 162 of 235
Found at i:54665917 original size:29 final size:29
Alignment explanation
Indices: 54665854--54665921 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
54665844 TAATCAACCG
54665854 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54665883 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54665912 CGCACACTTA
1 CGCACACTTA
54665922 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54666034 original size:174 final size:174
Alignment explanation
Indices: 54665743--54666070 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
54665733 CACTCAAGGT
* * *
54665743 ACTTACCTTTTCCGCTGTCCAAAATTGATTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54665808 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
54665873 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
54665917 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54665982 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
54666047 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
54666071 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:54666064 original size:29 final size:30
Alignment explanation
Indices: 54666030--54666101 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
54666020 ATCAACCACG
*
54666030 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
54666059 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
54666088 CACACTTAGTGCCA
1 CACACTTAGTGCCA
54666102 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:54671422 original size:68 final size:65
Alignment explanation
Indices: 54671207--54671460 Score: 205
Period size: 68 Copynumber: 3.9 Consensus size: 65
54671197 CATGTAGTTC
* * * *
54671207 AGCTCTCTTGTACACATGGTGGACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTTG
1 AGCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTTG
54671269 T
65 T
* * * * * ** * *
54671270 AGCTCTCTTGTCCACATGGTGTCCTTCACCTGGAACCATGCATGGGACCTAGCTACATATA-TCC
1 AGCTCTCTTGTACACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCT
54671334 TGT
63 TGT
*
54671337 AGCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 AGCTCTCTTGTAC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TC
54671401 TTGT
62 TTGT
* * * ** *
54671405 AGCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 AGCTCTCTTGTACACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
54671461 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
63 20 0.13
64 26 0.17
65 2 0.01
66 23 0.15
67 29 0.19
68 51 0.34
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (65 bp):
AGCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTTGT
Found at i:54672160 original size:30 final size:30
Alignment explanation
Indices: 54672126--54672186 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54672116 TCATTAAATC
54672126 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
54672156 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
54672186 A
1 A
54672187 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:54673139 original size:46 final size:44
Alignment explanation
Indices: 54673066--54673248 Score: 149
Period size: 46 Copynumber: 4.0 Consensus size: 44
54673056 GGGTTACTTG
* * *
54673066 TGTGCTAGTGTAAGTCATGCCTGGGACATGCATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA
* *
54673110 TGTAAGCCAGTGTAAGACATATCTGGGACATGCATTGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
* * *
54673156 TGTGTCAGTGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGA
1 TGTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTACG---AGA
* * *
54673204 GGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG-TAC-AGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA
54673248 T
1 T
54673249 ATGTGAGAGC
Statistics
Matches: 116, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
44 18 0.16
45 16 0.14
46 44 0.38
48 37 0.32
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:54673216 original size:48 final size:45
Alignment explanation
Indices: 54673120--54673238 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 45
54673110 TGTAAGCCAG
* * *
54673120 TGTAAGACATATCTGGGACAT-GCATTGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
*
54673164 TGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGAGGTGTCAA
1 TGTAAGAC-ATGTCTGGGACATGGCATTGGCTACG---AGAGGTGTCAA
54673212 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGA-CATGTCTGGGACATGGCAT
54673239 CGGTACAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 8 0.12
45 14 0.22
46 8 0.12
48 33 0.52
49 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
Found at i:54673275 original size:50 final size:49
Alignment explanation
Indices: 54673212--54673486 Score: 250
Period size: 49 Copynumber: 5.6 Consensus size: 49
54673202 GAGGTGTCAA
54673212 TGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTACA-ATATGTGAGAGCTAG
* ** *
54673262 TGTAAGACCATGTCCGGGACATGGTGTCGGCCT-CAAT-T-TCGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG--TACAATATGT-GAGAGCT-AG
54673311 TGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTACA-ATATGTGAGAGCTAG
* ** *
54673361 TGTAAGACCATGTCCGGGACATGGTGTCGGCCT-CAAT-T-TCGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG--TACAATATGT-GAGAGCT-AG
* *
54673410 TGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATG-GATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTACAAT-ATGTGA-GAGCTAG
**
54673457 TGTAAGACCATGTCTACGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
54673487 CATTATACCC
Statistics
Matches: 185, Mismatches: 20, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
45 1 0.01
46 3 0.02
47 32 0.17
48 8 0.04
49 68 0.37
50 65 0.35
51 6 0.03
52 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTACAATATGTGAGAGCTAG
Found at i:54673332 original size:99 final size:99
Alignment explanation
Indices: 54673207--54673438 Score: 455
Period size: 99 Copynumber: 2.3 Consensus size: 99
54673197 GTATAGAGGT
*
54673207 GTCAATGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAGTGTAAGACCA
54673272 TGTCCGGGACATGGTGTCGGCCTCAATTTCGATA
66 TGTCCGGGACATGGTGTCGGCCTCAATTTCGATA
54673306 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAGTGTAAGACCA
54673371 TGTCCGGGACATGGTGTCGGCCTCAATTTCGATA
66 TGTCCGGGACATGGTGTCGGCCTCAATTTCGATA
54673405 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
54673439 ACTTGATGGA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 132 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (99 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGTGAGAGCTAGTGTAAGACCA
TGTCCGGGACATGGTGTCGGCCTCAATTTCGATA
Found at i:54684015 original size:40 final size:39
Alignment explanation
Indices: 54683978--54684194 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
54683968 ATATCCGGAC
54683978 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
54684018 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
54684058 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * **
54684098 TAGGTCCCGAAAGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
54684138 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA-CCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
54684176 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
54684195 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 20 0.13
39 16 0.10
40 117 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:54698071 original size:85 final size:85
Alignment explanation
Indices: 54697977--54698182 Score: 412
Period size: 85 Copynumber: 2.4 Consensus size: 85
54697967 GGCCGGCCAT
54697977 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
54698042 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
54698062 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
54698127 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
54698147 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACAT
54698183 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 121 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:54712423 original size:79 final size:80
Alignment explanation
Indices: 54712287--54712471 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
54712277 TCGAATGATG
* *
54712287 TCCGGGCTAAATCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAACGCATT
1 TCCGGGCT-AAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAACGCATT
54712351 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * ** *
54712366 TTCCGGGCTAAGCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAACGCAT
*
54712429 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
54712446 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
54712472 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.67
80 29 0.32
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAACGCATTT
GTGCGAGATACTATA
Found at i:54712478 original size:40 final size:40
Alignment explanation
Indices: 54712287--54712471 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
54712277 TCGAATGATG
* * * * *
54712287 TCCGGGCTAAATCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
54712327 TCCGGACTAAGAT-CCGAACGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54712367 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54712406 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54712447 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54712472 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54712493 original size:79 final size:79
Alignment explanation
Indices: 54712340--54712504 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54712330 GGACTAAGAT
* * ***
54712340 CCGAACGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54712405 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54712419 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54712482 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54712498 CCGAAGG
1 CCGAAGG
54712505 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54716773 original size:26 final size:24
Alignment explanation
Indices: 54716706--54716764 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
54716696 CAATTAATGA
* *
54716706 ATAATAAAATAATACA--TAATTT
1 ATAATAAAATAAGAAATGTAATTT
54716728 ATAATAAAATAAGAAATGTAATTT
1 ATAATAAAATAAGAAATGTAATTT
54716752 ATATATTAAAATA
1 ATA-A-TAAAATA
54716765 TATAATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 14 0.45
24 9 0.29
25 1 0.03
26 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (24 bp):
ATAATAAAATAAGAAATGTAATTT
Found at i:54716787 original size:12 final size:12
Alignment explanation
Indices: 54716768--54716804 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
54716758 TAAAATATAT
54716768 AATGTATAATAA
1 AATGTATAATAA
*
54716780 AATTTATAAATAA
1 AATGTAT-AATAA
54716793 AATGTATAATAA
1 AATGTATAATAA
54716805 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:54716793 original size:13 final size:13
Alignment explanation
Indices: 54716768--54716838 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 13
54716758 TAAAATATAT
54716768 AATGTAT-AATAA
1 AATGTATAAATAA
*
54716780 AATTTATAAATAA
1 AATGTATAAATAA
54716793 AATGTATAATAATATA
1 AATGTAT-A-AATA-A
*
54716809 AAT-AATATAATGAA
1 AATGTATA-AAT-AA
54716823 TAATGTATAAATAA
1 -AATGTATAAATAA
54716837 AA
1 AA
54716839 AATAATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.12
13 13 0.27
14 9 0.19
15 13 0.27
16 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:54716809 original size:33 final size:33
Alignment explanation
Indices: 54716747--54716809 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
54716737 TAAGAAATGT
* *
54716747 AATTTATATATTAAAATATATAATGTATAATAA
1 AATTTATATAATAAAATATATAATATATAATAA
*
54716780 AATTTATA-AATAAAATGTATAATAATATAA
1 AATTTATATAATAAAATATATAAT-ATATAA
54716810 ATAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (33 bp):
AATTTATATAATAAAATATATAATATATAATAA
Found at i:54716813 original size:25 final size:25
Alignment explanation
Indices: 54716768--54716837 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
54716758 TAAAATATAT
* **
54716768 AATGTATAATAAAATTTATAAATAA
1 AATGTATAATAATATAAATAAATAA
*
54716793 AATGTATAATAATATAAAT-AATAT
1 AATGTATAATAATATAAATAAATAA
* *
54716817 AATGAATAAT-GTATAAATAAA
1 AATGTATAATAATATAAATAAA
54716838 AAATAATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 7 0.18
24 15 0.39
25 16 0.42
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
AATGTATAATAATATAAATAAATAA
Found at i:54716845 original size:21 final size:20
Alignment explanation
Indices: 54716783--54716845 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
54716773 ATAATAAAAT
*
54716783 TTATAAATAAAATGTATAATAA
1 TTATAAATAAAA--AATAATAA
*
54716805 -TATAAATAATATAATGAATAA
1 TTATAAATAA-AAAAT-AATAA
54716826 TGTATAAATAAAAAATAATA
1 T-TATAAATAAAAAATAATA
54716846 TATATANNNN
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 18 0.53
22 5 0.15
23 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TTATAAATAAAAAATAATAA
Found at i:54718794 original size:30 final size:30
Alignment explanation
Indices: 54718760--54718820 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54718750 CATTTAATAC
54718760 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
54718790 AAACTTTTGCATAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
54718820 A
1 A
54718821 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:54720698 original size:19 final size:19
Alignment explanation
Indices: 54720662--54720697 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
54720652 GTAAAGGACT
*
54720662 TTTATTATTTTTGTTTTTA
1 TTTATTATTTCTGTTTTTA
54720681 TTTATT-TTTCTGTTTTT
1 TTTATTATTTCTGTTTTT
54720698 TCTAGGCCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTATTATTTCTGTTTTTA
Found at i:54721019 original size:44 final size:44
Alignment explanation
Indices: 54720959--54721469 Score: 623
Period size: 44 Copynumber: 11.6 Consensus size: 44
54720949 CTCCTTGCCT
* * * *
54720959 AATACGGAGAGGCCACATCTG-TCATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGTC
* * * * *
54721003 AATACAGAGACGCCACATCTACTATCTCCGATCTGCTCTCCGTT
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
*
54721047 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
54721091 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
*
54721135 AATACAGAGACCCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
54721179 AATACAGAGACGCCAAATTTGCTATCTTCAATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * *
54721223 AATACAAAGATGTCAAATCTGCTATCTTTGATCTGCTCTCTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * *
54721267 AATACAGAGATGCCAAATCT-ATCATTTTTGATCTGTTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGTC
* * *
54721311 AATACAGAGACGCCACATCTGCTATCTTCGACCTGCTCTCTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
54721355 AATACAGAGATGCCAAACCTGTTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * **
54721399 AATACAGAGATGCCAAATCCG-TCATATTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGTC
** *
54721443 AATACAGAGATACCAAATCGGCTATCT
1 AATACAGAGACGCCAAATCTGCTATCT
54721470 GTGATCTATA
Statistics
Matches: 407, Mismatches: 55, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
43 2 0.00
44 402 0.99
45 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
Found at i:54725960 original size:20 final size:20
Alignment explanation
Indices: 54725935--54725982 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
54725925 AGAGGTCAAC
*
54725935 AGAATATTGATCGGTATAAA
1 AGAATATTGAACGGTATAAA
54725955 AGAATATTGAACGGTATAAA
1 AGAATATTGAACGGTATAAA
54725975 AGAATATT
1 AGAATATT
54725983 CACTCGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (20 bp):
AGAATATTGAACGGTATAAA
Found at i:54730824 original size:27 final size:27
Alignment explanation
Indices: 54730793--54730970 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54730783 TAAATTGTAC
54730793 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54730820 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54730846 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54730874 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54730902 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54730929 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54730956 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54730971 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54730907 original size:82 final size:81
Alignment explanation
Indices: 54730794--54730949 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54730784 AAATTGTACA
* *
54730794 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54730858 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54730875 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
54730940 TGCGAGTTGA
65 TGCGAATTGA
54730950 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54730961 original size:82 final size:81
Alignment explanation
Indices: 54730790--54730970 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
54730780 GATTAAATTG
* *
54730790 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54730855 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54730871 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54730935 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54730953 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54730971 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54745897 original size:26 final size:24
Alignment explanation
Indices: 54745841--54745908 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
54745831 CAATTAATGA
* *
54745841 ATAATAAAATAATACA--TAATTT
1 ATAATAAAATAAAAAATGTAATTT
54745863 ATAATAAAATAAAAAATGTAATTT
1 ATAATAAAATAAAAAATGTAATTT
* *
54745887 ATATAGTAAAATATATAATGTA
1 ATA-A-TAAAATAAAAAATGTA
54745909 TAATAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.37
24 9 0.24
25 1 0.03
26 14 0.37
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
ATAATAAAATAAAAAATGTAATTT
Found at i:54745944 original size:33 final size:33
Alignment explanation
Indices: 54745882--54745944 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
54745872 TAAAAAATGT
* *
54745882 AATTTATATAGTAAAATATATAATGTATAATAA
1 AATTTATATAATAAAATATATAATATATAATAA
*
54745915 AATTTATA-AATAAAATCTATAATAATATAA
1 AATTTATATAATAAAATATATAAT-ATATAA
54745945 ATAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (33 bp):
AATTTATATAATAAAATATATAATATATAATAA
Found at i:54745980 original size:21 final size:20
Alignment explanation
Indices: 54745918--54745980 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
54745908 ATAATAAAAT
*
54745918 TTATAAATAAAATCTATAATAA
1 TTATAAATAAAA--AATAATAA
*
54745940 -TATAAATAATATAATGAATAA
1 TTATAAATAA-AAAAT-AATAA
54745961 TGTATAAATAAAAAATAATA
1 T-TATAAATAAAAAATAATA
54745981 TATATACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 18 0.53
22 5 0.15
23 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (20 bp):
TTATAAATAAAAAATAATAA
Found at i:54746931 original size:17 final size:17
Alignment explanation
Indices: 54746909--54746948 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
54746899 CATTTGTGGG
54746909 TTGGGTGTAACCGGGTA
1 TTGGGTGTAACCGGGTA
54746926 TTGGGTGTAACCGGGTA
1 TTGGGTGTAACCGGGTA
54746943 TTGGGT
1 TTGGGT
54746949 AGTTTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.42, T:0.33
Consensus pattern (17 bp):
TTGGGTGTAACCGGGTA
Found at i:54747051 original size:15 final size:16
Alignment explanation
Indices: 54747031--54747060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54747021 TGTAAAGGAC
54747031 TTTTTA-TTATTTTTG
1 TTTTTATTTATTTTTG
54747046 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
54747061 CTGTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTTATTTTTG
Found at i:54747057 original size:19 final size:18
Alignment explanation
Indices: 54747031--54747068 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
54747021 TGTAAAGGAC
54747031 TTTTTA-TTA-TTTT-TG
1 TTTTTATTTATTTTTCTG
54747046 TTTTTATTTATTTTTCTG
1 TTTTTATTTATTTTTCTG
54747064 TTTTT
1 TTTTT
54747069 TCTGGACCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTATTTATTTTTCTG
Found at i:54750658 original size:26 final size:26
Alignment explanation
Indices: 54750592--54750672 Score: 135
Period size: 26 Copynumber: 3.0 Consensus size: 26
54750582 TACAGTGAAT
54750592 GTAATAGGAGATTATTGTAACAGTAG
1 GTAATAGGAGATTATTGTAACAGTAG
54750618 GTAATAATAGGAGATTATTGTAACAGTAG
1 G---TAATAGGAGATTATTGTAACAGTAG
54750647 GTAATAGGAGATTATTGTAACAGTAG
1 GTAATAGGAGATTATTGTAACAGTAG
54750673 CAACAGTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
26 26 0.50
29 26 0.50
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.31
Consensus pattern (26 bp):
GTAATAGGAGATTATTGTAACAGTAG
Found at i:54755487 original size:27 final size:27
Alignment explanation
Indices: 54755445--54755705 Score: 328
Period size: 27 Copynumber: 9.7 Consensus size: 27
54755435 CATACTTGAA
54755445 CCTTTATGTGATAAAATGACGATTTTGC
1 CCTTT-TGTGATAAAATGACGATTTTGC
* * *
54755473 CCCTATGTCATAAAATGACGATTTTGC
1 CCTTTTGTGATAAAATGACGATTTTGC
* * *
54755500 CTTTTTGTGATAAAATGATGATTTTTC
1 CCTTTTGTGATAAAATGACGATTTTGC
* *
54755527 CTTTTTGTGAGAAAATGACGATTTTGC
1 CCTTTTGTGATAAAATGACGATTTTGC
* * *
54755554 CTTTTTGTGATAAAATGATGATTTTTC
1 CCTTTTGTGATAAAATGACGATTTTGC
*
54755581 CCTTTTGTGATAAAATGACGATTTT-T
1 CCTTTTGTGATAAAATGACGATTTTGC
*
54755607 CCTTTATGTAATAAAATGACGATTTTGC
1 CCTTT-TGTGATAAAATGACGATTTTGC
54755635 CCTTTTGTGATAAAATGACGATTTTGC
1 CCTTTTGTGATAAAATGACGATTTTGC
* *
54755662 CCTTTTGTGATAAAATGA-TATTTTAC
1 CCTTTTGTGATAAAATGACGATTTTGC
* * *
54755688 CCTTATATGGTAAAATGA
1 CCTTTTGTGATAAAATGA
54755706 TCGAAATACC
Statistics
Matches: 205, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 26 0.13
27 171 0.83
28 8 0.04
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (27 bp):
CCTTTTGTGATAAAATGACGATTTTGC
Found at i:54755587 original size:81 final size:81
Alignment explanation
Indices: 54755445--54755705 Score: 380
Period size: 81 Copynumber: 3.2 Consensus size: 81
54755435 CATACTTGAA
* * * *
54755445 CCTTTATGTGATAAAATGACGATTTTGCCCCTATGTCATAAAATGACGATTTTGCCTTTTTGTGA
1 CCTTTATGTGATAAAATGACGATTTTGCCCTTTTGTGATAAAATGACGATTTTGCCCTTTTGTGA
54755510 TAAAATGATGATTTTT
66 TAAAATGATGATTTTT
* * * * *
54755526 CCTTTTTGTGAGAAAATGACGATTTTGCCTTTTTGTGATAAAATGATGATTTTTCCCTTTTGTGA
1 CCTTTATGTGATAAAATGACGATTTTGCCCTTTTGTGATAAAATGACGATTTTGCCCTTTTGTGA
*
54755591 TAAAATGACGATTTTT
66 TAAAATGATGATTTTT
*
54755607 CCTTTATGTAATAAAATGACGATTTTGCCCTTTTGTGATAAAATGACGATTTTGCCCTTTTGTGA
1 CCTTTATGTGATAAAATGACGATTTTGCCCTTTTGTGATAAAATGACGATTTTGCCCTTTTGTGA
*
54755672 TAAAATGAT-ATTTTA
66 TAAAATGATGATTTTT
* * *
54755687 CCCTTATATGGTAAAATGA
1 CCTTTATGTGATAAAATGA
54755706 TCGAAATACC
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 20 0.13
81 138 0.87
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (81 bp):
CCTTTATGTGATAAAATGACGATTTTGCCCTTTTGTGATAAAATGACGATTTTGCCCTTTTGTGA
TAAAATGATGATTTTT
Found at i:54755726 original size:27 final size:27
Alignment explanation
Indices: 54755685--54755841 Score: 210
Period size: 27 Copynumber: 5.8 Consensus size: 27
54755675 AATGATATTT
* * * *
54755685 TACCCTTATATGGTAAAATGATCGAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
54755712 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
54755739 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
*
54755766 TACCCTCATAGGGTAAAATGATCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
**
54755793 TACTCC-CATAGGGTAAAATGACTGAAA
1 TAC-CCTCATAGGGTAAAATGACCAAAA
*
54755820 TACCC-CTGTAGGGTAAAATGAC
1 TACCCTC-ATAGGGTAAAATGAC
54755842 TGTAATACCC
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.03
27 114 0.96
28 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
TACCCTCATAGGGTAAAATGACCAAAA
Found at i:54755842 original size:27 final size:27
Alignment explanation
Indices: 54755685--54755868 Score: 189
Period size: 27 Copynumber: 6.8 Consensus size: 27
54755675 AATGATATTT
* * *
54755685 TACCCTTATATGGTAAAATGA-TCGAAA
1 TACCCTCATAGGGTAAAATGACT-AAAA
*
54755712 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACTAAAA
*
54755739 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACTAAAA
54755766 TACCCTCATAGGGTAAAATGA-TCAAAA
1 TACCCTCATAGGGTAAAATGACT-AAAA
*
54755793 TACTCC-CATAGGGTAAAATGACTGAAA
1 TAC-CCTCATAGGGTAAAATGACTAAAA
* **
54755820 TACCC-CTGTAGGGTAAAATGACTGTAA
1 TACCCTC-ATAGGGTAAAATGACTAAAA
* *
54755847 TACCC-CGGTAAGGTAAAATGAC
1 TACCCTC-ATAGGGTAAAATGAC
54755869 AGATTTTTTC
Statistics
Matches: 142, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
TACCCTCATAGGGTAAAATGACTAAAA
Found at i:54755862 original size:81 final size:81
Alignment explanation
Indices: 54755685--54755867 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 81
54755675 AATGATATTT
* * *
54755685 TACCCTTATATGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCTCATAG
1 TACCCTCATAAGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCTCATAG
54755750 GGTAAAATGACCAAAA
66 GGTAAAATGACCAAAA
* ** *
54755766 TACCCTCATAGGGTAAAATGATCAAAATACTCC-CATAGGGTAAAATGACTGAAATACCC-CTGT
1 TACCCTCATAAGGTAAAATGATCAAAATAC-CCTCATAGGGTAAAATGACCAAAATACCCTC-AT
***
54755829 AGGGTAAAATGACTGTAA
64 AGGGTAAAATGACCAAAA
*
54755847 TACCC-CGGTAAGGTAAAATGA
1 TACCCTC-ATAAGGTAAAATGA
54755868 CAGATTTTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.02
81 84 0.95
82 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (81 bp):
TACCCTCATAAGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCTCATAG
GGTAAAATGACCAAAA
Found at i:54755948 original size:23 final size:22
Alignment explanation
Indices: 54755908--54755951 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
54755898 TTTGAGCATG
54755908 CCATGTTATATGTATGTTGCAC
1 CCATGTTATATGTATGTTGCAC
54755930 CCATGTATGATAT-TATGTTGCA
1 CCATGT-T-ATATGTATGTTGCA
54755952 TTGCATGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (22 bp):
CCATGTTATATGTATGTTGCAC
Found at i:54759218 original size:39 final size:40
Alignment explanation
Indices: 54759123--54759306 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
54759113 TTGAATGATG
* *
54759123 TCCGGGCTAATTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
54759161 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54759202 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
54759241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
54759280 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54759307 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
39 53 0.43
40 59 0.48
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54759328 original size:79 final size:79
Alignment explanation
Indices: 54759175--54759339 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
54759165 GGACTAAGAT
* ** *
54759175 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
54759240 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
54759254 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
54759316 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
54759333 CCGAAGG
1 CCGAAGG
54759340 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:54775490 original size:7 final size:7
Alignment explanation
Indices: 54775474--54775538 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
54775464 AAAAATTTAC
*
54775474 AATATGT
1 AATATAT
54775481 AATATAT
1 AATATAT
54775488 AATATAT
1 AATATAT
54775495 AATATAT
1 AATATAT
54775502 AA-ATTAT
1 AATA-TAT
*
54775509 AAAATTAT
1 AATA-TAT
*
54775517 AAAATTAT
1 AATA-TAT
54775525 AA-ATAT
1 AATATAT
54775531 -ATATAT
1 AATATAT
54775537 AA
1 AA
54775539 AAGAACTAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
5 1 0.02
6 8 0.15
7 29 0.55
8 15 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:54775515 original size:8 final size:8
Alignment explanation
Indices: 54775497--54775527 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
54775487 TAATATATAA
54775497 TATATAAAT
1 TATA-AAAT
54775506 TATAAAAT
1 TATAAAAT
54775514 TATAAAAT
1 TATAAAAT
54775522 TATAAA
1 TATAAA
54775528 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATAAAAT
Found at i:54784609 original size:46 final size:46
Alignment explanation
Indices: 54784559--54784734 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
54784549 TGATTGAGCA
54784559 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54784605 TCCGAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
54784650 CATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54784698 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54784735 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54784715 original size:93 final size:93
Alignment explanation
Indices: 54784556--54784726 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
54784546 GGATGATTGA
* * *
54784556 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
54784621 TGAGTCTGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
*
54784649 GCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCC-GAACTCGTTGAG
54784713 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
54784727 GCTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:54793490 original size:10 final size:10
Alignment explanation
Indices: 54793469--54793498 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
54793459 TGGCTCTGAT
54793469 GGAGTT-AAA
1 GGAGTTGAAA
54793478 GGAGTTGAAA
1 GGAGTTGAAA
54793488 GGAGTTGAAA
1 GGAGTTGAAA
54793498 G
1 G
54793499 TGTAGCTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (10 bp):
GGAGTTGAAA
Found at i:54795990 original size:42 final size:43
Alignment explanation
Indices: 54795863--54796017 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
54795853 ACATAGGATC
* ** * * *
54795863 CGATATGTG-TTATCGTGTAAGAATACATCTGGGACGTTGACAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTAGGACGTTGGCAT
* * *
54795906 CGACT-TATGATTTATGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGTCTAGGACGTTGGCAT
*
54795950 CG-TATTTGATTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCAT
*
54795992 CGATATTTGATTACATGTAAGACCAC
1 CGATATTTGATTACGTGTAAGACCAC
54796018 ATCTGGGATA
Statistics
Matches: 92, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 30 0.33
44 29 0.32
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:54795999 original size:43 final size:42
Alignment explanation
Indices: 54795876--54796017 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 42
54795866 TATGTGTTAT
** * * *
54795876 CGTGTAAGAATACATCTGGGACGTTGACATCG-ACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGTA-TT-TGA-TTA
* * *
54795920 TGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTT
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTA
54795962 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCG-TATTTGATTA
*
54796005 CATGTAAGACCAC
1 CGTGTAAGACCAC
54796018 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 28 0.34
43 23 0.28
44 30 0.36
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTA
Found at i:54796249 original size:21 final size:22
Alignment explanation
Indices: 54796224--54796272 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
54796214 GAAAATGTGC
54796224 TATATGTGCAAATGAAT-TGAA
1 TATATGTGCAAATGAATATGAA
* *
54796245 TATATG-GGAAATGTATATGAA
1 TATATGTGCAAATGAATATGAA
54796266 T-TATGTG
1 TATATGTG
54796273 GTTTGTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (22 bp):
TATATGTGCAAATGAATATGAA
Found at i:54797554 original size:17 final size:17
Alignment explanation
Indices: 54797532--54797565 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54797522 CTTATAACAT
54797532 ATTTTTCTTATATTTGG
1 ATTTTTCTTATATTTGG
*
54797549 ATTTTTTTTATATTTGG
1 ATTTTTCTTATATTTGG
54797566 CTTGACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (17 bp):
ATTTTTCTTATATTTGG
Found at i:54798876 original size:11 final size:11
Alignment explanation
Indices: 54798860--54798884 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54798850 TTCAGCTGAT
54798860 GAAAATGAAGA
1 GAAAATGAAGA
54798871 GAAAATGAAGA
1 GAAAATGAAGA
54798882 GAA
1 GAA
54798885 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:54801789 original size:23 final size:23
Alignment explanation
Indices: 54801744--54801826 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
54801734 TCAGTATATG
54801744 ACACATAAGTGCCT-AAA-ACGAC
1 ACACA-AAGTGCCTGAAATACGAC
* *
54801766 ACACGAGGTGCCTGAAATACGAC
1 ACACAAAGTGCCTGAAATACGAC
* *
54801789 ACATAAAGTGCCTGATATACGAC
1 ACACAAAGTGCCTGAAATACGAC
* *
54801812 ACAAAAAGTTCCTGA
1 ACACAAAGTGCCTGA
54801827 TCGGCAAAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 7 0.14
22 7 0.14
23 37 0.73
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (23 bp):
ACACAAAGTGCCTGAAATACGAC
Found at i:54803556 original size:25 final size:25
Alignment explanation
Indices: 54803528--54803579 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
54803518 TTTGGCTTGA
*
54803528 CATTTACTAAGCAATATCGTATATT
1 CATTTACTAAGCAATATCGGATATT
* *
54803553 CATTTATTAGGCAATATCGGATATT
1 CATTTACTAAGCAATATCGGATATT
54803578 CA
1 CA
54803580 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCGGATATT
Found at i:54814947 original size:40 final size:40
Alignment explanation
Indices: 54814886--54815102 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
54814876 AAGCCAAGTA
* * * *
54814886 CCTTCGGGATTTA-ACCGGATATAGTTACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
54814925 GCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
54814965 CCTTCGGGACTTAGCCCGGACATAATAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
54815005 CCTTCGGGAATTAGCCCGGGTATAATAACTCGCAC-AATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAA-TG
* * *
54815045 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
54815084 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54815103 TTATCATCCG
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 41 0.27
40 111 0.73
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:54815098 original size:79 final size:80
Alignment explanation
Indices: 54814921--54815102 Score: 244
Period size: 79 Copynumber: 2.3 Consensus size: 80
54814911 TACTCGCTCG
* * *
54814921 AATGGCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAC
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAC
* *
54814986 ATAATAACTCGCACG
66 ATAATAACTAGCACA
* *
54815001 AATGCCTTCGGGAATTAGCCCGGGTATAATAACTCGCA-CAATTGCCTTCGGG-CTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACCAA-TGCCTTCGGGACTTAGCCCGGA
* *
54815064 -ATTAGTCACTAGCACA
65 CA-TAATAACTAGCACA
54815080 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
54815103 TTATCATCCG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 46 0.51
80 43 0.48
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAC
ATAATAACTAGCACA
Found at i:54818641 original size:47 final size:47
Alignment explanation
Indices: 54818571--54819669 Score: 1802
Period size: 47 Copynumber: 23.4 Consensus size: 47
54818561 CCCTTCGGGA
* ** * *
54818571 CTTATCACATTTATTCACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * * *
54818618 TTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54818665 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54818712 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54818759 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54818806 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54818853 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54818900 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54818947 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54818994 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819041 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819088 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819182 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819276 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819370 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819464 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819511 CTTATAACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
54819558 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
54819605 CTTATAACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
54819652 CTTATCACATATACACAC
1 CTTATCACATATACACAC
54819670 CTTGTACATC
Statistics
Matches: 981, Mismatches: 71, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 981 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:54818696 original size:94 final size:94
Alignment explanation
Indices: 54818571--54819669 Score: 2018
Period size: 94 Copynumber: 11.7 Consensus size: 94
54818561 CCCTTCGGGA
* * * * ** * *
54818571 CTTATCACATTTATTCACTTTCACATCCATCACATTGGCCATTAGGTTTTATCTCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
* * *
54818636 TTTCACATTCATCACGTTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
* * *
54818665 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54818730 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54818759 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54818824 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54818853 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54818918 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54818947 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819012 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54819041 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819106 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54819135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819200 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54819229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819294 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54819323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819388 TTTCACATTCATCACATTGGCCATTTGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
54819417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
*
54819482 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
* *
54819511 CTTATAACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
*
54819576 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTTGGC
* *
54819605 CTTATAACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
54819670 CTTGTACATC
Statistics
Matches: 989, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 989 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
TTTCACATTCATCACATTGGCCATTTGGC
Found at i:54823266 original size:42 final size:42
Alignment explanation
Indices: 54823176--54823320 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
54823166 GAAGACTACA
* *
54823176 TCTGGGATGTTGGCATCG-ACTTATGATTTATGTGTAAGACCAC-G
1 TCTGGGACGTTGGCATCGTA-TT-TGATTT-CGTGTAAGACC-CTG
54823220 TCTGGGACGTTGGCATCGTATTTGATTTCGTGTAAGACCCTG
1 TCTGGGACGTTGGCATCGTATTTGATTTCGTGTAAGACCCTG
* * *
54823262 TCTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCATG
1 TCTGGGAC-GTTGGCATCG-TATTTGATTTCGTGTAAGACCCTG
* *
54823305 TTTGGGACATTGGCAT
1 TCTGGGACGTTGGCAT
54823321 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 41 0.46
44 19 0.21
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
TCTGGGACGTTGGCATCGTATTTGATTTCGTGTAAGACCCTG
Found at i:54824867 original size:25 final size:25
Alignment explanation
Indices: 54824839--54824890 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
54824829 TTTGGCTTGA
* **
54824839 CATTTACTATGCAATATCGGATATT
1 CATTTACTAGGCAATATCAAATATT
*
54824864 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAGGCAATATCAAATATT
54824889 CA
1 CA
54824891 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAGGCAATATCAAATATT
Found at i:54828102 original size:25 final size:26
Alignment explanation
Indices: 54828065--54828117 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
54828055 TCAAACATGC
54828065 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
54828091 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
54828117 A
1 A
54828118 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:54829644 original size:26 final size:26
Alignment explanation
Indices: 54829608--54829689 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
54829598 TGAAATTCCA
54829608 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
54829634 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
54829660 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
54829686 ATCA
1 ATCA
54829690 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:54831185 original size:45 final size:45
Alignment explanation
Indices: 54831121--54831211 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
54831111 TTGCTGACAT
*
54831121 GTCAGACATTTCCCTACAAACTCCGTTACTTCTCGCTTAAGTCCA
1 GTCAGACATTTCCCTACAAACTCCGTTACTTCTCACTTAAGTCCA
* *
54831166 GTCAGACATTTCCCTACAAACTCTGTTACTTCTCATTTAAGTCCA
1 GTCAGACATTTCCCTACAAACTCCGTTACTTCTCACTTAAGTCCA
54831211 G
1 G
54831212 GCCACCAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (45 bp):
GTCAGACATTTCCCTACAAACTCCGTTACTTCTCACTTAAGTCCA
Found at i:54836697 original size:26 final size:26
Alignment explanation
Indices: 54836661--54836716 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
54836651 TGAAATTCCA
54836661 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
54836687 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
54836713 ATCA
1 ATCA
54836717 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:54842344 original size:46 final size:45
Alignment explanation
Indices: 54842291--54842454 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 45
54842281 ATTGTGTGCT
* *
54842291 AGTGTAAGACATGTCTAGGACATGAATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATGAGAGCC
* *
54842337 AGTGTAAGACATGTCTGGGATATGCATCGG-CATTGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT--GATGAGAGCC
* *
54842383 AGTGTAAGACATGTTTGGGACATGCATCGG-CATTGA-GACGACAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGA-G--AGCC
54842429 AGTGTAAGACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
54842455 CCAGCCTCGA
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
46 96 0.91
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGAGAGCC
Found at i:54854562 original size:46 final size:46
Alignment explanation
Indices: 54854512--54854870 Score: 331
Period size: 46 Copynumber: 7.7 Consensus size: 46
54854502 TGGTTGAGCA
*
54854512 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * * **
54854558 TCCGAACTCGTTGAGTTAAGTCCAAGTTC-GTGA--GATGTAACCAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG
*
54854603 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * * **
54854651 TCCGAACTCGTTGAGTTAAGTCCAAGTTC-GTGA--GATGTAACCAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG
*
54854696 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * * **
54854744 TCCGAACTCGTTGAGTTAAGTCCAAGTTC-GTGA--GATGTAACCAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG
*
54854789 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* *
54854837 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54854871 GGGGCGGGTT
Statistics
Matches: 248, Mismatches: 44, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
43 15 0.06
45 12 0.05
46 113 0.46
47 81 0.33
48 12 0.05
50 15 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
Found at i:54854620 original size:47 final size:47
Alignment explanation
Indices: 54854558--54854819 Score: 270
Period size: 47 Copynumber: 5.6 Consensus size: 47
54854548 GATGCGAATG
54854558 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
* * * * ** *
54854605 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--ATG--
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTC-GTGA--GATGTAACCAGGCA
54854651 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
* * * * ** *
54854698 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--ATG--
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTC-GTGA--GATGTAACCAGGCA
54854744 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
* *
54854791 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTAAGTCCAAGTTC
54854820 ACTTATGGAT
Statistics
Matches: 171, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 10 0.06
45 8 0.05
46 54 0.32
47 81 0.47
48 8 0.05
50 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTAAGTCCAAGTTCGTGAGATGTAACCAGGCA
Found at i:54854646 original size:93 final size:93
Alignment explanation
Indices: 54854509--54854865 Score: 669
Period size: 93 Copynumber: 3.8 Consensus size: 93
54854499 GGATGGTTGA
54854509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
54854574 TAAGTCCAAGTTCGTGAGATGTAACCAG
66 TAAGTCCAAGTTCGTGAGATGTAACCAG
54854602 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
54854667 TAAGTCCAAGTTCGTGAGATGTAACCAG
66 TAAGTCCAAGTTCGTGAGATGTAACCAG
54854695 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
54854760 TAAGTCCAAGTTCGTGAGATGTAACCAG
66 TAAGTCCAAGTTCGTGAGATGTAACCAG
* * *
54854788 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
* *
54854853 TGAGTCCGAGTTC
66 TAAGTCCAAGTTC
54854866 ACTTAGGGGC
Statistics
Matches: 259, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TAAGTCCAAGTTCGTGAGATGTAACCAG
Found at i:54858282 original size:27 final size:27
Alignment explanation
Indices: 54858252--54858429 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54858242 ATATTGAGTC
* * * *
54858252 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54858279 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54858306 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54858334 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54858361 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54858388 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54858415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54858430 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54858391 original size:82 final size:81
Alignment explanation
Indices: 54858273--54858428 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54858263 TGCTATATAA
* *
54858273 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54858338 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54858355 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54858419 CACTTAGTGC
65 CACTTAGTGC
54858429 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54866345 original size:27 final size:27
Alignment explanation
Indices: 54866315--54866492 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54866305 ATATTGAGTC
* * * *
54866315 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54866342 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54866369 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54866397 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54866424 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54866451 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54866478 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54866493 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54866454 original size:82 final size:81
Alignment explanation
Indices: 54866336--54866491 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54866326 TGCTATATAA
* *
54866336 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54866401 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54866418 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54866482 CACTTAGTGC
65 CACTTAGTGC
54866492 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54871380 original size:49 final size:48
Alignment explanation
Indices: 54871277--54871454 Score: 150
Period size: 49 Copynumber: 3.6 Consensus size: 48
54871267 ATGTGTGTGG
*
54871277 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATCGATGAGAGC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATCGA-CAGAGC
* * *
54871326 CAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCAAGATACG-CA-ATC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC--GAT-CGACAGAGC
* * * **
54871375 TAGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGGT-GTATGGAAGTC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATCG-ACAG-AG-C
* *
54871425 TA-TGTAAGACCTGTCTTGGACATGACATCG
1 TAGTGTAAGACCTGTCTGGGACATGGCATCG
54871455 ACTTAGATGT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
47 2 0.02
48 1 0.01
49 91 0.88
50 4 0.04
51 3 0.03
52 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATCGACAGAGC
Found at i:54881354 original size:27 final size:27
Alignment explanation
Indices: 54881324--54881501 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54881314 ATATTGAGTC
* * * *
54881324 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54881351 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54881378 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54881406 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54881433 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54881460 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54881487 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54881502 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54881463 original size:82 final size:81
Alignment explanation
Indices: 54881345--54881500 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54881335 TGCTATATAA
* *
54881345 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54881410 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54881427 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54881491 CACTTAGTGC
65 CACTTAGTGC
54881501 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54885777 original size:200 final size:200
Alignment explanation
Indices: 54885434--54885833 Score: 764
Period size: 200 Copynumber: 2.0 Consensus size: 200
54885424 GGCTTCCAGT
*
54885434 TAAGTATGGCTGAAATTTTCCTCGGGTCAACTCGAATACCCGATGCGGATACCACATAACCCAAG
1 TAAGTATGGCTGAAATTTTCCTCGGGTCAACTCGAATACCCAATGCGGATACCACATAACCCAAG
54885499 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCGCAA
66 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCGCAA
54885564 AATTTGCAACACTTGCCTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGT
131 AATTTGCAACACTTGCCTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGT
54885629 CATCA
196 CATCA
* *
54885634 TAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCAATGCGGATACCACATGACCCAAG
1 TAAGTATGGCTGAAATTTTCCTCGGGTCAACTCGAATACCCAATGCGGATACCACATAACCCAAG
*
54885699 AAGCTAACCTCTCTTAACCATAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCGCAA
66 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCGCAA
54885764 AATTTGCAACACTTGCCTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGT
131 AATTTGCAACACTTGCCTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGT
54885829 CATCA
196 CATCA
54885834 ATAAACACAA
Statistics
Matches: 196, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (200 bp):
TAAGTATGGCTGAAATTTTCCTCGGGTCAACTCGAATACCCAATGCGGATACCACATAACCCAAG
AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCGCAA
AATTTGCAACACTTGCCTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGT
CATCA
Found at i:54889695 original size:27 final size:27
Alignment explanation
Indices: 54889665--54889842 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54889655 ATATTGAGTC
* * * *
54889665 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54889692 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54889719 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54889747 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54889774 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54889801 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54889828 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54889843 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54889804 original size:82 final size:81
Alignment explanation
Indices: 54889686--54889841 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54889676 TGCTATATAA
* *
54889686 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54889751 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54889768 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54889832 CACTTAGTGC
65 CACTTAGTGC
54889842 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54902090 original size:40 final size:40
Alignment explanation
Indices: 54901996--54902220 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
54901986 TATTCGAATG
* *
54901996 ATATCCGAGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * *
54902037 ATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
54902077 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
54902117 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
54902157 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
54902197 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
54902221 CTTGTGCAAG
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 128 0.81
41 29 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:54902164 original size:80 final size:80
Alignment explanation
Indices: 54901996--54902256 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
54901986 TATTCGAATG
* * * * *
54901996 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
54902061 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTCGCT
* * * *
54902077 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
54902142 TTTGTGCTAG-CGACT
66 TTTGTGCGAGTCG-CT
* * *
54902157 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
54902221 CTTGTGCAAGTAGTT
66 TTTGTGCGAGTCGCT
*
54902236 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
54902257 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 16 0.10
80 94 0.61
81 31 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTCGCT
Found at i:54902210 original size:120 final size:120
Alignment explanation
Indices: 54901996--54902256 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
54901986 TATTCGAATG
* * * *
54901996 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
54902061 ATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
54902117 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
54902180 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTTATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
54902236 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
54902257 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 58 0.48
121 30 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:54908857 original size:46 final size:46
Alignment explanation
Indices: 54908790--54908919 Score: 199
Period size: 46 Copynumber: 2.8 Consensus size: 46
54908780 ATGTAACCCG
* * *
54908790 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCA
* *
54908836 TCCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
54908882 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54908920 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:54908938 original size:46 final size:45
Alignment explanation
Indices: 54908799--54908938 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 45
54908789 GTCCATAAGC
** *
54908799 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTC-GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAG-TTCGGATGTTCACCATCC-T-AGT
** **
54908845 GAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T-AGT
*
54908891 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCTAGT
54908937 GA
1 GA
54908939 CATGTCACTT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.02
46 74 0.90
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCTAGT
Found at i:54916068 original size:62 final size:59
Alignment explanation
Indices: 54915995--54916111 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
54915985 AGTGATTATC
** * * * *
54915995 TTAATATTAAATTTAATTTAATATTTGTCTTATAGATAAATATTCTATTATTTTAATAATAT
1 TTAATATTAAATCAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAATAT
*
54916057 TTAATATTAAATCAAATCTAATATTTATCTTGATAAATGTTATATTAATTTAATA
1 TTAATATTAAATCAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
54916112 TGAAAGTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
60 1 0.02
61 1 0.02
62 25 0.52
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATCAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAATAT
Found at i:54921385 original size:18 final size:18
Alignment explanation
Indices: 54921362--54921399 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
54921352 GTCAACTGAT
54921362 CAACAATCACCCAAATGG
1 CAACAATCACCCAAATGG
54921380 CAACAATCACCCAAATGG
1 CAACAATCACCCAAATGG
54921398 CA
1 CA
54921400 TCTTTCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.11, T:0.11
Consensus pattern (18 bp):
CAACAATCACCCAAATGG
Found at i:54928051 original size:49 final size:49
Alignment explanation
Indices: 54927985--54928110 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
54927975 TGTGTGTCAA
* *
54927985 TGTAAGACCTGTCTGGGACATGGCATC-GACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTATGGGACATGGCATCAG-C-CTCGATAGATGAAAGCCAG
* * * *
54928034 TGTAAGACCTGTATGGGACATAGCATCAGCCTCGATATATGAAAGTCGG
1 TGTAAGACCTGTATGGGACATGGCATCAGCCTCGATAGATGAAAGCCAG
* * *
54928083 TGTAAGACCTGTTTGGGAGACGGCATCA
1 TGTAAGACCTGTATGGGACATGGCATCA
54928111 ACTTCAATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.02
49 63 0.97
50 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTATGGGACATGGCATCAGCCTCGATAGATGAAAGCCAG
Found at i:54930483 original size:27 final size:27
Alignment explanation
Indices: 54930452--54930629 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
54930442 TAAATTGTAC
54930452 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54930479 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
54930505 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54930533 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54930561 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54930588 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54930615 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54930630 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54930566 original size:82 final size:81
Alignment explanation
Indices: 54930453--54930603 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
54930443 AAATTGTACA
* *
54930453 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54930517 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
54930534 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
54930599 TGCGA
65 TGCGA
54930604 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:54938544 original size:27 final size:27
Alignment explanation
Indices: 54938513--54938690 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
54938503 TAAATTGTAC
54938513 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54938540 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
54938566 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54938594 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54938622 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54938649 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54938676 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54938691 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54938627 original size:82 final size:81
Alignment explanation
Indices: 54938514--54938664 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
54938504 AAATTGTACA
* *
54938514 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54938578 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
54938595 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
54938660 TGCGA
65 TGCGA
54938665 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:54943555 original size:45 final size:45
Alignment explanation
Indices: 54943480--54943632 Score: 227
Period size: 45 Copynumber: 3.4 Consensus size: 45
54943470 CCGGTATTTC
* *
54943480 GCCTGCTAGGCTC-AATGCCCGAATAATATCTCACTGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
* *
54943524 GCCAACTAGGCTCAAAGGCCCGAATATTATCTCACTGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
* * *
54943569 GCCTACTAGGCTCAAAGGTCCAAATAATATCTCACCGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
*
54943614 GCCTGCTAGGCTCAAAGGC
1 GCCTACTAGGCTCAAAGGC
54943633 TCGGATAGTA
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 11 0.11
45 86 0.89
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
Found at i:54947096 original size:46 final size:45
Alignment explanation
Indices: 54946999--54947096 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
54946989 ACCCGCCCTT
* * *
54946999 TAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAGTGAACTCAGACTCAACTCAACGAGCTCGGACGCTCCCATCCA
* * *
54947044 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-
1 T-AGTGAACTCAGACTCAACTCAACGAGCTCGGACGCTC--CCATCCA
54947091 TAGTGA
1 TAGTGA
54947097 CATGTCACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.02
46 37 0.84
47 1 0.02
48 5 0.11
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
TAGTGAACTCAGACTCAACTCAACGAGCTCGGACGCTCCCATCCA
Found at i:54952048 original size:47 final size:47
Alignment explanation
Indices: 54951996--54952089 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
54951986 CCACATCGAA
* * *
54951996 AACATTCATTTTCTCTGCATGGACCAAAATGCTTTCTACCACACCGC
1 AACATTCATTTGCTCTGCACGGACCAAAATGATTTCTACCACACCGC
*
54952043 AACATTCATTTGCTCTGCACGGGCCAAAATGATTTCTACCACACCGC
1 AACATTCATTTGCTCTGCACGGACCAAAATGATTTCTACCACACCGC
54952090 TGGCACTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (47 bp):
AACATTCATTTGCTCTGCACGGACCAAAATGATTTCTACCACACCGC
Found at i:54954607 original size:46 final size:46
Alignment explanation
Indices: 54954535--54954706 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
54954525 AACCCGCCCC
*
54954535 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
54954581 TAAGTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
54954629 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
54954674 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
54954707 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:54954652 original size:93 final size:93
Alignment explanation
Indices: 54954540--54954710 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54954530 GCCCCTAAGT
* * *
54954540 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTAAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAA
54954605 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
54954633 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAA
54954698 CGAGTTCGGATGC
66 CGAGTTCGGATGC
54954711 TCAACCATCC
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:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:54955217 original size:30 final size:30
Alignment explanation
Indices: 54955183--54955243 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54955173 CATTTAATAC
54955183 AAACTTTGGAAAAATTAAAATTTTGCCCCT
1 AAACTTTGGAAAAATTAAAATTTTGCCCCT
* * * * *
54955213 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTAAAATTTTGCCCCT
54955243 A
1 A
54955244 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:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTAAAATTTTGCCCCT
Found at i:54955866 original size:63 final size:63
Alignment explanation
Indices: 54955793--54955915 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 63
54955783 TTAAAATTGA
*
54955793 TCAAATTGCTATTTAAGATTTCCTAATTAATATTTCAATACAATTTAATAATAAAAACTTCGG
1 TCAAATTGCTATTTAAGATGTCCTAATTAATATTTCAATACAATTTAATAATAAAAACTTCGG
* *
54955856 TCAAATTGCTATTTAAGATGTCCTAATTAATATTTCAATGCAATTTCATAATAAAAACTT
1 TCAAATTGCTATTTAAGATGTCCTAATTAATATTTCAATACAATTTAATAATAAAAACTT
54955916 TTAGAATGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (63 bp):
TCAAATTGCTATTTAAGATGTCCTAATTAATATTTCAATACAATTTAATAATAAAAACTTCGG
Found at i:54961974 original size:40 final size:40
Alignment explanation
Indices: 54961891--54962111 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
54961881 ACCCAAGTAT
** * *
54961891 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
54961929 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
54961969 CTTCGGGACTTAGCCCGAATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
54962009 CTTTGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
54962049 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
54962090 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
54962112 CATTCGAATA
Statistics
Matches: 148, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 93 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:54967411 original size:18 final size:20
Alignment explanation
Indices: 54967375--54967421 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
54967365 AGCTGTAAGT
54967375 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
54967395 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
54967414 ATGATATA
1 AT-ATATA
54967422 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:54967835 original size:50 final size:50
Alignment explanation
Indices: 54967771--54968109 Score: 322
Period size: 50 Copynumber: 6.8 Consensus size: 50
54967761 CCATTGTGAT
* *
54967771 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * *
54967821 TCGA-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGG
1 TC-ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * * *
54967871 TCACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACTATATTGCTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * * * * * * *
54967921 TCGCATGTGTAGTATTAAGTGCAAGCTACTATGCGTACCTG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
* * * * *
54967972 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * * * *
54968022 TCACGTGTGTACTACTAACTGCAGGCTACAATGTGTACAAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * *
54968072 TCGCATGTGTAGTACTAAGTGTAGGCTACCACGCGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
54968110 TAGAGAGCTT
Statistics
Matches: 228, Mismatches: 56, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
49 3 0.01
50 186 0.82
51 38 0.17
52 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
Found at i:54968031 original size:101 final size:101
Alignment explanation
Indices: 54967871--54968113 Score: 231
Period size: 101 Copynumber: 2.4 Consensus size: 101
54967861 AATGGTTAGG
* * * * * * * *
54967871 TCACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACTATATTGCTAGGTCGCATGTGTAGTAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGCTAAGTCACATGTGTACTAC
* *
54967936 TAAGTGCAAGCTACTATGCGTACCTGTTAACTTTGA
66 TAACTGCAAGCTACAATGCGTACCTGTTAACTTTGA
* * *
54967972 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TCAGATGGTTAAGTCACGTGTGTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGGCTAAGTCACATGTGTACTA
* * ** * * *
54968036 CTAACTGCAGGCTACAATGTGTACAAGATTGA--TAGG
65 CTAACTGCAAGCTACAATGCGTACCTG-TTAACTTTGA
* * * *
54968072 TCGCATGTGTAGTACTAAGTGTAGGCTACCACGCGTACTAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA
54968114 GAGCTTCGGC
Statistics
Matches: 114, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
100 38 0.33
101 73 0.64
102 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGCTAAGTCACATGTGTACTAC
TAACTGCAAGCTACAATGCGTACCTGTTAACTTTGA
Found at i:54968100 original size:151 final size:151
Alignment explanation
Indices: 54967825--54968109 Score: 426
Period size: 151 Copynumber: 1.9 Consensus size: 151
54967815 GATAGGTCGA
* * * *
54967825 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTTTAGTACTAAG
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCACGTGTGTACTACTAAC
* * * * * * *
54967890 TGCAGGCTACTACGTGTACTATATTGCTAGGTCGCATGTGTAGTATTAAGTGCAAGCTACTATGC
66 TGCAGGCTACAACGTGTACAAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACCACGC
54967955 GTACCTGTTAACTTTGATCAC
131 GTACCTGTTAACTTTGATCAC
* *
54967976 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTACTACTAAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCACGTGTGTACTACTAAC
* * *
54968041 TGCAGGCTACAATGTGTACAAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACCACGC
66 TGCAGGCTACAACGTGTACAAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACCACGC
54968106 GTAC
131 GTAC
54968110 TAGAGAGCTT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 118 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCACGTGTGTACTACTAAC
TGCAGGCTACAACGTGTACAAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACCACGC
GTACCTGTTAACTTTGATCAC
Found at i:54971419 original size:25 final size:26
Alignment explanation
Indices: 54971358--54971419 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
54971348 AAATCTTCCA
*
54971358 TATTTTCTTATGATATTTGTTCTGGG
1 TATTTCCTTATGATATTTGTTCTGGG
* * *
54971384 TCTTTCATTATGATA-TTGTATCTTGG
1 TATTTCCTTATGATATTTGT-TCTGGG
54971410 -ATTTCCTTAT
1 TATTTCCTTAT
54971420 CTTGGATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (26 bp):
TATTTCCTTATGATATTTGTTCTGGG
Found at i:54971422 original size:15 final size:15
Alignment explanation
Indices: 54971402--54971445 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
54971392 TATGATATTG
54971402 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
54971416 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
54971432 TATCTTGGACTTCT
1 TATCTTGGATTTCT
54971446 TAATCCTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:54971460 original size:30 final size:30
Alignment explanation
Indices: 54971402--54971460 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
54971392 TATGATATTG
* *
54971402 TATCTTGGATTTCCTTATCTTGGATTTCTC
1 TATCTTGGACTTCCTTATCCTGGATTTCTC
*
54971432 TATCTTGGACTT-CTTAATCCTGGTTTTCT
1 TATCTTGGACTTCCTT-ATCCTGGATTTCT
54971461 TATTATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCCTGGATTTCTC
Found at i:54974460 original size:50 final size:49
Alignment explanation
Indices: 54974385--54974662 Score: 200
Period size: 50 Copynumber: 5.7 Consensus size: 49
54974375 GTGAGTCACG
*
54974385 TGTGTAGTACTAAGTGCGGGCTACTACGTGTACC-ATGTTGATAGGTCGCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATG--GATAGGTCGCT
* *
54974435 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-C--TCGATA----GCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGGATAGGTCGCT
* * * * * *
54974477 TCGAT-CACGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGTTCACG
1 T-G-TGTA-GTACTAAGTGCAGGCTACTACGTGTA-CCAATGGATAGGTCGCT
* * * * * *
54974529 TGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAAATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAATGGATAGGTCGCT
* * * *
54974579 TCTGTAGTACTAAGTACAAGCTACTACGTGTACCAGATTGATAGGTCGCAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ATGGATAGGTCGC-T
* * *
54974630 T-TGTAGTACTAAGTGTAGG-TACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
54974663 GAGAGCTTCA
Statistics
Matches: 185, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 26 0.14
46 4 0.02
48 5 0.03
49 15 0.08
50 124 0.67
51 3 0.02
52 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGGATAGGTCGCT
Found at i:54981426 original size:12 final size:12
Alignment explanation
Indices: 54981409--54981447 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
54981399 TCAGGTAGTT
54981409 ACACGGCCTAGC
1 ACACGGCCTAGC
54981421 ACACGGCCTAGC
1 ACACGGCCTAGC
* *
54981433 AAATGGCCTAGC
1 ACACGGCCTAGC
54981445 ACA
1 ACA
54981448 TGAGTGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.31, C:0.36, G:0.23, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:54986590 original size:46 final size:48
Alignment explanation
Indices: 54986523--54986649 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 48
54986513 TATGTGAGGC
* *
54986523 AGTGTAAGACATGTATGGGACATGCATCGACATTCAGACA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTCAGACATACAAGCT
* * ** *
54986569 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGGGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTCAGACATACAAGCT
* *
54986617 AGTGTAAGACCTGTCTAGGACATGGCATCGACA
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACA
54986650 CCGATAGACG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
46 34 0.51
47 1 0.01
48 25 0.37
49 7 0.10
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTCAGACATACAAGCT
Found at i:54986704 original size:49 final size:49
Alignment explanation
Indices: 54986621--54986736 Score: 126
Period size: 49 Copynumber: 2.4 Consensus size: 49
54986611 CAAGCTAGTG
* * * *
54986621 TAAGACCTGTCTAGGACATGGCATCGACACCGATAGACGAGACCCAGTC
1 TAAGACCTATCTGGGACATAGCATCGACACCGATAGACGAAACCCAGTC
* * * ** *
54986670 TAAGACCTATCTGGGACATAGCATCGTC-CTCGATATATGAAAGTCAGTG
1 TAAGACCTATCTGGGACATAGCATCGACAC-CGATAGACGAAACCCAGTC
54986719 TAAGACCTATCTGGGACA
1 TAAGACCTATCTGGGACA
54986737 CGACATTAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 55 0.98
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (49 bp):
TAAGACCTATCTGGGACATAGCATCGACACCGATAGACGAAACCCAGTC
Found at i:54991997 original size:40 final size:40
Alignment explanation
Indices: 54991914--54992134 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
54991904 ACCCAAGTAT
** * *
54991914 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
54991952 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
54991992 CTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
54992032 CTTCGGTTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
54992072 CTTTGGATCTTAGTCCGGATATAGTCACTTAGAACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
54992113 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
54992135 CATTCGAATA
Statistics
Matches: 145, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.08
39 15 0.10
40 91 0.63
41 27 0.19
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55000076 original size:40 final size:40
Alignment explanation
Indices: 54999994--55000214 Score: 196
Period size: 40 Copynumber: 5.5 Consensus size: 40
54999984 ACCCAAGTAT
** * *
54999994 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
** * *
55000032 CTTCGGGTCTTAGCCTAGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55000072 CTTCGGGACGTAGCCCGGATATAGTCGCTAGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
55000112 CTTCGGTTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
55000152 CTTTGGATCTTAGTCCGGATATAGTCACTTAGAACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
55000193 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55000215 CATTCGAATA
Statistics
Matches: 141, Mismatches: 38, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.08
39 13 0.09
40 89 0.63
41 27 0.19
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55007660 original size:48 final size:46
Alignment explanation
Indices: 55007547--55007668 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
55007537 GTGGAAAGTG
* ** *
55007547 AGCTAGTGTAAGACATGTCCGGGACATGCATCGGCATTGAGACAAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACAAA
* * * *
55007593 AGCTAGTATAAGACATGTCTGGGACATGCATTGGCCTCAAGATATACA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACA-A-A
* *
55007641 AGCTAGTGTAAGACCTGTCTAGGACATG
1 AGCTAGTGTAAGACATGTCTGGGACATG
55007669 GTATGGACAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 37 0.59
47 1 0.02
48 25 0.40
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACAAA
Found at i:55011111 original size:43 final size:42
Alignment explanation
Indices: 55011019--55011130 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
55011009 TTGAGATTAT
* *
55011019 GTGTAAGACCATATCTAGGATATGGCATCGATAAGAGACTTC
1 GTGTAAGACCATAGCTAGGATATGGCATCGATAAGAGACTCC
* * *
55011061 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-TCCC
1 GTGTAAGACCATAGCTAGGATA-TGGCATCGATAAGAGACT-CC
* * * *
55011104 GTTTAAGA-CATATCTCGGATGTGGCAT
1 GTGTAAGACCATAGCTAGGATATGGCAT
55011131 TGGTATGGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.10
42 29 0.50
43 23 0.40
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGATATGGCATCGATAAGAGACTCC
Found at i:55013698 original size:23 final size:23
Alignment explanation
Indices: 55013668--55013757 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 23
55013658 CTATCGAGCA
*
55013668 GTAAGCTCATACGAGTTGAAACG
1 GTAAGCTCATACGAGCTGAAACG
* **
55013691 GTAAGCTC-TAATGAGCTGAAAATA
1 GTAAGCTCAT-ACGAGCTG-AAACG
*
55013715 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCATACGAGCTGA-A-A-CG
*
55013741 GTAAGCTCATACAAGCT
1 GTAAGCTCATACGAGCT
55013758 ATGGTGAGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
22 1 0.02
23 15 0.29
24 19 0.37
25 2 0.04
26 15 0.29
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (23 bp):
GTAAGCTCATACGAGCTGAAACG
Found at i:55017911 original size:51 final size:51
Alignment explanation
Indices: 55017856--55017955 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
55017846 CTACCACATA
55017856 ACATGTAA-CACATCCATAATG-ATCACAGACCTCTCAACGAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAAT-ACAGACCTCTCAACGAGCTCGGATGTT
* * * * *
55017907 ACATGAATCGCATCCATTATGAATTCAGACCTCTCAATGAGCTTGGATG
1 ACATGAATCACATCCATAATGAATACAGACCTCTCAACGAGCTCGGATG
55017956 CCACATATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 38 0.90
52 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAATACAGACCTCTCAACGAGCTCGGATGTT
Found at i:55022278 original size:39 final size:40
Alignment explanation
Indices: 55022235--55022402 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
55022225 CTCGTTCAAG
* * * *
55022235 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
55022274 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
55022314 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
55022354 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
55022394 TGCCTTCGG
1 TGCCTTCGG
55022403 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:55022386 original size:80 final size:80
Alignment explanation
Indices: 55022270--55022455 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
55022260 AGTAACTCAT
* * *
55022270 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
55022334 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
55022349 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
55022413 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
55022430 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
55022456 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:55022415 original size:40 final size:40
Alignment explanation
Indices: 55022272--55022455 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
55022262 TAACTCATAC
* *
55022272 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
55022312 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
55022352 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
55022392 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
55022433 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55022456 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:55027224 original size:13 final size:13
Alignment explanation
Indices: 55027206--55027230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55027196 CCAAGCACAC
55027206 GCCTGTGTCCCTG
1 GCCTGTGTCCCTG
55027219 GCCTGTGTCCCT
1 GCCTGTGTCCCT
55027231 TACACGGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCTGTGTCCCTG
Found at i:55028216 original size:55 final size:54
Alignment explanation
Indices: 55028133--55028246 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
55028123 AGCATGGCTG
*
55028133 CCAG-AACAGATATTGCGACAGAGTCACCAAATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTGCGACAGAGCCACCAAAT-CAGATATTTGTGGCAGAGCCA
* * *
55028186 CCAGAAACAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGCGACAGAGCCACCAAATCAGATATTTGTGGCAGAGCCA
55028241 CCAGAA
1 CCAGAA
55028247 GGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 4 0.07
54 14 0.26
55 36 0.67
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAAACAGATATTGCGACAGAGCCACCAAATCAGATATTTGTGGCAGAGCCA
Done.