Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 262 of 279
Found at i:85362585 original size:38 final size:38
Alignment explanation
Indices: 85362543--85362619 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
85362533 TAGTAGATCC
**
85362543 AACATCCAGGAAATGATCTCCAACTCAGCAAAATTTGT
1 AACATCCAGGAAACAATCTCCAACTCAGCAAAATTTGT
*
85362581 AACATCCAGGAAGCAATCTCCAACTCAGCAAAATTTGT
1 AACATCCAGGAAACAATCTCCAACTCAGCAAAATTTGT
85362619 A
1 A
85362620 TAATCCCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (38 bp):
AACATCCAGGAAACAATCTCCAACTCAGCAAAATTTGT
Found at i:85365937 original size:20 final size:20
Alignment explanation
Indices: 85365912--85365963 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
85365902 AGGAGCACAC
85365912 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
85365932 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
* *
85365952 GGCCGTGGGGCC
1 GCCCGTGTGGCC
85365964 AGACCGTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.08, C:0.29, G:0.44, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:85369557 original size:29 final size:29
Alignment explanation
Indices: 85369515--85369571 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
85369505 TTCATACACC
85369515 ATAAAGTACCCTTGGAGACGTAAGGAACT
1 ATAAAGTACCCTTGGAGACGTAAGGAACT
*
85369544 ATAAAGTACCCTTGGAGACGTAGGGAAC
1 ATAAAGTACCCTTGGAGACGTAAGGAAC
85369572 CTCTTTGTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (29 bp):
ATAAAGTACCCTTGGAGACGTAAGGAACT
Found at i:85375217 original size:42 final size:42
Alignment explanation
Indices: 85375112--85375273 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 42
85375102 CCGATATGTG
* *
85375112 TTTCGTGTAAGACCACGTCTGGGACTTTGGCAACG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGA
*
85375155 TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
* *
85375198 TTTCGTGTAAGACC-CTGTCTGGGACAGTGACATCGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGA
* * * *
85375241 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCAT
85375274 TGTACAGGCT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.27
43 41 0.40
44 32 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
Found at i:85376126 original size:20 final size:20
Alignment explanation
Indices: 85376101--85376141 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
85376091 GATGTTTGAA
85376101 ATTGGTTGAAAATACTATGT
1 ATTGGTTGAAAATACTATGT
85376121 ATTGGTTGAAAATACTATGT
1 ATTGGTTGAAAATACTATGT
85376141 A
1 A
85376142 ATTAAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTGGTTGAAAATACTATGT
Found at i:85381001 original size:16 final size:16
Alignment explanation
Indices: 85380954--85381003 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
85380944 TAAATATAAA
85380954 ATATTTATATAAAATTT
1 ATATTTATAT-AAATTT
*
85380971 AATAAATTA-AT-AATTT
1 -AT-ATTTATATAAATTT
85380987 ATATTTATATAAATTT
1 ATATTTATATAAATTT
85381003 A
1 A
85381004 ATAATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.15
15 4 0.15
16 11 0.41
18 4 0.15
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTATATAAATTT
Found at i:85381867 original size:22 final size:23
Alignment explanation
Indices: 85381805--85381868 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 23
85381795 ACGATGTAAT
* *
85381805 AATAAGATATATTATATTTTTAA
1 AATAATATATATTAAATTTTTAA
*
85381828 AAGAAATATATGATTTAAATTTTTAA
1 AA-TAATATAT-A-TTAAATTTTTAA
85381854 AATAATAT-TATTAAA
1 AATAATATATATTAAA
85381869 AAAGATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 7 0.21
25 6 0.18
26 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (23 bp):
AATAATATATATTAAATTTTTAA
Found at i:85384269 original size:20 final size:20
Alignment explanation
Indices: 85384246--85384296 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 20
85384236 AGTTTAAAGT
*
85384246 AAATAATATAAATAATTTAA
1 AAATAATATAAATAATTCAA
85384266 AAATAAT-T-AAT-ATTCAA
1 AAATAATATAAATAATTCAA
85384283 AAA-AATA-AAATAAT
1 AAATAATATAAATAAT
85384297 ATATAGAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 3 0.11
17 11 0.41
18 5 0.19
19 1 0.04
20 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATAATATAAATAATTCAA
Found at i:85386072 original size:20 final size:20
Alignment explanation
Indices: 85386039--85386092 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
85386029 TAAAACACAC
*
85386039 TAGAGAGCATCAAAATGCTAA
1 TAGAGA-CACCAAAATGCTAA
85386060 TAGAGACACCAAAATGCTAA
1 TAGAGACACCAAAATGCTAA
85386080 TAGAGACACCAAA
1 TAGAGACACCAAA
85386093 GTGCAATCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.15
Consensus pattern (20 bp):
TAGAGACACCAAAATGCTAA
Found at i:85394055 original size:21 final size:21
Alignment explanation
Indices: 85394000--85394099 Score: 84
Period size: 21 Copynumber: 4.9 Consensus size: 21
85393990 AGATACACTG
85394000 ACAGAAGCTCG-AA-AGCTTA
1 ACAGAAGCTCGAAAGAGCTTA
* *
85394019 ACAGAAACTC-ATAAGAGTTTA
1 ACAGAAGCTCGA-AAGAGCTTA
*
85394040 ACAGAAGCTCGAAAGAGCTGA
1 ACAGAAGCTCGAAAGAGCTTA
* * *
85394061 ACAGAA-CTTGAAAAAGCTAA
1 ACAGAAGCTCGAAAGAGCTTA
*
85394081 ACTA-AAGCACGAAAGAGCT
1 AC-AGAAGCTCGAAAGAGCT
85394100 AAATAGAAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
19 9 0.14
20 17 0.27
21 37 0.58
22 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
ACAGAAGCTCGAAAGAGCTTA
Found at i:85395832 original size:95 final size:91
Alignment explanation
Indices: 85395610--85395840 Score: 220
Period size: 95 Copynumber: 2.5 Consensus size: 91
85395600 AATTGACGGC
*
85395610 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCACGTGTAAGACC
1 TAAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAGACAAGGATCACATGTAAGACC
* *
85395675 ATGTTAAGACATGGCATCGGCATTGAT
65 ATGTTAAGACATGACATCGGCATAGAT
**
85395702 TAAGGACT-CCATGTAAGACTACAT-CAAGATGTGGCATTGGCACTAAGACAAGGAT-ACCATGT
1 TAAGGA-TACCATGTAAGAC--CATGCAAGACATGGCATTGG---TAAGACAAGGATCA-CATGT
** * *
85395764 AAGACCATGTTTGGAACATGACATTTGGTA-AGA-
59 AAGACCATGTTAAG-ACATGACA-TCGGCATAGAT
* * *
85395797 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TAAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAG
85395841 TTCTATAAGC
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
92 35 0.31
93 4 0.04
94 5 0.04
95 56 0.50
96 9 0.08
97 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (91 bp):
TAAGGATACCATGTAAGACCATGCAAGACATGGCATTGGTAAGACAAGGATCACATGTAAGACCA
TGTTAAGACATGACATCGGCATAGAT
Found at i:85396104 original size:54 final size:54
Alignment explanation
Indices: 85396034--85396295 Score: 305
Period size: 54 Copynumber: 4.9 Consensus size: 54
85396024 ATGGTAAGAT
85396034 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
85396088 TAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
85396142 TAGGAAATCATGTAAGACCATGTCAAGACATGACATTGA-AGAGTTACTATAAGAC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATA-AGTT-CTATAAGGC
** * * *
85396197 AAAGG-TCCCATGTAAGATCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
85396250 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
85396296 AAAAAGGAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.02
53 41 0.23
54 93 0.52
55 38 0.21
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:85396120 original size:100 final size:99
Alignment explanation
Indices: 85395942--85396123 Score: 240
Period size: 100 Copynumber: 1.8 Consensus size: 99
85395932 GCAAAGGTCC
* * * * *
85395942 CATGTAAGACCATGCGAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATTTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCA
***
85396007 TGTTTGGAACATGGCATATGGTAAGATAAGGATAT
66 TGCAAGG-ACATGGCATATGGTAAGATAAGGATAT
* *
85396042 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCTAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-ATAAGGCAAGGAAACCATGTAAGACC
85396107 ATGCCAAGG-CATGGCAT
65 ATG-CAAGGACATGGCAT
85396124 TGATAAGTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
100 43 0.61
101 25 0.36
102 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (99 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCA
TGCAAGGACATGGCATATGGTAAGATAAGGATAT
Found at i:85396160 original size:155 final size:155
Alignment explanation
Indices: 85395878--85396164 Score: 398
Period size: 155 Copynumber: 1.9 Consensus size: 155
85395868 AAGCTAGCTC
* * * **
85395878 TAAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCC
1 TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACC
* * * * *
85395943 ATGTAAGACCATGCGAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATTTAAGACCAT
66 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCAT
85396008 GTTTGGAACATGGCATATGGTAAGA
131 GTTTGGAACATGGCATATGGTAAGA
* * * *
85396033 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC-TAGGAAAT
1 TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-AAC
* *
85396096 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCTAGGAAATCATGTAAGACC
65 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-ATAAGGCAAGGAAACCATGTAAGACC
85396161 ATGT
129 ATGT
85396165 CAAGACATGA
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
153 3 0.03
154 44 0.39
155 67 0.59
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (155 bp):
TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACC
ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCAT
GTTTGGAACATGGCATATGGTAAGA
Found at i:85403668 original size:30 final size:30
Alignment explanation
Indices: 85403634--85403697 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
85403624 TAACATAACT
* *
85403634 GTGTGTCGCACA-TGGCTGAGACACAGGCCC
1 GTGTGTCACACACT-GCTGAGACACACGCCC
*
85403664 GTGTGTCACACACTGCTGAGACACACGCCG
1 GTGTGTCACACACTGCTGAGACACACGCCC
85403694 GTGT
1 GTGT
85403698 CTCTTCCCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.19
Consensus pattern (30 bp):
GTGTGTCACACACTGCTGAGACACACGCCC
Found at i:85403937 original size:15 final size:15
Alignment explanation
Indices: 85403913--85403942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85403903 TAACAAACAC
85403913 ATTTGAACATCTCCA
1 ATTTGAACATCTCCA
*
85403928 ATTTGCACATCTCCA
1 ATTTGAACATCTCCA
85403943 TTTCATCAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (15 bp):
ATTTGAACATCTCCA
Found at i:85404725 original size:24 final size:23
Alignment explanation
Indices: 85404645--85404760 Score: 103
Period size: 23 Copynumber: 4.9 Consensus size: 23
85404635 AAGCTAATGG
*
85404645 ACAGTAAGCTCTATTA--AGCTAAA
1 ACAGTAAGCTC-A-TACGAGCTGAA
*
85404668 ACAATAAGCTC-TAACGAGCTGAA
1 ACAGTAAGCTCAT-ACGAGCTGAA
**
85404691 TTAGTAAGCTCATACGAGCTGAGA
1 ACAGTAAGCTCATACGAGCTGA-A
*
85404715 ACAGTAAGCTCTTACGAGCTGATA
1 ACAGTAAGCTCATACGAGCTGA-A
85404739 TATCAGTAAGCTCATACGAGCT
1 -A-CAGTAAGCTCATACGAGCT
85404761 ACGGTGAGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
23 33 0.43
24 22 0.29
25 1 0.01
26 18 0.24
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCATACGAGCTGAA
Found at i:85404732 original size:47 final size:50
Alignment explanation
Indices: 85404667--85404760 Score: 149
Period size: 47 Copynumber: 1.9 Consensus size: 50
85404657 ATTAAGCTAA
85404667 AACAATAAGCTCTAACGAGCTGA-AT-T-AGTAAGCTCATACGAGCTGAG
1 AACAATAAGCTCTAACGAGCTGATATATCAGTAAGCTCATACGAGCTGAG
* *
85404714 AACAGTAAGCTCTTACGAGCTGATATATCAGTAAGCTCATACGAGCT
1 AACAATAAGCTCTAACGAGCTGATATATCAGTAAGCTCATACGAGCT
85404761 ACGGTGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 21 0.50
48 2 0.05
49 1 0.02
50 18 0.43
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (50 bp):
AACAATAAGCTCTAACGAGCTGATATATCAGTAAGCTCATACGAGCTGAG
Found at i:85437331 original size:46 final size:46
Alignment explanation
Indices: 85437177--85437438 Score: 232
Period size: 46 Copynumber: 5.6 Consensus size: 46
85437167 CACTGCTGTT
* * * *
85437177 ATGTGAGCCAGTGCAAGACATGTCTGGGACATGCACCGGCCAT--ATT
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-G
* * * *
85437223 ATGAAAGCCAGTGGAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
* *
85437271 ATG-AGTGCCGGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
1 ATGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
85437317 ATGTAAGCCAGTGTAAGACATGT-TCGGGACATGCATCGG-CTACGAG
1 ATGTAAGCCAGTGTAAGACATGTCT-GGGACATGCATCGGCCT-CGAG
* * * * * *
85437363 ATGT--GCTAGTGTAAGACATGTTTGGAACATGCATCGGCATGGAT
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
*
85437407 ATGTAAGAGCCAGTGTAAGACCATATCTGGGA
1 ATGT-A-AGCCAGTGTAAGA-CATGTCTGGGA
85437439 TATGGCATTG
Statistics
Matches: 179, Mismatches: 22, Indels: 27
0.79 0.10 0.12
Matches are distributed among these distances:
44 35 0.20
45 5 0.03
46 68 0.38
47 31 0.17
48 31 0.17
49 9 0.05
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
Found at i:85437399 original size:90 final size:93
Alignment explanation
Indices: 85437183--85437455 Score: 274
Period size: 94 Copynumber: 2.9 Consensus size: 93
85437173 TGTTATGTGA
* * * * *
85437183 GCCAGTGCAAGACATGTCTGGGACATGCACCGGCCAT--ATTATG-AAAGCCAGTGGAAGACCAT
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGG-CATCGA-GATGTAAAGCCAGTGTAAGA-CAT
*
85437245 GTCTGGGACATGGCATCGGCATTGAGATGAGT
63 GTCTGGGACATGGCATCGGCATCGAGAT-AGT
* * *
85437277 GCCGGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-AAGCCAGTGTAAGACATGT-
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGATGTAAAGCCAGTGTAAGACATGTC
85437340 TCGGGACAT-GCATCGGC-TACGAGAT-GT
66 T-GGGACATGGCATCGGCAT-CGAGATAGT
* * * * *
85437367 GCTAGTGTAAGACATGTTTGGAACATGCATCGGCATGGATATGTAAGAGCCAGTGTAAGACCATA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGATGTAA-AGCCAGTGTAAGA-CATG
* *
85437432 TCTGGGATATGGCATTGGCATCGA
64 TCTGGGACATGGCATCGGCATCGA
85437456 TATGTGTAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
90 39 0.26
91 2 0.01
92 27 0.18
93 24 0.16
94 57 0.38
95 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGATGTAAAGCCAGTGTAAGACATGTC
TGGGACATGGCATCGGCATCGAGATAGT
Found at i:85443814 original size:46 final size:46
Alignment explanation
Indices: 85443755--85443979 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 46
85443745 CTATTATGTG
* * *
85443755 AGCCAGTGCAAGACATGTCTAGGACATGCATCGGCCATATTATGAA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAA
* *
85443801 AGCCAGTGTAAGACCATGCCTGGGACATGGCATCGG-CAT-TGA-GACG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATGATGA-A
* *
85443847 AGTACTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGTA
1 AG--CCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATGATGAA
* **
85443895 AGCCAGTGTAAGACATGTTTGGGACATGCATCAACACGGATATG-T-AA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C--ATATGATGAA
* *
85443942 GAGCCAGTGTAAGACCATATCTGGGATATAGCATCGGC
1 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
85443980 ATTGATATGT
Statistics
Matches: 142, Mismatches: 19, Indels: 32
0.74 0.10 0.17
Matches are distributed among these distances:
45 2 0.01
46 53 0.37
47 31 0.22
48 36 0.25
49 13 0.09
50 7 0.05
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAA
Found at i:85443951 original size:94 final size:94
Alignment explanation
Indices: 85443754--85443979 Score: 219
Period size: 94 Copynumber: 2.4 Consensus size: 94
85443744 GCTATTATGT
* * *
85443754 GAGCCAGTGCAAGACATGTCTAGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACCATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAAAGCCAGTGTAAGACCATG
** **
85443819 CCTGGGACATGGCATCGGCATTGAGACGA
66 CCTGGGACATGGCATCAACACGGAGACGA
* *
85443848 GTA-CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGTAAGCCAGTGTAAGA-C
1 G-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATGATGAAAGCCAGTGTAAGACC
** * *
85443909 ATGTTTGGGACAT-GCATCAACACGGATATGTAA
63 ATGCCTGGGACATGGCATCAACACGGAGACG--A
* *
85443942 GAGCCAGTGTAAGACCATATCTGGGATATAGCATCGGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
85443980 ATTGATATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
92 11 0.10
93 14 0.13
94 61 0.56
95 14 0.13
96 8 0.07
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAAAGCCAGTGTAAGACCATG
CCTGGGACATGGCATCAACACGGAGACGA
Found at i:85451956 original size:12 final size:12
Alignment explanation
Indices: 85451939--85451968 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85451929 TTAACTATTT
85451939 TTATTTTTGTAA
1 TTATTTTTGTAA
*
85451951 TTATTTTTGTCA
1 TTATTTTTGTAA
85451963 TTATTT
1 TTATTT
85451969 AAGCTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (12 bp):
TTATTTTTGTAA
Found at i:85453946 original size:16 final size:17
Alignment explanation
Indices: 85453915--85453952 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
85453905 AAAATGATAA
85453915 AAAAATATTCAAAAATTT
1 AAAAATATTCAAAAA-TT
85453933 AAAAATA-T-AAAAATT
1 AAAAATATTCAAAAATT
85453948 AAAAA
1 AAAAA
85453953 AAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 1 0.05
18 7 0.35
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATTCAAAAATT
Found at i:85453953 original size:16 final size:18
Alignment explanation
Indices: 85453914--85453953 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
85453904 AAAAATGATA
85453914 AAAAAATATTCAAAAATT
1 AAAAAATATTCAAAAATT
*
85453932 TAAAAATA-T-AAAAATT
1 AAAAAATATTCAAAAATT
85453948 AAAAAA
1 AAAAAA
85453954 AAGTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAATATTCAAAAATT
Found at i:85454079 original size:31 final size:31
Alignment explanation
Indices: 85454044--85454109 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
85454034 AAAAGCAACT
*
85454044 ATTTGACTCCTTTTAAAAGGTTTATAGTCAA
1 ATTTGACTCCTTTTAAAAGATTTATAGTCAA
** *
85454075 ATTTGACTGTTTTTAAAAGATTTATGGTCAA
1 ATTTGACTCCTTTTAAAAGATTTATAGTCAA
85454106 ATTT
1 ATTT
85454110 AGCTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTTGACTCCTTTTAAAAGATTTATAGTCAA
Found at i:85457190 original size:16 final size:16
Alignment explanation
Indices: 85457169--85457199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85457159 AACATTATGA
*
85457169 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
85457185 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
85457200 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:85459969 original size:21 final size:21
Alignment explanation
Indices: 85459943--85459983 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
85459933 AGACGAGCGA
*
85459943 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
85459964 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
85459984 TTGAGCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:85464073 original size:26 final size:26
Alignment explanation
Indices: 85464037--85464089 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
85464027 ATTTCTTGCA
85464037 AAATTATTTCAATCACAATGAGATAT
1 AAATTATTTCAATCACAATGAGATAT
*
85464063 AAATTATTTCAATCACAATGGGATAT
1 AAATTATTTCAATCACAATGAGATAT
85464089 A
1 A
85464090 CTTGGTGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (26 bp):
AAATTATTTCAATCACAATGAGATAT
Found at i:85465321 original size:10 final size:10
Alignment explanation
Indices: 85465306--85465338 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
85465296 AGATTTAATA
85465306 TTTATTTATC
1 TTTATTTATC
*
85465316 TTTATTTATT
1 TTTATTTATC
85465326 TTTATTTATC
1 TTTATTTATC
85465336 TTT
1 TTT
85465339 TAGAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATC
Found at i:85468009 original size:20 final size:20
Alignment explanation
Indices: 85467952--85468109 Score: 104
Period size: 20 Copynumber: 7.9 Consensus size: 20
85467942 CCATTTTGTG
**
85467952 GACAAGCCACCAGTAATACA
1 GACAAGCCACCAGTAATGTA
* * *
85467972 GATAAACTACCA-TAAATGT-
1 GACAAGCCACCAGT-AATGTA
*
85467991 GAACAAGCCACCAGTAATGCA
1 G-ACAAGCCACCAGTAATGTA
* *
85468012 GACAAGCTACCAATAATGTA
1 GACAAGCCACCAGTAATGTA
*
85468032 GACAAACCACCAGTAATGTA
1 GACAAGCCACCAGTAATGTA
* * ** *
85468052 GATAAACTGCCAGTATTGTA
1 GACAAGCCACCAGTAATGTA
** * * *
85468072 GACAAGCTGCCAGCATTGTG
1 GACAAGCCACCAGTAATGTA
*
85468092 GACAAGCCACCAGAAATG
1 GACAAGCCACCAGTAATG
85468110 CAGATAAACT
Statistics
Matches: 107, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
19 2 0.02
20 103 0.96
21 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.17
Consensus pattern (20 bp):
GACAAGCCACCAGTAATGTA
Found at i:85468072 original size:40 final size:39
Alignment explanation
Indices: 85467952--85468078 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 39
85467942 CCATTTTGTG
*
85467952 GACAAGCCACCAGTAATACAGATAAACTACCATAAATGT-
1 GACAAGCCACCAGTAATGCAGATAAACTACCAT-AATGTA
* *
85467991 GAACAAGCCACCAGTAATGCAGACAAGCTACCAATAATGTA
1 G-ACAAGCCACCAGTAATGCAGATAAACTACC-ATAATGTA
* * * *
85468032 GACAAACCACCAGTAATGTAGATAAACTGCCAGTATTGTA
1 GACAAGCCACCAGTAATGCAGATAAACTACCA-TAATGTA
85468072 GACAAGC
1 GACAAGC
85468079 TGCCAGCATT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 69 0.93
41 3 0.04
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (39 bp):
GACAAGCCACCAGTAATGCAGATAAACTACCATAATGTA
Found at i:85468075 original size:60 final size:60
Alignment explanation
Indices: 85468001--85468119 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
85467991 GAACAAGCCA
* * *
85468001 CCAGTAATGCAGACAAGCTACCAATAATGTAGACAAACCACCAGTAATGTAGATAAACTG
1 CCAGTAATGCAGACAAGCTACCAACAATGTAGACAAACCACCAGAAATGCAGATAAACTG
* * * * * * *
85468061 CCAGTATTGTAGACAAGCTGCCAGCATTGTGGACAAGCCACCAGAAATGCAGATAAACT
1 CCAGTAATGCAGACAAGCTACCAACAATGTAGACAAACCACCAGAAATGCAGATAAACT
85468120 ATCAGTACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (60 bp):
CCAGTAATGCAGACAAGCTACCAACAATGTAGACAAACCACCAGAAATGCAGATAAACTG
Found at i:85469769 original size:21 final size:21
Alignment explanation
Indices: 85469722--85469775 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
85469712 TAAAAACCAT
85469722 CAAACCCAAAACAAACAAACC
1 CAAACCCAAAACAAACAAACC
* *
85469743 CCAACCCAATAA-AAACCAACC
1 CAAACCCAA-AACAAACAAACC
* *
85469764 TAAACCTAAAAC
1 CAAACCCAAAAC
85469776 CCAAAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.57, C:0.37, G:0.00, T:0.06
Consensus pattern (21 bp):
CAAACCCAAAACAAACAAACC
Found at i:85470964 original size:3 final size:3
Alignment explanation
Indices: 85470958--85471190 Score: 466
Period size: 3 Copynumber: 77.7 Consensus size: 3
85470948 ATTATTATTA
85470958 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
85471006 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
85471054 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
85471102 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
85471150 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
85471191 CTTACTATTA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 230 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:85474559 original size:354 final size:355
Alignment explanation
Indices: 85474054--85474762 Score: 1177
Period size: 354 Copynumber: 2.0 Consensus size: 355
85474044 AGGGAGATAA
*
85474054 TTACAAAAAGAAAGTTCGTGAGATATCAAATGTCTAGAACCAAACTCATAAAATGAAAAGGTTTG
1 TTACAAAAAGAAAGTTCGTGAGATATCAAATGCCTAGAACCAAACTCATAAAATGAAAAGGTTTG
* * *
85474119 CTGCTAATCTAATGACCACCCCTGAGTATGACTGATGGTGGGGTCAGAAGATCAATGACAACATC
66 CTGCTAATCCAATGACCACCCCTGAGTATGACTAATGGTGGGGTCAGAAGATCAACGACAACATC
*
85474184 CCTACGTCAGATCAAGAAAACACCCGATCAATGGAAGAACACTTGAAGGTGATCCCATTTGAGTT
131 CCTACGTCAGATCAAGAAAACACCCGATCAATGGAAGAACACTTGAAGGTGATCCCATCTGAGTT
*
85474249 AGAGATCATCAAACAAGATTTTGAGAGAAAGAGTTCGGAGCTAGAAAAAAGGATCCAGCAATTAA
196 AGAGATCATCAAACAAGATTTTGAGAGAAAAAGTTCGGAGCTAGAAAAAAGGATCCAGCAATTAA
*
85474314 AGGGAGAAAAAATACAGCTGGGGCTAGATGTCAATGTCCAGAAACTAGAAGCT-AAAAGCTGAGA
261 AGGGAGAAAAAATACAGCTGGGGCTAGATGTCAATGTCCAAAAACTAGAAGCTGAAAAGCTGAGA
*
85474378 AAAGGAAAAAAAAGGCTGAAGAGGATTTGG
326 AAAGGAAAAAAAAGGCTGAAAAGGATTTGG
* * *
85474408 TTACAAAAAGAAAGTTCGTGAGATATCGAATGCCTGGAACCAAACTCGTAAAATGAAAAGGTTTG
1 TTACAAAAAGAAAGTTCGTGAGATATCAAATGCCTAGAACCAAACTCATAAAATGAAAAGGTTTG
* * * *
85474473 CTGCTAATCCAATGACTACCCCTGAGTATGACTAATGGTGGGGTTAGAGGATCAGCGACAACATC
66 CTGCTAATCCAATGACCACCCCTGAGTATGACTAATGGTGGGGTCAGAAGATCAACGACAACATC
85474538 CCTACGTCAGATCAAGAAAACACCCGATCAATGGAAGAACACTTGAAGGTGATCCCATCTGAGTT
131 CCTACGTCAGATCAAGAAAACACCCGATCAATGGAAGAACACTTGAAGGTGATCCCATCTGAGTT
* * * * * **
85474603 AGAGATCATTAAATAAGATTTTGAGAGAAAAAGTTTGGAGCTAGAAAAATGGATCGAGCAATTGG
196 AGAGATCATCAAACAAGATTTTGAGAGAAAAAGTTCGGAGCTAGAAAAAAGGATCCAGCAATTAA
* * * *
85474668 AGGGAGAAAAGATGCAGTTGGGGCTAGATGTCGATGTCCAAAAACTAGAAGCTGAAAAGCTGAGA
261 AGGGAGAAAAAATACAGCTGGGGCTAGATGTCAATGTCCAAAAACTAGAAGCTGAAAAGCTGAGA
85474733 AAAGGAAAAAAAAGGCTGAAAAGGATTTGG
326 AAAGGAAAAAAAAGGCTGAAAAGGATTTGG
85474763 ACAATTTGAA
Statistics
Matches: 328, Mismatches: 26, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
354 288 0.88
355 40 0.12
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (355 bp):
TTACAAAAAGAAAGTTCGTGAGATATCAAATGCCTAGAACCAAACTCATAAAATGAAAAGGTTTG
CTGCTAATCCAATGACCACCCCTGAGTATGACTAATGGTGGGGTCAGAAGATCAACGACAACATC
CCTACGTCAGATCAAGAAAACACCCGATCAATGGAAGAACACTTGAAGGTGATCCCATCTGAGTT
AGAGATCATCAAACAAGATTTTGAGAGAAAAAGTTCGGAGCTAGAAAAAAGGATCCAGCAATTAA
AGGGAGAAAAAATACAGCTGGGGCTAGATGTCAATGTCCAAAAACTAGAAGCTGAAAAGCTGAGA
AAAGGAAAAAAAAGGCTGAAAAGGATTTGG
Found at i:85480401 original size:20 final size:20
Alignment explanation
Indices: 85480339--85480404 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
85480329 AATTTTTATT
* * *
85480339 TAATTAAAATTTTATCTAAA
1 TAATTAAAATTATAACTTAA
* *
85480359 T-TTTAAAATTATAA-TTACC
1 TAATTAAAATTATAACTTA-A
85480378 TAATTAAAATTATAACTTAA
1 TAATTAAAATTATAACTTAA
85480398 TAATTAA
1 TAATTAA
85480405 CTAAAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 20 0.56
21 3 0.08
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATTAAAATTATAACTTAA
Found at i:85480687 original size:41 final size:40
Alignment explanation
Indices: 85480611--85480696 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
85480601 CAAATACATT
*
85480611 TAAAACAAATATTAAAACAAGAAACAAATGAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATGAAAAAT-ATAA
* * * * *
85480652 TAAAACAATTCTTAAAATAATACACAAATTG-AAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAA-TGAAAAATATAA
85480692 TAAAA
1 TAAAA
85480697 AGTGATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 8 0.21
41 28 0.74
42 2 0.05
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.22
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATGAAAAATATAA
Found at i:85480747 original size:28 final size:27
Alignment explanation
Indices: 85480683--85480747 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
85480673 ACACAAATTG
* * *
85480683 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
85480710 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
85480739 AAAATAAAA
1 AAAATAAAA
85480748 AATATATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:85481116 original size:10 final size:10
Alignment explanation
Indices: 85481103--85481145 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
85481093 AATTTGTTAA
85481103 AATTTGATTT
1 AATTTGATTT
*
85481113 AATTTGTTTTT
1 AATTTG-ATTT
85481124 AAAATTTGATTT
1 --AATTTGATTT
85481136 AATTTGATTT
1 AATTTGATTT
85481146 TAAAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 16 0.57
11 3 0.11
12 3 0.11
13 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (10 bp):
AATTTGATTT
Found at i:85481125 original size:23 final size:23
Alignment explanation
Indices: 85481099--85481152 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
85481089 AAATAATTTG
*
85481099 TTAAAATTTGATTTAATTTGTTT
1 TTAAAATTTGATTTAATTTGATT
85481122 TTAAAATTTGATTTAATTTGATT
1 TTAAAATTTGATTTAATTTGATT
85481145 TTAAAATT
1 TTAAAATT
85481153 ATTAAATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
TTAAAATTTGATTTAATTTGATT
Found at i:85483837 original size:2 final size:2
Alignment explanation
Indices: 85483830--85483863 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
85483820 CAGATTCCGT
* *
85483830 TC TC TC TC TC TC CC TC TC TC TC TC TC AC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
85483864 AAAGGGCATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.44
Consensus pattern (2 bp):
TC
Found at i:85487003 original size:20 final size:19
Alignment explanation
Indices: 85486969--85487016 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
85486959 TCTCATTTTT
85486969 TATTTATTTTTTGTTTTAA
1 TATTTATTTTTTGTTTTAA
*
85486988 TATTTGTTTTTATGTTTTTAA
1 TATTTATTTTT-TG-TTTTAA
85487009 -ATTTATTT
1 TATTTATTT
85487017 AATTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 9 0.36
21 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (19 bp):
TATTTATTTTTTGTTTTAA
Found at i:85487613 original size:14 final size:15
Alignment explanation
Indices: 85487594--85487622 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
85487584 ATCATATTTG
85487594 AATTGTTTG-TATTA
1 AATTGTTTGTTATTA
85487608 AATTGTTTGTTATTA
1 AATTGTTTGTTATTA
85487623 TACATGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
AATTGTTTGTTATTA
Found at i:85487760 original size:93 final size:88
Alignment explanation
Indices: 85487594--85487793 Score: 201
Period size: 93 Copynumber: 2.2 Consensus size: 88
85487584 ATCATATTTG
* * * **
85487594 AATTGTTTGTATTAAATTGTTTGTTATTATACATGATAGAAATGAATTTCTTTGTATTTTATTGT
1 AATTATTTGTATTAAATTGTTTGTTATTATACATGACAAAAATGAATTTCTTTGTATTAAATTGT
* *
85487659 CAGTCATGTGTAGGAC-AAAAATA
66 CAGACATGTGCAGGACGAAAAA-A
*
85487682 GATTTATTTGTATTAAATTGTTTGGTTATTATTGTACATGACAAAAAT-AGATTTCTTTGTATTA
1 -AATTATTTGTATTAAATTGTTT-GTTATTA---TACATGACAAAAATGA-ATTTCTTTGTATTA
*
85487746 AAGTT-T-ATGACATGTGCATGACGGAAAAAA
60 AA-TTGTCA-GACATGTGCAGGAC-GAAAAAA
85487776 AATTATTTGTATTAAATT
1 AATTATTTGTATTAAATT
85487794 ATTTTTGTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
89 20 0.22
90 7 0.08
92 2 0.02
93 55 0.60
94 3 0.03
95 5 0.05
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (88 bp):
AATTATTTGTATTAAATTGTTTGTTATTATACATGACAAAAATGAATTTCTTTGTATTAAATTGT
CAGACATGTGCAGGACGAAAAAA
Found at i:85493175 original size:19 final size:19
Alignment explanation
Indices: 85493134--85493185 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
85493124 CTTAATCGTT
*
85493134 AATTAAATGATAAATTGAAA
1 AATTAAAT-ATGAATTGAAA
85493154 AATTAAATACTGAATT-AAA
1 AATTAAATA-TGAATTGAAA
85493173 AATTAAATATGAA
1 AATTAAATATGAA
85493186 GAAGTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 4 0.13
19 13 0.43
20 13 0.43
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTAAATATGAATTGAAA
Found at i:85493979 original size:33 final size:34
Alignment explanation
Indices: 85493914--85493979 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
85493904 AAAAATTATT
* *
85493914 TAAATTAGGGTTTATGATTTTTAAATAGATTAAG
1 TAAATTAGGGTTTAGGATTTTTAAATAAATTAAG
*
85493948 TAAATTAGGGTTTAGGA-TTTTAGATAAATTAA
1 TAAATTAGGGTTTAGGATTTTTAAATAAATTAA
85493980 ATTGGGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (34 bp):
TAAATTAGGGTTTAGGATTTTTAAATAAATTAAG
Found at i:85494074 original size:86 final size:85
Alignment explanation
Indices: 85493913--85494075 Score: 290
Period size: 85 Copynumber: 1.9 Consensus size: 85
85493903 TAAAAATTAT
85493913 TTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTAGGATTTTAGATAAATT
1 TTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTAGGATTTTAGATAAATT
*
85493978 AAATTGGGGTTTAAAATAAA
66 AAATTAGGGTTTAAAATAAA
* *
85493998 TTAAATTAGGGTTTTTTATTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAAT
1 TTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-TAGGATTTTAGATAAAT
85494063 TAAATTAGGGTTT
65 TAAATTAGGGTTT
85494076 TGGGTTAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 45 0.61
86 29 0.39
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (85 bp):
TTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTAGGATTTTAGATAAATT
AAATTAGGGTTTAAAATAAA
Found at i:85494076 original size:22 final size:22
Alignment explanation
Indices: 85494046--85494147 Score: 78
Period size: 22 Copynumber: 4.4 Consensus size: 22
85494036 ATTAGGGTTC
* *
85494046 TAGGATTTTAGATAAATTAAAT
1 TAGGGTTTTAAATAAATTAAAT
*
85494068 TAGGGTTTTGGGTTAAAATTAATTAAAT
1 TAGGG--TT---TT-AAATAAATTAAAT
*
85494096 TAGGGTTTTAGATAAATTAAAT
1 TAGGGTTTTAAATAAATTAAAT
* * *
85494118 TAGGATTTAAAACAAATTAAAT
1 TAGGGTTTTAAATAAATTAAAT
*
85494140 TAAGGTTT
1 TAGGGTTT
85494148 ATGATTTTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
22 39 0.62
23 2 0.03
24 2 0.03
26 2 0.03
27 2 0.03
28 16 0.25
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTTAAATAAATTAAAT
Found at i:85494194 original size:30 final size:28
Alignment explanation
Indices: 85494160--85494241 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
85494150 GATTTTTAAA
*
85494160 TAGATTAAGTAAATTAGGGTTCTAGGGTTT
1 TAGATTAATTAAATTAGGGTT-TAGGG-TT
* *
85494190 TAGATAAATTAAATTAGGGTTTTGGGTT
1 TAGATTAATTAAATTAGGGTTTAGGGTT
* *
85494218 AAAATTAATTAAATTAGGGTTTAG
1 TAGATTAATTAAATTAGGGTTTAG
85494242 TTTTTTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.49
29 4 0.09
30 19 0.42
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.40
Consensus pattern (28 bp):
TAGATTAATTAAATTAGGGTTTAGGGTT
Found at i:85494252 original size:136 final size:136
Alignment explanation
Indices: 85493959--85494239 Score: 490
Period size: 136 Copynumber: 2.1 Consensus size: 136
85493949 AAATTAGGGT
* * * * * * *
85493959 TTAGGATTTTAGATAAATTAAATTGGGGTTTAAAATAAATTAAATTAGGGTTTTTTATTTTTAAA
1 TTAGGGTTTTAGATAAATTAAATTAGGATTTAAAACAAATTAAATTAAGGTTTATGATTTTTAAA
85494024 TAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATTAAATTAGGGTTTTGGGTTAAAATTA
66 TAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATTAAATTAGGGTTTTGGGTTAAAATTA
85494089 ATTAAA
131 ATTAAA
85494095 TTAGGGTTTTAGATAAATTAAATTAGGATTTAAAACAAATTAAATTAAGGTTTATGATTTTTAAA
1 TTAGGGTTTTAGATAAATTAAATTAGGATTTAAAACAAATTAAATTAAGGTTTATGATTTTTAAA
*
85494160 TAGATTAAGTAAATTAGGGTTCTAGGGTTTTAGATAAATTAAATTAGGGTTTTGGGTTAAAATTA
66 TAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATTAAATTAGGGTTTTGGGTTAAAATTA
85494225 ATTAAA
131 ATTAAA
85494231 TTAGGGTTT
1 TTAGGGTTT
85494240 AGTTTTTTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (136 bp):
TTAGGGTTTTAGATAAATTAAATTAGGATTTAAAACAAATTAAATTAAGGTTTATGATTTTTAAA
TAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAATTAAATTAGGGTTTTGGGTTAAAATTA
ATTAAA
Found at i:85494533 original size:126 final size:126
Alignment explanation
Indices: 85494300--85494674 Score: 493
Period size: 126 Copynumber: 3.0 Consensus size: 126
85494290 TTTTTACCCT
* * *
85494300 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAA
1 AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGTAA
* * * * * * * *
85494365 TGTCATCAAATTTTTTGCAAAAAGCTCCCACGTGGACACTCTTTTGCTATAATAGTTCTTG
66 TGTCATCAAAATTTCTGAAAAAAACTCCCACATGGACGCTCTTTTACTACAATAGTTCTTG
* * * *
85494426 AAAAAGTAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACACTTCAAGCAGGATGTAA
1 AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGTAA
* * *
85494491 TGTCATTAAAATTTCTGAAAAAAACTCCCACATAGACGCTCTTTTACTACAGTAGTTCTTG
66 TGTCATCAAAATTTCTGAAAAAAACTCCCACATGGACGCTCTTTTACTACAATAGTTCTTG
* *
85494552 AAAAAATAATTTTAAGAAGACGTTTTTGAACATATAGTGTCAAAAACGCTTCAAGTAGGAT-TCA
1 AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGT-A
* * * * *
85494616 ATGTTATCAAAATTTCT-AAAAAAAGCTCTCACATGGATGCTCTTTTTCTACAGTAGTTC
65 ATGTCATCAAAATTTCTGAAAAAAA-CTCCCACATGGACGCTCTTTTACTACAATAGTTC
85494675 ATACTTGGCC
Statistics
Matches: 217, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
125 8 0.04
126 209 0.96
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGTAA
TGTCATCAAAATTTCTGAAAAAAACTCCCACATGGACGCTCTTTTACTACAATAGTTCTTG
Found at i:85496003 original size:24 final size:24
Alignment explanation
Indices: 85495976--85496030 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
85495966 GCCTGGACAG
* *
85495976 ATTTAATGAGCTGTTGGTTGACGA
1 ATTTAATGAGCTGCTGGTGGACGA
85496000 ATTTAATGAGCTGCTGGTGGACGA
1 ATTTAATGAGCTGCTGGTGGACGA
85496024 ATTTAAT
1 ATTTAAT
85496031 ATGTCCCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (24 bp):
ATTTAATGAGCTGCTGGTGGACGA
Found at i:85498302 original size:23 final size:23
Alignment explanation
Indices: 85498274--85498319 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
85498264 CGGATTTTGA
85498274 AAGAAATCGAGAAAA-AAAAAGAG
1 AAGAAATCGA-AAAAGAAAAAGAG
*
85498297 AAGAAATTGAAAAAGAAAAAGAG
1 AAGAAATCGAAAAAGAAAAAGAG
85498320 TGTGAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.07
Consensus pattern (23 bp):
AAGAAATCGAAAAAGAAAAAGAG
Found at i:85498460 original size:15 final size:15
Alignment explanation
Indices: 85498440--85498468 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85498430 AAAAGAGTTT
85498440 GAAAAAGAAATGAGA
1 GAAAAAGAAATGAGA
85498455 GAAAAAGAAATGAG
1 GAAAAAGAAATGAG
85498469 TGAACAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.07
Consensus pattern (15 bp):
GAAAAAGAAATGAGA
Found at i:85498748 original size:24 final size:25
Alignment explanation
Indices: 85498721--85498768 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
85498711 AAGTTGTCGA
*
85498721 TAAAAG-TTCCGATGAT-TTAGTTTT
1 TAAAAGCTTCCCAT-ATCTTAGTTTT
85498745 TAAAAGCTTCCCATATCTTAGTTT
1 TAAAAGCTTCCCATATCTTAGTTT
85498769 GGTCAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (25 bp):
TAAAAGCTTCCCATATCTTAGTTTT
Found at i:85500716 original size:14 final size:14
Alignment explanation
Indices: 85500681--85500710 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
85500671 TTATTTAGTC
85500681 TTACTTAAGACAAA
1 TTACTTAAGACAAA
85500695 TTACTTAAGACAAA
1 TTACTTAAGACAAA
85500709 TT
1 TT
85500711 TATTAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (14 bp):
TTACTTAAGACAAA
Found at i:85500863 original size:17 final size:18
Alignment explanation
Indices: 85500831--85500865 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85500821 ATAATTTTTA
85500831 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
85500849 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
85500866 TGTGTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:85500966 original size:24 final size:24
Alignment explanation
Indices: 85500939--85500994 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
85500929 GCCTGGACAG
*
85500939 ATTTAATAAGCTGCTGGTTGACGA
1 ATTTAATAAGCTGCTGGTGGACGA
*
85500963 ATTTAATGAGCTGCTGGTGGACGA
1 ATTTAATAAGCTGCTGGTGGACGA
85500987 ATTTAATA
1 ATTTAATA
85500995 TGTCCCAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (24 bp):
ATTTAATAAGCTGCTGGTGGACGA
Found at i:85505617 original size:7 final size:7
Alignment explanation
Indices: 85505605--85505636 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
85505595 TTATATAAAT
85505605 AATACTA
1 AATACTA
85505612 AATACTA
1 AATACTA
85505619 AATACTA
1 AATACTA
85505626 AATACTA
1 AATACTA
85505633 AATA
1 AATA
85505637 TGAAGCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:85506637 original size:52 final size:54
Alignment explanation
Indices: 85506569--85506687 Score: 179
Period size: 54 Copynumber: 2.2 Consensus size: 54
85506559 TAAAAAAATA
* *
85506569 AAAAAATACAAATTAATGAAAATTACATAAATG-AAAAAA-ATTAAATAATATTC
1 AAAAATTA-AAATTAATGAAAATTACAGAAATGAAAAAAATATTAAATAATATTC
*
85506622 AAAAATTAAAATTAATTAAAATTACAGAAATGAAAAAAATATTAAATAATATTC
1 AAAAATTAAAATTAATGAAAATTACAGAAATGAAAAAAATATTAAATAATATTC
*
85506676 AAAATTTAAAAT
1 AAAAATTAAAAT
85506688 AAACCGTTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 22 0.37
53 13 0.22
54 25 0.42
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (54 bp):
AAAAATTAAAATTAATGAAAATTACAGAAATGAAAAAAATATTAAATAATATTC
Found at i:85506878 original size:21 final size:21
Alignment explanation
Indices: 85506845--85506888 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
85506835 TATAAAGAGT
*
85506845 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
85506866 TTTGAGAGTTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
85506887 TT
1 TT
85506889 GTAGAATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:85511120 original size:17 final size:19
Alignment explanation
Indices: 85511098--85511142 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
85511088 TTCTCAAGCT
*
85511098 TTATTTTC-ATGGTTGT-C
1 TTATTTTCTATGGTTATGC
*
85511115 TTATTTTCTATTGTTATGC
1 TTATTTTCTATGGTTATGC
85511134 TTATTTTCT
1 TTATTTTCT
85511143 TTACTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.64
Consensus pattern (19 bp):
TTATTTTCTATGGTTATGC
Found at i:85519452 original size:61 final size:61
Alignment explanation
Indices: 85519357--85519476 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 61
85519347 GAGTTATGAA
*
85519357 GTTGGTTGACTTTTCAATTTGCTTAAAGGACTATATTTTTAAATATGAGTATACACAAGAT
1 GTTGGTTGACTTTGCAATTTGCTTAAAGGACTATATTTTTAAATATGAGTATACACAAGAT
85519418 GTTGGTTGACTTTGCAATTTGCTTAAAGGACTATATTTTTAAATATGAGTATACACAAG
1 GTTGGTTGACTTTGCAATTTGCTTAAAGGACTATATTTTTAAATATGAGTATACACAAG
85519477 GACATGATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (61 bp):
GTTGGTTGACTTTGCAATTTGCTTAAAGGACTATATTTTTAAATATGAGTATACACAAGAT
Found at i:85525741 original size:14 final size:14
Alignment explanation
Indices: 85525722--85525748 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85525712 TTCTTCCCCA
85525722 TTTTTCATCAATAT
1 TTTTTCATCAATAT
85525736 TTTTTCATCAATA
1 TTTTTCATCAATA
85525749 CATAGGCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTCATCAATAT
Found at i:85526070 original size:10 final size:11
Alignment explanation
Indices: 85526044--85526069 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85526034 TTAAAAATAT
85526044 AAAAATACAAA
1 AAAAATACAAA
85526055 AAAAATACAAA
1 AAAAATACAAA
85526066 AAAA
1 AAAA
85526070 TCTTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:85526263 original size:40 final size:39
Alignment explanation
Indices: 85526213--85526289 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
85526203 TTTCACATAC
85526213 TTATAAATTTTTATCTTT-TTTTTATAATTTTCAAAGTAGA
1 TTATAAATTTTT-T-TTTATTTTTATAATTTTCAAAGTAGA
* *
85526253 TTATGAATTTTTTTTTAGTTTTTATAATTTTCTAAGT
1 TTATAAATTTTTTTTTA-TTTTTATAATTTTCAAAGT
85526290 TATTAATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 3 0.09
39 1 0.03
40 29 0.88
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (39 bp):
TTATAAATTTTTTTTTATTTTTATAATTTTCAAAGTAGA
Found at i:85526329 original size:19 final size:19
Alignment explanation
Indices: 85526302--85526338 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85526292 TTAATTGTTT
* *
85526302 TTGGTTTTTTATGATTTTG
1 TTGGATTTTAATGATTTTG
85526321 TTGGATTTTAATGATTTT
1 TTGGATTTTAATGATTTT
85526339 TAAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (19 bp):
TTGGATTTTAATGATTTTG
Found at i:85530830 original size:49 final size:49
Alignment explanation
Indices: 85530777--85531057 Score: 337
Period size: 49 Copynumber: 5.7 Consensus size: 49
85530767 CTGGTACGCA
* *
85530777 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * *
85530826 TAGTACCCTGCACTTAATATTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
85530875 TAGGAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * ** * * *
85530925 TAATAGCCTGCATTTAGTACTACACACGTGATTGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
85530976 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
85531025 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
85531058 TCACAATAGA
Statistics
Matches: 193, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 114 0.59
50 43 0.22
51 36 0.19
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:85532516 original size:11 final size:11
Alignment explanation
Indices: 85532497--85532555 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
85532487 CCTGTTGCCA
* *
85532497 TTTGTTATTGT
1 TTTGCTATTAT
85532508 TTTGCTATTAT
1 TTTGCTATTAT
* *
85532519 TTTTCTATCAT
1 TTTGCTATTAT
*
85532530 TTTTCTATTAT
1 TTTGCTATTAT
* *
85532541 ATTGCTACTAT
1 TTTGCTATTAT
85532552 TTTG
1 TTTG
85532556 TTGTCATTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.64
Consensus pattern (11 bp):
TTTGCTATTAT
Found at i:85533705 original size:42 final size:42
Alignment explanation
Indices: 85533646--85533734 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
85533636 TCCTAATTGG
*
85533646 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACAAAAACATAAAA
*
85533688 GAAAATAGTTCCCTTATTCTAATAAACTACAAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACAAAAACATAAAA
*
85533730 TAAAA
1 GAAAA
85533735 ATATTCCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.27
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACAAAAACATAAAA
Found at i:85533781 original size:19 final size:18
Alignment explanation
Indices: 85533759--85533798 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
85533749 TGAATAAAAC
85533759 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
85533778 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
85533796 TTA
1 TTA
85533799 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:85541706 original size:25 final size:26
Alignment explanation
Indices: 85541658--85541707 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
85541648 AGATACAAAA
85541658 CCCAATTAAACCAAACTAAACCCAAT
1 CCCAATTAAACCAAACTAAACCCAAT
*
85541684 CCCAATTAAACC-AACTAAGCCCAA
1 CCCAATTAAACCAAACTAAACCCAA
85541708 CCTATCCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (26 bp):
CCCAATTAAACCAAACTAAACCCAAT
Found at i:85543108 original size:27 final size:25
Alignment explanation
Indices: 85543019--85543154 Score: 91
Period size: 27 Copynumber: 5.3 Consensus size: 25
85543009 TCTTTCATAG
*
85543019 TATTTATTTTGAACAGT-TTTAT-TAT
1 TATTTATTTT-AA-ATTGTTTATATAT
* * *
85543044 TATTTATTTTAAGTCTTTTTCCATATAG
1 TATTTATTTTAAAT-TGTTT--ATATAT
*
85543072 TATTTGTTTTAAATTGTTATATCATAT
1 TATTTATTTTAAATTGTT-TAT-ATAT
* *
85543099 TATTTATTTTAATTTGTTT-TGTAT
1 TATTTATTTTAAATTGTTTATATAT
*
85543123 TA-TTATTTTAAATTATTTTATATAT
1 TATTTATTTTAAATT-GTTTATATAT
*
85543148 TGTTTAT
1 TATTTAT
85543155 AGAGGTGTTC
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
23 11 0.13
24 11 0.13
25 19 0.22
26 7 0.08
27 24 0.28
28 15 0.17
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTATTTTAAATTGTTTATATAT
Found at i:85543141 original size:23 final size:24
Alignment explanation
Indices: 85543096--85543141 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
85543086 TGTTATATCA
* *
85543096 TATTATTTATTTTAATTTGTTTTG
1 TATTATTTATTTTAAATTATTTTG
85543120 TATTA-TTATTTTAAATTATTTT
1 TATTATTTATTTTAAATTATTTT
85543142 ATATATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTATTTATTTTAAATTATTTTG
Found at i:85543476 original size:30 final size:31
Alignment explanation
Indices: 85543433--85543494 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
85543423 CTTAACAAGC
*
85543433 AATTGCTTCTAAAATAATAAAAAAATTAACA
1 AATTCCTTCTAAAATAATAAAAAAATTAACA
*
85543464 AATTCCTT-TAAAATAATAAGAAAATTAACA
1 AATTCCTTCTAAAATAATAAAAAAATTAACA
85543494 A
1 A
85543495 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (31 bp):
AATTCCTTCTAAAATAATAAAAAAATTAACA
Found at i:85543546 original size:11 final size:11
Alignment explanation
Indices: 85543532--85543558 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
85543522 CAATAACAAC
85543532 AAAATAATAGT
1 AAAATAATAGT
85543543 AAAATAATAGT
1 AAAATAATAGT
85543554 AAAAT
1 AAAAT
85543559 GGTAGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:85543933 original size:24 final size:25
Alignment explanation
Indices: 85543872--85543943 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
85543862 TATTTAAAAA
* * *
85543872 TTTATATATTGTTTATTCTGAACCGT
1 TTTATATATT-ATTATTTTAAACCGT
*
85543898 TTCATATATTATTATTTTAAACC-T
1 TTTATATATTATTATTTTAAACCGT
*
85543922 TTTATATATTATTTATGTTAAA
1 TTTATATATTA-TTATTTTAAA
85543944 ATTTTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 11 0.28
25 19 0.49
26 9 0.23
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTATATATTATTATTTTAAACCGT
Found at i:85543948 original size:24 final size:25
Alignment explanation
Indices: 85543901--85543956 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
85543891 GAACCGTTTC
* *
85543901 ATATATTA-TTATTTTAAACCTTTT
1 ATATATTATTTATGTTAAACATTTT
85543925 ATATATTATTTATGTTAAA-ATTTT
1 ATATATTATTTATGTTAAACATTTT
*
85543949 -TATTTTAT
1 ATATATTAT
85543957 ACTTTAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 12 0.43
25 9 0.32
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
ATATATTATTTATGTTAAACATTTT
Found at i:85543949 original size:25 final size:24
Alignment explanation
Indices: 85543901--85543951 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
85543891 GAACCGTTTC
* *
85543901 ATATATTATTATTTTAAACCTTTT
1 ATATATTATTATGTTAAAACTTTT
*
85543925 ATATATTATTTATGTTAAAATTTTT
1 ATATATTA-TTATGTTAAAACTTTT
85543950 AT
1 AT
85543952 TTTATACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (24 bp):
ATATATTATTATGTTAAAACTTTT
Found at i:85550157 original size:20 final size:22
Alignment explanation
Indices: 85550132--85550177 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
85550122 AGGGGTGGGA
*
85550132 TGGGAGGGGAGTAAA-A-GTTT
1 TGGGAGGGAAGTAAATAGGTTT
*
85550152 TGGGAGGTAAGTAAATAGGTTT
1 TGGGAGGGAAGTAAATAGGTTT
85550174 TGGG
1 TGGG
85550178 TTTGGTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 1 0.05
22 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.43, T:0.28
Consensus pattern (22 bp):
TGGGAGGGAAGTAAATAGGTTT
Found at i:85562228 original size:29 final size:29
Alignment explanation
Indices: 85562186--85562286 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
85562176 CATGAAATTG
85562186 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
85562215 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* *
85562244 GCACTAAGTGTGCGAGTTC-GATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
85562272 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
85562287 ACTTACTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 20 0.30
29 46 0.70
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:85570102 original size:15 final size:15
Alignment explanation
Indices: 85570062--85570102 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
85570052 TTTTACTTAT
85570062 AATGTACATATATGAG
1 AATGT-CATATATGAG
*
85570078 AATATCATAT-T-AG
1 AATGTCATATATGAG
85570091 AATGTCATATAT
1 AATGTCATATAT
85570103 CAAGAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.50
14 2 0.09
15 5 0.23
16 4 0.18
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (15 bp):
AATGTCATATATGAG
Found at i:85572735 original size:25 final size:25
Alignment explanation
Indices: 85572701--85572752 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
85572691 CAACCAGATT
85572701 GGAACTCCCAAATATTTATTAAAAG
1 GGAACTCCCAAATATTTATTAAAAG
85572726 GGAACTCCCAAATATTTATTAAAAG
1 GGAACTCCCAAATATTTATTAAAAG
85572751 GG
1 GG
85572753 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (25 bp):
GGAACTCCCAAATATTTATTAAAAG
Found at i:85573252 original size:25 final size:25
Alignment explanation
Indices: 85573218--85573269 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
85573208 CAACCAGATT
85573218 GGAACTCCCAAATATTTATTAAAAG
1 GGAACTCCCAAATATTTATTAAAAG
85573243 GGAACTCCCAAATATTTATTAAAAG
1 GGAACTCCCAAATATTTATTAAAAG
85573268 GG
1 GG
85573270 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (25 bp):
GGAACTCCCAAATATTTATTAAAAG
Found at i:85573587 original size:517 final size:517
Alignment explanation
Indices: 85572587--85573617 Score: 1911
Period size: 517 Copynumber: 2.0 Consensus size: 517
85572577 GTCAAAAGAA
* * *
85572587 AAAATTGTAAACTTTTTTGTTGGAACATTTCAAGGAGATGTTCTACAATTCCTAAAAAGATGGGG
1 AAAATTGTAAACTATTTTGTTGGAACATTTCAAGGAGATGTTCTACAATTCCTAAAAAGATAGGA
* *
85572652 AGAATCAGAAAAAGGAAGAGAGCAAAAAGGGTAGTTAATCAACCAGATTGGAACTCCCAAATATT
66 AGAATCAGAAAAAGGAAGAGAACAAAAAGGGCAGTTAATCAACCAGATTGGAACTCCCAAATATT
*
85572717 TATTAAAAGGGAACTCCCAAATATTTATTAAAAGGGTTAATTTTTATTCTAAAAATAGAATTTTG
131 TATTAAAAGGGAACTCCCAAATATTTATTAAAAGGGTTAATTTTTATTCTAAAAACAGAATTTTG
85572782 TGGATATACTGATAAAAAAGATCAGGATTGTTTGTCTAGTTATGTATTGTCAAAAATAAAATTAT
196 TGGATATACTGATAAAAAAGATCAGGATTGTTTGTCTAGTTATGTATTGTCAAAAATAAAATTAT
85572847 GTGATATAAGATACCTAGAAGAATTTTCTAAAAAATTTCTTCATAAATATCAAAAACTAAAAAAT
261 GTGATATAAGATACCTAGAAGAATTTTCTAAAAAATTTCTTCATAAATATCAAAAACTAAAAAAT
85572912 GAAAATATAAATTTTTGGAAAAACCAATATTTTCATAAATTACCACCACCATAGGATGAGATTTA
326 GAAAATATAAATTTTTGGAAAAACCAATATTTTCATAAATTACCACCACCATAGGATGAGATTTA
*
85572977 TATAAAAAAAATACAATTCTTATTTAGAAAAGCATAATAAAATAGCTGGTGTAGAACTAGAAAAT
391 TATAAAAAAAATACAATTCTTATTTAGAAAAGCATAATAAAATAGCTAGTGTAGAACTAGAAAAT
85573042 ATAGATTCTATAGGAAATAGAATTAATTTTGAAGTAATATCTATTAAACTATTAAAACTATT
456 ATAGATTCTATAGGAAATAGAATTAATTTTGAAGTAATATCTATTAAACTATTAAAACTATT
*
85573104 AAAATTGTAAACTATTTTGTTGGAACATTTCAAGGAGATGTTCTACAATTCCTAAGAAGATAGGA
1 AAAATTGTAAACTATTTTGTTGGAACATTTCAAGGAGATGTTCTACAATTCCTAAAAAGATAGGA
*
85573169 AGAATCAGAAAAAGGAAGAGAACAAAAATGGCAGTTAATCAACCAGATTGGAACTCCCAAATATT
66 AGAATCAGAAAAAGGAAGAGAACAAAAAGGGCAGTTAATCAACCAGATTGGAACTCCCAAATATT
85573234 TATTAAAAGGGAACTCCCAAATATTTATTAAAAGGGTTAATTTTTATTCTAAAAACAGAATTTTG
131 TATTAAAAGGGAACTCCCAAATATTTATTAAAAGGGTTAATTTTTATTCTAAAAACAGAATTTTG
*
85573299 TGGATATATTGATAAAAAAGATCAGGATTGTTTGTCTAGTTATGTATTGTCAAAAATAAAATTAT
196 TGGATATACTGATAAAAAAGATCAGGATTGTTTGTCTAGTTATGTATTGTCAAAAATAAAATTAT
*
85573364 GTGATATAAGATACCTAGAAGAATTTTCTAAAACATTTCTTCATAAATATCAAAAACTAAAAAAT
261 GTGATATAAGATACCTAGAAGAATTTTCTAAAAAATTTCTTCATAAATATCAAAAACTAAAAAAT
* * * *
85573429 GAAAATATAAATTTTTGGAAAAACTAATATTTTCATAAATTACCACCATCATTGGATGAGATTTG
326 GAAAATATAAATTTTTGGAAAAACCAATATTTTCATAAATTACCACCACCATAGGATGAGATTTA
85573494 TAT-AAAAAAATACAATTCTTATTTAGAAAAGCATAATAAAATAGCTAGTGTAGAACTAGAAAAT
391 TATAAAAAAAATACAATTCTTATTTAGAAAAGCATAATAAAATAGCTAGTGTAGAACTAGAAAAT
85573558 ATAGATTCTATAGGAAATAGAATTTAATTTTGAAGTAATATCTATTAAACTATTAAAACT
456 ATAGATTCTATAGGAAATAGAA-TTAATTTTGAAGTAATATCTATTAAACTATTAAAACT
85573618 CCTACTGAGA
Statistics
Matches: 498, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
516 82 0.16
517 416 0.84
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.32
Consensus pattern (517 bp):
AAAATTGTAAACTATTTTGTTGGAACATTTCAAGGAGATGTTCTACAATTCCTAAAAAGATAGGA
AGAATCAGAAAAAGGAAGAGAACAAAAAGGGCAGTTAATCAACCAGATTGGAACTCCCAAATATT
TATTAAAAGGGAACTCCCAAATATTTATTAAAAGGGTTAATTTTTATTCTAAAAACAGAATTTTG
TGGATATACTGATAAAAAAGATCAGGATTGTTTGTCTAGTTATGTATTGTCAAAAATAAAATTAT
GTGATATAAGATACCTAGAAGAATTTTCTAAAAAATTTCTTCATAAATATCAAAAACTAAAAAAT
GAAAATATAAATTTTTGGAAAAACCAATATTTTCATAAATTACCACCACCATAGGATGAGATTTA
TATAAAAAAAATACAATTCTTATTTAGAAAAGCATAATAAAATAGCTAGTGTAGAACTAGAAAAT
ATAGATTCTATAGGAAATAGAATTAATTTTGAAGTAATATCTATTAAACTATTAAAACTATT
Found at i:85578394 original size:27 final size:26
Alignment explanation
Indices: 85578357--85578471 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
85578347 AGCATGGCTG
* *
85578357 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
85578383 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
85578411 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
85578438 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
85578465 CCAGAAC
1 CCAGAAC
85578472 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:85578421 original size:54 final size:54
Alignment explanation
Indices: 85578357--85578471 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
85578347 AGCATGGCTG
*
85578357 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
85578411 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
85578465 CCAGAAC
1 CCAGAAC
85578472 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:85580188 original size:25 final size:26
Alignment explanation
Indices: 85580088--85580196 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
85580078 CATGAAATTC
85580088 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
85580114 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85580140 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
85580166 TTATCATTG-AACA-TTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
85580191 TTATCA
1 TTATCA
85580197 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
25 18 0.23
26 58 0.74
27 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85585335 original size:23 final size:23
Alignment explanation
Indices: 85585291--85585335 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85585281 ATCAATTTAA
*
85585291 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
85585314 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
85585336 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:85589048 original size:17 final size:18
Alignment explanation
Indices: 85589015--85589048 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85589005 CGTCAAACTT
*
85589015 TTATGATTTATGTTAATG
1 TTATGATTTAAGTTAATG
85589033 TTATGA-TTAAGTTAAT
1 TTATGATTTAAGTTAAT
85589049 TTTAATTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TTATGATTTAAGTTAATG
Found at i:85590222 original size:9 final size:8
Alignment explanation
Indices: 85590198--85590241 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
85590188 AATACAACCT
85590198 AAAAT-AA
1 AAAATAAA
85590205 AAAATAAA
1 AAAATAAA
85590213 AAAATAAA
1 AAAATAAA
85590221 AAAATGAAGA
1 AAAAT-AA-A
*
85590231 AAAAGAAA
1 AAAATAAA
85590239 AAA
1 AAA
85590242 CCTAATCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 5 0.15
8 19 0.58
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:85590513 original size:5 final size:5
Alignment explanation
Indices: 85590487--85590537 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
85590477 TTTGTTCATT
* *
85590487 TTTTA TTTTTCA TTTT- TGTTA TTTTA TTTTA TTTTA TTTT- CTTTA TTTTA
1 TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
85590537 T
1 T
85590538 ATCTATGTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
4 6 0.16
5 23 0.61
6 8 0.21
7 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:85590786 original size:280 final size:283
Alignment explanation
Indices: 85590256--85590819 Score: 1098
Period size: 280 Copynumber: 2.0 Consensus size: 283
85590246 ATCTCTTCAC
85590256 TCTATGTGCCGCTCTAAGCGCCGTCCTAGTCCTCTTTTGTCTACCACTTGTAAAAAGAAAAGATA
1 TCTATGTGCCGCTCTAAGCGCCGTCCTAGTCCTCTTTTGTCTACCACTTGTAAAAAGAAAAGATA
85590321 GTAAATAATAATAAAAAATGTTGTAACAAGGCTATAAAAGCCATCATAAAACCAAATGTAAAAGA
66 GTAAATAATAATAAAAAATGTTGTAACAAGGCTATAAAAGCCATCATAAAACCAAATGTAAAAGA
85590386 AAAGGAGGGATAAAAAAAAACATTGTATTTTCACATAGAGATCAAAAATCCAAAGCAAAAAAAAA
131 AAAGGAGGGATAAAAAAAAACATTGTATTTTCACATAGAGATCAAAAATCCAAAGCAAAAAAAAA
85590451 GGTTGATTTTAATTTCTTGTATTCCCTTTGTTCATTTTTTATTTTTCATTTTTGTTATTTTATTT
196 GGTTGATTTTAATTTCTTGTATTCCCTTTGTTCATTTTTTATTTTTCATTTTTGTTATTTTATTT
85590516 TATTTTATTTTCTTTATTTTATA
261 TATTTTATTTTCTTTATTTTATA
85590539 TCTATGTGCCGCTCTAAGCGCCGTCCTAGTCCTCTTTTGTCTACCACTTGTAAAAAGAAAAGATA
1 TCTATGTGCCGCTCTAAGCGCCGTCCTAGTCCTCTTTTGTCTACCACTTGTAAAAAGAAAAGATA
85590604 GTAAATAATAA-AAAAAATGTTGTAACAAGGCTATAAAAGCCATCATAAAACCAAATGTAAAAGA
66 GTAAATAATAATAAAAAATGTTGTAACAAGGCTATAAAAGCCATCATAAAACCAAATGTAAAAGA
*
85590668 AAATGAGGGAT-AAAAAAAACATTGTATTTTCACATAGAGATCAAAAATCCAAAGC-AAAAAAAA
131 AAAGGAGGGATAAAAAAAAACATTGTATTTTCACATAGAGATCAAAAATCCAAAGCAAAAAAAAA
85590731 GGTTGATTTTAATTTCTTGTATTCCCTTTGTTCATTTTTTATTTTTCATTTTTGTTATTTTATTT
196 GGTTGATTTTAATTTCTTGTATTCCCTTTGTTCATTTTTTATTTTTCATTTTTGTTATTTTATTT
85590796 TATTTTATTTTCTTTATTTTATA
261 TATTTTATTTTCTTTATTTTATA
85590819 T
1 T
85590820 ATATACATAA
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
280 97 0.35
281 44 0.16
282 63 0.22
283 76 0.27
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (283 bp):
TCTATGTGCCGCTCTAAGCGCCGTCCTAGTCCTCTTTTGTCTACCACTTGTAAAAAGAAAAGATA
GTAAATAATAATAAAAAATGTTGTAACAAGGCTATAAAAGCCATCATAAAACCAAATGTAAAAGA
AAAGGAGGGATAAAAAAAAACATTGTATTTTCACATAGAGATCAAAAATCCAAAGCAAAAAAAAA
GGTTGATTTTAATTTCTTGTATTCCCTTTGTTCATTTTTTATTTTTCATTTTTGTTATTTTATTT
TATTTTATTTTCTTTATTTTATA
Found at i:85590793 original size:5 final size:5
Alignment explanation
Indices: 85590767--85590817 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
85590757 TTTGTTCATT
* *
85590767 TTTTA TTTTTCA TTTT- TGTTA TTTTA TTTTA TTTTA TTTT- CTTTA TTTTA
1 TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
85590817 T
1 T
85590818 ATATATACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
4 6 0.16
5 23 0.61
6 8 0.21
7 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:85602158 original size:51 final size:51
Alignment explanation
Indices: 85602082--85602184 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
85602072 TATTTTACCT
* * * *
85602082 AAAAAAGGAAAGGCCGAGGTGAAAACCCG-CAAAGGGTACTTTGAGACCAA
1 AAAAAAGGAAAGGCCAAGGTAAAAACCCGTAAAAGGGCACTTTGAGACCAA
*
85602132 AAAAAATGGAAAGGCCAAGGTAAAAACCCGTAAAATGGCACTTTGAGACCAA
1 AAAAAA-GGAAAGGCCAAGGTAAAAACCCGTAAAAGGGCACTTTGAGACCAA
85602184 A
1 A
85602185 GGGGGTTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 6 0.13
51 21 0.46
52 19 0.41
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (51 bp):
AAAAAAGGAAAGGCCAAGGTAAAAACCCGTAAAAGGGCACTTTGAGACCAA
Found at i:85603219 original size:44 final size:44
Alignment explanation
Indices: 85603109--85603826 Score: 670
Period size: 44 Copynumber: 16.4 Consensus size: 44
85603099 ATCCAAGATT
*
85603109 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
85603153 A-TT--CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
85603194 ATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** * * * *
85603238 GCTTGACGTCTCTG-AGTGGTGGAGACCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
85603281 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
85603325 ATTTGGCGTCTCTGTAGCGGC---GAGCAGATCGAAGATAACAGG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA-G
* ** * * * * * * * * ** * *
85603367 CAGATTGAAGATGATTTGGCATC-TCTGTAGCGGCGGAGAGTAGATCGA-AG
1 -A-TTTGGCG-T-CTCT-GTAGCGGC-GGAG-AGCAGATCGAAGAT-AACAG
** * *** * *
85603417 A--TAACAGAT-T-TG--GCGTCTCTGTAGCGACGA-AGAGCAGATTGAAGATG
1 ATTTGGC-G-TCTCTGTAGCGGCGGAG-AGC-A-GATCGA--AGA-T-AACA-G
*
85603464 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603508 ATTTAGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
85603552 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603596 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAATAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
85603640 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603680 ATTTGGCATCTCTGTAGCAGCGGAGAGTAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603724 ATTTGGCGTCTCTGTA-AGGTGGAGAGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* *
85603767 ATTTGGCGTCTCTGTAGCGACGGAGAGCATATCGAAGATAAC-G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
85603810 AATTTGGCGTCTCTGTA
1 -ATTTGGCGTCTCTGTA
85603827 TTAGACGGGG
Statistics
Matches: 559, Mismatches: 77, Indels: 76
0.79 0.11 0.11
Matches are distributed among these distances:
40 36 0.06
41 61 0.11
42 7 0.01
43 82 0.15
44 315 0.56
45 7 0.01
46 7 0.01
47 12 0.02
48 3 0.01
49 8 0.01
50 5 0.01
51 15 0.03
52 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
Found at i:85603291 original size:87 final size:85
Alignment explanation
Indices: 85603109--85603826 Score: 465
Period size: 87 Copynumber: 8.2 Consensus size: 85
85603099 ATCCAAGATT
85603109 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA-GATT-CGTCTCTGTAGCGGCG
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGATTGCGTCTCTGTAGCGG-G
85603172 GAGAGCAGATCGAAGATAACAG
65 GAGA-CAGATCGAAGATAACAG
* * * *
85603194 ATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGGCTTGACGTCTCTG-AGTGGT
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGATTG-CGTCTCTGTAGCGG-
85603258 GGAGACCAGATCGAAGATAACAG
64 GGAGA-CAGATCGAAGATAACAG
85603281 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA-GATTTGGCGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGA-TT-GCGTCTCTGTAGCGG
*
85603345 CGAG-CAGATCGAAGATAACAGG
64 GGAGACAGATCGAAGATAACA-G
* ** * * * * * * * * * * ** *
85603367 CAGATTGAAGATGATTTGGCATC-TCTG-TAGC-G-GCGGAGAGTAGATCGAAGATAACAGATTT
1 -A-TTTGGCG-T-CTCT-GTAGCGGCAGAGAGCAGATCGAAGA-TA-A-C-AGGATTGC-G-TCT
** ** * * *
85603428 GGC-GTCTCTGTAGCGACGAAGA--GCAGATTGAAGATG
55 --CTGTAGC-GGGGAGAC--AGATCGAAGA-T-AACA-G
* *
85603464 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA-GATTTAGCGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGA-TT-GCGTCTCTGTAGCGG
* *
85603528 CAGAGAGCAGATCAAAGATAACAG
64 -GGAGA-CAGATCGAAGATAACAG
*
85603552 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA-GATTTGGCGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGA-TT-GCGTCTCTGTAGCGG
* * *
85603616 CGAAGAGCAGATCGAATATAATAG
64 -GGAGA-CAGATCGAAGATAACAG
*
85603640 ATTTGGCGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGAT-----GATTTGGCATCTCTGTAGCA
1 ATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAACAGGA-TT-GCGTCTCTGTAGC-
* *
85603699 GCGGAGAGTAGATCGAAGATAACAG
62 GGGGAGA-CAGATCGAAGATAACAG
* ** *
85603724 ATTTGGCGTCTCTGTA-AGGTGGAGAGCAGATCAAAGATAACA-GATTTGGCGTCTCTGTAGCGA
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGA-TT-GCGTCTCTGTAGCG-
* *
85603787 CGGAGAGCATATCGAAGATAAC-G
63 GGGAGA-CAGATCGAAGATAACAG
85603810 AATTTGGCGTCTCTGTA
1 -ATTTGGCGTCTCTGTA
85603827 TTAGACGGGG
Statistics
Matches: 510, Mismatches: 76, Indels: 92
0.75 0.11 0.14
Matches are distributed among these distances:
83 17 0.03
84 54 0.11
85 58 0.11
86 7 0.01
87 141 0.28
88 139 0.27
89 13 0.03
90 14 0.03
91 14 0.03
92 10 0.02
93 9 0.02
94 9 0.02
95 11 0.02
96 7 0.01
97 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (85 bp):
ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGGATTGCGTCTCTGTAGCGGGG
AGACAGATCGAAGATAACAG
Found at i:85603507 original size:84 final size:85
Alignment explanation
Indices: 85603366--85603826 Score: 562
Period size: 84 Copynumber: 5.4 Consensus size: 85
85603356 AAGATAACAG
* * *
85603366 GCAGATTGAAGAT-GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGG
1 GCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
85603430 CGTCTCTGTAGCGACGAAGA
66 CGTCTCTGTAGCGACGAAGA
* * *
85603450 GCAGATTGAAGAT-GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTAG
1 GCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
*
85603514 CGTCTCTGTAGCGGC-AGAGA
66 CGTCTCTGTAGCGACGA-AGA
*
85603534 GCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
*
85603599 TGGCGTCTCTGTAGCGGCGAAGA
63 TGGCGTCTCTGTAGCGACGAAGA
* *
85603622 GCAGATCGAATATAATAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----GATT
1 GCAGATCG-A-A-GATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
* *
85603683 TGGCATCTCTGTAGC-AGCGGAGA
63 TGGCGTCTCTGTAGCGA-CGAAGA
* * * *
85603706 GTAGATCGAAGATAACAGATTTGGCGTCTCTGTA-AGGTGGAGAGCAGATCAAAGATAACAGATT
1 GCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
*
85603770 TGGCGTCTCTGTAGCGACGGAGA
63 TGGCGTCTCTGTAGCGACGAAGA
*
85603793 GCATATCGAAGATAACGAATTTGGCGTCTCTGTA
1 GCAGATCGAAGAT-A-G-ATTTGGCGTCTCTGTA
85603827 TTAGACGGGG
Statistics
Matches: 334, Mismatches: 23, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 20 0.06
84 138 0.41
85 1 0.00
86 1 0.00
87 51 0.15
88 115 0.34
89 2 0.01
90 1 0.00
91 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (85 bp):
GCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGACGAAGA
Found at i:85603692 original size:128 final size:129
Alignment explanation
Indices: 85603109--85603826 Score: 803
Period size: 128 Copynumber: 5.4 Consensus size: 129
85603099 ATCCAAGATT
85603109 ATTTGGCGTCTCTGTAGCGGC-AGAGAGCAGATCGAAGATAACAGA-TT--CGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCGA-AGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
*
85603170 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAA
62 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
85603235 CAG
127 CAG
** * * * * *
85603238 GCTTGACGTCTCTG-AGTGGTGGAGACCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGC
* *
85603302 AGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGCAGATCGAAGATAACAGG
63 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG-G-AGA--GCAGAT--C--G
* *
85603367 CAGATTGAAGATG
120 AAGA-T-AACA-G
* * * *
85603380 ATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGAC
1 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGC
* * *
85603445 GAAGAGCAGATTGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
63 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
85603506 AG
128 AG
* *
85603508 ATTTAGCGTCTCTGTAGCGGC-AGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCGA-AGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* *
85603572 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAA
62 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
85603637 TAG
127 CAG
* *
85603640 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCAGCGGA
1 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCGGA
* * * *
85603704 GAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTA-AGGTGGAGAGCAGATCAAAGATAACAG
66 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603767 ATTTGGCGTCTCTGTAGCGACGGAGAGCATATCGAAGATAACGAATTTGGCGTCTCTGTA
1 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT-A-G-ATTTGGCGTCTCTGTA
85603827 TTAGACGGGG
Statistics
Matches: 508, Mismatches: 55, Indels: 50
0.83 0.09 0.08
Matches are distributed among these distances:
127 57 0.11
128 158 0.31
129 16 0.03
130 2 0.00
131 77 0.15
132 77 0.15
133 5 0.01
135 10 0.02
137 4 0.01
138 1 0.00
139 26 0.05
140 1 0.00
141 3 0.01
142 11 0.02
143 60 0.12
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (129 bp):
ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCGGA
GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
Found at i:85603694 original size:172 final size:173
Alignment explanation
Indices: 85603109--85603826 Score: 848
Period size: 172 Copynumber: 4.1 Consensus size: 173
85603099 ATCCAAGATT
85603109 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGA-TT--CGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGC
* * *
85603171 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAAC
63 AGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
** * * ** * * *
85603236 AGGCTTGACGTCTCTG-AGTGGTGGAGACCAGATCGAAGATAACAG
128 AGATTTGGCGTCTCTGTAGCGACGAAGAGCAGATCGAAGATAATAG
85603281 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGC
* * * * *
85603346 GAGCAGATCGAAGATAACAGGCAGATTGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGTAGA
63 -AG-AGA--GCAGAT--CA--AAGA-T-AACA-GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
*
85603411 TCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGAAGAGCAGATTGAAG---AT-G
117 TCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGAAGAGCAGATCGAAGATAATAG
* * *
85603464 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGGC
85603529 AGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
63 AGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
* *
85603594 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAATAG
128 AGATTTGGCGTCTCTGTAGCGACGAAGAGCAGATCGAAGATAATAG
* * *
85603640 ATTTGGCGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCAGCGG
1 ATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCAG
* * * * *
85603703 AGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTA-AGGTGGAGAGCAGATCAAAGATAACAG
65 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
85603767 ATTTGGCGTCTCTGTAGCGACGGAGAGCATATCGAAGATAA-CG
130 ATTTGGCGTCTCTGTAGCGACGAAGAGCAGATCGAAGATAATAG
85603810 AATTTGGCGTCTCTGTA
1 -ATTTGGCGTCTCTGTA
85603827 TTAGACGGGG
Statistics
Matches: 481, Mismatches: 44, Indels: 43
0.85 0.08 0.08
Matches are distributed among these distances:
170 1 0.00
171 77 0.16
172 177 0.37
173 5 0.01
174 1 0.00
175 21 0.04
176 38 0.08
177 5 0.01
179 10 0.02
181 4 0.01
182 2 0.00
183 66 0.14
184 2 0.00
185 3 0.01
186 53 0.11
187 16 0.03
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (173 bp):
ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCAGA
GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGA
TTTGGCGTCTCTGTAGCGACGAAGAGCAGATCGAAGATAATAG
Found at i:85603887 original size:216 final size:216
Alignment explanation
Indices: 85603109--85603863 Score: 802
Period size: 216 Copynumber: 3.4 Consensus size: 216
85603099 ATCCAAGATT
* * * *
85603109 ATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGA-TT--CGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGAGAC
* * * * * * *
85603171 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAAC
66 GAAGAGCAGATCAAAGATAACAGATTCGCCGTCTCTGTAGCGGCGAAGAGCAGATTGAAGAT---
** * * ** * * * *
85603236 AGGCTTGACGTCTCTG-AGTGGTGGAGACCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
128 -GATTTGGCATCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGAG
*
85603300 GCAGAGAGCAGATCGAAGATAACAG
192 GCAGAGAGCAGATCAAAGATAACAG
* * * * *
85603325 ATTTGGCGTCTCTGTAGCGGCGAGCAGATCGAAGATAACAGGCAGATTGAAGATGATTTGGCATC
1 ATTTGGCGTCTCTGTAGCGACG-G-AGA--GCAGAT--C--GAAGA-T-AACA-GATTTGGCGTC
* * * * * * * *
85603390 TCTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGAAGAGCAGA
55 TCTGTAGAGACGAAGAGCAGATCAAAGATAACAGATTCGCCGTCTCTGTAGCGGCGAAGAGCAGA
*
85603455 TTGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTC
120 TTGAAGATGATTTGGCATCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTC
*
85603520 TGTAGCGGCAGAGAGCAGATCAAAGATAACAG
185 TGTAGAGGCAGAGAGCAGATCAAAGATAACAG
* * *
85603552 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGAGAC
* * * * * *
85603617 GAAGAGCAGATCGAATATAATAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATGAT
66 GAAGAGCAGATCAAAGATAACAGATTCGCCGTCTCTGTAGCGGCGAAGAGCAGATTGAAGATGAT
* * **
85603682 TTGGCATCTCTGTAGCAGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTA-AGGTGG
131 TTGGCATCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGAGGCAG
85603746 AGAGCAGATCAAAGATAACAG
196 AGAGCAGATCAAAGATAACAG
* *
85603767 ATTTGGCGTCTCTGTAGCGACGGAGAGCATATCGAAGATAAC-GAATTTGGCGTCTCTGTATTAG
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAG-ATTTGGCGTCTCTGTA-GAG
** * *
85603831 ACGGGGAGTAGATCAAAGATAGCAGATATCGCC
64 ACGAAGAGCAGATCAAAGATAACAGAT-TCGCC
85603864 TTCCTGAGTT
Statistics
Matches: 472, Mismatches: 49, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
214 1 0.00
215 80 0.17
216 176 0.37
217 7 0.01
218 4 0.01
219 4 0.01
220 5 0.01
221 1 0.00
222 1 0.00
223 5 0.01
224 4 0.01
225 4 0.01
226 15 0.03
227 92 0.19
228 2 0.00
230 71 0.15
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (216 bp):
ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGAGAC
GAAGAGCAGATCAAAGATAACAGATTCGCCGTCTCTGTAGCGGCGAAGAGCAGATTGAAGATGAT
TTGGCATCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGAGGCAG
AGAGCAGATCAAAGATAACAG
Found at i:85605338 original size:19 final size:19
Alignment explanation
Indices: 85605314--85605351 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
85605304 TTGAGATTGC
*
85605314 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
85605333 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
85605352 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:85614047 original size:12 final size:13
Alignment explanation
Indices: 85614030--85614062 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
85614020 ATAAAATAAA
85614030 ATAAATAAAT-AC
1 ATAAATAAATGAC
85614042 ATAAATAAATGAC
1 ATAAATAAATGAC
*
85614055 ATATATAA
1 ATAAATAA
85614063 GAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (13 bp):
ATAAATAAATGAC
Found at i:85614184 original size:17 final size:17
Alignment explanation
Indices: 85614143--85614247 Score: 81
Period size: 17 Copynumber: 5.9 Consensus size: 17
85614133 ACAATAAAAA
*
85614143 TAATAATAAAATAAT-G
1 TAATAATAATATAATAG
* *
85614159 TACTAATAATGTAATAG
1 TAATAATAATATAATAG
85614176 TAATAATAAAATATAATAG
1 TAATAAT--AATATAATAG
85614195 TTAAT-ATAATATTAA-AG
1 -TAATAATAATA-TAATAG
*
85614212 TAATACTAAATATAATATG
1 TAATAAT-AATATAATA-G
85614231 ATAATAATAATTATAAT
1 -TAATAATAA-TATAAT
85614248 GCAGTACAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
16 16 0.23
17 17 0.24
18 8 0.11
19 14 0.20
20 16 0.23
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATAATATAATAG
Found at i:85614238 original size:23 final size:22
Alignment explanation
Indices: 85614188--85614239 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
85614178 ATAATAAAAT
* * *
85614188 ATAATAGTTAATATAATATTAA
1 ATAATACTAAATATAATATGAA
85614210 AGTAATACTAAATATAATATGATA
1 A-TAATACTAAATATAATATGA-A
85614234 ATAATA
1 ATAATA
85614240 ATTATAATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 22 0.88
24 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
ATAATACTAAATATAATATGAA
Found at i:85625500 original size:46 final size:46
Alignment explanation
Indices: 85625450--85625622 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
85625440 TTGAGCATCT
*
85625450 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * *
85625496 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * *
85625543 GAACTCGATGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * *
85625589 GAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85625623 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:85625603 original size:93 final size:93
Alignment explanation
Indices: 85625444--85625615 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
85625434 GGATGGTTGA
* * * * *
85625444 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
85625509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
85625537 GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
85625602 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
85625616 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:85631758 original size:41 final size:44
Alignment explanation
Indices: 85631561--85631770 Score: 173
Period size: 44 Copynumber: 4.8 Consensus size: 44
85631551 CTTTCATGTA
** * *
85631561 TCTTCAATGTGCTCCACTGCAACTTCAGAGAGATAAGGTTCGTA
1 TCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTT
* ** * * * *
85631605 ACTTCAGTCTGCCCCACTGCAACTTCA-AGGGGATAAGACTTCTG-A
1 TCTTCAACCTGCTCCACTGCAACTTCAGA-GAGATAAG-GTT-TGTT
* * *
85631650 T-TTCAACCTACTCCATTGTAACTTCA-AGGAGATAAGGTTTGTT
1 TCTTCAACCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTGTT
*
85631693 TCTTCAACCTGCTCCACTGTAACTTCAGAGAGATAAGGTTTG-T
1 TCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTT
* * *
85631736 T-TT-GATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 TCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAG
85631771 ATCTGTGATT
Statistics
Matches: 137, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
41 28 0.20
42 4 0.03
43 6 0.04
44 94 0.69
45 4 0.03
46 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTT
Found at i:85631882 original size:28 final size:28
Alignment explanation
Indices: 85631841--85631898 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
85631831 CTTCAGTCTG
* *
85631841 CTCCACTGCATCTTTTTGCTTTGATCCA
1 CTCCACTGCATCTTGTTACTTTGATCCA
* *
85631869 CTCCACTTCGTCTTGTTACTTTGATCCA
1 CTCCACTGCATCTTGTTACTTTGATCCA
85631897 CT
1 CT
85631899 TCATGCAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.33, G:0.10, T:0.43
Consensus pattern (28 bp):
CTCCACTGCATCTTGTTACTTTGATCCA
Found at i:85632212 original size:88 final size:89
Alignment explanation
Indices: 85632088--85632930 Score: 881
Period size: 88 Copynumber: 9.7 Consensus size: 89
85632078 CGCCATTTCA
* * *
85632088 AGGA-GATGAGAT-TTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGAGTT-AGGTCCCGTCA
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCCGTCA
* *
85632150 TCTTCGATCTGCTCCCCTCCTGCTT
65 TCTTCGATCTGTTCCCCTACTGCTT
* * * * * *
85632175 AAGATGATAAGATC-TATAATTTTCAGTCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATCGT
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCAT
* * *
85632239 CTTCGGTTTGTTCCACTACTGCTT
66 CTTCGATCTGTTCCCCTACTGCTT
* * * * *
85632263 AGGGA-GACAAGATC-TATAATCTTCCGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCA
1 A-GGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCA
*
85632326 TCTTCTATCTGTTCCCCTACTGCTT
65 TCTTCGATCTGTTCCCCTACTGCTT
* * ** * * *
85632351 AGGGTGATAAGATCTTGTAAATTT-AATCTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCAT
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCAT
*
85632415 CTTCGATCTGTTCCCCCACTGCTT
66 CTTCGATCTGTTCCCCTACTGCTT
* * * * * *
85632439 AGGGTGATAAGATCTTGTAAATTT-AGCCTTTTACCCTACTACTTAGGGGGTTAAGGCTCGTCGT
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCAT
* * **
85632503 CTTCAATCTGCTCCAATACTGCTT
66 CTTCGATCTGTTCCCCTACTGCTT
* * * * *
85632527 AGGGA-GATAAGATC-TGTAATTTCCAACATGTTACTCTACTGCTTATGGGGTTAAGGCCCGTCA
1 A-GGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCA
* *
85632590 TTTTCGATCTGTTCCCTTACTGCTT
65 TCTTCGATCTGTTCCCCTACTGCTT
* * * * * *
85632615 AAGG-TGATAAGATCTTGTAA-ATTCAGCCTGCTACCCTACTGCTTAGGGGATTAAGGCTCGCCG
1 -AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCA
* *
85632678 TCTTCGATCTGCTCCACTACTGCTT
65 TCTTCGATCTGTTCCCCTACTGCTT
* * *
85632703 AGGGA-GATAAGATC-TATAATTTCCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCA
1 A-GGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCA
85632766 TCTTCGATCTGTTCCCCTACTGCTT
65 TCTTCGATCTGTTCCCCTACTGCTT
* * * * *
85632791 AGGGTGATAAGATCTTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCCGT
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCAT
85632855 CTTCGATCTG--------CT-CTT
66 CTTCGATCTGTTCCCCTACTGCTT
* * * *
85632870 AGGAAGACAAGATC-TGTAATTTCCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGT
1 AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGT
85632931 GAATTCACCA
Statistics
Matches: 634, Mismatches: 105, Indels: 42
0.81 0.13 0.05
Matches are distributed among these distances:
78 5 0.01
79 50 0.08
80 2 0.00
87 19 0.03
88 535 0.84
89 23 0.04
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (89 bp):
AGGATGATAAGATCTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCAT
CTTCGATCTGTTCCCCTACTGCTT
Found at i:85632258 original size:44 final size:43
Alignment explanation
Indices: 85632200--85632351 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 43
85632190 ATAATTTTCA
* *
85632200 GTCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATCGTCTTCG
1 GTCTGTT-CCCTACTGCTTAAGGGGTTAAGGCCCATCATCTTCC
* ** ** * *
85632244 GTTTGTTCCACTACTGCTT-AGGGAGACAAGATCTATAATCTTCC
1 GTCTGTTCC-CTACTGCTTAAGGG-GTTAAGGCCCATCATCTTCC
* * *
85632288 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCT
1 GTCTGTT-CCCTACTGCTTAAGGGGTTAAGGCCCATCATCTTCC
*
85632332 ATCTGTTCCCCTACTGCTTA
1 GTCTGTT-CCCTACTGCTTA
85632352 GGGTGATAAG
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
43 6 0.07
44 71 0.87
45 5 0.06
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (43 bp):
GTCTGTTCCCTACTGCTTAAGGGGTTAAGGCCCATCATCTTCC
Found at i:85632406 original size:176 final size:175
Alignment explanation
Indices: 85632096--85632928 Score: 978
Period size: 176 Copynumber: 4.8 Consensus size: 175
85632086 CAAGGAGATG
*
85632096 AGAT-TTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGAGTT-AGGTCCCGTCATCTTCGATC
1 AGATCTTGTAATTT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCCGTCATCTTCGATC
* * * * *
85632159 TGCTCCCCTCCTGCTTA-AGATGATAAGATCTATAATTTTCAGTCTGTTACCCTACTGCTTAAGG
64 TGCTCCACTACTGCTTAGGGA-GATAAGATCTATAA-TTTCAATCTGTTACCCTACTGCTTAGGG
* * * * * *
85632223 GGTTAAGGCCCATCGTCTTCGGTTTGTTCCACTACTGCTTAGGGAGACA
127 GGTTAAGGCCCATCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
* * * *
85632272 AGATC-TATAATCTTCCGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCTATCT
1 AGATCTTGTAAT-TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCATCTTCGATCT
* * * * *
85632336 GTTCCCCTACTGCTTAGGGTGATAAGATCTTGTAAATTT-AATCTGTTACCCTACTACTTAGGGG
65 GCTCCACTACTGCTTAGGGAGATAAGATC-TAT-AATTTCAATCTGTTACCCTACTGCTTAGGGG
* *
85632400 GTTAAGGCTCATCATCTTCGATCTGTTCCCCCACTGCTTAGGGTGATA
128 GTTAAGGCCCATCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
* * * * *
85632448 AGATCTTGTAAATTT-AGCCTTTTACCCTACTACTTAGGGGGTTAAGGCTCGTCGTCTTCAATCT
1 AGATCTTGT-AATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCATCTTCGATCT
* * * *
85632512 GCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTCCAA-CATGTTACTCTACTGCTTATGGG
65 GCTCCACTACTGCTTAGGGAGATAAGATCTATAATTT-CAATC-TGTTACCCTACTGCTTAGGGG
* * * *
85632576 GTTAAGGCCCGTCATTTTCGATCTGTTCCCTTACTGCTTAAGGTGATA
128 GTTAAGGCCCATCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
* * * * * *
85632624 AGATCTTGTAAATTCAGCCTGCTACCCTACTGCTTAGGGGATTAAGGCTCGCCGTCTTCGATCTG
1 AGATCTTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCATCTTCGATCTG
*
85632689 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTTCCAACCTGTTACCCTACTGCTTAGGGGGT
66 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTT-CAATCTGTTACCCTACTGCTTAGGGGGT
*
85632754 TAAGGCCCGTCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
130 TAAGGCCCATCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
* * * *
85632800 AGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCCGTCTTCGATCTG
1 AGATCTTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCATCTTCGATCTG
* * * *
85632865 --------CT-CTTAGGAAGACAAGATCTGTAATTTCCAACCTGTTACCCTACTGCTTAGGGGGT
66 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTT-CAATCTGTTACCCTACTGCTTAGGGGGT
85632921 TAAGGCCC
130 TAAGGCCC
85632929 GTGAATTCAC
Statistics
Matches: 583, Mismatches: 61, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
167 59 0.10
168 2 0.00
174 5 0.01
175 8 0.01
176 488 0.84
177 16 0.03
178 5 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (175 bp):
AGATCTTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCGTCATCTTCGATCTG
CTCCACTACTGCTTAGGGAGATAAGATCTATAATTTCAATCTGTTACCCTACTGCTTAGGGGGTT
AAGGCCCATCATCTTCGATCTGTTCCCCTACTGCTTAGGGTGATA
Found at i:85632822 original size:44 final size:44
Alignment explanation
Indices: 85632333--85632838 Score: 195
Period size: 44 Copynumber: 11.5 Consensus size: 44
85632323 TCATCTTCTA
* * *
85632333 TCTGTTCCCCTACTGCTTAGGGTGATAAGATCTTGTAAATTTAA
1 TCTGTTACCCTACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
* * * * * * **
85632377 TCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAT-CATCTTC-G
1 TCTGTTACCCTACTGCTTAGGGTGATAA-GATCTTGTAAATTCAG
* * *
85632420 ATCTGTTCCCCCACTGCTTAGGGTGATAAGATCTTGTAAATTTAG
1 -TCTGTTACCCTACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
* * * * * * * * *
85632465 CCTTTTACCCTACTACTTAGGGGGTTAAGGCTCGTCGT--CTTCAA
1 TCTGTTACCCTACTGCTTAGGGTGATAA-GATC-TTGTAAATTCAG
* * * *
85632509 TCTGCT-CCAATACTGCTTAGGGAGATAAGATC-TGTAATTTCCA-
1 TCTGTTACC-CTACTGCTTAGGGTGATAAGATCTTGTAAATT-CAG
* * * * ** **
85632552 ACATGTTACTCTACTGCTTATGGG-GTTAAG-GCCCGTCATTTTC-G
1 TC-TGTTACCCTACTGCTTA-GGGTGATAAGATCTTGT-AAATTCAG
*
85632596 ATCTGTT-CCCTTACTGCTTAAGGTGATAAGATCTTGTAAATTCAG
1 -TCTGTTACCC-TACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
* * * ** *
85632641 CCTGCTACCCTACTGCTTAGGG-GATTAAGGCTCGCCGT--CTTC-G
1 TCTGTTACCCTACTGCTTAGGGTGA-TAA-GATC-TTGTAAATTCAG
* * * * *
85632684 ATCTGCT-CCACTACTGCTTAGGGAGATAAGATC-TATAATTTCCAA
1 -TCTGTTACC-CTACTGCTTAGGGTGATAAGATCTTGTAAATT-CAG
* * * * ** **
85632729 CCTGTTACCCTACTGCTTAGGGGGTTAAG-GCCCGTCATCTTC-G
1 TCTGTTACCCTACTGCTTAGGGTGATAAGATCTTGT-AAATTCAG
*
85632772 ATCTGTTCCCCTACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
*
85632817 CCTGTTACCCTACTGCTTAGGG
1 TCTGTTACCCTACTGCTTAGGG
85632839 GGTTAAGGCT
Statistics
Matches: 329, Mismatches: 95, Indels: 76
0.66 0.19 0.15
Matches are distributed among these distances:
41 3 0.01
43 28 0.09
44 255 0.78
45 38 0.12
46 5 0.02
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
TCTGTTACCCTACTGCTTAGGGTGATAAGATCTTGTAAATTCAG
Found at i:85643707 original size:23 final size:23
Alignment explanation
Indices: 85643677--85643723 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85643667 TTGTTCATAC
85643677 TCTCACTCTTTTACTCTCCCATT
1 TCTCACTCTTTTACTCTCCCATT
85643700 TCTCACTCTTTTACTCTCCCATT
1 TCTCACTCTTTTACTCTCCCATT
85643723 T
1 T
85643724 TTTTTGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.38, G:0.00, T:0.49
Consensus pattern (23 bp):
TCTCACTCTTTTACTCTCCCATT
Found at i:85649271 original size:13 final size:13
Alignment explanation
Indices: 85649253--85649277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85649243 GTGAACAATG
85649253 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
85649266 TTTTCTTTTTTT
1 TTTTCTTTTTTT
85649278 AAACAAGGTT
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:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:85657027 original size:18 final size:18
Alignment explanation
Indices: 85657006--85657044 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
85656996 ATCTTTCCAT
85657006 ACACATATAATAATAAAA
1 ACACATATAATAATAAAA
*
85657024 ACACATATAATAATAATA
1 ACACATATAATAATAAAA
85657042 ACA
1 ACA
85657045 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (18 bp):
ACACATATAATAATAAAA
Found at i:85657414 original size:25 final size:22
Alignment explanation
Indices: 85657385--85657432 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
85657375 AATTAACTAT
*
85657385 TTATT-TTACAATTGTATATATA
1 TTATTATTTCAATTGTATAT-TA
*
85657407 TTATTATTTCATTTGTATATTA
1 TTATTATTTCAATTGTATATTA
85657429 TTAT
1 TTAT
85657433 CACCTTACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTATTTCAATTGTATATTA
Found at i:85665342 original size:19 final size:19
Alignment explanation
Indices: 85665318--85665359 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
85665308 ATAAAGTGTT
85665318 AATTAAGAAAAATTAGTTC
1 AATTAAGAAAAATTAGTTC
85665337 AATTAAGAAAAATTAGTTC
1 AATTAAGAAAAATTAGTTC
85665356 AATT
1 AATT
85665360 TATGGGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTAAGAAAAATTAGTTC
Found at i:85665938 original size:47 final size:48
Alignment explanation
Indices: 85665831--85666021 Score: 208
Period size: 47 Copynumber: 3.9 Consensus size: 48
85665821 AATGTGATTT
* * *
85665831 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTT
1 CCGTATAAGACCATAGCTGGGATATGGCATC-G-G--ATGTGATATGTGCTA
*
85665883 CCGTATAAGACCATATCTGGGATATGGCATCGG-TGTGATATGTGCTA
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
* * * *
85665930 CTGTATAAGACCATATCTGGGATATGGCATCAG-TGTGATATGTGAT-
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
* * * *
85665976 CCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATAGCTGGGATATGGCATCGG-ATGTGATATGTG
85666022 ACTATGTGCA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
46 26 0.21
47 56 0.46
48 11 0.09
50 1 0.01
51 1 0.01
52 28 0.23
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCGGATGTGATATGTGCTA
Done.