Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 123 of 318
Found at i:37816656 original size:29 final size:28
Alignment explanation
Indices: 37816622--37816724 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
37816612 TACTCAATCA
*
37816622 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
37816651 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
37816680 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
37816709 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
37816725 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:37823668 original size:29 final size:29
Alignment explanation
Indices: 37823605--37823677 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
37823595 TACTCAATCA
* *
37823605 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATATGATCCAAACC
* * *
37823634 CTCACACATAGTGCCATAT-AGTCCAAACT
1 CGCACACTTAGTGCCATATGA-TCCAAACC
37823663 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
37823678 TGTAACACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATGATCCAAACC
Found at i:37825086 original size:40 final size:40
Alignment explanation
Indices: 37825041--37825170 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
37825031 CGGAATATAA
37825041 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37825081 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
37825121 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
37825161 CCGGATATAA
1 CCGGATATAA
37825171 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37825185 original size:40 final size:39
Alignment explanation
Indices: 37825057--37825207 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
37825047 ATAACCATGT
* * *
37825057 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
37825097 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
37825137 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
37825176 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
37825208 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:37825191 original size:80 final size:79
Alignment explanation
Indices: 37825041--37825207 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
37825031 CGGAATATAA
*
37825041 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
37825106 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
37825121 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
37825183 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
37825200 CCGGATAT
1 CCGGATAT
37825208 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:37831375 original size:40 final size:39
Alignment explanation
Indices: 37831281--37831541 Score: 237
Period size: 40 Copynumber: 6.6 Consensus size: 39
37831271 TATTCGAATG
* *
37831281 ATATTCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGC-ATTGTGCTA-GTGACT
* * *
37831322 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATT-GTGCTAG-TGACT
* * *
37831362 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCA-TTGTGCTAGTGACT
* *
37831402 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGC-ATTGTGCTAGTGACT
*
37831442 ATATCCGGGCTAAG-TCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCAT-TGTGCTAGTGACT
* * * * *
37831482 ACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTGTGCTAGTGA-CT
37831521 ATATCC-GGCTAA-ATCTCGAAG
1 ATATCCGGGCTAAGATC-CGAAG
37831542 ATTACTTGAG
Statistics
Matches: 186, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
37 2 0.01
38 12 0.06
39 16 0.09
40 126 0.68
41 29 0.16
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGATCCGAAGGCATTGTGCTAGTGACT
Found at i:37831452 original size:80 final size:80
Alignment explanation
Indices: 37831281--37831541 Score: 296
Period size: 80 Copynumber: 3.3 Consensus size: 80
37831271 TATTCGAATG
* * * * *
37831281 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
37831346 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
37831362 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC-
*
37831427 ATT-GTGCTAG-CGACT
65 ATTCGTGCGAGTCG-CT
* * * *
37831442 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
37831507 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
37831521 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
37831542 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 13 0.08
79 16 0.10
80 92 0.59
81 34 0.22
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:37831500 original size:120 final size:121
Alignment explanation
Indices: 37831281--37831505 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 121
37831271 TATTCGAATG
* * ** *
37831281 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* *
37831346 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
37831402 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
37831465 CA-TCTGTGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTC-GTGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
37831506 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
119 5 0.05
120 56 0.62
121 30 0.33
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:37833278 original size:22 final size:22
Alignment explanation
Indices: 37833233--37833278 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
37833223 ATAATTCATA
* **
37833233 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAACCATTTAAAAC
*
37833255 ATTATATTAAACCATTTAAAAC
1 ATTATAATAAACCATTTAAAAC
37833277 AT
1 AT
37833279 ACCACCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTATAATAAACCATTTAAAAC
Found at i:37834680 original size:17 final size:17
Alignment explanation
Indices: 37834654--37834687 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37834644 GCCATCACGA
*
37834654 ATCTTTTTTTCTCCTCT
1 ATCTTATTTTCTCCTCT
*
37834671 ATCTTATTTTCTTCTCT
1 ATCTTATTTTCTCCTCT
37834688 TACTACATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (17 bp):
ATCTTATTTTCTCCTCT
Found at i:37841198 original size:21 final size:21
Alignment explanation
Indices: 37841158--37841196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37841148 GTCGAAATGG
*
37841158 TCACATGGGCGTGTTGCCCTT
1 TCACACGGGCGTGTTGCCCTT
37841179 TCACACGGGCGTG-TGCCC
1 TCACACGGGCGTGTTGCCC
37841197 CTGTGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (21 bp):
TCACACGGGCGTGTTGCCCTT
Found at i:37843564 original size:64 final size:66
Alignment explanation
Indices: 37843484--37843634 Score: 191
Period size: 67 Copynumber: 2.3 Consensus size: 66
37843474 ATACTATGTG
* * * *
37843484 GTAGCTAGGTCACATGTGT-GAT-ATGG-GATGTATACCATGTAGACAAGAGAGCTACGGGATAA
1 GTAGCTAGGTCACATGTGTGGATCATGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
37843546 A
66 A
* * *
37843547 TGTAGCTAGGTCGCATGTGTGGTTCCTGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 -GTAGCTAGGTCACATGTGTGGATCATGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
37843612 AA
65 AA
* *
37843614 GTGGCTAGGTCACATGGGTGG
1 GTAGCTAGGTCACATGTGTGG
37843635 TACTAAGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 18 0.24
65 2 0.03
66 21 0.28
67 33 0.45
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGGATCATGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
A
Found at i:37854137 original size:47 final size:48
Alignment explanation
Indices: 37854017--37854224 Score: 218
Period size: 47 Copynumber: 4.5 Consensus size: 48
37854007 TGAGAGCCAC
* * * *
37854017 TGTAAGA-CATGTTTGGGACATGCATCGGCCT-CGAGACG-TAAGCCAG
1 TGTAAGACCATGTCTGGGACATACATCGG-CTACGAGATGATAAGTCAG
37854063 TGTAAGA-CATGTCTGGGACATACATCGGCTACGAGATGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGATAAGTCAG
*
37854109 TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGAT-AGTCAA
1 TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGATAAGTCAG
* * * * *
37854156 TGTAAGACCATGTCTGTGACATGGCATCGAC-ATGAGAT-ATGAG-CTAG
1 TGTAAGACCATGTCTGGGACAT-ACATCGGCTACGAGATGATAAGTC-AG
**
37854203 TGTAAGACTGTGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
37854225 GGCATCGGTA
Statistics
Matches: 143, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
45 2 0.01
46 47 0.33
47 88 0.62
48 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGATAAGTCAG
Found at i:37861689 original size:46 final size:46
Alignment explanation
Indices: 37861639--37861807 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 46
37861629 TATGAGAGCT
*
37861639 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA-GTATAGCC
* * * *
37861685 AGTGTAAGACATGTCTAGGACATGCATTGGCTACGAGATTATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGTATAGCC
* * *
37861731 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATGAGA-TATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGAGTAT-AGCC
*
37861778 AGTGTAAGACCATATCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
37861808 AGCACCTTAC
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
45 4 0.04
46 47 0.44
47 49 0.46
48 6 0.06
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGTATAGCC
Found at i:37868916 original size:29 final size:29
Alignment explanation
Indices: 37868882--37869042 Score: 103
Period size: 29 Copynumber: 5.6 Consensus size: 29
37868872 TACTCGATTT
* * *
37868882 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
37868911 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
37868940 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
37868969 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
37868998 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
37869027 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37869043 ATCTCGTCAC
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:37868974 original size:58 final size:59
Alignment explanation
Indices: 37868881--37869042 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
37868871 ATACTCGATT
** * ** * * *
37868881 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
* *
37868939 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
37868998 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
37869043 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
57 4 0.04
58 87 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
Found at i:37876137 original size:24 final size:23
Alignment explanation
Indices: 37876109--37876154 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37876099 GCACTTTACA
37876109 ATACAACAAAAATTCAAATAGTAG
1 ATACAA-AAAAATTCAAATAGTAG
**
37876133 ATACAAAAGGATTCAAATAGTA
1 ATACAAAAAAATTCAAATAGTA
37876155 AACTAAGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (23 bp):
ATACAAAAAAATTCAAATAGTAG
Found at i:37878091 original size:19 final size:19
Alignment explanation
Indices: 37878057--37878106 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
37878047 AACAAAGCAT
*
37878057 AACAGAACATAATAGAACAG
1 AACAAAACA-AATAGAACAG
* *
37878077 AACAAATCAAATAGAGCAG
1 AACAAAACAAATAGAACAG
*
37878096 AGCAAAACAAA
1 AACAAAACAAA
37878107 ACAGAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.62, C:0.16, G:0.14, T:0.08
Consensus pattern (19 bp):
AACAAAACAAATAGAACAG
Found at i:37882608 original size:27 final size:27
Alignment explanation
Indices: 37882578--37882645 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
37882568 ACTCCCAGTT
37882578 TGTAAAATTA-TCGAAATACCCTTGTAG
1 TGTAAAATTACT-GAAATACCCTTGTAG
37882605 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACTGAAATACCCTTGTAG
* *
37882632 GGTAAAATGACTGA
1 TGTAAAATTACTGA
37882646 CTTGGACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCTTGTAG
Found at i:37883161 original size:32 final size:33
Alignment explanation
Indices: 37883107--37883177 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
37883097 GTTGTATGCC
* *
37883107 GATTATATTACCGTCACTGATGGCTATGTGCTA
1 GATTATATTACAGTCACCGATGGCTATGTGCTA
* * *
37883140 GATT-TATTACAGTTACCGATGGCTTTGTGCCA
1 GATTATATTACAGTCACCGATGGCTATGTGCTA
37883172 -ATTATA
1 GATTATA
37883178 ATACCGCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 3 0.09
32 25 0.78
33 4 0.12
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (33 bp):
GATTATATTACAGTCACCGATGGCTATGTGCTA
Found at i:37883454 original size:27 final size:27
Alignment explanation
Indices: 37883395--37883454 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
37883385 AGATGGACTA
* * *
37883395 GGCCCAATTGATTTTGTTATGGGCTGT
1 GGCCCAAATGATATTGTAATGGGCTGT
** *
37883422 CACCCAAATGATATTGTAATGGGCTTT
1 GGCCCAAATGATATTGTAATGGGCTGT
37883449 GGCCCA
1 GGCCCA
37883455 CTTATGCTCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (27 bp):
GGCCCAAATGATATTGTAATGGGCTGT
Found at i:37891510 original size:42 final size:42
Alignment explanation
Indices: 37891404--37891525 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
37891394 TACCGTACCA
* **
37891404 ATGTCATATCCC-GAATATGGTCTTACATGTAA-TCTTGTATCG
1 ATGTCATATCCCAG-ATATGGTCTTACA-GGAAGTCTCATATCG
** * * *
37891446 ATACCAATAACCCAGCTATGGTCTTACAGGAAGTCTCATATTG
1 ATGTC-ATATCCCAGATATGGTCTTACAGGAAGTCTCATATCG
* *
37891489 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTCA
1 ATGTCATATCCCAGATATGGTCTTACAGGAAGTCTCA
37891526 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 34 0.54
43 28 0.44
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACAGGAAGTCTCATATCG
Found at i:37897104 original size:46 final size:46
Alignment explanation
Indices: 37897051--37897219 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
37897041 TGAGCATCCT
*
37897051 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
37897097 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
37897144 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
*
37897190 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
37897220 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 53 0.52
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:37897203 original size:93 final size:93
Alignment explanation
Indices: 37897044--37897214 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
37897034 GGATGGTTGA
* * * *
37897044 GCATCCTAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
37897109 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37897137 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
37897201 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
37897215 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37898636 original size:19 final size:19
Alignment explanation
Indices: 37898589--37898641 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
37898579 TATTTTATGT
37898589 TTTTGTTCTGTTCTATTTGA
1 TTTTGTT-TGTTCTATTTGA
37898609 TTTAT-TTTGTTCTATTTTG-
1 TTT-TGTTTGTTCTA-TTTGA
37898628 TTTTGTTTGATTCT
1 TTTTGTTTG-TTCT
37898642 GTTATACTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 13 0.45
21 1 0.03
ACGTcount: A:0.09, C:0.08, G:0.13, T:0.70
Consensus pattern (19 bp):
TTTTGTTTGTTCTATTTGA
Found at i:37900648 original size:27 final size:28
Alignment explanation
Indices: 37900562--37900661 Score: 139
Period size: 27 Copynumber: 3.5 Consensus size: 28
37900552 CATGAGATTG
* * *
37900562 GCACTAAGTGTGCGGGTTTAAAATTTGTATA
1 GCACTAAGTGTGCGAGTTT--GA-TTATATA
37900593 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
37900621 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
37900648 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37900662 GACTCACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
27 25 0.38
28 22 0.33
29 1 0.02
31 18 0.27
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:37906286 original size:28 final size:28
Alignment explanation
Indices: 37906225--37906322 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
37906215 TCACAAATTG
** * *
37906225 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
37906254 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
37906282 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
37906310 GCACTAAGTGTGC
1 GCACTAAGTGTGC
37906323 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:37913962 original size:28 final size:28
Alignment explanation
Indices: 37913901--37913998 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
37913891 TCACAAATTG
** * *
37913901 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
37913930 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
37913958 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
37913986 GCACTAAGTGTGC
1 GCACTAAGTGTGC
37913999 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:37918420 original size:27 final size:28
Alignment explanation
Indices: 37918364--37918433 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
37918354 AAATTTGTAC
37918364 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
37918392 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
37918419 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37918434 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:37918447 original size:29 final size:27
Alignment explanation
Indices: 37918364--37918446 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
37918354 AAATTTGTAC
* *
37918364 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCATTATAT
* *
37918392 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCATTATAT
*
37918419 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCATTATAT
37918446 A
1 A
37918447 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 1 0.02
27 33 0.65
28 17 0.33
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCATTATAT
Found at i:37922600 original size:40 final size:39
Alignment explanation
Indices: 37922435--37922618 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37922425 AAATTGAATG
* * *
37922435 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37922475 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37922515 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37922555 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37922594 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37922619 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37922643 original size:80 final size:81
Alignment explanation
Indices: 37922475--37922663 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37922465 GCTGGAAATT
* * * *
37922475 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37922540 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37922556 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37922619 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37922635 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37922664 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37930718 original size:40 final size:39
Alignment explanation
Indices: 37930553--37930736 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37930543 AAATTGAATG
* * *
37930553 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37930593 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37930633 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37930673 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37930712 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37930737 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37930761 original size:80 final size:81
Alignment explanation
Indices: 37930593--37930781 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37930583 GCTGGAAATT
* * * *
37930593 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37930658 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37930674 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37930737 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37930753 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37930782 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37943543 original size:40 final size:40
Alignment explanation
Indices: 37943484--37943625 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
37943474 AAATTGAATG
* * *
37943484 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
37943524 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
37943564 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
37943604 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
37943626 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:37943626 original size:40 final size:39
Alignment explanation
Indices: 37943523--37943651 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
37943513 TGCTGGAAAT
* * *
37943523 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
37943563 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
37943603 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
37943643 TATATCCGG
1 TATATCCGG
37943652 TTTTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:37949043 original size:19 final size:19
Alignment explanation
Indices: 37949019--37949058 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37949009 GATATGATAC
*
37949019 TAAAATTATTTAAAA-AAAT
1 TAAAA-TATATAAAAGAAAT
37949038 TAAAATATATAAAAGAAAT
1 TAAAATATATAAAAGAAAT
37949057 TA
1 TA
37949059 GGGAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAATATATAAAAGAAAT
Found at i:37949344 original size:22 final size:21
Alignment explanation
Indices: 37949309--37949384 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
37949299 AAAAGGTATC
* *
37949309 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
37949330 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
37949353 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
37949372 TGC-AATCATATCT
1 TACAAATCATATCT
37949385 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:37949369 original size:19 final size:19
Alignment explanation
Indices: 37949345--37949435 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
37949335 AATCATATCT
37949345 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37949364 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
37949382 TCTAAGATTG--TATTATA
1 TCTAAGATTGCATATCATA
37949399 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37949418 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
37949436 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37949405 original size:35 final size:37
Alignment explanation
Indices: 37949338--37949435 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
37949328 ATTACAAAAT
37949338 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
*
37949374 CA-ATCATATCTAAGATTG-TATTATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
37949409 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
37949436 TGAAGATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.35
37 10 0.18
38 5 0.09
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:37949592 original size:21 final size:20
Alignment explanation
Indices: 37949553--37949593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
37949543 CTTGGACTTC
**
37949553 ATTTTTTTTTTGGGTTTATT
1 ATTTTTTTTTTGGACTTATT
37949573 ATTTTTGTTTTTGGACTTATT
1 ATTTTT-TTTTTGGACTTATT
37949594 TCTGGGCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.02, G:0.15, T:0.71
Consensus pattern (20 bp):
ATTTTTTTTTTGGACTTATT
Found at i:37950348 original size:16 final size:16
Alignment explanation
Indices: 37950327--37950357 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37950317 TCTTCCTCTC
37950327 CTGAATAGTTGATCCG
1 CTGAATAGTTGATCCG
37950343 CTGAATAGTTGATCC
1 CTGAATAGTTGATCC
37950358 ACTAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
CTGAATAGTTGATCCG
Found at i:37952414 original size:18 final size:18
Alignment explanation
Indices: 37952387--37952422 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37952377 TAGCAATATC
37952387 CACAAAAAATCATTAAAA
1 CACAAAAAATCATTAAAA
*
37952405 CACAAGAAATCATTAAAA
1 CACAAAAAATCATTAAAA
37952423 AACTTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.17, G:0.03, T:0.17
Consensus pattern (18 bp):
CACAAAAAATCATTAAAA
Found at i:37960242 original size:40 final size:39
Alignment explanation
Indices: 37960198--37960323 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
37960188 GGGACTCAAC
*
37960198 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
37960238 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
37960278 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
37960318 CCGGAT
1 CCGGAT
37960324 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:37960282 original size:80 final size:80
Alignment explanation
Indices: 37960137--37960323 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
37960127 GCTACACATT
* * *
37960137 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
37960201 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
37960217 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
37960280 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
37960298 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
37960324 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:37962033 original size:34 final size:34
Alignment explanation
Indices: 37961993--37962060 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
37961983 GGGTCGTTTT
37961993 AAGGCTGTCACATTTTACCCCACGAGGGTATCTC
1 AAGGCTGTCACATTTTACCCCACGAGGGTATCTC
37962027 AAGGCTGTCACATTTTACCCCACGAGGGTATCTC
1 AAGGCTGTCACATTTTACCCCACGAGGGTATCTC
37962061 GGTAATTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (34 bp):
AAGGCTGTCACATTTTACCCCACGAGGGTATCTC
Found at i:37962092 original size:27 final size:27
Alignment explanation
Indices: 37962052--37962221 Score: 216
Period size: 27 Copynumber: 6.3 Consensus size: 27
37962042 TACCCCACGA
* *
37962052 GGGTATCTCGGTAATTCTATCC-TACAG
1 GGGTATTTCAGTAATTCTA-CCTTACAG
*
37962079 GGGTATTTCAGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCTTACAG
** * *
37962106 GGGTATTTTGGTAATCCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCTTACAG
*
37962133 GGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCAGTAATTCTACCTTACAG
* *
37962160 GGGTATTTCAGTAATTTTACCTTATAG
1 GGGTATTTCAGTAATTCTACCTTACAG
* *
37962187 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCTTACAG
37962214 GGGTATTT
1 GGGTATTT
37962222 TGGTAATTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCTTACAG
Found at i:37962181 original size:81 final size:81
Alignment explanation
Indices: 37962052--37962259 Score: 258
Period size: 81 Copynumber: 2.6 Consensus size: 81
37962042 TACCCCACGA
* * **
37962052 GGGTATCTCGGTAATTCTATCC-TACAGGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTTG
1 GGGTATTTCGGTAATTCTA-CCATACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCA
37962116 GTAATCCTACCCTACAG
65 GTAATCCTACCCTACAG
* * *
37962133 GGGTATTTCAGTAATTCTACCATACAGGGGTATTTCAGTAATTTTACCTTATAGGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCAG
* *
37962198 TAATTCTACCCTATAG
66 TAATCCTACCCTACAG
* * * **
37962214 GGGTATTTTGGTAATTTTA-CAAATCAGGGGTATTTTGGTAATTTTA
1 GGGTATTTCGGTAATTCTACCATA-CAGGGGTATTTCAGTAATTTTA
37962260 AAAACTAGGG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 5 0.05
81 105 0.95
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTTTACCTTACAAGGGTATTTCAG
TAATCCTACCCTACAG
Found at i:37962227 original size:27 final size:27
Alignment explanation
Indices: 37962052--37962283 Score: 209
Period size: 27 Copynumber: 8.6 Consensus size: 27
37962042 TACCCCACGA
*
37962052 GGGTATCTCGGTAATTCTATCC-TACAG
1 GGGTATTTCGGTAATTCTA-CCATACAG
* * *
37962079 GGGTATTTCAGTAATTCTACCTTACAA
1 GGGTATTTCGGTAATTCTACCATACAG
* * *
37962106 GGGTATTTTGGTAATCCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCATACAG
*
37962133 GGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCGGTAATTCTACCATACAG
* * * *
37962160 GGGTATTTCAGTAATTTTACCTTATAG
1 GGGTATTTCGGTAATTCTACCATACAG
* * *
37962187 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCATACAG
* * *
37962214 GGGTATTTTGGTAATTTTA-CAAATCAG
1 GGGTATTTCGGTAATTCTACCATA-CAG
* * * *
37962241 GGGTATTTTGGTAATTTTA-AAAACTAG
1 GGGTATTTCGGTAATTCTACCATAC-AG
*
37962268 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
37962284 TTATAAACCA
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
26 5 0.03
27 173 0.97
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCATACAG
Found at i:37962230 original size:54 final size:54
Alignment explanation
Indices: 37962077--37962340 Score: 239
Period size: 54 Copynumber: 4.9 Consensus size: 54
37962067 TCTATCCTAC
* * ** * *
37962077 AGGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTTGGTAATCCTACCCTAC
1 AGGGGTATTTCAGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACCATAT
** *
37962131 AGGGGTATTTCAGTAATTCTACCATACAGGGGTATTTCAGTAATTTTACCTTAT
1 AGGGGTATTTCAGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACCATAT
* * *
37962185 AGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGTAATTTTA-CAAAT
1 AGGGGTATTTCAGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACCATAT
** * * * * * *
37962238 CAGGGGTATTTTGGTAATTTTA-AAAACTAGGGGTATTTTGGTAATTTTA-TAAACC
1 -AGGGGTATTTCAGTAATTCTACCATAC-AGGGGTATTTTGGTAATTTTACCATA-T
* * * * *
37962293 AAGGGTATTTTAGTAATTTTA-CAAACCAAGGGTATTTTGGTAATTTTA
1 AGGGGTATTTCAGTAATTCTACCATA-CAGGGGTATTTTGGTAATTTTA
37962341 TAAACCAGGG
Statistics
Matches: 179, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
53 4 0.02
54 174 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTCAGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACCATAT
Found at i:37962269 original size:81 final size:80
Alignment explanation
Indices: 37962106--37962364 Score: 265
Period size: 81 Copynumber: 3.2 Consensus size: 80
37962096 TACCTTACAA
* * * * **
37962106 GGGTATTTTGGTAATCCTACCCTACAGGGGTATTTCAGTAATTCTAC-CATACAGGGGTATTTCA
1 GGGTATTTTGGTAATTCTACCCTA-AGGGGTATTTTAGTAATTTTACAAAT-CAGGGGTATTTTG
***
37962170 GTAATTTTACCTTA-TAG
64 GTAATTTTA-AAAACTAG
** *
37962187 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTCTACCCTA-AGGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGG
37962252 TAATTTTAAAAACTAG
65 TAATTTTAAAAACTAG
* * * *
37962268 GGGTATTTTGGTAATTTTATAAACC-AA-GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
1 GGGTATTTTGGTAA--TTCT-ACCCTAAGGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTT
* *
37962331 GGTAATTTTATAAACCAG
63 GGTAATTTTAAAAACTAG
37962349 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
37962365 TTGTAAACCA
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 1 0.01
81 138 0.91
82 3 0.02
83 4 0.03
84 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTCTACCCTAAGGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGT
AATTTTAAAAACTAG
Found at i:37962284 original size:27 final size:27
Alignment explanation
Indices: 37962212--37962419 Score: 265
Period size: 27 Copynumber: 7.7 Consensus size: 27
37962202 TCTACCCTAT
* *
37962212 AGGGGTATTTTGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
37962239 AGGGGTATTTTGGTAATTTTAAAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
37962266 AGGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* * *
37962293 AAGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
37962320 AAGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
37962347 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
** * * *
37962374 AATGGTATTTTGGTAATTTTGCTAATCG
1 AGGGGTATTTTGGTAATTTT-ATAAACC
*
37962402 A-GGTTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
37962420 GGTAAACTAA
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 156 0.97
28 5 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:37962365 original size:81 final size:81
Alignment explanation
Indices: 37962214--37962419 Score: 313
Period size: 81 Copynumber: 2.5 Consensus size: 81
37962204 TACCCTATAG
* *
37962214 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGG
37962279 TAATTTTATAAACCAA
66 TAATTTTATAAACCAA
* * *
37962295 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGG
*
37962360 TAATTTTGTAAACCAA
66 TAATTTTATAAACCAA
* * * * *
37962376 TGGTATTTTGGTAATTTTGCTAATCGAGGTTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTT
37962420 GGTAAACTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGG
TAATTTTATAAACCAA
Found at i:37966139 original size:27 final size:27
Alignment explanation
Indices: 37966101--37966188 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
37966091 TCGGTTTGTG
*
37966101 AAATAACCGTAATGCCCCTATAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* * *
37966128 AAATGACTGTAATGCCCATGTAGGGTA
1 AAATGACCGTAATGCCCCTATAGGGTA
* *
37966155 AAATTACCGTAATACCCTCGTAT--GGTA
1 AAATGACCGTAATGCCC-C-TATAGGGTA
37966182 AAATGAC
1 AAATGAC
37966189 GATTATGCCC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 47 0.96
29 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTATAGGGTA
Found at i:37966644 original size:33 final size:33
Alignment explanation
Indices: 37966551--37966651 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 33
37966541 CCCACACTAC
* *
37966551 TACTGTATAGGGCTAAGGCCCAGTCTGCACTGA
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
*
37966584 TACTGTATAGGGCTAAGGCCCAGACTGTATTGA
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
* **
37966617 TACTGAATAGGGCTCGGGCCCAGACTGTTACTGA
1 TACTGTATAGGGCTAAGGCCCAGACTG-TACTGA
37966651 T
1 T
37966652 TTGGGCTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 54 0.90
34 6 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:37966657 original size:28 final size:28
Alignment explanation
Indices: 37966617--37966672 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
37966607 ACTGTATTGA
**
37966617 TACTGAATAGGGCTCGGGCCCAGACTGT
1 TACTGAATAGGGCTCAAGCCCAGACTGT
* * *
37966645 TACTGATTTGGGCTTAAGCCCAGACTGT
1 TACTGAATAGGGCTCAAGCCCAGACTGT
37966673 GTTATTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (28 bp):
TACTGAATAGGGCTCAAGCCCAGACTGT
Found at i:37973534 original size:40 final size:39
Alignment explanation
Indices: 37973382--37973567 Score: 228
Period size: 39 Copynumber: 4.7 Consensus size: 39
37973372 AATGTGCAAA
* * *
37973382 TTGTGATATTCGGGCTAAGCCCGAAGGCAAATGTGCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
37973421 TTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
37973460 ATATGATATCCGGGCTAAGCCCGAAGGCGATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
37973499 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
* * * *
37973539 TTATCATAACCGGGCTATGTCCCGAAGGC
1 TTGTGATATCCGGGCTAAG-CCCGAAGGC
37973568 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:37973594 original size:79 final size:78
Alignment explanation
Indices: 37973392--37973605 Score: 207
Period size: 78 Copynumber: 2.7 Consensus size: 78
37973382 TTGTGATATT
* * ** * * *
37973392 CGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGC
1 CGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAAATGTGC
* *
37973457 GAGATATGATATC
66 GAGATATCATAAC
** * **
37973470 CGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAAATGTG
* *
37973535 CGGGTTATCATAAC
65 CGAGATATCATAAC
* * *
37973549 CGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CGGGCTAAG-CCCGAAGGCGATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
37973606 TATGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 45 0.39
79 45 0.39
80 25 0.22
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.22
Consensus pattern (78 bp):
CGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAAATGTGC
GAGATATCATAAC
Found at i:37977348 original size:13 final size:13
Alignment explanation
Indices: 37977330--37977354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37977320 CCCAGGGGAC
37977330 ACATGATCGTGTA
1 ACATGATCGTGTA
37977343 ACATGATCGTGT
1 ACATGATCGTGT
37977355 GTCACACACG
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:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (13 bp):
ACATGATCGTGTA
Found at i:37985912 original size:40 final size:38
Alignment explanation
Indices: 37985868--37986040 Score: 175
Period size: 38 Copynumber: 4.5 Consensus size: 38
37985858 GAATCCAGTC
* *
37985868 ACCAGCACAAAACCTGTGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACAAAGCCTGTGGGA-TTTAA-CCCGAATATAAT
* * *
37985908 ACCAGCACTAAGCCTTTGAGATTTAACCCGAATATAAT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGAATATAAT
* * ** *
37985946 ACTAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGAATATAAT
* ** *
37985984 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGAATATAAT
* * *
37986022 ACTAGCATATAGCCTGTGG
1 ACCAGCACAAAGCCTGTGG
37986041 ATCTTTAAGC
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
38 90 0.80
39 5 0.04
40 17 0.15
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGTGGGATTTAACCCGAATATAAT
Found at i:37989858 original size:31 final size:31
Alignment explanation
Indices: 37989823--37989886 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
37989813 CCTTTGCATG
37989823 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* ** * *
37989854 TTTCATATTTCATATTACTGGGCCTAAGTCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
37989885 TT
1 TT
37989887 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:37990129 original size:24 final size:24
Alignment explanation
Indices: 37990078--37990245 Score: 250
Period size: 24 Copynumber: 7.0 Consensus size: 24
37990068 GCTTTATCAT
* *
37990078 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
37990103 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
37990127 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
37990150 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
37990174 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
37990198 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
37990222 ATAACTGGGGCATAAGCCCCTTTT
1 ATAACTGGGGCATAAG-CCCTTTT
37990246 CACTTCCTCC
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
23 23 0.17
24 93 0.69
25 19 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:37990178 original size:71 final size:71
Alignment explanation
Indices: 37990077--37990245 Score: 250
Period size: 71 Copynumber: 2.3 Consensus size: 71
37990067 TGCTTTATCA
*
37990077 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
37990141 AGCCCTTT
64 AGCCCTTT
* * **
37990149 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
37990214 CCCTTT
66 CCCTTT
37990220 TGATAACTGGGGCATAAGCCCCTTTT
1 T-ATAACTGGGGCATAAG-CCCTTTT
37990246 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
71 53 0.60
72 29 0.33
73 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:37990319 original size:20 final size:20
Alignment explanation
Indices: 37990294--37990354 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
37990284 TTATGATTAC
37990294 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37990314 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
37990334 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37990354 A
1 A
37990355 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:37990325 original size:11 final size:11
Alignment explanation
Indices: 37990294--37990349 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
37990284 TTATGATTAC
37990294 ATCATGTGCAT
1 ATCATGTGCAT
*
37990305 ATCA--TACAT
1 ATCATGTGCAT
37990314 ATCATGTGCAT
1 ATCATGTGCAT
*
37990325 ATCA--TACAT
1 ATCATGTGCAT
*
37990334 TTCATGTGCAT
1 ATCATGTGCAT
37990345 ATCAT
1 ATCAT
37990350 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:37990429 original size:25 final size:25
Alignment explanation
Indices: 37990397--37990444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37990387 ATACATAAAC
* * *
37990397 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
37990422 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
37990445 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:37991624 original size:27 final size:27
Alignment explanation
Indices: 37991604--37992054 Score: 500
Period size: 27 Copynumber: 16.7 Consensus size: 27
37991594 AGGGTATTTT
*
37991604 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
37991631 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
37991658 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
37991685 GGTAATTCTGTAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37991712 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
37991739 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
37991766 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
37991793 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37991820 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
37991847 GGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
37991874 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
37991901 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
37991928 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
37991955 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
37991982 GGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37992009 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
37992036 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
37992055 AGTACTTTGG
Statistics
Matches: 368, Mismatches: 44, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.02
27 353 0.96
28 8 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:37991690 original size:81 final size:81
Alignment explanation
Indices: 37991605--37992054 Score: 561
Period size: 81 Copynumber: 5.6 Consensus size: 81
37991595 GGGTATTTTA
* * * *
37991605 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
37991670 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
37991686 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
*
37991750 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * *
37991767 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
37991831 AAA-CTGAGGGTAAAATG
65 AAATC-GAGGGTAAAATG
** *
37991848 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGT
*
37991912 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAATG
** * * * *
37991929 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTAT-AACCTGAGGGTAAAACGGTAATTTTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGT
* **
37991993 AAATCAAGGGTAAAACA
65 AAATCGAGGGTAAAATG
* *
37992010 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAG
37992055 AGTACTTTGG
Statistics
Matches: 322, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
80 7 0.02
81 309 0.96
82 6 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:37996117 original size:44 final size:44
Alignment explanation
Indices: 37996061--37996148 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
37996051 CTACACAAAA
* * *
37996061 TCAAATACGATGCCGATGTCCCAGTCATGGTCTTACACGTAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATC
*
37996106 TCAAAT-CGATGCCAACGTCCCAGACTTGGTCTTACACGAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
37996149 ACATATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.13
44 28 0.72
45 6 0.15
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
Found at i:37998752 original size:28 final size:28
Alignment explanation
Indices: 37998720--37998788 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
37998710 TGTGAATTTT
***
37998720 GCACTAAGTGTGCGAATGTGGTTATTGA
1 GCACTAAGTGTGCGAATGTAAATATTGA
* * *
37998748 GCACTAAGTGTACGAGTTTAAATATTGA
1 GCACTAAGTGTGCGAATGTAAATATTGA
37998776 GCACTAAGTGTGC
1 GCACTAAGTGTGC
37998789 AACTATATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATGTAAATATTGA
Found at i:37998800 original size:28 final size:28
Alignment explanation
Indices: 37998742--37998801 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
37998732 CGAATGTGGT
* * *
37998742 TATTGAGCACTAAGTGTACGAGTTTAAA
1 TATTGAGCACTAAGTGTACAACTATAAA
* *
37998770 TATTGAGCACTAAGTGTGCAACTATATA
1 TATTGAGCACTAAGTGTACAACTATAAA
37998798 TATT
1 TATT
37998802 TTTGAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (28 bp):
TATTGAGCACTAAGTGTACAACTATAAA
Found at i:38004887 original size:37 final size:37
Alignment explanation
Indices: 38004836--38004911 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
38004826 ATGATCAATG
*
38004836 TTGTTGTAATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTAATTAGCC--ATGAGATGTGGCTTATAATGAT
38004873 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTAAT-TAGCCATGAGATGTGGCTTATAATGAT
38004910 TT
1 TT
38004912 TGGCTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (37 bp):
TTGTTGTAATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:38012824 original size:40 final size:40
Alignment explanation
Indices: 38012780--38012872 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
38012770 GTTTCAAAAC
** *
38012780 AGCTTCGGCTATAAATAGCACTTAGTGTGCGAATTGGAAT
1 AGCTTCGGCTATAAATAGCACTTAGCATGCAAATTGGAAT
*
38012820 AGCTTCGGCTATAAATAGCACTTAGCATGCAAATTGTAAT
1 AGCTTCGGCTATAAATAGCACTTAGCATGCAAATTGGAAT
38012860 AGCTTCGGCTATA
1 AGCTTCGGCTATA
38012873 TGAGGCACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
AGCTTCGGCTATAAATAGCACTTAGCATGCAAATTGGAAT
Found at i:38014650 original size:28 final size:28
Alignment explanation
Indices: 38014616--38014672 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38014606 ATATCATATA
*
38014616 CCAAAGACAAATCAAATATGACCGTTAT
1 CCAAAGACAAATCAAATATGACCATTAT
38014644 CCAAAGACAAATCAAATATGACCATTAT
1 CCAAAGACAAATCAAATATGACCATTAT
38014672 C
1 C
38014673 ATTAATTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (28 bp):
CCAAAGACAAATCAAATATGACCATTAT
Found at i:38015735 original size:22 final size:22
Alignment explanation
Indices: 38015707--38015778 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
38015697 TACACCACAC
38015707 CAGAGGCATCAAAGATGCGTAA
1 CAGAGGCATCAAAGATGCGTAA
* * *
38015729 CAGAGGCACCGAAG-TGC-AAA
1 CAGAGGCATCAAAGATGCGTAA
* *
38015749 TAGAAGCATCAAAGATG-GTTAA
1 CAGAGGCATCAAAGATGCG-TAA
38015771 CAGAGGCA
1 CAGAGGCA
38015779 CTGAAGTGCA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 12 0.32
21 5 0.14
22 20 0.54
ACGTcount: A:0.42, C:0.18, G:0.28, T:0.12
Consensus pattern (22 bp):
CAGAGGCATCAAAGATGCGTAA
Found at i:38015772 original size:42 final size:42
Alignment explanation
Indices: 38015712--38015802 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
38015702 CACACCAGAG
38015712 GCATCAAAGATGCGTAACAGAGGCACCGAAGTGCAAATAGAA
1 GCATCAAAGATGCGTAACAGAGGCACCGAAGTGCAAATAGAA
* *
38015754 GCATCAAAGATG-GTTAACAGAGGCACTGAAGTGCAAATAGAG
1 GCATCAAAGATGCG-TAACAGAGGCACCGAAGTGCAAATAGAA
38015796 GCATCAA
1 GCATCAA
38015803 CATGCGATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (42 bp):
GCATCAAAGATGCGTAACAGAGGCACCGAAGTGCAAATAGAA
Found at i:38016828 original size:16 final size:16
Alignment explanation
Indices: 38016809--38016855 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
38016799 TTTATGTTTT
38016809 CTTATTTTTAACTTTA
1 CTTATTTTTAACTTTA
*
38016825 CTTATTTTATTACTTTA
1 CTTATTTT-TAACTTTA
38016842 -TTATTATTTAACTT
1 CTTATT-TTTAACTT
38016856 ATAATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTATTTTTAACTTTA
Found at i:38019116 original size:46 final size:45
Alignment explanation
Indices: 38018998--38019251 Score: 165
Period size: 47 Copynumber: 5.5 Consensus size: 45
38018988 TGTTGGCTAG
* * * * * *
38018998 TGTAAGACATGTCTGGGACATACATCAAC-CACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACTC-GA-GACGAGAGCCAA
* *
38019044 TGTAAGACCATGTCTGGGA-ATGGCATCGACATTGAGACGAGAGCTAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCGAC-TCGAGACGAGAGCCAA
* * *
38019091 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATC-GACTCGAGACG-AGAGCCAA
* * * * * * *
38019137 TGTAAAACATGTCT-GGACATGCATCGGCTACAAGATGATAGTCAT
1 TGTAAGACATGTCTGGGACATGCATCGACT-CGAGACGAGAGCCAA
* * * *
38019182 TGTAAGACCATGTATGGGACATGGCATCGACTTGAGATGTGAGCCAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGACGAGAGCCAA
* *
38019229 TGTAAGACAATGTTTGGAACATG
1 TGTAAGAC-ATGTCTGGGACATG
38019252 GATTCGGCAC
Statistics
Matches: 164, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
44 4 0.02
45 26 0.16
46 55 0.34
47 70 0.43
48 9 0.05
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGACTCGAGACGAGAGCCAA
Found at i:38021740 original size:30 final size:30
Alignment explanation
Indices: 38021704--38021779 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
38021694 CAAATTTTCA
38021704 CTTATAATTAAATTAATTATGAAGTGCATT
1 CTTATAATTAAATTAATTATGAAGTGCATT
38021734 CTTATAATTAAATTAATTATGAAGTGCATT
1 CTTATAATTAAATTAATTATGAAGTGCATT
38021764 CTT-T-ATTAAATTAATT
1 CTTATAATTAAATTAATT
38021780 CTCTATAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 12 0.26
29 1 0.02
30 33 0.72
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (30 bp):
CTTATAATTAAATTAATTATGAAGTGCATT
Found at i:38022514 original size:22 final size:22
Alignment explanation
Indices: 38022486--38022530 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38022476 AGGTAGATTT
38022486 ATGTTGCTACTAAACCAAACCA
1 ATGTTGCTACTAAACCAAACCA
38022508 ATGTTGCTACTAAACCAAACCA
1 ATGTTGCTACTAAACCAAACCA
38022530 A
1 A
38022531 CATATCCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (22 bp):
ATGTTGCTACTAAACCAAACCA
Found at i:38026277 original size:2 final size:2
Alignment explanation
Indices: 38026270--38026316 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
38026260 GCATCAAACG
38026270 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
38026312 CT CT C
1 CT CT C
38026317 GGACTGAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:38026782 original size:18 final size:18
Alignment explanation
Indices: 38026759--38026819 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
38026749 AGGAGAAAGA
38026759 AATAAAATATATTAAAAT
1 AATAAAATATATTAAAAT
* * ***
38026777 AATAAAACAT-GTGGCAT
1 AATAAAATATATTAAAAT
38026794 CAATAAAATATATTAAAAT
1 -AATAAAATATATTAAAAT
38026813 AATAAAA
1 AATAAAA
38026820 CATGTGGCAT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
17 3 0.10
18 25 0.81
19 3 0.10
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAAAATATATTAAAAT
Found at i:38026799 original size:36 final size:36
Alignment explanation
Indices: 38026759--38026830 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
38026749 AGGAGAAAGA
38026759 AATAAAATATATTAAAATAATAAAACATGTGGCATC
1 AATAAAATATATTAAAATAATAAAACATGTGGCATC
38026795 AATAAAATATATTAAAATAATAAAACATGTGGCATC
1 AATAAAATATATTAAAATAATAAAACATGTGGCATC
38026831 CTTTTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (36 bp):
AATAAAATATATTAAAATAATAAAACATGTGGCATC
Found at i:38027112 original size:3 final size:3
Alignment explanation
Indices: 38027104--38027154 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
38027094 AGAACTAAAA
* *
38027104 AAT AAT AAT -AT AATT AAA AACCT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT
38027151 AAT A
1 AAT A
38027155 TGTTGATCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 3 0.08
5 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38027635 original size:11 final size:11
Alignment explanation
Indices: 38027590--38027652 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
38027580 GTTTTTTCTT
*
38027590 ATATTAATTTAA
1 ATATTTATTT-A
38027602 ATAATTTATATT-
1 AT-ATTTAT-TTA
38027614 ATATTTATTTA
1 ATATTTATTTA
*
38027625 ATATTTTTTTA
1 ATATTTATTTA
38027636 ATAATTTATTTA
1 AT-ATTTATTTA
38027648 ATATT
1 ATATT
38027653 CTTTTAACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 2 0.05
11 21 0.48
12 14 0.32
13 5 0.11
14 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTTATTTA
Found at i:38027642 original size:23 final size:23
Alignment explanation
Indices: 38027616--38027659 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
38027606 TTTATATTAT
*
38027616 ATTTATTTAATATTTTTTTAATA
1 ATTTATTTAATATTCTTTTAATA
38027639 ATTTATTTAATATTCTTTTAA
1 ATTTATTTAATATTCTTTTAA
38027660 CATTATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATTTAATATTCTTTTAATA
Found at i:38027815 original size:14 final size:15
Alignment explanation
Indices: 38027796--38027826 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
38027786 AATATTGTTT
38027796 TTTTATTAAAA-ATA
1 TTTTATTAAAATATA
38027810 TTTTATTAAAATATA
1 TTTTATTAAAATATA
38027825 TT
1 TT
38027827 ATCATGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTATTAAAATATA
Found at i:38030451 original size:40 final size:40
Alignment explanation
Indices: 38030394--38030658 Score: 329
Period size: 40 Copynumber: 6.7 Consensus size: 40
38030384 CTAACGGGGT
* * * * *
38030394 TAAGTCCCAAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
38030434 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
38030474 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
38030514 TAAGTCCCGAAGGCTTTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* * * *
38030554 TAAGCCCCGGAGGCATTTGTGCAAGTTA-TTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * * *
38030594 TAAGTCCCGAAGGCATCTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* *
38030634 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
38030659 GGTTATATCT
Statistics
Matches: 199, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.05
40 189 0.95
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:38059196 original size:29 final size:27
Alignment explanation
Indices: 38059162--38059264 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
38059152 TACTCAATCA
*
38059162 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
38059191 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
38059220 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
38059249 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38059265 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:38060840 original size:29 final size:29
Alignment explanation
Indices: 38060798--38061011 Score: 243
Period size: 29 Copynumber: 7.3 Consensus size: 29
38060788 TGTGCTAACA
* *
38060798 ATGGTCGTAACCATCCATTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
*
38060827 ATGGTCGTCACCATCCATTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
**
38060856 ATGGTCGTCACCATCCCTTTTCATTAACCG
1 ATGGTCGTCACCATCCCTTTTCA-TATTCG
*
38060886 ATGGTCGTCACCATCCCTTTTCATTAATCG
1 ATGGTCGTCACCATCCCTTTTCA-TATTCG
*
38060916 ATGGTCATCACCATCCCTTTTCATAGTT-G
1 ATGGTCGTCACCATCCCTTTTCATA-TTCG
* *
38060945 ATGGTCGTCACCATCCCTTTTTAT-TGTTG
1 ATGGTCGTCACCATCCCTTTTCATAT-TCG
* * ** *
38060974 ATAGTTGAAACTATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
*
38061003 ATTGTCGTC
1 ATGGTCGTC
38061012 GATACATCGT
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 101 0.63
30 57 0.36
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATATTCG
Found at i:38060907 original size:59 final size:59
Alignment explanation
Indices: 38060798--38060965 Score: 239
Period size: 59 Copynumber: 2.8 Consensus size: 59
38060788 TGTGCTAACA
* * * * *
38060798 ATGGTCGTAACCATCCATTTTCATATTCGATGGTCGTCACCATCCATTTTCA-TATTCG
1 ATGGTCGTCACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCATTAATCG
*
38060856 ATGGTCGTCACCATCCCTTTTCATTAACCGATGGTCGTCACCATCCCTTTTCATTAATCG
1 ATGGTCGTCACCATCCCTTTTCA-TAATCGATGGTCGTCACCATCCCTTTTCATTAATCG
* * *
38060916 ATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTT
1 ATGGTCGTCACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTT
38060966 TATTGTTGAT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 21 0.21
59 50 0.51
60 27 0.28
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (59 bp):
ATGGTCGTCACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCATTAATCG
Found at i:38061098 original size:25 final size:25
Alignment explanation
Indices: 38061067--38061120 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
38061057 ACATGATAGC
*
38061067 ATTTAAAATATAAATTTAAAAAGCT
1 ATTTAAAACATAAATTTAAAAAGCT
38061092 ATTTAAAACATAAATTTAAAAAGCT
1 ATTTAAAACATAAATTTAAAAAGCT
38061117 ATTT
1 ATTT
38061121 CACATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTTAAAACATAAATTTAAAAAGCT
Found at i:38065932 original size:10 final size:10
Alignment explanation
Indices: 38065917--38065943 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38065907 CATACAAATT
38065917 ATAACATATA
1 ATAACATATA
38065927 ATAACATATA
1 ATAACATATA
38065937 ATAACAT
1 ATAACAT
38065944 TTTATCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAACATATA
Found at i:38065955 original size:15 final size:15
Alignment explanation
Indices: 38065935--38065968 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
38065925 TAATAACATA
38065935 TAATAACATTTTATC
1 TAATAACATTTTATC
38065950 TAATAACATTTTATC
1 TAATAACATTTTATC
38065965 TAAT
1 TAAT
38065969 TACTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAACATTTTATC
Found at i:38067062 original size:4 final size:4
Alignment explanation
Indices: 38067053--38067078 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
38067043 AAAAAACCTT
38067053 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
38067079 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:38073430 original size:48 final size:47
Alignment explanation
Indices: 38073325--38073437 Score: 109
Period size: 48 Copynumber: 2.4 Consensus size: 47
38073315 ATGAGAGCCA
* * * *
38073325 ATGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCC
1 ATGTAAGACCATATCTGGAACATGGCATCGGCATCGATATGTGTGCC
* * * * **
38073372 AGTGTTAGACCATATCTGGAATATGGCATCGGCCTCGGTATGTGATTTC
1 A-TGTAAGACCATATCTGGAACATGGCATCGGCATCGATATGTG-TGCC
*
38073421 ATGTAAGACCCTATCTG
1 ATGTAAGACCATATCTG
38073438 AGATATGACG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
47 1 0.02
48 48 0.92
49 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (47 bp):
ATGTAAGACCATATCTGGAACATGGCATCGGCATCGATATGTGTGCC
Found at i:38073509 original size:90 final size:90
Alignment explanation
Indices: 38073415--38073578 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
38073405 CTCGGTATGT
* * * * *
38073415 GATTTCATGTAAGACCCTATCTGAGATATGACGTTGATATG-AGACTTCATGTAAAACCATGTCC
1 GATTTCATATAAGACCATATCTGAGATATGACATCGATATGTAGAC-CCATGTAAAACCATGTCC
38073479 GGGACATGGCATCGGTACCGACGTGA
65 GGGACATGGCATCGGTACCGACGTGA
* * * **
38073505 GATTTCATATAAGACCATATCTGGGATATGGCATCGATATGTAGACCCATGTAAGACCATGTCTT
1 GATTTCATATAAGACCATATCTGAGATATGACATCGATATGTAGACCCATGTAAAACCATGTCCG
38073570 GGACATGGC
66 GGACATGGC
38073579 GTTGGCATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 59 0.94
91 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (90 bp):
GATTTCATATAAGACCATATCTGAGATATGACATCGATATGTAGACCCATGTAAAACCATGTCCG
GGACATGGCATCGGTACCGACGTGA
Found at i:38074889 original size:19 final size:19
Alignment explanation
Indices: 38074867--38074908 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
38074857 GACACAAGCA
* *
38074867 TGTCAAGGGGACACGGGTG
1 TGTCAAGGGCACACGGATG
38074886 TGTCAAGGGCACACGGATG
1 TGTCAAGGGCACACGGATG
38074905 TGTC
1 TGTC
38074909 CTTGTACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.19
Consensus pattern (19 bp):
TGTCAAGGGCACACGGATG
Found at i:38075423 original size:13 final size:13
Alignment explanation
Indices: 38075405--38075429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38075395 GTTAATGAAG
38075405 TTTCTATGTTAGA
1 TTTCTATGTTAGA
38075418 TTTCTATGTTAG
1 TTTCTATGTTAG
38075430 TTGGAATAAT
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:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (13 bp):
TTTCTATGTTAGA
Found at i:38076537 original size:27 final size:27
Alignment explanation
Indices: 38076493--38076645 Score: 173
Period size: 27 Copynumber: 5.7 Consensus size: 27
38076483 TAAATGCGTC
** * *
38076493 ATGAAAGAAAAGCTTTTGTGGTGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCGAAAT
* *
38076520 ATGAAAGAGTAGCCTTTGTGGCCAAAG
1 ATGAAAGAGTAGCCTTTGTGGCGAAAT
* **
38076547 ATGAAAGAGTAGTCTTTGTGGAAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCGAAAT
*
38076574 ATGAAAGAGTAGCCTTTATGGCGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCGAAAT
* * *
38076601 ATGAAAGAGTAGCATCTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCGAAAT
*
38076628 ATGAAGGA-TAGCCTTTGT
1 ATGAAAGAGTAGCCTTTGT
38076646 AGTGAACCCT
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
26 8 0.08
27 97 0.92
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTTGTGGCGAAAT
Found at i:38078519 original size:42 final size:42
Alignment explanation
Indices: 38078409--38078530 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
38078399 AGTACCGTAC
* *
38078409 CAATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
* * *
38078451 CAATCCCAATAACCCAGCTATGGTCTTACATG-AAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATAT
*
38078494 CGATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCT
38078531 TAGTAACCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAT
Found at i:38078659 original size:25 final size:25
Alignment explanation
Indices: 38078630--38078681 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
38078620 CTAAGGGTCA
38078630 ATCACAATTAATACAATAATAAAGT
1 ATCACAATTAATACAATAATAAAGT
*
38078655 ATCACAATTCATACAATAATAAAGT
1 ATCACAATTAATACAATAATAAAGT
38078680 AT
1 AT
38078682 TTAACACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (25 bp):
ATCACAATTAATACAATAATAAAGT
Found at i:38082491 original size:43 final size:43
Alignment explanation
Indices: 38082432--38082516 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
38082422 GTTCGGGTGG
* *
38082432 CACATAGATCATGAACTTGGACCACTCAACAAGTTCAGATTTT
1 CACATAGATCACGAACTTGGACCACTCAACAAGCTCAGATTTT
* * * *
38082475 CACATATATCACGAACTTGGACCGCTGAACGAGCTCAGATTT
1 CACATAGATCACGAACTTGGACCACTCAACAAGCTCAGATTT
38082517 CTAAATTCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
CACATAGATCACGAACTTGGACCACTCAACAAGCTCAGATTTT
Found at i:38093386 original size:12 final size:12
Alignment explanation
Indices: 38093369--38093402 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38093359 ATCGCATGGG
*
38093369 CGTGTGGTCGCC
1 CGTGTGGTAGCC
38093381 CGTGTGGTAGCC
1 CGTGTGGTAGCC
*
38093393 CGTGAGGTAG
1 CGTGTGGTAG
38093403 TACACGGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.24, G:0.44, T:0.24
Consensus pattern (12 bp):
CGTGTGGTAGCC
Found at i:38094064 original size:40 final size:40
Alignment explanation
Indices: 38094001--38094078 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
38093991 TGCAGTACCT
* *
38094001 TATGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATA
*
38094041 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCA
38094079 CAAGGTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.35, T:0.35
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATA
Found at i:38098291 original size:40 final size:40
Alignment explanation
Indices: 38098225--38098314 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 40
38098215 TCGGTATCGT
38098225 ACACTTAGTGCCTTATATAGCTGAAGC-AATTCCAACTCGC
1 ACACTTAGTGCCTTATATAGCTGAAGCTAATTCCAACT-GC
* * *
38098265 ACACTTAGTGCCATT-TGTAG-TCGAAGCTATTTCGAACTGC
1 ACACTTAGTGCC-TTATATAGCT-GAAGCTAATTCCAACTGC
38098305 ACACTTAGTG
1 ACACTTAGTG
38098315 GCGAACATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.02
40 33 0.75
41 10 0.23
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
ACACTTAGTGCCTTATATAGCTGAAGCTAATTCCAACTGC
Found at i:38100983 original size:48 final size:48
Alignment explanation
Indices: 38100882--38101007 Score: 173
Period size: 48 Copynumber: 2.6 Consensus size: 48
38100872 TTTAACCGTA
** *
38100882 GTATATCCACTTAGCACCAAATTA-ATGAATCAATATATGTAACCATG
1 GTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATG
* * * *
38100929 GCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTG
1 GTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATG
*
38100977 GTATATCCACTTAGCACCACGTTACACGTAT
1 GTATATCCACTTAGCACCACGTTACATGTAT
38101008 AACAGTGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 21 0.30
48 48 0.70
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (48 bp):
GTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATG
Found at i:38108965 original size:16 final size:16
Alignment explanation
Indices: 38108944--38108981 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
38108934 ATGTTTGCAT
38108944 TCATGTTATATTATGC
1 TCATGTTATATTATGC
38108960 TCATGTTATATTATGC
1 TCATGTTATATTATGC
38108976 TGCATG
1 T-CATG
38108982 GGAGAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (16 bp):
TCATGTTATATTATGC
Found at i:38119023 original size:37 final size:37
Alignment explanation
Indices: 38118973--38119095 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
38118963 TTATTACGAA
38118973 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
38119010 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38119047 GTCTTACCCGGACATGATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38119084 GTCTCACCCGGA
1 GTCTTACCCGGA
38119096 ATATATTTCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:38119227 original size:58 final size:59
Alignment explanation
Indices: 38119159--38119276 Score: 157
Period size: 58 Copynumber: 2.0 Consensus size: 59
38119149 GCCATTCGGC
* * * * **
38119159 TTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTCGGCTTTTTCACATA
1 TTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTTTACCACATA
* *
38119218 TTTA-CACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATA
1 TTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTTTACCACATA
38119276 T
1 T
38119277 ACATATCACA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (59 bp):
TTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTTTACCACATA
Found at i:38119279 original size:48 final size:48
Alignment explanation
Indices: 38119218--38119373 Score: 305
Period size: 48 Copynumber: 3.3 Consensus size: 48
38119208 TTTTCACATA
38119218 TTTA-CACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
38119265 TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
38119313 TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
38119361 TTTACCACATATA
1 TTTACCACATATA
38119374 TACACTTTCA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 4 0.04
48 104 0.96
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (48 bp):
TTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGC
Found at i:38119418 original size:47 final size:47
Alignment explanation
Indices: 38119351--38119567 Score: 389
Period size: 47 Copynumber: 4.6 Consensus size: 47
38119341 TTTCACATTA
* * *
38119351 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
38119398 GCCATTAGGCCTTATGACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38119445 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
38119492 CCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38119539 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
38119568 ACGAGCTGTT
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:38123068 original size:40 final size:40
Alignment explanation
Indices: 38123019--38123450 Score: 706
Period size: 40 Copynumber: 10.8 Consensus size: 40
38123009 CCAGCATGAT
* * *
38123019 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * * *
38123059 TGCTCTTCGGGACTTAGTCCGGTTGCCTTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38123099 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38123139 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCTA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGC-ACGAA
38123179 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38123219 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
38123259 TGCTCTTCGGAACTTAATCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
38123299 TGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38123339 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38123379 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
38123419 TGCTCTTCGGGATTTAG-CCTGGATATATCACT
1 TGCTCTTCGGAACTTAGTCC-GGATACATCACT
38123451 CTCAATTCTT
Statistics
Matches: 371, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
39 3 0.01
40 367 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:38125220 original size:37 final size:37
Alignment explanation
Indices: 38125166--38125288 Score: 219
Period size: 37 Copynumber: 3.3 Consensus size: 37
38125156 TTATTACGAA
38125166 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38125203 GTCTTACCCGGATATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38125240 GTCTTACCCGGACATGATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
38125277 GTCTCACCCGGA
1 GTCTTACCCGGA
38125289 ATATATTTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:38125420 original size:48 final size:48
Alignment explanation
Indices: 38125337--38125556 Score: 332
Period size: 48 Copynumber: 4.6 Consensus size: 48
38125327 ACAACATTCT
* * * * *
38125337 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
38125385 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
38125433 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
*
38125481 CATTAGCCATTCGACTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
38125529 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
38125557 TACACTTTCA
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 157 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:38125600 original size:47 final size:47
Alignment explanation
Indices: 38125534--38125750 Score: 407
Period size: 47 Copynumber: 4.6 Consensus size: 47
38125524 TTTCACATTA
* * *
38125534 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38125581 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38125628 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38125675 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
38125722 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
38125751 ACGAGCTGTT
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 167 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:38130114 original size:24 final size:22
Alignment explanation
Indices: 38130063--38130114 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
38130053 TGTTAATTTT
*
38130063 AAAAATTTTATAATTTTAAATT
1 AAAAATTTTATAATTTTAAATC
*
38130085 ATAAATTTGTATTAATTTATAAA-C
1 AAAAATTT-TA-TAATTT-TAAATC
38130109 AAAAAT
1 AAAAAT
38130115 AGACATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 7 0.29
23 2 0.08
24 11 0.46
25 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAAATTTTATAATTTTAAATC
Found at i:38130856 original size:27 final size:27
Alignment explanation
Indices: 38130826--38130884 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
38130816 ACACTCTAAA
* * *
38130826 TTTTCAAAAGCAGTTTTCTAAACCACTT
1 TTTTCAAAA-CACTTTTCAAAAACACTT
*
38130854 TTTTCACAACACTTTTCAAAAACACTT
1 TTTTCAAAACACTTTTCAAAAACACTT
38130881 TTTT
1 TTTT
38130885 AACTTCAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTTCAAAACACTTTTCAAAAACACTT
Found at i:38132478 original size:15 final size:16
Alignment explanation
Indices: 38132458--38132487 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38132448 TTTGTTATTT
38132458 ATGATTTAGC-TTTAC
1 ATGATTTAGCATTTAC
38132473 ATGATTTAGCATTTA
1 ATGATTTAGCATTTA
38132488 TTAATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (16 bp):
ATGATTTAGCATTTAC
Found at i:38136351 original size:40 final size:40
Alignment explanation
Indices: 38136277--38136455 Score: 292
Period size: 40 Copynumber: 4.5 Consensus size: 40
38136267 AACCCAAGTA
* *
38136277 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
38136316 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38136356 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38136396 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
38136435 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
38136456 GTCATCCGAA
Statistics
Matches: 133, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 37 0.28
40 95 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Done.