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 117 of 318
Found at i:35833969 original size:27 final size:27
Alignment explanation
Indices: 35833939--35834005 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
35833929 TAATTTACAA
35833939 AATTACTGAAACACCCCTATAGGGTAG
1 AATTACTGAAACACCCCTATAGGGTAG
35833966 AATTACTGAAACACCCCTATAGGGTAG
1 AATTACTGAAACACCCCTATAGGGTAG
*
35833993 AATTACCGAAACA
1 AATTACTGAAACA
35834006 ACACCCTCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
AATTACTGAAACACCCCTATAGGGTAG
Found at i:35834571 original size:67 final size:67
Alignment explanation
Indices: 35834455--35834602 Score: 226
Period size: 67 Copynumber: 2.2 Consensus size: 67
35834445 GCGTTCTAGT
* * * *
35834455 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACAATATCTG
1 AGCCTCGCTGCAATCTGGTGGCCTAGCCACATATATCTGTTCTGCTGACTTCGTCAAAATATCTG
35834520 GC
66 GC
*
35834522 AGCCTCGTTGCAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGCTGACTTCGTCAAAATATCT
1 AGCCTCGCTGCAATCTGGTGGCCTAGCCACATATATCTGT-TCTGCTGACTTCGTCAAAATATCT
35834586 GGC
65 GGC
*
35834589 AGCTTCGCTGCAAT
1 AGCCTCGCTGCAAT
35834603 TTCTGTGGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 8 0.11
67 65 0.89
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (67 bp):
AGCCTCGCTGCAATCTGGTGGCCTAGCCACATATATCTGTTCTGCTGACTTCGTCAAAATATCTG
GC
Found at i:35838218 original size:39 final size:40
Alignment explanation
Indices: 35838160--35838339 Score: 150
Period size: 40 Copynumber: 4.5 Consensus size: 40
35838150 AATCAAGCAT
* *
35838160 CTTCGGGT-TTAG-CCGGATATAACCACTCGC-CCAAGGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
*** * *
35838197 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
* *** *
35838237 CTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
* * * ** * *
35838277 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAACCAC-TAGCACAAAGGC
*
35838318 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
35838340 CATTCGAGTA
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 14 0.12
40 62 0.53
41 29 0.25
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
Found at i:35838322 original size:41 final size:40
Alignment explanation
Indices: 35838195--35838339 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
35838185 CTCGCCCAAG
* * *
35838195 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
35838235 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
35838275 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
35838316 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35838340 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:35846269 original size:39 final size:40
Alignment explanation
Indices: 35846213--35846356 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
35846203 ACTCGCCAAG
* * *
35846213 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
35846253 GCCTTC-GGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
35846292 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
35846333 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35846357 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 38 0.42
40 22 0.24
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:35854503 original size:27 final size:26
Alignment explanation
Indices: 35854473--35854546 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
35854463 ACCTCGGTTT
35854473 GTAAAATTACTGTAATGCCCCTGTAGG
1 GTAAAATTAC-GTAATGCCCCTGTAGG
* *
35854500 GTAAAATTACCGTAATACCCCTGTATG
1 GTAAAATTA-CGTAATGCCCCTGTAGG
* *
35854527 GTAGAATGACGATAATGCCC
1 GTAAAATTACG-TAATGCCC
35854547 TTATGTTTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 37 0.93
28 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (26 bp):
GTAAAATTACGTAATGCCCCTGTAGG
Found at i:35856085 original size:40 final size:39
Alignment explanation
Indices: 35856040--35856157 Score: 116
Period size: 39 Copynumber: 3.0 Consensus size: 39
35856030 TTTCCAATTT
* *
35856040 CTAGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTA
1 CTAGCACTAAGCCTGCGGGATTTAACCCGGATAT-TAATA
* * *
35856080 CTAGCACTAGGCCTGC-GGACTATAAGTCCGGATA-TAATA
1 CTAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATTAATA
* * *
35856119 CCAGAATTAAGCCTGCGGGATTTAACCCGGATA-TAATA
1 CTAGCACTAAGCCTGCGGGATTTAACCCGGATATTAATA
35856157 C
1 C
35856158 CACATAAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 13 0.20
39 23 0.36
40 21 0.33
41 7 0.11
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (39 bp):
CTAGCACTAAGCCTGCGGGATTTAACCCGGATATTAATA
Found at i:35856305 original size:2 final size:2
Alignment explanation
Indices: 35856300--35856332 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35856290 ACAGATAATA
*
35856300 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35856333 ACCATATCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35857324 original size:13 final size:13
Alignment explanation
Indices: 35857303--35857333 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35857293 CCATATTACT
35857303 TAACCGAATGTTA
1 TAACCGAATGTTA
*
35857316 TAACTGAATGTTA
1 TAACCGAATGTTA
35857329 TAACC
1 TAACC
35857334 TCAATTACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
TAACCGAATGTTA
Found at i:35858294 original size:22 final size:22
Alignment explanation
Indices: 35858277--35858319 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
35858267 TGTTGAGCTG
35858277 TCTTGTCTACGGCATTGAGCCA
1 TCTTGTCTACGGCATTGAGCCA
*
35858299 TCTTGTCTACGGTATTGAGCC
1 TCTTGTCTACGGCATTGAGCC
35858320 GTCCTGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (22 bp):
TCTTGTCTACGGCATTGAGCCA
Found at i:35863039 original size:28 final size:29
Alignment explanation
Indices: 35863007--35863121 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
35862997 AACCTGTATC
* *
35863007 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
35863035 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-CATA
*
35863064 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** * *
35863093 TTTCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
35863121 T
1 T
35863122 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:35878078 original size:40 final size:39
Alignment explanation
Indices: 35878033--35878240 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
35878023 CGGAATACAA
*
35878033 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
35878073 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
35878113 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
35878153 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
35878193 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
35878233 CCGGATAT
1 CCGGATAT
35878241 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35878173 original size:80 final size:80
Alignment explanation
Indices: 35878033--35878239 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
35878023 CGGAATACAA
* * *
35878033 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
35878097 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
35878113 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
35878177 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
35878193 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
35878240 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:35886091 original size:40 final size:39
Alignment explanation
Indices: 35886046--35886253 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
35886036 CGGAATACAA
*
35886046 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
35886086 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
35886126 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
35886166 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
35886206 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
35886246 CCGGATAT
1 CCGGATAT
35886254 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35886186 original size:80 final size:80
Alignment explanation
Indices: 35886046--35886252 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
35886036 CGGAATACAA
* * *
35886046 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
35886110 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
35886126 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
35886190 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
35886206 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
35886253 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:35893406 original size:68 final size:66
Alignment explanation
Indices: 35893334--35893483 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
35893324 CATCATGTGT
* * * *
35893334 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
35893397 TGTAG
62 TGTAG
** * *
35893402 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
35893467 AG
65 AG
35893469 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
35893484 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:35893439 original size:64 final size:64
Alignment explanation
Indices: 35893358--35893541 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
35893348 AGACATTATG
* * *
35893358 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
35893422 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35893487 AA
63 AA
* * *
35893489 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
35893542 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35894613 original size:2 final size:2
Alignment explanation
Indices: 35894606--35894634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35894596 TCATGACATG
35894606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35894635 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35897825 original size:68 final size:66
Alignment explanation
Indices: 35897753--35897902 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
35897743 CATCATGTGT
* * * *
35897753 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
35897816 TGTAG
62 TGTAG
** * *
35897821 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
35897886 AG
65 AG
35897888 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
35897903 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:35897858 original size:64 final size:64
Alignment explanation
Indices: 35897777--35897960 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
35897767 AGACATTATG
* * *
35897777 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
35897841 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35897906 AA
63 AA
* * *
35897908 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
35897961 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35899047 original size:2 final size:2
Alignment explanation
Indices: 35899040--35899066 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35899030 TCATGACATG
35899040 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
35899067 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35904414 original size:46 final size:46
Alignment explanation
Indices: 35904347--35904515 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 46
35904337 GGGTATCTGA
*
35904347 TCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAAC
1 TCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAAC
* * * * * * * * *
35904393 TCGTTGAGTTGAGTCTAAGTTC-GTGAAATGTA-ACTAGGCATCTGAAC
1 TCGTTGAGTTGAGTCTGAGTTCACT--TATGGATGCGA-ACGTCCGAAC
* * *
35904440 TTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGC
1 TCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAA-C
*
35904486 TCATTGAGTTGAGT-TCGAGTTCACTTATGG
1 TCGTTGAGTTGAGTCT-GAGTTCACTTATGG
35904516 GCGGGTTACA
Statistics
Matches: 91, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
45 4 0.04
46 54 0.59
47 32 0.35
48 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAAC
Found at i:35907497 original size:15 final size:15
Alignment explanation
Indices: 35907459--35907498 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
35907449 GTATCGCATC
35907459 TTGGGTTTCTTTATT
1 TTGGGTTTCTTTATT
* * *
35907474 CTAGATTTCTTTATT
1 TTGGGTTTCTTTATT
35907489 TTGGGTTTCT
1 TTGGGTTTCT
35907499 CATTATCTTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (15 bp):
TTGGGTTTCTTTATT
Found at i:35910286 original size:46 final size:46
Alignment explanation
Indices: 35910229--35910398 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
35910219 TGGGCATCCA
*
35910229 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
* * * * * * * *
35910275 AACTTGTTGAGTTGAGTCCAAGTTC-GTGAAATGTA-ACTAGGCGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACGTCCG
* *
35910322 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
* *
35910368 AGCTTGTTGAGTTGAGTCCGAGTTCACTTAT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAT
35910399 AGGCGGGTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.63
47 34 0.35
48 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
Found at i:35915740 original size:26 final size:25
Alignment explanation
Indices: 35915693--35915741 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
35915683 GCGAGGCTGC
*
35915693 CAGATATTGTGACGAAGTCACCAAA
1 CAGATATTGTGACGAAGCCACCAAA
* *
35915718 CAGATATATGTGGCGAGGCCACCA
1 CAGATAT-TGTGACGAAGCCACCA
35915742 GATTGCAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
CAGATATTGTGACGAAGCCACCAAA
Found at i:35923526 original size:40 final size:40
Alignment explanation
Indices: 35923460--35923626 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
35923450 AAATTGAATG
* * *
35923460 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35923499 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35923539 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35923579 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35923619 ATATCCGG
1 ATATCCGG
35923627 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35926346 original size:27 final size:26
Alignment explanation
Indices: 35926298--35926349 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35926288 GTGAGGCTGC
*
35926298 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35926324 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35926350 TTGTAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35930167 original size:40 final size:40
Alignment explanation
Indices: 35930074--35930250 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
35930064 AAGCCAAGTA
* * *
35930074 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
35930112 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35930152 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
35930192 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35930232 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35930251 TTGTCATCCA
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 12 0.10
39 18 0.15
40 91 0.75
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35937828 original size:27 final size:27
Alignment explanation
Indices: 35937790--35937878 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
35937780 AAAAATAGTG
* * *
35937790 ATTTTACCCTAC-AGGGTTATGTCGGTT
1 ATTTTACACTACAAGGG-TATGTCGATA
*
35937817 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
* * *
35937844 ATTTTACACTATAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATGTCGATA
35937871 ATTTTACA
1 ATTTTACA
35937879 AATTGAGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 51 0.93
28 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:35937891 original size:27 final size:27
Alignment explanation
Indices: 35937830--35938036 Score: 256
Period size: 27 Copynumber: 7.7 Consensus size: 27
35937820 TTACACTACA
* *
35937830 AGGGTATTTCGATAATTTTACACTAT-A
1 AGGGTATTTCGATAATTTTACA-AATCG
* *
35937857 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
35937884 AGGATATTTTGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
35937911 AGGGTGTTTCGGTAATTTTACAAATAG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
35937938 AGGGTGTTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
*
35937965 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
35937992 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
35938019 AGGGTATTTCGATAATTT
1 AGGGTATTTCGATAATTT
35938037 CTCTTTATTA
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 157 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:35937913 original size:81 final size:80
Alignment explanation
Indices: 35937828--35938036 Score: 283
Period size: 81 Copynumber: 2.6 Consensus size: 80
35937818 TTTTACACTA
* * * *
35937828 CAAGGGTATTTCGATAATTTTACACTATAAGGGTATTTTGATAATTTTACAAATTGAGGATATTT
1 CAAGGGTATTTCGGTAATTTTACA-AATAAGGGTATTTCGATAATTTTACAAACTGAGGATATTT
*
35937893 TGATAATTTTACAAAT
65 CGATAATTTTACAAAT
* * * * *
35937909 CAAGGGTGTTTCGGTAATTTTACAAATAGAGGGTGTTTCGGTAATTTTACAAACTGAGGGTGTTT
1 CAAGGGTATTTCGGTAATTTTACAAATA-AGGGTATTTCGATAATTTTACAAACTGAGGATATTT
35937974 CGATAATTTTACAAAT
65 CGATAATTTTACAAAT
* *
35937990 CGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTT
1 CAAGGGTATTTCGGTAATTTTACAAAT-AAGGGTATTTCGATAATTT
35938037 CTCTTTATTA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 3 0.03
81 108 0.97
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTCGGTAATTTTACAAATAAGGGTATTTCGATAATTTTACAAACTGAGGATATTTC
GATAATTTTACAAAT
Found at i:35941274 original size:27 final size:27
Alignment explanation
Indices: 35941230--35941368 Score: 115
Period size: 27 Copynumber: 5.1 Consensus size: 27
35941220 CAAAACAGTG
* *
35941230 ATTTTAC-CTTACAGGGGTATGTT-GGTC
1 ATTTTACAC-TACAAGGGTAT-TTCGGTA
*
35941257 ATTTTACACTATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
35941284 ATTTTACACTACAAAGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * * * *
35941311 ATTTTACA-AATCGAGGGTGTTTTGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
35941338 ATTTTACA-AATCAAGGATATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
35941365 ATTT
1 ATTT
35941369 CTCTTTATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.03
27 89 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:35941734 original size:28 final size:28
Alignment explanation
Indices: 35941687--35941860 Score: 222
Period size: 28 Copynumber: 6.2 Consensus size: 28
35941677 GCCCCTTTAA
* * * *
35941687 GCCCAATCTCGTTCACATGGCCTATCAG
1 GCCCAATCACATTCATATGGCCCATCAG
*
35941715 GCCCAATCACATTCTTATGGCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAG
* * * *
35941743 GCCCAACCACTTTCATATGGTCCATCAA
1 GCCCAATCACATTCATATGGCCCATCAG
35941771 GCCCAATCACATTCATATGGCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAG
* *
35941799 GCCCAATCACATTCATATGGCCCAGCAT
1 GCCCAATCACATTCATATGGCCCATCAG
* * *
35941827 GCTCAATTACATTCATATGGCCCATTAG
1 GCCCAATCACATTCATATGGCCCATCAG
35941855 GCCCAA
1 GCCCAA
35941861 CTACTTCCCA
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 124 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.24
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAG
Found at i:35943519 original size:19 final size:19
Alignment explanation
Indices: 35943495--35943587 Score: 81
Period size: 19 Copynumber: 5.1 Consensus size: 19
35943485 AATAAAAAAC
*
35943495 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
35943514 TCATCTTAGTTAATTAAG-
1 TCATCTTAGTTAATTAAGT
* *
35943532 T--TGTT-G-GAA-TAAGTT
1 TCATCTTAGTTAATTAAG-T
35943547 ACTCATCTTAGTTAATTAAGT
1 --TCATCTTAGTTAATTAAGT
*
35943568 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
35943587 T
1 T
35943588 GCTGGAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
13 4 0.07
14 2 0.03
15 1 0.02
16 3 0.05
17 1 0.02
18 1 0.02
19 39 0.66
20 1 0.02
21 3 0.05
22 4 0.07
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:35943540 original size:54 final size:54
Alignment explanation
Indices: 35943469--35943597 Score: 195
Period size: 54 Copynumber: 2.4 Consensus size: 54
35943459 TTTAGTTTAA
* *
35943469 TTAATTAAATTGCTGGAATAAAAAACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAAAAACTCATCTTAGTTAATTAAGTTCATCTTAG
* ***
35943523 TTAATTAAGTTGTTGGAATAAGTTACTCATCTTAGTTAATTAAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAAAAACTCATCTTAGTTAATTAAGTTCATCTTAG
*
35943577 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
35943598 TTTATTGTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAAAAACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:35947609 original size:19 final size:19
Alignment explanation
Indices: 35947585--35947677 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
35947575 AATAAATAAC
35947585 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
*
35947604 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTGAGT
* * *
35947623 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTGAGT
*
35947639 TCATCATAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
*
35947658 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTGAGT
35947677 T
1 T
35947678 GCTGGAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 40 0.69
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:35947622 original size:54 final size:54
Alignment explanation
Indices: 35947559--35947687 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
35947549 TTTAGTTTAA
* *
35947559 TTAATTAAGTTGCCGGAATAAATAACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATAACTCATCATAGTTAATTGAGTTCATCTTAG
* *
35947613 TTAATTAAGTTGCTAGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATAACTCATCATAGTTAATTGAGTTCATCTTAG
*
35947667 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
35947688 TTTATTATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATAACTCATCATAGTTAATTGAGTTCATCTTAG
Found at i:35947865 original size:24 final size:23
Alignment explanation
Indices: 35947838--35947908 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
35947828 ATGTGGCTAT
*
35947838 TACATTACTTAAAGAAGAGCATTA
1 TACATCACTTAAAG-AGAGCATTA
35947862 TACATCACTTAAAG-GAG--TTA
1 TACATCACTTAAAGAGAGCATTA
*
35947882 TTACATCATTTAAAGGAGAGCATTA
1 -TACATCACTTAAA-GAGAGCATTA
35947907 TA
1 TA
35947909 TATCCTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 12 0.30
22 4 0.10
23 3 0.08
24 15 0.38
25 3 0.08
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (23 bp):
TACATCACTTAAAGAGAGCATTA
Found at i:35947888 original size:21 final size:22
Alignment explanation
Indices: 35947835--35947900 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
35947825 TTAATGTGGC
*
35947835 TATTACATTACTTAAAGAAGAGCAT
1 TATTACATCACTTAAAG--GAG-AT
35947860 TA-TACATCACTTAAAGGAG-T
1 TATTACATCACTTAAAGGAGAT
*
35947880 TATTACATCATTTAAAGGAGA
1 TATTACATCACTTAAAGGAGA
35947901 GCATTATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 3 0.08
21 16 0.43
22 3 0.08
24 13 0.35
25 2 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (22 bp):
TATTACATCACTTAAAGGAGAT
Found at i:35955226 original size:283 final size:283
Alignment explanation
Indices: 35954719--35955279 Score: 899
Period size: 283 Copynumber: 2.0 Consensus size: 283
35954709 GCACGGAGGA
* * *
35954719 AGGAATGTGAAACATGCTTTAACCTACTAACATAAGAAACAATAAATTTTTAGAATGCCTATAGG
1 AGGAATGTGAAACATGCTTTAACCTACTAACACAAGAAACAATAAAGTGTTAGAATGCCTATAGG
* *
35954784 AATAATAAAAGTAAAAATTAATGAAAACCTAAGGCTAATAGTCAATGAAAATTGCTGAAACCCGA
66 AATAATAAAAGTAAAAATTAATGAAAACCTAAGGCTAAGAGTCAATGAAAATTGCTAAAACCCGA
* * * **
35954849 AAACCTAAAAAATTGCGAAGCAATTTGACAAACTTCATTAAAGGTGTTCCTGATTTCTAAAAATC
131 AAACCCAAAAAATTGCAAAGCAATTTGACAAAATTCATTAAAGGTGTTCCCAATTTCTAAAAATC
* * *
35954914 ATGAAATCCAAACTAGATATTCCTTAAATAAAGTAGATCTGATATGGAAAGTTTTGGCACAAAAT
196 ACGAAATCCAAACTAGATACTCCTTAAATAAAGTAAATCTGATATGGAAAGTTTTGGCACAAAAT
35954979 TTAATCTAGAGAATATTTAATCC
261 TTAATCTAGAGAATATTTAATCC
*
35955002 AGGAATGTGCAACATG-TTTCAACCTACTAACACAAGAAACAATAAAGTGTTAGAATGCCTATAG
1 AGGAATGTGAAACATGCTTT-AACCTACTAACACAAGAAACAATAAAGTGTTAGAATGCCTATAG
*
35955066 GAATAATAAAAGTAAAAATTAATGAAAACCTAAGGCTAAGAGTCAATGAAAATTTCTAAAACCCG
65 GAATAATAAAAGTAAAAATTAATGAAAACCTAAGGCTAAGAGTCAATGAAAATTGCTAAAACCCG
* ** * *
35955131 AAAACCCAAAAAATTGCAAAGTAATTTGACAAAATTTGTTTAAGGTTTTCCCAATTTCTAAAAAT
130 AAAACCCAAAAAATTGCAAAGCAATTTGACAAAATTCATTAAAGGTGTTCCCAATTTCTAAAAAT
* * *
35955196 CACGAAATCCAAATTGGATCCTCCTTAAATAAAGTAAATCTGATATGGAAAGTTTTGGCACAAAA
195 CACGAAATCCAAACTAGATACTCCTTAAATAAAGTAAATCTGATATGGAAAGTTTTGGCACAAAA
35955261 TTTAATCTAGAGAATATTT
260 TTTAATCTAGAGAATATTT
35955280 TTTATTTTTT
Statistics
Matches: 254, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
282 3 0.01
283 251 0.99
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (283 bp):
AGGAATGTGAAACATGCTTTAACCTACTAACACAAGAAACAATAAAGTGTTAGAATGCCTATAGG
AATAATAAAAGTAAAAATTAATGAAAACCTAAGGCTAAGAGTCAATGAAAATTGCTAAAACCCGA
AAACCCAAAAAATTGCAAAGCAATTTGACAAAATTCATTAAAGGTGTTCCCAATTTCTAAAAATC
ACGAAATCCAAACTAGATACTCCTTAAATAAAGTAAATCTGATATGGAAAGTTTTGGCACAAAAT
TTAATCTAGAGAATATTTAATCC
Found at i:35955323 original size:15 final size:17
Alignment explanation
Indices: 35955288--35955324 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
35955278 TTTTTATTTT
*
35955288 TTCTTTTTTCTCATATT
1 TTCTTTTTTCTCATATC
35955305 TTCTTTTTTCT-ATA-C
1 TTCTTTTTTCTCATATC
35955320 TTCTT
1 TTCTT
35955325 CGATCACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
17 11 0.58
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (17 bp):
TTCTTTTTTCTCATATC
Found at i:35962459 original size:39 final size:39
Alignment explanation
Indices: 35962398--35962644 Score: 249
Period size: 39 Copynumber: 6.5 Consensus size: 39
35962388 ATGTAATCAA
* *
35962398 GGCACGTAAGTGCAAATTAGGGGTACTGAAGTACAACAAG
1 GGCACGTATGTGC-AATCAGGGGTACTGAAGTACAACAAG
*
35962438 GGCACGTATGTGCAATCAGGGG---T--A-TACAACAGG
1 GGCACGTATGTGCAATCAGGGGTACTGAAGTACAACAAG
* * *
35962471 GGCATGTATGTGCAATCAAGGGTACCGAAGTACAACAA-
1 GGCACGTATGTGCAATCAGGGGTACTGAAGTACAACAAG
* * * *
35962509 AGCATGTATGTGCGATCAGGGGTACTGGAA-TACAACAGG
1 GGCACGTATGTGCAATCAGGGGTACT-GAAGTACAACAAG
* * *
35962548 GGCACGTATGTACAATTAGGGGTACTGAAGTACAACAGGG
1 GGCACGTATGTGCAATCAGGGGTACTGAAGTACAACA-AG
* * * *
35962588 GGCACATATGTGCAATCAGGGGTACCGCAGTACAACAAT
1 GGCACGTATGTGCAATCAGGGGTACTGAAGTACAACAAG
*
35962627 GGCACATATGTGCAATCA
1 GGCACGTATGTGCAATCA
35962645 AGGAATAATT
Statistics
Matches: 173, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
33 28 0.16
34 1 0.01
36 1 0.01
38 33 0.19
39 64 0.37
40 46 0.27
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (39 bp):
GGCACGTATGTGCAATCAGGGGTACTGAAGTACAACAAG
Found at i:35962474 original size:33 final size:33
Alignment explanation
Indices: 35962429--35962494 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
35962419 GGTACTGAAG
*
35962429 TACAACAAGGGCACGTATGTGCAATCAGGGGTA
1 TACAACAAGGGCACGTATGTGCAATCAAGGGTA
* *
35962462 TACAACAGGGGCATGTATGTGCAATCAAGGGTA
1 TACAACAAGGGCACGTATGTGCAATCAAGGGTA
35962495 CCGAAGTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (33 bp):
TACAACAAGGGCACGTATGTGCAATCAAGGGTA
Found at i:35962549 original size:19 final size:19
Alignment explanation
Indices: 35962525--35962588 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
35962515 TATGTGCGAT
35962525 CAGGGGTACTGGAATACAA
1 CAGGGGTACTGGAATACAA
* * *
35962544 CAGGGGCAC-GTATGTACAA
1 CAGGGGTACTGGA-ATACAA
*
35962563 TTAGGGGTACT-GAAGTACAA
1 -CAGGGGTACTGGAA-TACAA
35962583 CAGGGG
1 CAGGGG
35962589 GCACATATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 13 0.39
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.17
Consensus pattern (19 bp):
CAGGGGTACTGGAATACAA
Found at i:35962557 original size:77 final size:76
Alignment explanation
Indices: 35962398--35962647 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 76
35962388 ATGTAATCAA
* * *
35962398 GGCACGTAAGTGCAAATTAGGGGTACTGAAGTACAACAAGGGCACGTATGTGCAATCAGGGG---
1 GGCACGTATGTGC-AATCAAGGGTACTGAAGTACAACAA-GGCACGTATGTGCAATCAGGGGTAC
35962460 T--ATACAACAGG
64 TGAATACAACAGG
* * * * *
35962471 GGCATGTATGTGCAATCAAGGGTACCGAAGTACAACAAAGCATGTATGTGCGATCAGGGGTACTG
1 GGCACGTATGTGCAATCAAGGGTACTGAAGTACAACAAGGCACGTATGTGCAATCAGGGGTACT-
35962536 GAATACAACAGG
65 GAATACAACAGG
* * * * *
35962548 GGCACGTATGTACAATTAGGGGTACTGAAGTACAACAGGGGGCACATATGTGCAATCAGGGGTAC
1 GGCACGTATGTGCAATCAAGGGTACTGAAGTACAACA--AGGCACGTATGTGCAATCAGGGGTAC
* * **
35962613 CGCAGTACAACAAT
64 TG-AATACAACAGG
*
35962627 GGCACATATGTGCAATCAAGG
1 GGCACGTATGTGCAATCAAGG
35962648 AATAATTACA
Statistics
Matches: 142, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
71 19 0.13
72 22 0.15
73 11 0.08
74 1 0.01
77 42 0.30
78 1 0.01
79 46 0.32
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (76 bp):
GGCACGTATGTGCAATCAAGGGTACTGAAGTACAACAAGGCACGTATGTGCAATCAGGGGTACTG
AATACAACAGG
Found at i:35972437 original size:28 final size:27
Alignment explanation
Indices: 35972400--35972491 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 27
35972390 AAGTTAACTA
*
35972400 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCC-TAGCCCATATCAATATCAATCTG
* *
35972428 GGCCATAGCCTCTTA-CAGTATCAGAGTATACTG
1 GGCC-TAGCC-CATATCAATATC--A--AT-CTG
35972461 GGCCTAGCCCATATCAATATCAATCTG
1 GGCCTAGCCCATATCAATATCAATCTG
35972488 GGCC
1 GGCC
35972492 GCAGCCCTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
27 7 0.14
28 16 0.31
29 3 0.06
30 2 0.04
31 3 0.06
32 13 0.25
33 7 0.14
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (27 bp):
GGCCTAGCCCATATCAATATCAATCTG
Found at i:35972531 original size:60 final size:59
Alignment explanation
Indices: 35972400--35972534 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
35972390 AAGTTAACTA
* * *
35972400 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCTCTTACAGTATCAGAGTATACTG
1 GGCCTT-GCCCATATCAATATCAATCTGGGCCACAGCCTATTACAG-ATCAGAGTATACTG
* * **
35972461 GGCCTAGCCCATATCAATATCAATCTGGGCCGCAGCCCTATTACA-AGTC-GAGATATGTTG
1 GGCCTTGCCCATATCAATATCAATCTGGGCCACAG-CCTATTACAGA-TCAGAG-TATACTG
35972521 GGCCTTGCCCATAT
1 GGCCTTGCCCATAT
35972535 TAACATAGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 46 0.73
61 13 0.21
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
GGCCTTGCCCATATCAATATCAATCTGGGCCACAGCCTATTACAGATCAGAGTATACTG
Found at i:35972552 original size:20 final size:20
Alignment explanation
Indices: 35972527--35972572 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35972517 GTTGGGCCTT
35972527 GCCCATATT-AACATAGTTGG
1 GCCCATATTCAACATAGTT-G
*
35972547 GCCCAT-TTCAATATAGTTG
1 GCCCATATTCAACATAGTTG
35972566 GCCCATA
1 GCCCATA
35972573 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTCAACATAGTTG
Found at i:35975233 original size:93 final size:93
Alignment explanation
Indices: 35975074--35975244 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35975064 GGATGGTTGA
* *
35975074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
35975139 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
35975167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
35975232 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35975245 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35975247 original size:46 final size:46
Alignment explanation
Indices: 35975078--35975249 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
35975068 GGTTGAGCAT
* * *
35975078 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
35975124 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
35975169 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
35975217 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35975250 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:35979411 original size:30 final size:30
Alignment explanation
Indices: 35979375--35979475 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
35979365 GACAAGATTG
* * *
35979375 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35979405 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35979433 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
35979462 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35979476 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:35979487 original size:29 final size:28
Alignment explanation
Indices: 35979404--35979479 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
35979394 AAAATTGTAC
* *
35979404 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
35979432 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
35979461 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
35979480 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:35987270 original size:30 final size:30
Alignment explanation
Indices: 35987234--35987334 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
35987224 GACAAGATTG
* * *
35987234 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35987264 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35987292 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
35987321 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35987335 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:35987346 original size:29 final size:28
Alignment explanation
Indices: 35987263--35987338 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
35987253 AAAATTGTAC
* *
35987263 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
35987291 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
35987320 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
35987339 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:35989410 original size:12 final size:12
Alignment explanation
Indices: 35989388--35989424 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
35989378 TAATTAATAC
35989388 AAAAG-AAGTTG
1 AAAAGAAAGTTG
35989399 AAAAGAAAGTTG
1 AAAAGAAAGTTG
35989411 AAAAGAAAGTTG
1 AAAAGAAAGTTG
35989423 AA
1 AA
35989425 TCAGTGCCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAAGAAAGTTG
Found at i:35991661 original size:41 final size:40
Alignment explanation
Indices: 35991534--35991678 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
35991524 CTCGCCCAAG
* * *
35991534 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
35991574 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
35991614 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
35991655 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35991679 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:35992627 original size:38 final size:39
Alignment explanation
Indices: 35992512--35992694 Score: 199
Period size: 38 Copynumber: 4.7 Consensus size: 39
35992502 CTCGTTCAAA
* * *** * *
35992512 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* * * *
35992552 GGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
*
35992592 TGCCTTCGGGCTTAG-CCGGATATCATAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
* * *
35992630 TGCCTT-GGGCTTAGCCCGGGTATCACAATTTGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
35992668 TGCCTTCGGGCTTAGCCCGGATATCAC
1 TGCCTTCGGGCTTAGCCCGGATATCAC
35992695 TCGAACATTC
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
37 8 0.07
38 51 0.43
39 23 0.19
40 38 0.32
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:35992656 original size:76 final size:79
Alignment explanation
Indices: 35992512--35992693 Score: 253
Period size: 76 Copynumber: 2.3 Consensus size: 79
35992502 CTCGTTCAAA
* * **
35992512 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATAT
35992577 CACAATTTGCACAAT
65 CACAATTTGCACAAT
* ** * *
35992592 TGCCTTCGGGCTTAG-CCGGATATCATAACTCGCACAATTGCCTT-GGG-CTTAGCCCGGGTATC
1 TGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
35992654 ACAATTTGCACAAT
66 ACAATTTGCACAAT
35992668 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCA
35992694 CTCGAACATT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
76 42 0.46
77 13 0.14
78 23 0.25
79 4 0.04
80 10 0.11
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
ACAATTTGCACAAT
Found at i:35992693 original size:39 final size:39
Alignment explanation
Indices: 35992553--35992694 Score: 216
Period size: 38 Copynumber: 3.7 Consensus size: 39
35992543 CCGCACAAAG
*
35992553 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
35992593 GCCTTCGGGCTTAG-CCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
35992631 GCCTT-GGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
35992669 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
35992695 TCGAACATTC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
37 8 0.09
38 51 0.56
39 23 0.25
40 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:36003867 original size:29 final size:29
Alignment explanation
Indices: 36003805--36003907 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
36003795 GTGACGAGAT
* * *
36003805 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
36003834 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
36003863 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
36003892 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36003908 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:36011889 original size:29 final size:29
Alignment explanation
Indices: 36011827--36011929 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
36011817 GTGACGAGAT
* * *
36011827 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
36011856 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
36011885 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
36011914 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36011930 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:36016344 original size:40 final size:40
Alignment explanation
Indices: 36016214--36016442 Score: 331
Period size: 39 Copynumber: 5.8 Consensus size: 40
36016204 TGGATGATAA
* * * * **
36016214 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36016254 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36016292 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36016332 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
36016372 CCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
36016411 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
36016443 AGCTATATCC
Statistics
Matches: 174, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 7 0.04
39 87 0.50
40 80 0.46
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:36016367 original size:79 final size:80
Alignment explanation
Indices: 36016214--36016442 Score: 331
Period size: 79 Copynumber: 2.9 Consensus size: 80
36016204 TGGATGATAA
* * * * **
36016214 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCGGGC-AAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
36016278 TGCGAGTTACT-AAT
66 TGCGAGTTACTAAAT
36016292 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
36016357 TGCGAGTTACTAAAT
66 TGCGAGTTACTAAAT
* * *
36016372 CCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTCTAA-CCGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTCCCGAAGGCATTT
*
36016435 GAGCGAGT
65 GTGCGAGT
36016443 AGCTATATCC
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
78 40 0.29
79 82 0.59
80 16 0.12
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAAT
Found at i:36016465 original size:79 final size:79
Alignment explanation
Indices: 36016253--36016467 Score: 287
Period size: 79 Copynumber: 2.7 Consensus size: 79
36016243 AGTGACTAGT
* * *
36016253 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAATTCCGAAGGCAATTG
36016317 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
*
36016331 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-AAGTCCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATCCGGGCTAAATTCCGAAGGCAATT
*
36016395 GTGCGAGTTACTCTAA
65 GTGCGAGTTACT-AAA
* * *
36016411 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA-ATCCGGGCTAAATTCCGAAG
36016468 TACTTGGTTG
Statistics
Matches: 122, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
78 13 0.11
79 97 0.80
80 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAATTCCGAAGGCAATTG
TGCGAGTTACTAAA
Found at i:36024328 original size:40 final size:40
Alignment explanation
Indices: 36024229--36024419 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
36024219 TGGATGATAA
* * * * **
36024229 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36024269 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36024308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
36024348 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
36024388 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
36024420 AGCTATATCC
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.24
40 103 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:36028315 original size:30 final size:30
Alignment explanation
Indices: 36028257--36028316 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36028247 TTCCCGAGCC
*
36028257 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
36028287 TAGGGGCAAAAGTGTAATTTTACTAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
36028317 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:36028899 original size:93 final size:93
Alignment explanation
Indices: 36028735--36028905 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
36028725 GGATGGTTGA
* * * * *
36028735 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATACGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCATTGAGT
36028800 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
36028828 GCATACGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATACGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCATTGAGT
36028893 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36028906 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATACGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36028908 original size:46 final size:46
Alignment explanation
Indices: 36028739--36028910 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
36028729 GGTTGAGCAT
* * * *
36028739 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATGT
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
36028785 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
36028830 ATACGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
36028878 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
36028911 GGGGCAGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 26 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:36041193 original size:40 final size:39
Alignment explanation
Indices: 36041028--36041211 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
36041018 AAATTGAATG
* * *
36041028 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
36041068 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
36041108 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
36041148 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
36041187 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
36041212 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:36041236 original size:80 final size:81
Alignment explanation
Indices: 36041068--36041256 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
36041058 GCTGGAAATT
* * * *
36041068 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
36041133 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
36041149 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
36041212 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
36041228 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
36041257 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:36049169 original size:40 final size:39
Alignment explanation
Indices: 36049004--36049187 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
36048994 AAATTGAATG
* * *
36049004 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
36049044 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
36049084 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
36049124 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
36049163 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
36049188 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:36049212 original size:80 final size:81
Alignment explanation
Indices: 36049044--36049232 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
36049034 GCTGGAAATT
* * * *
36049044 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
36049109 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
36049125 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
36049188 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
36049204 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
36049233 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:36051797 original size:24 final size:24
Alignment explanation
Indices: 36051766--36052005 Score: 380
Period size: 24 Copynumber: 10.1 Consensus size: 24
36051756 AATGTGACAT
* *
36051766 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
36051790 ATAGCAAAATCGCACACATAGTGCC
1 ATAG-TAAATCGCACACATAGTGCC
*
36051815 ATAGTAAATCGCACACACAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36051839 ATAGTAAATCGCACACAT--TGCC
1 ATAGTAAATCGCACACATAGTGCC
36051861 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36051885 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36051909 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36051933 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36051957 ATAGTAAATCGCACAC--AGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36051979 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36052003 ATA
1 ATA
36052006 TGGTCTTTGC
Statistics
Matches: 203, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
22 43 0.21
24 138 0.68
25 22 0.11
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:36051887 original size:70 final size:71
Alignment explanation
Indices: 36051766--36052005 Score: 360
Period size: 70 Copynumber: 3.4 Consensus size: 71
36051756 AATGTGACAT
* * *
36051766 ATAGCAAATCGCACACATAGTGCTATAGCAAAATCGCACACATAGTGCCATAGTAAATCGCACAC
1 ATAGTAAATCGCACACATA-TGCCATAG-TAAATCGCACACATAGTGCCATAGTAAATCGCACAC
36051831 ACAGTGCC
64 ACAGTGCC
* *
36051839 ATAGTAAATCGCACACAT-TGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACAT
1 ATAGTAAATCGCACACATATGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACAC
36051903 AGTGCC
66 AGTGCC
*
36051909 ATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCG--CACA
1 ATAGTAAATCGCACACATA-TGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACA
36051972 CAGTGCC
65 CAGTGCC
*
36051979 ATAGTGAATCGCACACATAGTGCCATA
1 ATAGTAAATCGCACACATA-TGCCATA
36052006 TGGTCTTTGC
Statistics
Matches: 157, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
70 95 0.61
71 7 0.04
72 38 0.24
73 17 0.11
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (71 bp):
ATAGTAAATCGCACACATATGCCATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACAC
AGTGCC
Found at i:36051933 original size:94 final size:95
Alignment explanation
Indices: 36051766--36052005 Score: 387
Period size: 94 Copynumber: 2.5 Consensus size: 95
36051756 AATGTGACAT
* * **
36051766 ATAGCAAATCGCACACATAGTGCTATAGCAAAATCGCACACATAGTGCCATAGTAAATCGCACAC
1 ATAGTAAATCGCACACATAGTGCCATAG-TGAATCGCACACATAGTGCCATAGTAAATCGCACAC
36051831 ACAGTGCCATAGTAAATCGCACACAT-TGCC
65 ACAGTGCCATAGTAAATCGCACACATATGCC
*
36051861 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
*
36051926 TAGTGCCATAGTAAATCGCACACATAGTGCC
66 CAGTGCCATAGTAAATCGCACACATA-TGCC
36051957 ATAGTAAATCGCACAC--AGTGCCATAGTGAATCGCACACATAGTGCCATA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATA
36052006 TGGTCTTTGC
Statistics
Matches: 137, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
94 91 0.66
95 26 0.19
96 20 0.15
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (95 bp):
ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACA
CAGTGCCATAGTAAATCGCACACATATGCC
Found at i:36059805 original size:24 final size:24
Alignment explanation
Indices: 36059775--36060015 Score: 414
Period size: 24 Copynumber: 10.1 Consensus size: 24
36059765 GAATGTGACT
* *
36059775 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
36059799 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36059823 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36059847 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36059871 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36059895 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36059919 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36059943 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36059967 ATAGTAAATCGCACAC--AGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
36059989 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
36060013 ATA
1 ATA
36060016 TGGTCTTTGC
Statistics
Matches: 210, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
22 21 0.10
24 189 0.90
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:36066340 original size:30 final size:30
Alignment explanation
Indices: 36066279--36066340 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
36066269 TTTCTGAGCC
*
36066279 TAGGGGCAAAATCATAATTCTGTAAAGGTT
1 TAGGGGCAAAATCATAATTCTGTAAAAGTT
* * *
36066309 TAGGGGCAAAATTATAATTTTTTAAAAGTT
1 TAGGGGCAAAATCATAATTCTGTAAAAGTT
36066339 TA
1 TA
36066341 AGTTTGGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (30 bp):
TAGGGGCAAAATCATAATTCTGTAAAAGTT
Found at i:36067281 original size:55 final size:54
Alignment explanation
Indices: 36067152--36067348 Score: 204
Period size: 55 Copynumber: 3.6 Consensus size: 54
36067142 TTGGTAAGAT
* * *
36067152 AAGGATAT-CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGC
1 AAGGAT-TCCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
36067206 AAGGAAAT-CATGTAAGACCATGTCAAGACATAGCATTGATGAGTTACTATAAGGAA
1 AAGG-ATTCCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* *
36067262 AAGG-TTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATTCCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* ** **
36067314 AAGGATACCACCTAAGACCATATCAAGACATGGCA
1 AAGGATTCCATGTAAGACCATGCCAAGACATGGCA
36067349 ATGGCAAGTT
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 39 0.33
55 42 0.35
56 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATTCCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:36077128 original size:11 final size:11
Alignment explanation
Indices: 36077112--36077145 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
36077102 ATGTCAAATC
*
36077112 ATCAAGAATAA
1 ATCAAGAACAA
36077123 ATCAAGAACAA
1 ATCAAGAACAA
36077134 ATCAAGAACAA
1 ATCAAGAACAA
36077145 A
1 A
36077146 ACTAGATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:36077870 original size:25 final size:25
Alignment explanation
Indices: 36077812--36077863 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
36077802 TTTGAGTAAT
* **
36077812 TTAATTTTTTTTTCTTTATGTTCTT
1 TTAACTTTTTTTTCTTTATGTTCCA
*
36077837 TTAACTTTTTTTTCTTTATTTTCCA
1 TTAACTTTTTTTTCTTTATGTTCCA
36077862 TT
1 TT
36077864 CTCTTTTGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.13, C:0.12, G:0.02, T:0.73
Consensus pattern (25 bp):
TTAACTTTTTTTTCTTTATGTTCCA
Found at i:36082088 original size:15 final size:15
Alignment explanation
Indices: 36082039--36082089 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
36082029 TTGTCTCGTG
*
36082039 TTATATTTTAGTCAC
1 TTATATTTGAGTCAC
* *
36082054 TTATATTTGA--AATT
1 TTATATTTGAGTCA-C
36082068 TTATATTTGAGTCAC
1 TTATATTTGAGTCAC
36082083 TTATATT
1 TTATATT
36082090 ATTGTGTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (15 bp):
TTATATTTGAGTCAC
Found at i:36083380 original size:16 final size:16
Alignment explanation
Indices: 36083356--36083389 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36083346 AAAACAAAGG
36083356 AAAGCTAAAAAAACATA
1 AAAGCTAAAAAAAC-TA
36083373 AAAG-TAAAAAAACTA
1 AAAGCTAAAAAAACTA
36083388 AA
1 AA
36083390 TTACTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAGCTAAAAAAACTA
Found at i:36090371 original size:40 final size:40
Alignment explanation
Indices: 36090316--36090623 Score: 402
Period size: 40 Copynumber: 7.6 Consensus size: 40
36090306 TATTCGGATG
*
36090316 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
36090356 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
36090396 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
36090439 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
36090479 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---GAGTTACT
* * * *
36090522 ATACCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
36090562 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
36090602 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
36090624 TACTTGGGTT
Statistics
Matches: 231, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.06
40 148 0.64
43 69 0.30
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:36090564 original size:123 final size:120
Alignment explanation
Indices: 36090320--36090623 Score: 400
Period size: 123 Copynumber: 2.5 Consensus size: 120
36090310 CGGATGATAT
*
36090320 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
36090385 TGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATAC
65 TGCGAGTGACTATACCCGAGCGAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATAC
* *
36090443 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG-CTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
36090508 TGCGAG-GAGTTGCTATACCCGAGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACTATAT
65 TGCGAGTGA----CTATACCCGAGCGAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATAC
* *
36090566 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTATATCCGGGCTAAGTCCCGAAGG
36090624 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
122 19 0.12
123 110 0.68
124 2 0.01
126 31 0.19
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTGACTATACCCGAGCGAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATAC
Found at i:36090642 original size:83 final size:81
Alignment explanation
Indices: 36090316--36090623 Score: 487
Period size: 83 Copynumber: 3.8 Consensus size: 81
36090306 TATTCGGATG
* * *
36090316 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTCCTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
36090380 ATTTGTGCTAGTGACT
66 ATTTGTGCTAGTGACT
36090396 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCG-G-AGTTGCTATACCCGGGCTAAGTCCCGAAG
36090461 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
*
36090479 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGGAGTTGCTATACCCGAGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGC--GGAGTTGCTATACCCGGGCTAAGTCCCGAAG
36090544 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * * *
36090562 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
36090624 TACTTGGGTT
Statistics
Matches: 214, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
79 14 0.07
80 44 0.21
82 1 0.00
83 153 0.71
84 1 0.00
85 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:36094841 original size:40 final size:40
Alignment explanation
Indices: 36094714--36094843 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
36094704 ATGCTGGAAA
* *
36094714 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
36094754 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
36094794 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
36094834 TTATATCCGG
1 TTATATCCGG
36094844 TTTTCCGAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:36096708 original size:40 final size:40
Alignment explanation
Indices: 36096638--36096815 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
36096628 AAACCAAGTA
* * *
36096638 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
36096677 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
36096717 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
36096757 CCTTCGAGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
36096797 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36096816 TTATCATCCG
Statistics
Matches: 129, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
39 16 0.12
40 111 0.86
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36098843 original size:22 final size:22
Alignment explanation
Indices: 36098801--36098845 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
36098791 AAACTTGTCG
*
36098801 TGTGTAAATATGATATGCGAAT
1 TGTGTAAATATGACATGCGAAT
36098823 TGTGTAAATAT-ACATGTCGAAT
1 TGTGTAAATATGACATG-CGAAT
36098845 T
1 T
36098846 AAGTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (22 bp):
TGTGTAAATATGACATGCGAAT
Found at i:36098851 original size:22 final size:22
Alignment explanation
Indices: 36098804--36098851 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
36098794 CTTGTCGTGT
* **
36098804 GTAAATATGATATGCGAATTGT
1 GTAAATATGACATGCGAATTAA
36098826 GTAAATAT-ACATGTCGAATTAA
1 GTAAATATGACATG-CGAATTAA
36098848 GTAA
1 GTAA
36098852 TAAAGTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (22 bp):
GTAAATATGACATGCGAATTAA
Found at i:36098972 original size:23 final size:23
Alignment explanation
Indices: 36098946--36098991 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36098936 TATGGCAAAG
36098946 TTAGGTTAAGTACGCAACAGTAA
1 TTAGGTTAAGTACGCAACAGTAA
36098969 TTAGGTTAAGTACGCAACAGTAA
1 TTAGGTTAAGTACGCAACAGTAA
36098992 ATTAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (23 bp):
TTAGGTTAAGTACGCAACAGTAA
Found at i:36102187 original size:31 final size:31
Alignment explanation
Indices: 36102152--36102215 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
36102142 CCTTTTCATG
*
36102152 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTAGGCCGAAGCCT
* **
36102183 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTCCATAACACTAGGCCGAAGCCT
36102214 TT
1 TT
36102216 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTAGGCCGAAGCCT
Found at i:36102457 original size:24 final size:24
Alignment explanation
Indices: 36102406--36102548 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
36102396 GCTTTATCAT
*
36102406 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
36102431 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
36102455 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
36102478 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
36102502 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
36102526 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36102549 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:36102485 original size:47 final size:48
Alignment explanation
Indices: 36102406--36102547 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
36102396 GCTTTATCAT
* *
36102406 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
36102455 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
36102502 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
36102548 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:36102506 original size:71 final size:72
Alignment explanation
Indices: 36102405--36102548 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
36102395 TGCTTTATCA
*
36102405 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
36102470 GCCCTTT
66 GCCCTTT
* * **
36102477 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
36102540 AGCCCTTT
65 AGCCCTTT
36102548 T
1 T
36102549 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:36102623 original size:20 final size:20
Alignment explanation
Indices: 36102598--36102658 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
36102588 TTATGATTAC
36102598 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
36102618 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
36102638 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
36102658 A
1 A
36102659 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:36102733 original size:25 final size:25
Alignment explanation
Indices: 36102701--36102748 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
36102691 ATACATAAAC
* *
36102701 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
36102726 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
36102749 CATGGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:36104261 original size:161 final size:162
Alignment explanation
Indices: 36103989--36104386 Score: 534
Period size: 161 Copynumber: 2.5 Consensus size: 162
36103979 GGGTATTTTA
* * *
36103989 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTAT
* * * * *
36104053 AAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGT
65 AAATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGT
** *
36104118 AAAACGA-TAATTATGTAAA-TCGGGGTAAAATG
130 AAAA-GAGTAATTATGTAAACTAAGGGTAAAACG
* * * * *
36104150 GTAATTCTGTAAATCGAGGGTGAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
* * *
36104215 AATCGGGGGTAAAGCGGTAATTATGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
66 AATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
* *
36104280 AAATAGTAATTCTGTAAACTAAGGGTAAAACG
131 AAAGAGTAATTATGTAAACTAAGGGTAAAACG
* **
36104312 GTAATTCTATAAAT-GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
36104376 AATCGAGGGTA
66 AATCGAGGGTA
36104387 CTTTGGTAAT
Statistics
Matches: 204, Mismatches: 30, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
160 1 0.00
161 179 0.88
162 24 0.12
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (162 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAACGGTAATTATGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAAGAGTAATTATGTAAACTAAGGGTAAAACG
Found at i:36104397 original size:27 final size:27
Alignment explanation
Indices: 36103989--36104386 Score: 496
Period size: 27 Copynumber: 14.8 Consensus size: 27
36103979 GGGTATTTTA
* *
36103989 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
36104016 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36104043 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36104070 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
36104097 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
36104124 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36104150 GTAATTCTGTAAATCGAGGGTGAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
36104177 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
36104204 ATAATTATGTAAATCGGGGGTAAAGCG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
36104231 GTAATTATGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
36104258 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36104285 GTAATTCTGTAAA-CTAAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
36104312 GTAATTCTATAAAT-GAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
36104338 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36104365 ATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
36104387 CTTTGGTAAT
Statistics
Matches: 323, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 47 0.15
27 276 0.85
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:36104408 original size:27 final size:27
Alignment explanation
Indices: 36104337--36104586 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
36104327 AGGGTAAAAC
****
36104337 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
36104364 GATAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
36104391 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** **
36104418 AATAATTTTACAGGTCGAGGGTA-TTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
36104444 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
36104471 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
36104498 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
36104525 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
36104552 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
36104578 GGTAATTTT
1 GGTAATTTT
36104587 GTAAACCAAA
Statistics
Matches: 187, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 36 0.19
27 148 0.79
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:36104423 original size:54 final size:53
Alignment explanation
Indices: 36104016--36104458 Score: 201
Period size: 54 Copynumber: 8.3 Consensus size: 53
36104006 GGGTAAAACA
** * * **
36104016 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* ** * ** * ***
36104070 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* * ** *** * **
36104124 ATAATTATGTAAATCG-GGGTAAAATGGTAATTCTGTAAATCGAGGGTGAAATG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* ** * * * * ***
36104177 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAGCG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* ** ** ** ** *
36104231 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
* * ** ***
36104285 GTAATTCTGTA-AACT-AAGGGTAAAACGGTAATTCTATAAAT-GAGGGTAAAACG
1 GTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGT-ATTTG
*
36104338 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTA-TTTG
* *** * * ** *
36104392 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTA
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTATTTG
*
36104445 GTAATTTCACAAAT
1 GTAATTTTACAAAT
36104459 TAGGGGTATT
Statistics
Matches: 328, Mismatches: 54, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
51 2 0.01
52 4 0.01
53 103 0.31
54 215 0.66
55 3 0.01
56 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (53 bp):
GTAATTTTACAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTATTTG
Found at i:36104520 original size:80 final size:81
Alignment explanation
Indices: 36104381--36104586 Score: 206
Period size: 80 Copynumber: 2.6 Consensus size: 81
36104371 CTATAAATCG
* * * ** ** *
36104381 AGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTA-TTT
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAACTAGAGGGTATTTT
**
36104444 AGTAATTTCACAAATTA
65 AGTAATTTCACAAACCA
*
36104461 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC-AACTAGAGGGTATTTT
* * *
36104525 GGTAATTTTATAAACCA
65 AGTAATTTCACAAACCA
* *
36104542 AGGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTT
36104587 GTAAACCAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 59 0.56
81 45 0.43
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAACTAGAGGGTATTTTA
GTAATTTCACAAACCA
Found at i:36104522 original size:54 final size:54
Alignment explanation
Indices: 36104435--36104603 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 54
36104425 TTACAGGTCG
* * * *
36104435 AGGGTATTTAG-TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
* *
36104488 GGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
**
36104542 AGGGTATTTT-AGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGA-TAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCA
*
36104595 A-AGTATTTT
1 AGGGTATTTT
36104604 AAATAGGGAT
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
52 7 0.07
53 36 0.35
54 60 0.58
55 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
Found at i:36104600 original size:26 final size:26
Alignment explanation
Indices: 36104463--36104603 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
36104453 ACAAATTAGG
* * *
36104463 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
36104490 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
36104517 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
36104543 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
36104570 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
36104596 AGTATTTT
1 GGTATTTT
36104604 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:36107421 original size:30 final size:31
Alignment explanation
Indices: 36107387--36107449 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
36107377 CCTTTTCATA
36107387 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
36107417 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
36107448 TT
1 TT
36107450 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:36107692 original size:24 final size:24
Alignment explanation
Indices: 36107641--36107783 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
36107631 GCTTTATCAT
*
36107641 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
36107666 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
36107690 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
36107713 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
36107737 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
36107761 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36107784 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:36107720 original size:47 final size:48
Alignment explanation
Indices: 36107641--36107782 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
36107631 GCTTTATCAT
* *
36107641 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
36107690 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
36107737 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
36107783 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:36107741 original size:71 final size:72
Alignment explanation
Indices: 36107640--36107783 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
36107630 TGCTTTATCA
*
36107640 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
36107705 GCCCTTT
66 GCCCTTT
* * **
36107712 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
36107775 AGCCCTTT
65 AGCCCTTT
36107783 T
1 T
36107784 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:36107858 original size:20 final size:20
Alignment explanation
Indices: 36107833--36107893 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
36107823 TTATGATTAC
36107833 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
36107853 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
36107873 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
36107893 A
1 A
36107894 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:36107968 original size:25 final size:25
Alignment explanation
Indices: 36107936--36107983 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36107926 ATACATAAAC
* * *
36107936 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
36107961 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
36107984 ATGGTATAAG
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:36109300 original size:80 final size:80
Alignment explanation
Indices: 36109216--36109611 Score: 498
Period size: 80 Copynumber: 4.9 Consensus size: 80
36109206 GGGTATTTTA
* * * * *
36109216 GTAATTTTGTAAATCGAGGGTAAAAAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAAGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
36109280 AATCGAGGGTAAAATG
65 AATCGAGGGTAAAATG
* *
36109296 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGT-AAAAGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
36109361 AATCG-GGGTAAAATG
65 AATCGAGGGTAAAATG
* *
36109376 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGT-AAAAGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
*
36109441 AATCG-GGGTAAAACG
65 AATCGAGGGTAAAATG
* * * *
36109456 GTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAA-GGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGT
* *
36109519 AAA-CTAAGGGTAAAACG
64 AAATC-GAGGGTAAAATG
* * ** *
36109536 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAA-GGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
36109601 AATCGAGGGTA
65 AATCGAGGGTA
36109612 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
78 5 0.02
79 41 0.14
80 144 0.51
81 91 0.32
82 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (80 bp):
GTAATTCTGTAAATCGAGGGTAAAAGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAA
ATCGAGGGTAAAATG
Found at i:36109622 original size:27 final size:27
Alignment explanation
Indices: 36109216--36109611 Score: 514
Period size: 27 Copynumber: 14.8 Consensus size: 27
36109206 GGGTATTTTA
* *
36109216 GTAATTTTGTAAATCGAGGGTAAAA-A
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
36109242 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36109269 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36109296 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
36109323 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
36109350 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36109376 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
36109403 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36109430 ATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36109456 GTAATTATGTAAAT-TAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
36109482 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36109509 GTAATTCTGTAAA-CTAAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
36109536 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
36109563 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36109590 ATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
36109612 CTTTGGTAAT
Statistics
Matches: 326, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
26 93 0.29
27 232 0.71
28 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:36109633 original size:27 final size:27
Alignment explanation
Indices: 36109535--36109811 Score: 211
Period size: 27 Copynumber: 10.3 Consensus size: 27
36109525 AGGGTAAAAC
* * ****
36109535 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
36109562 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
36109589 GATAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
36109616 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
36109643 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
36109670 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
36109697 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
36109724 GATAATTTTACAACTAG-GGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
36109750 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
36109777 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
36109803 GGTAATTTT
1 GGTAATTTT
36109812 GTAAACCAAA
Statistics
Matches: 206, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
26 39 0.19
27 167 0.81
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:36109661 original size:54 final size:54
Alignment explanation
Indices: 36109242--36109684 Score: 157
Period size: 54 Copynumber: 8.3 Consensus size: 54
36109232 AGGGTAAAAA
** * * * **
36109242 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT-G
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* ** * ** ** ***
36109296 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* * ** *** ** **
36109350 ATAATTATGTAAATCG-GGGTAAAATGGTAATTCTGTAAATCGAGGGTGA-AACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* ** * * ** ***
36109403 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* ** * ** * ** *
36109456 GTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAT-A
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* * ** * ***
36109509 GTAATTCTGTA-AACT-AAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* *
36109563 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTA-TTTCG
* *** * ** *
36109617 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
*
36109671 GTAATTTCACAAAT
1 GTAATTTTACAAAT
36109685 TAGGGGTATT
Statistics
Matches: 330, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
52 27 0.08
53 91 0.28
54 211 0.64
55 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
Found at i:36109772 original size:53 final size:52
Alignment explanation
Indices: 36109660--36109829 Score: 202
Period size: 53 Copynumber: 3.2 Consensus size: 52
36109650 TTACAGGTCG
* * * *
36109660 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTAC-AA-TAGGGGTATTTTGGTAATTTTATAAACCA
*
36109714 GGGGTATTTT-GATAATTTTACAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAG-TAATTTTACAA-TAGGGGTATTTTGGTAATTTTATAAACCA
*
36109767 AGGGTATTTTAGTAATTTTACAA-AGCAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAATAG--GGGTATTTTGGTAATTTTATAAACCA
*
36109820 A-AGTATTTTA
1 AGGGTATTTTA
36109830 AATAGGGATA
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
51 2 0.02
52 8 0.08
53 76 0.74
54 17 0.17
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (52 bp):
AGGGTATTTTAGTAATTTTACAATAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:36109825 original size:26 final size:26
Alignment explanation
Indices: 36109689--36109828 Score: 129
Period size: 26 Copynumber: 5.3 Consensus size: 26
36109679 ACAAATTAGG
* * *
36109689 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
36109716 GGTATTTTGATAATTTTA-CAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
36109742 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
36109768 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
36109795 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
36109821 AGTATTTT
1 GGTATTTT
36109829 AAATAGGGAT
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 52 0.55
27 43 0.45
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:36112910 original size:68 final size:68
Alignment explanation
Indices: 36112799--36112953 Score: 258
Period size: 68 Copynumber: 2.3 Consensus size: 68
36112789 TTTACATCAT
* * * *
36112799 TGCTCACACGAGCTGTGGAATGGGCCTCTTCACATGAGTTGTGGATCGGAATGTAAGCTACACGA
1 TGCTCACATGAGCTGTGGAATGGGCCTCTTCACATGAGCTGTGGATCGAAATCTAAGCTACACGA
36112864 TGC
66 TGC
36112867 TGCTCACATGAGCTGTGGAATGGGCCTGC-TCACATGAGCTGTGGATCGAAATCTAAGCTACACG
1 TGCTCACATGAGCTGTGGAATGGGCCT-CTTCACATGAGCTGTGGATCGAAATCTAAGCTACACG
36112931 ATGC
65 ATGC
36112935 TGCTCACATGAGCTGTGGA
1 TGCTCACATGAGCTGTGGA
36112954 GTATTTGCAA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 81 0.99
69 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (68 bp):
TGCTCACATGAGCTGTGGAATGGGCCTCTTCACATGAGCTGTGGATCGAAATCTAAGCTACACGA
TGC
Found at i:36116731 original size:19 final size:19
Alignment explanation
Indices: 36116707--36116747 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36116697 TTGATTTCAT
36116707 ATCCCAAATATGGTCTTAC
1 ATCCCAAATATGGTCTTAC
36116726 ATCCCAAATATGGTCTTAC
1 ATCCCAAATATGGTCTTAC
36116745 ATC
1 ATC
36116748 TAATCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (19 bp):
ATCCCAAATATGGTCTTAC
Found at i:36121044 original size:47 final size:47
Alignment explanation
Indices: 36120990--36121447 Score: 745
Period size: 47 Copynumber: 9.7 Consensus size: 47
36120980 GATTTTATGC
* * *
36120990 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
36121037 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
36121086 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
36121135 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
36121182 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
36121229 AATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
36121276 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
36121323 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * **
36121370 GATGAATGTGAAAGTGTATATATCTGATAGGGCCGAGTGGCCAACAT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
36121417 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
36121448 TCCTGAAGGG
Statistics
Matches: 393, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 299 0.76
49 94 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:36128823 original size:46 final size:46
Alignment explanation
Indices: 36128773--36128945 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
36128763 TGGTTGAGCA
36128773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36128819 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
36128864 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36128912 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36128946 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36128929 original size:93 final size:93
Alignment explanation
Indices: 36128770--36128940 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
36128760 GGATGGTTGA
* *
36128770 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36128835 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
36128863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
36128928 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
36128941 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.