Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 277 of 290
Found at i:95699556 original size:55 final size:55
Alignment explanation
Indices: 95699496--95699600 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
95699486 GGTTTGATGA
*
95699496 GTTTATACTCCTCATTCCTACTATCATTCTCATCAAAATAAGGTTTTAGACGGGT
1 GTTTATACTCCTAATTCCTACTATCATTCTCATCAAAATAAGGTTTTAGACGGGT
* *
95699551 GTTTATACTCCTAATTCCTGCTATTATTCTCATCAAAATAAGGTTTTAGA
1 GTTTATACTCCTAATTCCTACTATCATTCTCATCAAAATAAGGTTTTAGA
95699601 TGAGTATTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (55 bp):
GTTTATACTCCTAATTCCTACTATCATTCTCATCAAAATAAGGTTTTAGACGGGT
Found at i:95703301 original size:19 final size:17
Alignment explanation
Indices: 95703269--95703311 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
95703259 CTACTTGTGC
*
95703269 ATTTATGTTTTGAACTTG
1 ATTTATGTTATGAA-TTG
95703287 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
95703305 AATTATG
1 ATTTATG
95703312 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:95716708 original size:20 final size:19
Alignment explanation
Indices: 95716680--95716781 Score: 118
Period size: 19 Copynumber: 5.3 Consensus size: 19
95716670 AATTACAAAA
*
95716680 TAAAA-TCAAAGTAATTTT
1 TAAAATTCAAAATAATTTT
95716698 CTAAAATTCAAAATAATTTT
1 -TAAAATTCAAAATAATTTT
95716718 TAAAATTCAAAATAATTTT
1 TAAAATTCAAAATAATTTT
*
95716737 TAATATTCAAAAT-ATTTAT
1 TAAAATTCAAAATAATTT-T
* *
95716756 AAAAATTTCAAAATTTATTTT
1 TAAAA-TTCAAAA-TAATTTT
95716777 TAAAA
1 TAAAA
95716782 AAAATTCTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.05
19 40 0.55
20 19 0.26
21 6 0.08
22 4 0.05
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (19 bp):
TAAAATTCAAAATAATTTT
Found at i:95718129 original size:10 final size:10
Alignment explanation
Indices: 95718114--95718241 Score: 86
Period size: 10 Copynumber: 13.3 Consensus size: 10
95718104 CTGGTTATAG
95718114 ATATATACAT
1 ATATATACAT
95718124 ATATATACAT
1 ATATATACAT
95718134 ATATAT--AT
1 ATATATACAT
* *
95718142 GTATATAGAT
1 ATATATACAT
* **
95718152 ATATGTATGT
1 ATATATACAT
**
95718162 ATATATGTAT
1 ATATATACAT
95718172 ATATATACAT
1 ATATATACAT
*
95718182 ACATAT--AT
1 ATATATACAT
* *
95718190 ATATGTATAT
1 ATATATACAT
* *
95718200 ATATGTATAT
1 ATATATACAT
*
95718210 ATACATACAT
1 ATATATACAT
*
95718220 ATATCTACAT
1 ATATATACAT
*
95718230 A-ATATATAT
1 ATATATACAT
95718239 ATA
1 ATA
95718242 ACGAACCAGT
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
8 13 0.14
9 7 0.08
10 73 0.78
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (10 bp):
ATATATACAT
Found at i:95718139 original size:4 final size:4
Alignment explanation
Indices: 95718109--95718241 Score: 115
Period size: 4 Copynumber: 33.5 Consensus size: 4
95718099 GGTTGCTGGT
* * * * * *
95718109 TATA GATA TATA CATA TATA TACA TATA TATA TGTA TATA GATA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * *
95718157 TATG TATA TATG TATA TATA TACA TACA TATA TATA TGTA TATA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
95718205 TATA TATA CATA CATA TATC TACA TA-A TATA TATA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
95718242 ACGAACCAGT
Statistics
Matches: 103, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
3 3 0.03
4 100 0.97
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:95722632 original size:40 final size:40
Alignment explanation
Indices: 95722588--95722811 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
95722578 AAGTGAATAT
* * * * **
95722588 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
95722628 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
95722668 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
95722708 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
95722748 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
95722787 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
95722812 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:95722686 original size:80 final size:80
Alignment explanation
Indices: 95722549--95722811 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
95722539 TTGAATGCTG
* * * * *
95722549 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
95722611 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
95722629 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
95722694 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
95722709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
95722773 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
95722788 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
95722812 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:95722763 original size:120 final size:120
Alignment explanation
Indices: 95722549--95722811 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
95722539 TTGAATGCTG
* * *
95722549 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
95722613 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
95722669 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
95722731 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
95722788 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
95722812 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:95725445 original size:61 final size:61
Alignment explanation
Indices: 95725371--95725491 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
95725361 AGATTCCCTG
95725371 ACCGCTCCTGTTACAAATGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGTT
1 ACCGCTCCTGTTACAAATGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGTT
95725432 ACCGCTCCTGTTACAAATGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGT
1 ACCGCTCCTGTTACAAATGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGT
95725492 CGGGACAGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (61 bp):
ACCGCTCCTGTTACAAATGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGTT
Found at i:95726379 original size:71 final size:71
Alignment explanation
Indices: 95726263--95726406 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
95726253 AGCTTGTACC
*
95726263 TGGGACTACGCCGATTTCGATAGCTCCGTATCGTATGGCACCAACCGAGTTAAAGGAGTTGAAAG
1 TGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAGGAGTTGAAAG
95726328 CTCAGT
66 CTCAGT
*
95726334 TGGGACTACGCCGATTTTGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAGGAGTTGAAAG
1 TGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAGGAGTTGAAAG
95726399 CTCAGT
66 CTCAGT
95726405 TG
1 TG
95726407 CAAGAATTGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (71 bp):
TGGGACTACGCCGATTTCGATAACTCCGTATCGTATGGCACCAACCGAGTTAAAGGAGTTGAAAG
CTCAGT
Found at i:95726568 original size:60 final size:60
Alignment explanation
Indices: 95726475--95726603 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
95726465 TATTGTTCGT
*
95726475 GAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGACAGCTGAATAAAGTGAC
1 GAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGACAACTGAATAAAGTGAC
*
95726535 GAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGTGAC
1 GAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGACAACTGAATAAAGTGAC
*
95726595 GATAAAGAA
1 GAAAAAGAA
95726604 CAAATATCCG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (60 bp):
GAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGACAACTGAATAAAGTGAC
Found at i:95727237 original size:75 final size:75
Alignment explanation
Indices: 95727114--95727264 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 75
95727104 TTTTGGTCTA
* * *
95727114 TTCAAGAGATGAGACCGAACATGCTGAGCATCTGAGGCTAGTGCTGCAAATTTTGCGGGATAAGC
1 TTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCTGCAAATTTTACGGGATAAGC
95727179 AGTTATATGC
66 AGTTATATGC
* *
95727189 TTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGATTAGTGTTGCAAATTTTACGGGATAAGC
1 TTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCTGCAAATTTTACGGGATAAGC
95727254 AGTTATATGC
66 AGTTATATGC
95727264 T
1 T
95727265 AAGTTCAGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (75 bp):
TTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGACTAGTGCTGCAAATTTTACGGGATAAGC
AGTTATATGC
Found at i:95731177 original size:40 final size:40
Alignment explanation
Indices: 95731093--95731276 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
95731083 TTGAATGCTG
* * * *
95731093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
95731132 ATCCGGACTAAGAT-CCGAATGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
95731173 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
*
95731213 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
95731253 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
95731277 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:95731230 original size:80 final size:81
Alignment explanation
Indices: 95731093--95731273 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
95731083 TTGAATGCTG
* * *
95731093 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAATGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
*
95731157 TGTGCGAGTTATT-AAT
66 TGTGCGAGTT-TTAAAA
**
95731173 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
95731234 ATTTGTGCGAGTTTTAAAA
63 ATTTGTGCGAGTTTTAAAA
95731253 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
95731274 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTTTAAAA
Found at i:95731297 original size:39 final size:38
Alignment explanation
Indices: 95731094--95731313 Score: 156
Period size: 40 Copynumber: 5.6 Consensus size: 38
95731084 TGAATGCTGT
* * * * *
95731094 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
95731134 CCGGACTAAGAT-CCGAATGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
95731174 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
95731214 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-AAA
**
95731253 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* * *
95731293 CCGGGCTATGTCTCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
95731314 CTTGAACGAG
Statistics
Matches: 148, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
39 32 0.22
40 108 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:95734749 original size:69 final size:68
Alignment explanation
Indices: 95734675--95734894 Score: 228
Period size: 69 Copynumber: 3.2 Consensus size: 68
95734665 CTTTCAATTG
*
95734675 TAATATCAAGGCTCGCAAGTGAAGAGTCATAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCCCA
1 TAATATCAAGGCTC-CAAGTGAAGAGTCGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCCCA
*
95734740 GCTA
65 ACTA
* * *
95734744 TAATATCAAGGCT-CATAGTTTAAGAGTTGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAGCTCCC
1 TAATATCAAGGCTCCA-AG-TGAAGAGTCGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCCC
*
95734808 AACTG
64 AACTA
* * * * * * * *
95734813 TAAGACCAAGGCT-CATAGGCGAAGAGTCGTAGCCTCCAAAATAGTTAGCGAGAGTAAAGCTCTC
1 TAATATCAAGGCTCCA-A-GTGAAGAGTCGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCCC
* *
95734877 AATTG
64 AACTA
*
95734882 TAAGATCAAGGCT
1 TAATATCAAGGCT
95734895 TGCAAGCAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
67 2 0.02
68 2 0.02
69 126 0.96
70 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (68 bp):
TAATATCAAGGCTCCAAGTGAAGAGTCGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCCCAA
CTA
Found at i:95734985 original size:69 final size:67
Alignment explanation
Indices: 95734673--95735004 Score: 218
Period size: 69 Copynumber: 4.8 Consensus size: 67
95734663 AGCTTTCAAT
* * * * * * * *
95734673 TGTAATATCAAGGCTCGCAAGTGAAGAGTCATAGCCTCCAAAAAAGTTAGCAAGAGCAAAACTCC
1 TGTAAGATCAAGGCTCACAAGCGAAGA-AC-TAACCTCCAAAATAGTTAGCAAGAGTAAAGCTCC
*
95734738 CAGC
64 CAAC
* * * ** ** * * *
95734742 TATAATATCAAGGCTCA-TAGTTTAAGAGTTGTAGCCTCCAAAAAAGTTAGCAAGAGCAAAGCTC
1 TGTAAGATCAAGGCTCACAAG-CGAAGA--ACTAACCTCCAAAATAGTTAGCAAGAGTAAAGCTC
95734806 CCAAC
63 CCAAC
* * * * * * *
95734811 TGTAAGACCAAGGCTCATAGGCGAAGAGTCGTAGCCTCCAAAATAGTTAGCGAGAGTAAAGCTCT
1 TGTAAGATCAAGGCTCACAAGCGAAGA-AC-TAACCTCCAAAATAGTTAGCAAGAGTAAAGCTCC
*
95734876 CAAT
64 CAAC
** * * * *
95734880 TGTAAGATCAAGGCTTGCAAGC-AAAAAGCTGCAACCTCTAAAACAGTTAGCGAGAGTAAAGCTC
1 TGTAAGATCAAGGCTCACAAGCGAAGAA-CT--AACCTCCAAAATAGTTAGCAAGAGTAAAGCTC
95734944 CCAAC
63 CCAAC
* * *
95734949 TGTAAGATTAAGGCTCACAAACGAAGAACTAAAACCTCCAGAATAGTTAGCAAGAG
1 TGTAAGATCAAGGCTCACAAGCGAAGAACT--AACCTCCAAAATAGTTAGCAAGAG
95735005 CAAGGCTTCT
Statistics
Matches: 210, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 196 0.93
70 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (67 bp):
TGTAAGATCAAGGCTCACAAGCGAAGAACTAACCTCCAAAATAGTTAGCAAGAGTAAAGCTCCCA
AC
Found at i:95744354 original size:22 final size:22
Alignment explanation
Indices: 95744326--95744367 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
95744316 GGCGTGTAAA
95744326 GAATGTCAACACCAGAGGCCGG
1 GAATGTCAACACCAGAGGCCGG
*
95744348 GAATGTCAGCACCAGAGGCC
1 GAATGTCAACACCAGAGGCC
95744368 CCAAGGCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.31, T:0.10
Consensus pattern (22 bp):
GAATGTCAACACCAGAGGCCGG
Found at i:95751018 original size:29 final size:29
Alignment explanation
Indices: 95750966--95751025 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
95750956 ATTTTTCCAT
* **
95750966 AAATTTAACTGTAAAAATTTAATAATTAC
1 AAATGTAACTGTAAAAATCAAATAATTAC
* *
95750995 AAATGTAACTTTAAAAATCAAATAGTTAC
1 AAATGTAACTGTAAAAATCAAATAATTAC
95751024 AA
1 AA
95751026 TTGAAAGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATGTAACTGTAAAAATCAAATAATTAC
Found at i:95755147 original size:49 final size:49
Alignment explanation
Indices: 95755088--95755269 Score: 186
Period size: 49 Copynumber: 3.7 Consensus size: 49
95755078 CTGGTACGCA
* * * * *
95755088 TAGTAGCCTGCACATAGTACTACAAATGCGACCAATTATCCGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACG
* ** * *
95755137 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCAGGTACACG
* * * * *
95755186 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCAGGTACACG
*
95755237 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
95755270 TCGCAATAGA
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 67 0.61
50 8 0.07
51 35 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACG
Found at i:95768797 original size:21 final size:21
Alignment explanation
Indices: 95768756--95768799 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
95768746 ATATAACATA
* *
95768756 TAATGATATGATATATTAATT
1 TAATGATACGATAAATTAATT
*
95768777 TAATGATACGA-AAATTAAAT
1 TAATGATACGATAAATTAATT
95768797 TAA
1 TAA
95768800 ACTTAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
TAATGATACGATAAATTAATT
Found at i:95773712 original size:20 final size:20
Alignment explanation
Indices: 95773687--95773727 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
95773677 AAGGTTTATA
95773687 TTTGGAAAAATACCCATAGG
1 TTTGGAAAAATACCCATAGG
95773707 TTTGGAAAAATACCCATAGG
1 TTTGGAAAAATACCCATAGG
95773727 T
1 T
95773728 GAAATTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (20 bp):
TTTGGAAAAATACCCATAGG
Found at i:95774495 original size:46 final size:46
Alignment explanation
Indices: 95774439--95774608 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
95774429 TGGTTGAGCA
95774439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
95774485 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
95774530 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * * * *
95774578 CCCGAGCTCATTAAGTTGAGTCTGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
95774609 TTAGGGGCGG
Statistics
Matches: 102, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 55 0.54
47 27 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:95774595 original size:93 final size:93
Alignment explanation
Indices: 95774436--95774606 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
95774426 GGATGGTTGA
* * * *
95774436 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTAAGT
95774501 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
95774529 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTAAGT
*
95774594 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
95774607 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:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95781107 original size:46 final size:46
Alignment explanation
Indices: 95781039--95781131 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
95781029 TATAGGCCAA
*
95781039 CACATTTGGCCACATTAATAATGGCATAATTACAAAAGATAAAGCC
1 CACATTTGGCCACATTAATAATGACATAATTACAAAAGATAAAGCC
*
95781085 CACATTTGGCCACAATT-GTAATGACATAATTACAAAAGATAAAGCC
1 CACATTTGGCCAC-ATTAATAATGACATAATTACAAAAGATAAAGCC
95781131 C
1 C
95781132 CTATACATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 41 0.93
47 3 0.07
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (46 bp):
CACATTTGGCCACATTAATAATGACATAATTACAAAAGATAAAGCC
Found at i:95782239 original size:28 final size:28
Alignment explanation
Indices: 95782169--95782248 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
95782159 ATGTACCATA
* * * *
95782169 CTCGATACCTCGCACGCTAAGTGCTATT
1 CTCGATACTTTGCACACTAAGTGCTATC
*
95782197 CT-GA-ATGTTTCGCACACTAAGTGCTATC
1 CTCGATA-CTTT-GCACACTAAGTGCTATC
95782225 CTCGATACTTTGCACACTAAGTGC
1 CTCGATACTTTGCACACTAAGTGC
95782249 CATATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.02
27 3 0.07
28 32 0.76
29 5 0.12
30 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (28 bp):
CTCGATACTTTGCACACTAAGTGCTATC
Found at i:95784287 original size:30 final size:30
Alignment explanation
Indices: 95784246--95784306 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
95784236 ACTCTCGAGA
*
95784246 ACATAGTTTCTTTATTCCAACTATCCGTCT
1 ACATAGCTTCTTTATTCCAACTATCCGTCT
*
95784276 ACATAGCTTCTTTATTCCAACTATCTGTCT
1 ACATAGCTTCTTTATTCCAACTATCCGTCT
95784306 A
1 A
95784307 TCTATATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.43
Consensus pattern (30 bp):
ACATAGCTTCTTTATTCCAACTATCCGTCT
Found at i:95786344 original size:43 final size:44
Alignment explanation
Indices: 95786297--95786403 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 44
95786287 TCCTAGATAT
* * * *
95786297 GGTCTTACATGTTATCACATAT-CGATGCCACTGTCCTACACAG
1 GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
* * * *
95786340 GGTCTTACACGAAATCACA-ATACAATGCCAATGTCCCATACAT
1 GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
95786383 GGTCTTACATGTAATCACATA
1 GGTCTTACATGTAATCACATA
95786404 CCGAGTCGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.04
43 49 0.94
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (44 bp):
GGTCTTACATGTAATCACATATACAATGCCAATGTCCCACACAG
Found at i:95789565 original size:38 final size:38
Alignment explanation
Indices: 95789514--95789722 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
95789504 AGAATGAAAA
*
95789514 AACGTGGTGCTAAGTGGATATACCACGGTTATACCTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
**
95789552 AACGTGGTGCTAAGTGGATATACCAAGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATA-C-------CAC-GGTT-ATACATGT
* * *
95789600 AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
*
95789647 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
95789685 AACATGGTGCTAAGTGGATATGCCACGGTTATTCATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
95789723 TAATTTGAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
38 57 0.42
39 3 0.02
40 6 0.04
41 2 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 32 0.24
48 28 0.21
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:95789677 original size:47 final size:48
Alignment explanation
Indices: 95789544--95789682 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
95789534 TACCACGGTT
* *
95789544 ATACCTGTAACGTGGTGCTAAGTGGATATACCAAGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAAGGTTACACATATTG
* * *
95789592 ATACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAAGGTTACACATATTG
* * *
95789640 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAAGGTTACACAT
95789683 GTAACATGGT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 33 0.41
48 48 0.59
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCAAGGTTACACATATTG
Found at i:95792591 original size:40 final size:39
Alignment explanation
Indices: 95792531--95792608 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
95792521 TATATATAGC
*
95792531 CGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGT
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCA-TTTTAGT
* * *
95792571 CGAAGCTATTTCGAACTGCACACTAAGTGCCATTTTAG
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAG
95792609 CCGATAAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.18
40 28 0.82
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (39 bp):
CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAGT
Found at i:95805665 original size:37 final size:37
Alignment explanation
Indices: 95805606--95805751 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
95805596 AGCTCAGACG
* * *
95805606 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
95805643 AAATCTCCACACGTATTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
95805680 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
95805717 TAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
95805752 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:95806019 original size:47 final size:47
Alignment explanation
Indices: 95805958--95806151 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
95805948 CATACATATT
* * * *
95805958 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
95806005 TCACTTTGACCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
95806052 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
95806099 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
95806146 TCACAT
1 TCACAT
95806152 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:95809715 original size:58 final size:58
Alignment explanation
Indices: 95809619--95809741 Score: 185
Period size: 58 Copynumber: 2.1 Consensus size: 58
95809609 GAGTGGCTCA
*
95809619 ATGAGCAAATGTTACATGATAACTATCGGGTAGAGGTCCTAACTTGATAGAAAGGCCC
1 ATGAGTAAATGTTACATGATAACTATCGGGTAGAGGTCCTAACTTGATAGAAAGGCCC
* * *
95809677 ATGAGTAAATGTTACATGATAACTATGGGGTATG-GGTCCTGACTTGATAGAAAGTCCC
1 ATGAGTAAATGTTACATGATAACTATCGGGTA-GAGGTCCTAACTTGATAGAAAGGCCC
*
95809735 GTGAGTA
1 ATGAGTA
95809742 GCTCAATTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 58 0.98
59 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (58 bp):
ATGAGTAAATGTTACATGATAACTATCGGGTAGAGGTCCTAACTTGATAGAAAGGCCC
Found at i:95813185 original size:46 final size:46
Alignment explanation
Indices: 95813135--95813310 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
95813125 TGATTGAGCA
95813135 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95813181 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
95813226 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
95813274 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95813311 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95813291 original size:93 final size:93
Alignment explanation
Indices: 95813132--95813303 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
95813122 GGATGATTGA
*
95813132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
95813197 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95813225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
95813289 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
95813304 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95816495 original size:13 final size:13
Alignment explanation
Indices: 95816474--95816503 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95816464 CTTCGAAGGG
95816474 CACAAGGGCTAGA
1 CACAAGGGCTAGA
*
95816487 CACATGGGCTAGA
1 CACAAGGGCTAGA
95816500 CACA
1 CACA
95816504 CAGGCGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.27, T:0.10
Consensus pattern (13 bp):
CACAAGGGCTAGA
Found at i:95831363 original size:27 final size:28
Alignment explanation
Indices: 95831311--95831374 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
95831301 TCTACTGGAT
*
95831311 AGTAAACACAGGGTATTCTATCGAGA-A
1 AGTAAACACAGGGTATCCTATCGAGACA
*
95831338 AGTAAACACAGGGTAGTCCT-TTGAGACA
1 AGTAAACACAGGGTA-TCCTATCGAGACA
95831366 A-TAAACACA
1 AGTAAACACA
95831375 AGGCAGTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (28 bp):
AGTAAACACAGGGTATCCTATCGAGACA
Found at i:95832016 original size:22 final size:22
Alignment explanation
Indices: 95831976--95832017 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95831966 AGAACTCCAA
*
95831976 GGTAGTGATTATCTTGGGTAAT
1 GGTAGTGATTATCTAGGGTAAT
* *
95831998 GGTAGTGGTTTTCTAGGGTA
1 GGTAGTGATTATCTAGGGTA
95832018 GTTGCCAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.05, G:0.36, T:0.40
Consensus pattern (22 bp):
GGTAGTGATTATCTAGGGTAAT
Found at i:95835565 original size:42 final size:42
Alignment explanation
Indices: 95835453--95835606 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
95835443 TACCATACCA
*
95835453 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATATCG
* * * *
95835495 ATGCCAATAGCCCAGTTATGGTATTACATGAAGTCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * **
95835538 ATTCCATATCCTAGATATGGTCTTACATGAAGTCTCATATAA
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
95835580 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
95835607 CATAGTCTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:95843851 original size:51 final size:50
Alignment explanation
Indices: 95843722--95843856 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 50
95843712 GAAGCTATCT
* * *
95843722 GGTACGCATAGTAGCCTGCACTCAGTACTACACACGTGACCTCACCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
** * * * * * ***
95843772 AATACCCGTAGTAGCCTACACGTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA-CCATCG
95843823 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
95843857 TGCGACCTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
50 35 0.54
51 30 0.46
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
Found at i:95848542 original size:20 final size:20
Alignment explanation
Indices: 95848508--95848555 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
95848498 GTGTTTGTAT
*
95848508 GGATGAATTACTG-TTATTAC
1 GGATGAACTACTGTTTA-TAC
* *
95848528 TGATGAACTATTGTTTATAC
1 GGATGAACTACTGTTTATAC
95848548 GGATGAAC
1 GGATGAAC
95848556 CACAGGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
GGATGAACTACTGTTTATAC
Found at i:95858274 original size:19 final size:19
Alignment explanation
Indices: 95858250--95858290 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
95858240 ACTTAGGCCA
*
95858250 TATTATGACCATGTACCAT
1 TATTATAACCATGTACCAT
95858269 TATTATAACCATGTACCAT
1 TATTATAACCATGTACCAT
95858288 TAT
1 TAT
95858291 ATGCTATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (19 bp):
TATTATAACCATGTACCAT
Found at i:95861031 original size:31 final size:31
Alignment explanation
Indices: 95860996--95861064 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
95860986 CGATGGCCAA
*
95860996 CCACCCTGAGTTGCACGGCAGTGATGA-CTCG
1 CCACCCCGAGTTGCACGGCAGTGATGATCT-G
* *
95861027 CCACCCCGGGTTGCACGGTAGTGATGATCTG
1 CCACCCCGAGTTGCACGGCAGTGATGATCTG
95861058 CCACCCC
1 CCACCCC
95861065 AGGTTGCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (31 bp):
CCACCCCGAGTTGCACGGCAGTGATGATCTG
Found at i:95861070 original size:31 final size:31
Alignment explanation
Indices: 95861005--95861071 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
95860995 ACCACCCTGA
*
95861005 GTTGCACGGCAGTGATGACTCGCCACCCCGG
1 GTTGCACGGCAGTGATGACTCGCCACCCCAG
*
95861036 GTTGCACGGTAGTGATGA-TCTGCCACCCCAG
1 GTTGCACGGCAGTGATGACTC-GCCACCCCAG
95861067 GTTGC
1 GTTGC
95861072 TTGGCAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.21
Consensus pattern (31 bp):
GTTGCACGGCAGTGATGACTCGCCACCCCAG
Found at i:95862632 original size:35 final size:36
Alignment explanation
Indices: 95862584--95862685 Score: 115
Period size: 35 Copynumber: 2.9 Consensus size: 36
95862574 GTTCTGGAAG
95862584 TTATTTTAAATAATTTTTAAT-AAATTTAAAAAATA
1 TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
** *
95862619 TTATTTTTTATAATTTTTAATAAAATTTAAATAATA
1 TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
* *
95862655 TT-TTAT-AAT-ATTTTT-ATAATTATTTAAAAAA
1 TTATTTTAAATAATTTTTAATAA-AATTTAAAAAA
95862686 CATGTCTAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 4 0.07
33 15 0.26
34 2 0.03
35 22 0.38
36 15 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
Found at i:95862662 original size:21 final size:21
Alignment explanation
Indices: 95862628--95862685 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
95862618 ATTATTTTTT
95862628 ATAATTTTTAATAAAATTTAA
1 ATAATTTTTAATAAAATTTAA
* **
95862649 ATAATATTTT-ATAATATTTTT
1 ATAAT-TTTTAATAAAATTTAA
95862670 ATAATTATTTAA-AAAA
1 ATAATT-TTTAATAAAA
95862686 CATGTCTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTTTAATAAAATTTAA
Found at i:95862678 original size:12 final size:11
Alignment explanation
Indices: 95862623--95862679 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
95862613 AAAATATTAT
95862623 TTTTTATAAT-
1 TTTTTATAATA
* *
95862633 TTTTAATAAAA
1 TTTTTATAATA
**
95862644 TTTAAATAATA
1 TTTTTATAATA
95862655 -TTTTATAATA
1 TTTTTATAATA
95862665 TTTTTATAATTA
1 TTTTTATAA-TA
95862677 TTT
1 TTT
95862680 AAAAAACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 16 0.42
11 17 0.45
12 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:95864256 original size:25 final size:26
Alignment explanation
Indices: 95864227--95864279 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
95864217 TTGAAAATAG
95864227 AAATAATT-TATCTATCCAATATAAA
1 AAATAATTATATCTATCCAATATAAA
*
95864252 AAATAATTATATTTATCCAATATAAA
1 AAATAATTATATCTATCCAATATAAA
95864278 AA
1 AA
95864280 TAAATCGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATAATTATATCTATCCAATATAAA
Found at i:95864278 original size:24 final size:24
Alignment explanation
Indices: 95864227--95864282 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
95864217 TTGAAAATAG
95864227 AAATAATTTATCTATCCAATATAAA
1 AAATAATTTATCTATCCAATAT-AA
*
95864252 AAATAATTATATTTATCCAATATAA
1 AAATAATT-TATCTATCCAATATAA
95864277 AAATAA
1 AAATAA
95864283 ATCGATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAATTTATCTATCCAATATAA
Found at i:95864350 original size:31 final size:31
Alignment explanation
Indices: 95864315--95864375 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
95864305 ATGTGTATGA
* *
95864315 TTGAATCAAAATTAAAATATCATGTATATAT
1 TTGAATCAAAATCAAAATATCATATATATAT
* *
95864346 TTGAATCACAATCAAAATTTCATATATATA
1 TTGAATCAAAATCAAAATATCATATATATA
95864376 ATTACACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (31 bp):
TTGAATCAAAATCAAAATATCATATATATAT
Found at i:95864738 original size:28 final size:28
Alignment explanation
Indices: 95864683--95864746 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
95864673 TGTCATTTGA
95864683 TATATTTTATTTTTAAGTCATTACTATT
1 TATATTTTATTTTTAAGTCATTACTATT
* *
95864711 TA-ATTTTACTTTTTAGGTTTATTA-TATT
1 TATATTTTA-TTTTTAAG-TCATTACTATT
95864739 TATATTTT
1 TATATTTT
95864747 TAATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 15 0.48
29 10 0.32
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (28 bp):
TATATTTTATTTTTAAGTCATTACTATT
Found at i:95866532 original size:22 final size:21
Alignment explanation
Indices: 95866507--95866552 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95866497 ATGCAGATGA
*
95866507 AAACTTTCAGTAATTTGTAGAT
1 AAACTATCAGT-ATTTGTAGAT
* *
95866529 AAACTATCAGTGTTTGTAGTT
1 AAACTATCAGTATTTGTAGAT
95866550 AAA
1 AAA
95866553 ACTGCCAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (21 bp):
AAACTATCAGTATTTGTAGAT
Found at i:95866554 original size:22 final size:23
Alignment explanation
Indices: 95866501--95866555 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
95866491 ATGGTTATGC
*
95866501 AGATGAAAACTTTCAGTAATTTGT
1 AGAT-AAAACTATCAGTAATTTGT
*
95866525 AGAT-AAACTATCAGT-GTTTGT
1 AGATAAAACTATCAGTAATTTGT
*
95866546 AGTTAAAACT
1 AGATAAAACT
95866556 GCCAGTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
24 4 0.15
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (23 bp):
AGATAAAACTATCAGTAATTTGT
Found at i:95866998 original size:20 final size:20
Alignment explanation
Indices: 95866961--95866999 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95866951 TATCAAATAA
95866961 TCATATCATTACAATAAATG
1 TCATATCATTACAATAAATG
*
95866981 TCAT-TCATTCACATTAAAT
1 TCATATCATT-ACAATAAAT
95867000 AAGAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (20 bp):
TCATATCATTACAATAAATG
Found at i:95869918 original size:49 final size:50
Alignment explanation
Indices: 95869865--95870096 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 50
95869855 CTGGTACGCA
*
95869865 TAGTAGCCTGCACTTAGTACTACACATGCGA-CAAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAAATTATCCGGTACACG
* * * ** * *
95869914 TAGTAGCCTGCACTTTGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAAATTATCCGGTACACG
* * * * * *
95869964 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAAATTATCCGGTACACG
* *
95870015 TAGTAGCCTGCACTTAGCACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAAATTATCCGGTACACG
*
95870064 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
95870097 TCAGAATAGA
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 71 0.47
50 43 0.28
51 38 0.25
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAAATTATCCGGTACACG
Found at i:95870093 original size:100 final size:99
Alignment explanation
Indices: 95869865--95870095 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 99
95869855 CTGGTACGCA
* * *
95869865 TAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACTTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACGTAGTAGCCTGCACTTA
* * *
95869930 GTACTACACACGTGACCTAACCATCTGATACACG
66 GCACTACACACGCGACCTAACCATCCGATACACG
* * * *
95869964 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-AAATTATCCGGTACACGTAGTAGCCTGCACT
* ** *
95870029 TAGCACTACACATGCGACC-AATTATCCGGTACACG
64 TAGCACTACACACGCGACCTAACCATCCGATACACG
95870064 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
95870096 CTCAGAATAG
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 29 0.25
100 43 0.37
101 43 0.37
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACGTAGTAGCCTGCACTTA
GCACTACACACGCGACCTAACCATCCGATACACG
Found at i:95870373 original size:27 final size:27
Alignment explanation
Indices: 95870343--95870396 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
95870333 TCATACAACC
* *
95870343 CATGCAATAGTAATTTAACATTCAATT
1 CATGCAACAATAATTTAACATTCAATT
* **
95870370 CATGTAACAATAATTTGCCATTCAATT
1 CATGCAACAATAATTTAACATTCAATT
95870397 TCACATGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (27 bp):
CATGCAACAATAATTTAACATTCAATT
Found at i:95871663 original size:42 final size:42
Alignment explanation
Indices: 95871550--95871669 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
95871540 TGTTACACAT
* * * * * *
95871550 ATACAATGCCAACGTCTCAGACGTGGTTTTACATGTAATCAA
1 ATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATCAA
* * ** * * *
95871592 ACATCGATGCCACTACCCCAAACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCTCAGACATGGTCTTACACGAAATCAA
95871635 ATACGATGCCAATGTCTCAGACATGGTCTTACACG
1 ATACGATGCCAATGTCTCAGACATGGTCTTACACG
95871670 CAAAACAGAT
Statistics
Matches: 57, Mismatches: 20, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
42 28 0.49
43 29 0.51
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATCAA
Found at i:95879177 original size:42 final size:42
Alignment explanation
Indices: 95879064--95879178 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
95879054 CAGAAAGCAT
* * ** *
95879064 ATACAATGCCAATGTCCCAGACGTGGTCTTACTTGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * * * * * *
95879106 ACATCGATGCCACTATCCTAGATAGGGTCTTACACGAAATCAG
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
95879149 ATACGATGCCAATGTCCCAGACATGGTCTT
1 ATACGATGCCAATGTCCCAGACATGGTCTT
95879179 TCATGCAAAA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:95879420 original size:31 final size:31
Alignment explanation
Indices: 95879382--95879444 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
95879372 TGTATATCGA
95879382 CTTACCTCGTAGGGATTCAGATAGATGAAAT
1 CTTACCTCGTAGGGATTCAGATAGATGAAAT
*
95879413 CTTACCTCGTAGGGATTCAGATATATGAAAT
1 CTTACCTCGTAGGGATTCAGATAGATGAAAT
95879444 C
1 C
95879445 GGTTACTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (31 bp):
CTTACCTCGTAGGGATTCAGATAGATGAAAT
Found at i:95880387 original size:29 final size:28
Alignment explanation
Indices: 95880329--95880389 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
95880319 GTGATCATGA
* *
95880329 ATATAAGGTGATTTGGGCCTAACGGACC
1 ATATAAGGTGATTTGAGCCTAAAGGACC
95880357 ATATAAAGGTGATTTGAGCCTAATAGG-CC
1 ATAT-AAGGTGATTTGAGCCTAA-AGGACC
95880386 ATAT
1 ATAT
95880390 GAATATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 23 0.79
30 2 0.07
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (28 bp):
ATATAAGGTGATTTGAGCCTAAAGGACC
Found at i:95880452 original size:29 final size:29
Alignment explanation
Indices: 95880336--95880452 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
95880326 TGAATATAAG
* * * * *
95880336 GTGATTTGGGCCTAACGGACCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * *
95880365 GTGATTTGAGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
95880394 ATGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
95880423 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
95880452 G
1 G
95880453 AGATGGGCCA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:95880468 original size:27 final size:29
Alignment explanation
Indices: 95880382--95880475 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 29
95880372 GAGCCTAATA
*
95880382 GGCCATATGAAT-ATGAATTGGGCCTGATG
1 GGCCATATGAATGA-GAATTGGGCCAGATG
* *
95880411 GGCCATATGAATGTGAATTGGGCCTGATG
1 GGCCATATGAATGAGAATTGGGCCAGATG
95880440 GGCCATATGAATGAG-A-TGGGCCA-AGTG
1 GGCCATATGAATGAGAATTGGGCCAGA-TG
*
95880467 GGACATATG
1 GGCCATATG
95880476 CATGTATGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
26 1 0.02
27 16 0.27
28 1 0.02
29 41 0.69
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (29 bp):
GGCCATATGAATGAGAATTGGGCCAGATG
Found at i:95882571 original size:259 final size:259
Alignment explanation
Indices: 95882112--95882629 Score: 1027
Period size: 259 Copynumber: 2.0 Consensus size: 259
95882102 CAGTGTGGCC
95882112 CATAGGCCCAGTTCAGTAACTTAGGTAACAATAGAAGTAATGCATGCAAACCCATCTGGGGAGAC
1 CATAGGCCCAGTTCAGTAACTTAGGTAACAATAGAAGTAATGCATGCAAACCCATCTGGGGAGAC
95882177 TACTCAACCCACCAACCGCTACACTGCCCCCGTACCAGCCCTACACTCCATGTGGGGAATATCTC
66 TACTCAACCCACCAACCGCTACACTGCCCCCGTACCAGCCCTACACTCCATGTGGGGAATATCTC
95882242 AACCCACCCAGCCCTACACTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAA
131 AACCCACCCAGCCCTACACTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAA
95882307 AGCCTCCAGTACATGGATGAATCACTTTCAATATTTCCTCCATCAATACCCCAATCCCATGCAA
196 AGCCTCCAGTACATGGATGAATCACTTTCAATATTTCCTCCATCAATACCCCAATCCCATGCAA
95882371 CATAGGCCCAGTTCAGTAACTTAGGTAACAATAGAAGTAATGCATGCAAACCCATCTGGGGAGAC
1 CATAGGCCCAGTTCAGTAACTTAGGTAACAATAGAAGTAATGCATGCAAACCCATCTGGGGAGAC
95882436 TACTCAACCCACCAACCGCTACACTGCCCCCGTACCAGCCCTACACTCCATGTGGGGAATATCTC
66 TACTCAACCCACCAACCGCTACACTGCCCCCGTACCAGCCCTACACTCCATGTGGGGAATATCTC
95882501 AACCCACCCAGCCCTACACTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAA
131 AACCCACCCAGCCCTACACTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAA
*
95882566 AGCCTCCAGTACATGGATGAATCACTTTCAATATTTCCTCCATCAATACCCTAATCCCATGCAA
196 AGCCTCCAGTACATGGATGAATCACTTTCAATATTTCCTCCATCAATACCCCAATCCCATGCAA
95882630 GAGATATTAA
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 258 1.00
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.21
Consensus pattern (259 bp):
CATAGGCCCAGTTCAGTAACTTAGGTAACAATAGAAGTAATGCATGCAAACCCATCTGGGGAGAC
TACTCAACCCACCAACCGCTACACTGCCCCCGTACCAGCCCTACACTCCATGTGGGGAATATCTC
AACCCACCCAGCCCTACACTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAA
AGCCTCCAGTACATGGATGAATCACTTTCAATATTTCCTCCATCAATACCCCAATCCCATGCAA
Found at i:95890352 original size:53 final size:53
Alignment explanation
Indices: 95890272--95890377 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
95890262 TTAGCCCCTT
*
95890272 TTTACATAACAGTGTGGCCCATAGGCCCAATTTAGTAACATAGGTAACAATAG
1 TTTACATAACAGTGTGGCCCATAGGCCCAATTCAGTAACATAGGTAACAATAG
* *
95890325 TTTACATAACAGTGTGGCCCATAGGCCCAGTTCAGTAACTTAGGTAACAATAG
1 TTTACATAACAGTGTGGCCCATAGGCCCAATTCAGTAACATAGGTAACAATAG
95890378 AAGTAATGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (53 bp):
TTTACATAACAGTGTGGCCCATAGGCCCAATTCAGTAACATAGGTAACAATAG
Found at i:95894546 original size:2 final size:2
Alignment explanation
Indices: 95894539--95894568 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
95894529 CATTCCGAAG
*
95894539 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95894569 CATAAGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:95895103 original size:27 final size:28
Alignment explanation
Indices: 95895019--95895116 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
95895009 CATGAGATTG
* * * *
95895019 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
95895048 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
95895076 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
95895103 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
95895117 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:95895127 original size:27 final size:27
Alignment explanation
Indices: 95895047--95895129 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
95895037 TAAATTGTAC
* *
95895047 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
95895075 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
95895102 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
95895129 A
1 A
95895130 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:95910548 original size:29 final size:29
Alignment explanation
Indices: 95910508--95910666 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 29
95910498 CTGTAACCGA
*
95910508 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTATTGAG
* ** *** *
95910537 GCACTGTGTGTGCGAGTTC-CATAACCAA
1 GCACTGTGTGTGCGAGATCGGTTATTGAG
95910565 GCACTGTGTGTGCGAGATCGGTTATTGAG
1 GCACTGTGTGTGCGAGATCGGTTATTGAG
* * * **
95910594 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTATTGAG
* *
95910622 GCACTGTGTGTGTGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTATTGAG
95910651 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
95910667 TTCCGTAACC
Statistics
Matches: 100, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 41 0.41
29 59 0.59
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTATTGAG
Found at i:95910555 original size:57 final size:57
Alignment explanation
Indices: 95910484--95910721 Score: 352
Period size: 57 Copynumber: 4.1 Consensus size: 57
95910474 ATAGGCACTG
* * *
95910484 TGTGTGTGTGAGTTCTGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCAC
* *
95910541 TGTGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCGAGATCGGTTATTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCAC
* *
95910598 TGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGTGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCAC
** *
95910655 TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGTAAGATCGATTGTT-AGGGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTGA-GGCAC
95910712 TAAGTGTGTG
1 T--GTGTGTG
95910722 AAATGAGATC
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
56 1 0.01
57 158 0.95
59 7 0.04
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.30
Consensus pattern (57 bp):
TGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCAC
Found at i:95910577 original size:28 final size:28
Alignment explanation
Indices: 95910484--95910690 Score: 153
Period size: 28 Copynumber: 7.3 Consensus size: 28
95910474 ATAGGCACTG
* * *
95910484 TGTGTGTGTGAGTTCTGTAACCGAGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCAC
* * **** *
95910512 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCG-TAACCAAGCAC
*
95910541 TGTGTGTGCGAGTTCCATAACCAAGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCAC
* * *** *
95910569 TGTGTGTGCGAGATCGGTTATTGAGGCAC
1 TGTGTGTGCGAGTTCCG-TAACCAAGCAC
*
95910598 TGTGTGTGCGAGTTCCGTAACCGAGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCAC
* * * **** *
95910626 TGTGTGTGTGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCG-TAACCAAGCAC
95910655 TGTGTGTGCGAGTTCCGTAACCAAGCAC
1 TGTGTGTGCGAGTTCCGTAACCAAGCAC
95910683 TGTGTGTG
1 TGTGTGTG
95910691 TAAGATCGAT
Statistics
Matches: 128, Mismatches: 48, Indels: 6
0.70 0.26 0.03
Matches are distributed among these distances:
28 68 0.53
29 60 0.47
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (28 bp):
TGTGTGTGCGAGTTCCGTAACCAAGCAC
Found at i:95914368 original size:28 final size:28
Alignment explanation
Indices: 95914307--95914368 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
95914297 TCAATGTACG
*
95914307 AAATATTAAGAATGTCACTTAGTGTGCG
1 AAATATTAAGAATGTCACTTAGTGTGCA
* *
95914335 AGATATTGAGAATGTCACTTAGTGTGCA
1 AAATATTAAGAATGTCACTTAGTGTGCA
95914363 AAATAT
1 AAATAT
95914369 CGAATGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (28 bp):
AAATATTAAGAATGTCACTTAGTGTGCA
Found at i:95919150 original size:14 final size:14
Alignment explanation
Indices: 95919131--95919158 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95919121 GGATGTATGA
95919131 ATCAAATGATGTAT
1 ATCAAATGATGTAT
95919145 ATCAAATGATGTAT
1 ATCAAATGATGTAT
95919159 TTTCATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ATCAAATGATGTAT
Found at i:95923203 original size:37 final size:37
Alignment explanation
Indices: 95923153--95923231 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
95923143 TTATTACGAA
* * *
95923153 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
95923190 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
95923227 GTCTT
1 GTCTT
95923232 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:95923743 original size:24 final size:23
Alignment explanation
Indices: 95923695--95923752 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
95923685 TAATCAAACA
95923695 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
95923719 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
95923743 TTATT-TTATA
1 TTATTATTATA
95923753 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:95925217 original size:40 final size:40
Alignment explanation
Indices: 95925157--95925233 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
95925147 CGAATACACG
* *
95925157 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATA
* *
95925197 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGAT
95925234 TTAGTAACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (40 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATA
Found at i:95925258 original size:40 final size:40
Alignment explanation
Indices: 95925174--95925312 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
95925164 CATGATTGCT
* * * *
95925174 CTTCGGGATTTAGCACGGATATA-TCAC-TAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* *
95925213 TCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * * *
95925254 CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAATGC
95925294 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
95925313 CATCATTCGA
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
39 3 0.04
40 57 0.72
41 19 0.24
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAATGC
Found at i:95925657 original size:29 final size:29
Alignment explanation
Indices: 95925618--95925696 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
95925608 CTTAATAATC
*
95925618 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
95925648 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
95925677 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
95925697 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:95945027 original size:29 final size:29
Alignment explanation
Indices: 95944994--95945057 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
95944984 TAATCCACCA
95944994 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
95945023 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
95945053 CCCAA
1 CCCAA
95945058 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:95945031 original size:30 final size:30
Alignment explanation
Indices: 95945001--95945057 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95944991 CCACCCAACT
95945001 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
95945030 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
95945058 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:95950580 original size:29 final size:29
Alignment explanation
Indices: 95950534--95950646 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
95950524 ATGTATGTGC
*
95950534 ATGTGATTTGGGCTTAATGGGCCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATATGA
*
95950563 ATGTGATTTGGGCCTAATGGGCCATACGA
1 ATGTGATTTGGGCCTAATGGGCCATATGA
*
95950592 ATATGATTTGGGCCTAATGGGCCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATATGA
* * *
95950621 ATGAGA-TTGGGCCTAGTGGGCTATAT
1 ATGTGATTTGGGCCTAATGGGCCATAT
95950647 CCATGTATGT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 18 0.24
29 58 0.76
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATATGA
Found at i:95953222 original size:40 final size:40
Alignment explanation
Indices: 95953149--95953274 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 40
95953139 AACCCAAGTA
* *
95953149 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
95953188 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
95953228 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
95953268 CCTTCGG
1 CCTTCGG
95953275 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.16
40 66 0.84
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95957216 original size:56 final size:53
Alignment explanation
Indices: 95957093--95957199 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 53
95957083 CATGACATAG
* *
95957093 CACGCCTCTCAACAGGGCTATATATGAGCATTCGGACCTAGCATGCATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGC-TTCGGACCTAGCATGCACCACATTAC
* *
95957149 CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCGTGTACCACAT
1 CACGCCTCTCAACAGGGCTACATAAGCT-TCGGACCTAGCATGCACCACAT
95957200 AATTACATGC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 22 0.48
56 23 0.50
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (53 bp):
CACGCCTCTCAACAGGGCTACATAAGCTTCGGACCTAGCATGCACCACATTAC
Found at i:95958949 original size:50 final size:49
Alignment explanation
Indices: 95958704--95959018 Score: 160
Period size: 46 Copynumber: 6.7 Consensus size: 49
95958694 TTTATGTGCT
* * *
95958704 AGTGTAAGA-CATGTGTGGGACAT-GCATCGGC-CATATTAT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-T-TGATGGATGAGTC
* * *
95958750 AATGTAAAACCATGTCTGGGACATGGCATTGGCA-TTGA-GACGA-GAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATG--GATGAGTC
* * * * *
95958797 TAGTGTAAGA-CATGTCTTGGAAAT-GCATCGAC-CTCGA-GG-TGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGGATG--AGTC
* * ** *
95958844 AGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCTAC---A-AAATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTTGATGGATGAGTC
* *
95958888 AATGTAAGACCATGTCTAGGACATGGCATCGGCACTAAT-ATGTGA-GAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT--TGATG-GATGAGTC
* **
95958938 AGTGTAAGACCATATCTGGGACATGGCAT--TAACTTGATGGATGA-T-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGGATGAGTC
95958983 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
95959019 CTACCCTGTG
Statistics
Matches: 206, Mismatches: 36, Indels: 53
0.70 0.12 0.18
Matches are distributed among these distances:
44 12 0.06
45 43 0.21
46 60 0.29
47 36 0.17
48 23 0.11
49 1 0.00
50 30 0.15
51 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGGATGAGTC
Found at i:95961966 original size:8 final size:8
Alignment explanation
Indices: 95961923--95961965 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
95961913 GTGTAATAGC
*
95961923 AAAAGCCA
1 AAAAGCCG
95961931 AAAAGCCG
1 AAAAGCCG
*
95961939 AAAAGTCG
1 AAAAGCCG
*
95961947 AAAAGTCG
1 AAAAGCCG
95961955 AAAAGCC-
1 AAAAGCCG
95961962 AAAA
1 AAAA
95961966 ATTGGGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.58, C:0.19, G:0.19, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:95961966 original size:16 final size:16
Alignment explanation
Indices: 95961923--95961966 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
95961913 GTGTAATAGC
95961923 AAAAGCCAAAAAGCCG
1 AAAAGCCAAAAAGCCG
* * *
95961939 AAAAGTCGAAAAGTCG
1 AAAAGCCAAAAAGCCG
95961955 AAAAGCCAAAAA
1 AAAAGCCAAAAA
95961967 TTGGGATGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.18, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAGCCAAAAAGCCG
Found at i:95968437 original size:43 final size:43
Alignment explanation
Indices: 95968281--95968438 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
95968271 ATGTGTTATT
* * * * *
95968281 GTGTAAGACTACATCTGGGATGTTGGCATTGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTAC
* * *
95968325 GTGTAAGGCCATGTCTGGGACGTTGGCATC-ATATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
* * **
95968367 ATGTAGGACC-CTGTCTGGGACAATGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATTAC
*
95968410 GTGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
95968439 TAAACAAGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 25 0.28
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:95972108 original size:39 final size:39
Alignment explanation
Indices: 95972056--95972183 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
95972046 TATGAGATTG
95972056 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
95972095 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * * *
95972134 AATATATCTGGACTTGAGGTCCGCAGCCTACATGATGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
95972173 AAAATATCCGG
1 AAAATATCCGG
95972184 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:95972197 original size:78 final size:77
Alignment explanation
Indices: 95972055--95972201 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 77
95972045 GTATGAGATT
* * * * *
95972055 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGCCTACATGATGGAAAAATATCCGGACATAAGACCCGCA
95972120 GGCTATATGCTA
66 GGCTATATGCTA
* * **
95972132 GAAATATATCTGGACTTGAGGTCCGCAGCCTACATGATGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGCCTACATGATGGAAAAATATCCGGACAT-AAGACCCG
95972196 CAGGCT
64 CAGGCT
95972202 TACGTTAGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 5 0.08
78 54 0.92
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (77 bp):
GAAAATATCCGGACATGAGGTCCGCAGCCTACATGATGGAAAAATATCCGGACATAAGACCCGCA
GGCTATATGCTA
Found at i:95976107 original size:316 final size:316
Alignment explanation
Indices: 95975534--95976165 Score: 1237
Period size: 316 Copynumber: 2.0 Consensus size: 316
95975524 TCTATTCGCA
* *
95975534 AGATGAAACCGAACATGCCGAGCATTTGAGATTAGTGTTGCAGATTTTACGGGATAAACAGTTAT
1 AGATGAAACCGAACATGCCAAGCACTTGAGATTAGTGTTGCAGATTTTACGGGATAAACAGTTAT
*
95975599 ATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGAAGTTAGCTTTTTGGGGCATGTGGTATTC
66 ATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGAAGTCAGCTTTTTGGGGCATGTGGTATTC
95975664 GCATCGGGTATTCGTGTTGATCTGAATAAAATATCAACCATACTTGATTGGAAGCCTCCGCGAAA
131 GCATCGGGTATTCGTGTTGATCTGAATAAAATATCAACCATACTTGATTGGAAGCCTCCGCGAAA
95975729 TATTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACAGACGATTTGTAAAGGGTTTCT
196 TATTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACAGACGATTTGTAAAGGGTTTCT
95975794 CGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAATGG
261 CGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAATGG
95975850 AGATGAAACCGAACATGCCAAGCACTTGAGATTAGTGTTGCAGATTTTACGGGATAAACAGTTAT
1 AGATGAAACCGAACATGCCAAGCACTTGAGATTAGTGTTGCAGATTTTACGGGATAAACAGTTAT
95975915 ATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGAAGTCAGCTTTTTGGGGCATGTGGTATTC
66 ATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGAAGTCAGCTTTTTGGGGCATGTGGTATTC
95975980 GCATCGGGTATTCGTGTTGATCTGAATAAAATATCAACCATACTTGATTGGAAGCCTCCGCGAAA
131 GCATCGGGTATTCGTGTTGATCTGAATAAAATATCAACCATACTTGATTGGAAGCCTCCGCGAAA
95976045 TATTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACAGACGATTTGTAAAGGGTTTCT
196 TATTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACAGACGATTTGTAAAGGGTTTCT
95976110 CGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAATGG
261 CGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAATGG
95976166 TTAGAAAAAT
Statistics
Matches: 313, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
316 313 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (316 bp):
AGATGAAACCGAACATGCCAAGCACTTGAGATTAGTGTTGCAGATTTTACGGGATAAACAGTTAT
ATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGAAGTCAGCTTTTTGGGGCATGTGGTATTC
GCATCGGGTATTCGTGTTGATCTGAATAAAATATCAACCATACTTGATTGGAAGCCTCCGCGAAA
TATTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACAGACGATTTGTAAAGGGTTTCT
CGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAATGG
Found at i:95979945 original size:39 final size:39
Alignment explanation
Indices: 95979901--95980028 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
95979891 TATGAGATTG
95979901 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
95979940 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
95979979 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
95980018 AAAATATCCGG
1 AAAATATCCGG
95980029 GTTAAAGACC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:95980042 original size:78 final size:76
Alignment explanation
Indices: 95979900--95980054 Score: 204
Period size: 78 Copynumber: 2.0 Consensus size: 76
95979890 GTATGAGATT
* * *
95979900 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
95979965 GGCTATATGCTA
66 GGCT-TACGCTA
* * **
95979977 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
95980041 CAGGCTTACGCTA
64 CAGGCTTACGCTA
95980054 G
1 G
95980055 TAATGTATTC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 12 0.18
78 56 0.82
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:95983473 original size:31 final size:31
Alignment explanation
Indices: 95983412--95983488 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
95983402 TCCTGAGCTA
* *
95983412 CTCGACAACGATGACCGGCCACCCTAGGTTG
1 CTCGACAACGATGACCCGCCACCCCAGGTTG
* *
95983443 CTCGACAGCGATGACCCGCCACCCCGGGTTG
1 CTCGACAACGATGACCCGCCACCCCAGGTTG
* *
95983474 CCCGGCAACGATGAC
1 CTCGACAACGATGAC
95983489 TTATTATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.39, G:0.27, T:0.13
Consensus pattern (31 bp):
CTCGACAACGATGACCCGCCACCCCAGGTTG
Found at i:95983916 original size:17 final size:17
Alignment explanation
Indices: 95983894--95983927 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
95983884 CATGCATATA
95983894 TAATGTA-ATCATTCTTT
1 TAATGTATA-CATTCTTT
95983911 TAATGTATACATTCTTT
1 TAATGTATACATTCTTT
95983928 CAATCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TAATGTATACATTCTTT
Found at i:95994831 original size:79 final size:82
Alignment explanation
Indices: 95994720--95994904 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
95994710 GCTACTCGTT
* * *
95994720 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
95994783 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
95994800 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
95994863 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
95994880 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95994905 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:95994904 original size:40 final size:40
Alignment explanation
Indices: 95994701--95994904 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
95994691 CGGAATTTAA
** *
95994701 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
95994741 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
95994781 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
95994820 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
95994860 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
95994900 CCGGA
1 CCGGA
95994905 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:96002299 original size:42 final size:42
Alignment explanation
Indices: 96002164--96002305 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 42
96002154 ATTAAGATGC
** *
96002164 CAATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACAT
1 CAATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATAT
** ** * * * *
96002206 TGATGCCATAG-CCCAGATATGGTCTTATACGAAAATCTTATTT
1 CAATGCCAT-GTCCCAGACGTGGTCTTACATG-AAATCTCATAT
96002249 CAATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATAT
1 CAATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATAT
* *
96002291 CAACGCCATATCCCA
1 CAATGCCATGTCCCA
96002306 AATATGGTCT
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
42 46 0.61
43 30 0.39
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATAT
Found at i:96028407 original size:21 final size:21
Alignment explanation
Indices: 96028383--96028459 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
96028373 AAAAAAAGGC
*
96028383 ACACGCCGGTGTGGAAGGACA
1 ACACGCCCGTGTGGAAGGACA
96028404 ACACGCCCGTGTGGAAGGACA
1 ACACGCCCGTGTGGAAGGACA
96028425 ACACGCCCGTGTGGAAGGACA
1 ACACGCCCGTGTGGAAGGACA
*
96028446 ACACGCCCATGTGG
1 ACACGCCCGTGTGG
96028460 CTATTATGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.34, T:0.10
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGACA
Found at i:96028647 original size:28 final size:31
Alignment explanation
Indices: 96028586--96028647 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
96028576 TTTCACACGG
*
96028586 CCTGACACACGCCCATGTCTATGGCCCGTGT
1 CCTGACACACGCCCATGACTATGGCCCGTGT
*
96028617 CCTG-CACACGGCCATGAC-AT-GCCCGTGT
1 CCTGACACACGCCCATGACTATGGCCCGTGT
96028645 CCT
1 CCT
96028648 AGCCCGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.38
29 2 0.07
30 12 0.41
31 4 0.14
ACGTcount: A:0.16, C:0.40, G:0.23, T:0.21
Consensus pattern (31 bp):
CCTGACACACGCCCATGACTATGGCCCGTGT
Found at i:96031170 original size:14 final size:14
Alignment explanation
Indices: 96031151--96031182 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
96031141 AACTAATACA
96031151 ATTTATCATTATCG
1 ATTTATCATTATCG
*
96031165 ATTTATTATTATCG
1 ATTTATCATTATCG
96031179 ATTT
1 ATTT
96031183 TATATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTATCATTATCG
Found at i:96036646 original size:59 final size:61
Alignment explanation
Indices: 96036520--96036666 Score: 176
Period size: 60 Copynumber: 2.4 Consensus size: 61
96036510 AGTTGTGTTA
* * * * * *
96036520 ATATGGGCAAGGCCCAATAGA-TCTCAACTTGTAATAGGGCTACGGCCTAGATTGATATTG
1 ATATGGGCTAGGCCCAGTATACTCTGAAATTGTAATAGGGCTACGGCCTAGATTAATATTG
* *
96036580 ATATGGGCTAGGCCCAGTATACTCTGAAATTGTAA-GGGGCTATGG-CTAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATACTCTGAAATTGTAATAGGGCTACGGCCTAGATTAATATTG
96036639 ATATGGGCTAAGGCCCAGT-TAACTCTGA
1 ATATGGGCT-AGGCCCAGTAT-ACTCTGA
96036667 TTTCTGAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
59 23 0.30
60 42 0.55
61 11 0.14
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (61 bp):
ATATGGGCTAGGCCCAGTATACTCTGAAATTGTAATAGGGCTACGGCCTAGATTAATATTG
Found at i:96045623 original size:27 final size:27
Alignment explanation
Indices: 96045585--96045639 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
96045575 TATGAGACAG
*
96045585 AATTGATATCCAAACCGAATAAAAAAA
1 AATTGATATCCAAACCAAATAAAAAAA
96045612 AATTGATATCCAAACCAAATAAAAAAA
1 AATTGATATCCAAACCAAATAAAAAAA
96045639 A
1 A
96045640 TTATTTGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (27 bp):
AATTGATATCCAAACCAAATAAAAAAA
Found at i:96048002 original size:39 final size:39
Alignment explanation
Indices: 96047955--96048131 Score: 266
Period size: 39 Copynumber: 4.5 Consensus size: 39
96047945 GTGTGAGATA
*
96047955 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
96047994 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
96048033 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * * *
96048072 TATATCCGGGCTAAGTCCTGAAGGC-TTTGTGGTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
96048110 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
96048132 TATGCTATGT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 20 0.16
39 100 0.79
40 7 0.06
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:96048056 original size:78 final size:77
Alignment explanation
Indices: 96047922--96048131 Score: 264
Period size: 78 Copynumber: 2.7 Consensus size: 77
96047912 AGGATTTTAA
* * *
96047922 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAG-ATATATATCCGGGCTAATTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGG-CTTCGTGCTG-GTAT-TATATCCGGGCTAAGTCCCGAAGGCATTC
96047984 GTGCTGGTGTTATAT
63 GTGCTGGTGTTATAT
* *
96047999 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGC-TTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
96048064 GCTGGTGTTATAT
65 GCTGGTGTTATAT
* * * *
96048077 CCGGGCTAAGTCCTGAAGGCTTTGTGGTGGTATTACATCCGGGCTTAAAGTCCCG
1 CCGGGCTAAGTCCCGAAGGCTTCGTGCTGGTATTATATCCGGGC-T-AAGTCCCG
96048132 TATGCTATGT
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
76 1 0.01
77 38 0.33
78 66 0.57
79 11 0.09
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCTTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
CTGGTGTTATAT
Found at i:96052901 original size:47 final size:47
Alignment explanation
Indices: 96052848--96053258 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
96052838 TTAGGATTCT
96052848 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96052895 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96052942 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96052989 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96053036 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96053083 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
96053130 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
96053177 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
96053224 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
96053259 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:96053433 original size:37 final size:37
Alignment explanation
Indices: 96053377--96053455 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
96053367 CCGAGCTCTA
* * *
96053377 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
96053414 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
96053451 AAGAC
1 AAGAC
96053456 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:96068675 original size:35 final size:36
Alignment explanation
Indices: 96068627--96068728 Score: 115
Period size: 35 Copynumber: 2.9 Consensus size: 36
96068617 GTTCTGGAAG
96068627 TTATTTTAAATAATTTTTAAT-AAATTTAAAAAATA
1 TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
** *
96068662 TTATTTTTTATAATTTTTAATAAAATTTAAATAATA
1 TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
* *
96068698 TT-TTAT-AAT-ATTTTT-ATAATTATTTAAAAAA
1 TTATTTTAAATAATTTTTAATAA-AATTTAAAAAA
96068729 CATGTCTAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 4 0.07
33 15 0.26
34 2 0.03
35 22 0.38
36 15 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TTATTTTAAATAATTTTTAATAAAATTTAAAAAATA
Found at i:96068705 original size:21 final size:21
Alignment explanation
Indices: 96068671--96068728 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
96068661 ATTATTTTTT
96068671 ATAATTTTTAATAAAATTTAA
1 ATAATTTTTAATAAAATTTAA
* **
96068692 ATAATATTTT-ATAATATTTTT
1 ATAAT-TTTTAATAAAATTTAA
96068713 ATAATTATTTAA-AAAA
1 ATAATT-TTTAATAAAA
96068729 CATGTCTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTTTAATAAAATTTAA
Found at i:96068721 original size:12 final size:11
Alignment explanation
Indices: 96068666--96068722 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
96068656 AAAATATTAT
96068666 TTTTTATAAT-
1 TTTTTATAATA
* *
96068676 TTTTAATAAAA
1 TTTTTATAATA
**
96068687 TTTAAATAATA
1 TTTTTATAATA
96068698 -TTTTATAATA
1 TTTTTATAATA
96068708 TTTTTATAATTA
1 TTTTTATAA-TA
96068720 TTT
1 TTT
96068723 AAAAAACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 16 0.42
11 17 0.45
12 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:96070303 original size:26 final size:25
Alignment explanation
Indices: 96070269--96070327 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
96070259 TTGAAAATAG
96070269 AAATAATTATATCTATACAATATAAA
1 AAATAATTATATCTATACAATAT-AA
* *
96070295 AAATAATTATATTTATCCAATATAA
1 AAATAATTATATCTATACAATATAA
96070320 AAATAATT
1 AAATAATT
96070328 CGATGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATAATTATATCTATACAATATAA
Found at i:96088828 original size:28 final size:28
Alignment explanation
Indices: 96088797--96088867 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
96088787 TACTTAATGC
* *
96088797 CTCGCACACTAAGTGCCATACTCGATAT
1 CTCGCACACTAAGTGCCACACTCAATAT
*
96088825 CTCGTACACTAAGTGCCACACTCAATAT
1 CTCGCACACTAAGTGCCACACTCAATAT
96088853 CTCGCACACTAAGTG
1 CTCGCACACTAAGTG
96088868 TCGTTCATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCAATAT
Found at i:96095724 original size:55 final size:55
Alignment explanation
Indices: 96095645--96095750 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
96095635 TTGGAATGGC
*
96095645 TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
1 TAATTATGATAATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
*
96095700 TAATTATGATAATATTTGGTCCTATGTATGTCAAATTACTAGGTAATCCAT
1 TAATTATGATAATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCAT
96095751 AGAAACCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (55 bp):
TAATTATGATAATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
Found at i:96103896 original size:41 final size:41
Alignment explanation
Indices: 96103839--96103988 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
96103829 TTGGGGTTTA
96103839 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
96103880 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
96103921 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
96103961 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
96103989 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:96104926 original size:55 final size:55
Alignment explanation
Indices: 96104847--96104956 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
96104837 TTGGAATGGC
96104847 TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
1 TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
96104902 TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
1 TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
96104957 ACCATGAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (55 bp):
TAATTATGATCATATTTGGTCCTATGTATGTCAAATTACTAGCTAATCCATGGAA
Found at i:96108687 original size:28 final size:28
Alignment explanation
Indices: 96108642--96108725 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
96108632 ATGTCGTTGA
*
96108642 ATACTCAATGCCTCGCACACTAAGTGCC
1 ATACTCAATACCTCGCACACTAAGTGCC
* *
96108670 ATACTCAATATCTTGCACACTAAGTGCC
1 ATACTCAATACCTCGCACACTAAGTGCC
* **
96108698 ACACTTGATACCTCGCACACTAAGTGCC
1 ATACTCAATACCTCGCACACTAAGTGCC
96108726 GTTCATAGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (28 bp):
ATACTCAATACCTCGCACACTAAGTGCC
Found at i:96108774 original size:40 final size:40
Alignment explanation
Indices: 96108730--96108817 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
96108720 AGTGCCGTTC
* *
96108730 ATAGCTGAAGCTATATCAAATCGCAC-CATAAGTACCATAT
1 ATAGCTGAAGCTATATCAAATCGCACAC-TAAGTACCACAA
* *
96108770 ATAGCTGAAGCTATATCGAATCGCACACTAAGTTCCACAA
1 ATAGCTGAAGCTATATCAAATCGCACACTAAGTACCACAA
96108810 ATAGCTGA
1 ATAGCTGA
96108818 TTTTTCGTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.24
Consensus pattern (40 bp):
ATAGCTGAAGCTATATCAAATCGCACACTAAGTACCACAA
Found at i:96111817 original size:57 final size:57
Alignment explanation
Indices: 96111719--96111828 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
96111709 AGAAATGGTG
* * *
96111719 AAAATGGAGAAATGAAAACATTTGGAAATGATTATGATTTTCTTCAAATTGAACATA
1 AAAATGGAGAAATGAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAACATA
* * *
96111776 AAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAA
1 AAAATGGAGAAATGAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAA
96111829 AATGGAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (57 bp):
AAAATGGAGAAATGAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAACATA
Found at i:96112617 original size:44 final size:44
Alignment explanation
Indices: 96112549--96112643 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 44
96112539 TGCAAGCAAG
* * * *
96112549 TATGTTTAATTATGCGAGATTATATATTAGAATTTGTGAAAATA
1 TATGTTTAATTACGCGAGACTATATATTAGAATATGCGAAAATA
* * * * *
96112593 TATGTTTAATTACGTGAGCCTATATTTTGGAATATGCGAAGATA
1 TATGTTTAATTACGCGAGACTATATATTAGAATATGCGAAAATA
96112637 TATGTTT
1 TATGTTT
96112644 GTATATACGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (44 bp):
TATGTTTAATTACGCGAGACTATATATTAGAATATGCGAAAATA
Found at i:96118126 original size:13 final size:14
Alignment explanation
Indices: 96118105--96118141 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
96118095 TCCAAGTCAG
96118105 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
96118119 AT-AAATAACTAAA
1 ATAAAATAATTAAA
96118132 ATAAAATAAT
1 ATAAAATAAT
96118142 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Done.