Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 258 of 378
Found at i:77439641 original size:38 final size:38
Alignment explanation
Indices: 77439577--77439651 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
77439567 AATCCGAGTT
*
77439577 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
77439615 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
77439652 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:77440066 original size:40 final size:40
Alignment explanation
Indices: 77439701--77440054 Score: 555
Period size: 40 Copynumber: 8.8 Consensus size: 40
77439691 CTAAAGGTCT
*
77439701 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
77439741 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
*
77439781 CTAGTGATGTATCTGGGCTAAGTCCCGAAGAGCATTCGTG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
77439821 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
*
77439861 CTAGTGATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
* *
77439901 CTAGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCATG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
* *
77439941 CTAGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
* ** ** *
77439981 CTAGTGATATATCCATGCTAAACCCCGAAGAGCATTCGGG
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
* * * *
77440021 CTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
77440055 ATCATGCTGG
Statistics
Matches: 290, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTG
Found at i:77443444 original size:22 final size:22
Alignment explanation
Indices: 77443419--77443541 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
77443409 AGATATGTAT
77443419 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
77443441 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
77443465 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
77443488 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
77443512 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
77443535 ATGTGAT
1 ATGTGAT
77443542 GGATGTGAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 23 0.32
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:77443469 original size:25 final size:25
Alignment explanation
Indices: 77443441--77443519 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
77443431 CGAATGGCCA
77443441 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
77443466 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
77443488 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
77443513 ATGTGAT
1 ATGTGAT
77443520 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:77443469 original size:47 final size:47
Alignment explanation
Indices: 77443416--77443569 Score: 290
Period size: 47 Copynumber: 3.3 Consensus size: 47
77443406 ACAAGATATG
77443416 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
77443463 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
77443510 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
77443557 TAAATGTGATAAG
1 TATATGTGATAAG
77443570 TCCCGAAGGG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:77447072 original size:40 final size:40
Alignment explanation
Indices: 77447027--77447194 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
77447017 CGGAATATAA
77447027 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
77447067 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
77447107 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
77447147 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
77447187 CCGGATAT
1 CCGGATAT
77447195 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77453817 original size:29 final size:31
Alignment explanation
Indices: 77453785--77453842 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
77453775 TGTGCATTAT
*
77453785 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
77453814 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
77453843 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:77455542 original size:47 final size:46
Alignment explanation
Indices: 77455432--77455701 Score: 185
Period size: 47 Copynumber: 5.8 Consensus size: 46
77455422 TGAGTTGTGT
* * * * * *
77455432 GCCAGTGTAAGACATGTCTTGGACATGCTTCGACCACATTA-TGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCATA-GAGAGAGTA
77455478 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAGA-GAGTA
* * * * *
77455527 -CCAGAGTAAGACATGTCTGGGACATGCATTGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGAG-TA
* * * * *
77455573 GCCAGTGTAAGACATGTTTGGGACACGTATTGGC-TA-AGAGTTGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAG-AGTA
* * * * *
77455617 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCATGCATATATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT--AGAGA-GAGTA
*
77455665 GCCAGTGTAAGACCATTTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
77455702 ATTTATCCCA
Statistics
Matches: 177, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 27 0.15
45 8 0.05
46 28 0.16
47 60 0.34
48 32 0.18
49 14 0.08
50 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGAGTA
Found at i:77457795 original size:13 final size:13
Alignment explanation
Indices: 77457770--77457804 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
77457760 CGTGTGTGAC
*
77457770 ACACGGCCGCGTT
1 ACACGGCCACGTT
*
77457783 ACATGGCCACGTT
1 ACACGGCCACGTT
77457796 ACACGGCCA
1 ACACGGCCA
77457805 TGTGTCCCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.37, G:0.26, T:0.14
Consensus pattern (13 bp):
ACACGGCCACGTT
Found at i:77460140 original size:39 final size:40
Alignment explanation
Indices: 77460040--77460221 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
77460030 TCGAATGATG
* * *
77460040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
77460080 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
77460120 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
77460158 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
77460199 -CCGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77460222 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:77460185 original size:78 final size:80
Alignment explanation
Indices: 77460040--77460221 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
77460030 TCGAATGATG
* * * *
77460040 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
77460105 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
77460120 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
77460182 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
77460199 -CCGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77460222 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:77469167 original size:46 final size:45
Alignment explanation
Indices: 77469114--77469289 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
77469104 TATTTGGGCA
*
77469114 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
77469160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
77469207 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
77469253 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77469290 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:77469269 original size:93 final size:93
Alignment explanation
Indices: 77469110--77469281 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
77469100 AGGATATTTG
* *
77469110 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77469175 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
77469203 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77469268 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
77469282 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:77471194 original size:42 final size:42
Alignment explanation
Indices: 77471137--77471299 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
77471127 TAGGGTTATG
* * *
77471137 TGTGATTTTGAGTAAGACCATATCTGGGATATGGCATTGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
77471179 TGTGATTTCGTGTAAGACCATGTCTGGGACATGCCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
77471221 TGAGACATT-GTGTAAGACCATAGCTGGGCTATCGGCATCGATA
1 TGTGA-TTTCGTGTAAGACCATATCTGGGATAT-GGCATCGATA
* * *
77471264 TGTGA-TCCATGTAAGACCATATTTGGGATATGGCAT
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCAT
77471300 TGGCATCTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 6 0.06
42 78 0.79
43 15 0.15
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:77473277 original size:27 final size:27
Alignment explanation
Indices: 77473246--77473466 Score: 160
Period size: 27 Copynumber: 8.2 Consensus size: 27
77473236 TTAGTTTACT
** * *
77473246 AAATTACTGAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
77473273 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
77473299 AAATTACCAAAATATCCCTAG-TTTGAA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* *
77473326 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
77473353 AAATTACTTAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** * **
77473380 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
77473407 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
77473434 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
77473461 AAATTA
1 AAATTA
77473467 TTGAAATACC
Statistics
Matches: 158, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
26 22 0.14
27 134 0.85
28 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:77473492 original size:27 final size:27
Alignment explanation
Indices: 77473462--77473585 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
77473452 CGATTTACAA
77473462 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
*
77473489 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* * *
77473516 AATTACTGAAATATCCCTGTAAGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
*** *
77473543 AATTACCAAAATACCCCTCTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
77473570 AATTATCGAGATACCC
1 AATTATTGAAATACCC
77473586 TCATGGGGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAG
Found at i:77473934 original size:20 final size:20
Alignment explanation
Indices: 77473894--77473934 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
77473884 TGTGTGCCGT
*
77473894 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCTTCGTACCGA
*
77473914 TATTGTGGGCTTCGTCCCGA
1 TATTGTGGGCTTCGTACCGA
77473934 T
1 T
77473935 TATAGACCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.20, G:0.29, T:0.39
Consensus pattern (20 bp):
TATTGTGGGCTTCGTACCGA
Found at i:77474197 original size:27 final size:26
Alignment explanation
Indices: 77474167--77474274 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
77474157 ATTCTGTTAA
* *
77474167 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
77474194 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
77474221 GTGGCTCTGCAACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
77474248 GTGACTCTGTCACAATATCTATTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
77474274 G
1 G
77474275 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 14 0.20
27 50 0.70
28 7 0.10
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:77474403 original size:25 final size:25
Alignment explanation
Indices: 77474375--77474458 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
77474365 GCTGAATTGG
* *
77474375 TCTGATTCTGTTACCTGATACTGAT
1 TCTGATTCTGTCACCTGATTCTGAT
*
77474400 TCTGGTTCTGTCACCTGATTCTGAT
1 TCTGATTCTGTCACCTGATTCTGAT
*
77474425 TCTGATTCTGTCACCTGATTCTCAT
1 TCTGATTCTGTCACCTGATTCTGAT
*
77474450 TTTGATTCT
1 TCTGATTCT
77474459 AGTTCTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (25 bp):
TCTGATTCTGTCACCTGATTCTGAT
Found at i:77477175 original size:40 final size:39
Alignment explanation
Indices: 77477010--77477193 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
77477000 AAATTGAATG
* * *
77477010 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
77477050 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
77477090 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
77477130 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
77477169 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
77477194 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:77477218 original size:80 final size:81
Alignment explanation
Indices: 77477050--77477238 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
77477040 GCTGGAAATT
* * * *
77477050 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
77477115 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
77477131 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
77477194 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
77477210 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
77477239 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:77485269 original size:40 final size:39
Alignment explanation
Indices: 77485104--77485287 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
77485094 AAATTGAATG
* * *
77485104 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
77485144 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
77485184 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
77485224 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
77485263 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
77485288 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:77485312 original size:80 final size:81
Alignment explanation
Indices: 77485144--77485332 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
77485134 GCTGGAAATT
* * * *
77485144 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
77485209 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
77485225 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
77485288 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
77485304 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
77485333 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:77487803 original size:27 final size:27
Alignment explanation
Indices: 77487772--77487992 Score: 180
Period size: 27 Copynumber: 8.2 Consensus size: 27
77487762 TTAGTTTACT
** * *
77487772 AAATTACTGAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
77487799 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
77487825 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
*
77487852 AAATTACCAAAATACCC-CTGATTTTTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
77487879 AAATTA-CTGAATGACCCTCGACCTGTA
1 AAATTACCAAAAT-ACCCTCGATTTGTA
* * *
77487906 AAATTACTAAAATACCCCCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
77487933 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
77487960 GAATTACCATTTTACCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGATTTGTA
77487987 AAATTA
1 AAATTA
77487993 TTGAAATACC
Statistics
Matches: 158, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
26 27 0.17
27 126 0.80
28 5 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:77488018 original size:27 final size:27
Alignment explanation
Indices: 77487988--77488068 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
77487978 CGATTTAAAA
77487988 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
77488015 AATTATTGAAATACCACTGTAGGATAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
77488042 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
77488069 TGTAATAGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAG
Found at i:77489758 original size:64 final size:64
Alignment explanation
Indices: 77489677--77489860 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
77489667 AGACATTATG
* *
77489677 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
77489741 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77489806 AA
63 AA
* * * *
77489808 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
77489861 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:77496514 original size:26 final size:27
Alignment explanation
Indices: 77496459--77496524 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
77496449 GGGTGTTACA
77496459 GGTAGAATTACCAAAATACCCCTGTAG
1 GGTAGAATTACCAAAATACCCCTGTAG
*
77496486 GGTAGAATTACCAAGATA-CCCTCGT-G
1 GGTAGAATTACCAAAATACCCCT-GTAG
*
77496512 GGTAAAATTACCA
1 GGTAGAATTACCA
77496525 TTTTGCCCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
GGTAGAATTACCAAAATACCCCTGTAG
Found at i:77496904 original size:22 final size:22
Alignment explanation
Indices: 77496871--77496929 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
77496861 CCCGTTATCG
77496871 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * *
77496893 ATGGCTTCGTGCCATCTTAACT
1 ATGGCTTCGTGCCAACCTAAAT
77496915 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
77496930 ACGTATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:77497117 original size:27 final size:26
Alignment explanation
Indices: 77497087--77497194 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
77497077 TTTCTGTTAA
*
77497087 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
*
77497114 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTG
*
77497141 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* *
77497168 GTGGCTTTGTCACAATATCTATTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
77497194 G
1 G
77497195 CAGACATGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:77497329 original size:6 final size:6
Alignment explanation
Indices: 77497312--77497415 Score: 61
Period size: 6 Copynumber: 16.8 Consensus size: 6
77497302 TTGCATTCAC
* * *
77497312 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
77497362 ATTCTG ATTTTG ATTCT- ATCACCTG ATTCTG ATTCTG ATTTTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
77497411 ATTCT
1 ATTCT
77497416 AGTTCTAATA
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.07
6 59 0.78
7 8 0.11
8 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:77497346 original size:25 final size:25
Alignment explanation
Indices: 77497312--77497401 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
77497302 TTGCATTCAC
* *
77497312 ATTCTAATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
77497337 ATACTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
77497362 ATTCTGATTTTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
77497387 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
77497402 TTCATTTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:77499442 original size:26 final size:26
Alignment explanation
Indices: 77499389--77499549 Score: 142
Period size: 27 Copynumber: 6.0 Consensus size: 26
77499379 CAAACTACTG
* *
77499389 AAATACCCTCGATTAGCAAAATTACCA
1 AAATACCCT-GATTTGTAAAATTACCA
* *
77499416 AAATACCCTGGTTTGTAAAATTTCCA
1 AAATACCCTGATTTGTAAAATTACCA
* * **
77499442 AAATACCCCTAATTTGTGAAATTACTG
1 AAATA-CCCTGATTTGTAAAATTACCA
* **
77499469 AAATACCCTTGACTTGTAAAATTACTG
1 AAATACCC-TGATTTGTAAAATTACCA
*
77499496 AAATACCCTCGAGTTGTAAAATTACCA
1 AAATACCCT-GATTTGTAAAATTACCA
* **
77499523 AAGTACCCTCGATTTACAAAATTACCA
1 AAATACCCT-GATTTGTAAAATTACCA
77499550 TTTTACCCTT
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
26 22 0.20
27 89 0.80
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATACCCTGATTTGTAAAATTACCA
Found at i:77499556 original size:27 final size:27
Alignment explanation
Indices: 77499486--77499573 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
77499476 CTTGACTTGT
* * **
77499486 AAAATTACTGAAA-TACCCTCGAGTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTAC
77499513 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
*** **
77499540 AAAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
77499567 AAAATTA
1 AAAATTA
77499574 TTGAAATTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:77499691 original size:27 final size:27
Alignment explanation
Indices: 77499577--77499683 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
77499567 AAAATTATTG
* * *
77499577 AAATTCCCCTGTAGGGTAGAATTA-TGG
1 AAATACCCCTATAGGGTAGAATTACT-A
*
77499604 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACTA
* * *
77499631 AAATACCCCTATAAGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACTA
77499658 AAATACCCCTATAGGGTAGAATTACT
1 AAATACCCCTATAGGGTAGAATTACT
77499684 GAGATACCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACTA
Found at i:77500353 original size:27 final size:26
Alignment explanation
Indices: 77500314--77500380 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
77500304 CTATGCCAAA
* *
77500314 AATATTTGTTCTGGTGGCTCTACCAC
1 AATATCTGTTCTGGTGACTCTACCAC
*
77500340 AATATCTGTATCTGGTGACTCTATCAC
1 AATATCTGT-TCTGGTGACTCTACCAC
*
77500367 AATATCTATTCTGG
1 AATATCTGTTCTGG
77500381 CAGCCATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 13 0.36
27 23 0.64
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTACCAC
Found at i:77500535 original size:6 final size:6
Alignment explanation
Indices: 77500498--77500601 Score: 61
Period size: 6 Copynumber: 16.8 Consensus size: 6
77500488 TTGCATTCAC
* * * *
77500498 ATTCTA ATTCTG ATTATG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
77500548 ATTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
77500597 ATTCT
1 ATTCT
77500602 AGTTCTAATA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.05
6 59 0.80
7 8 0.11
8 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:77500546 original size:25 final size:25
Alignment explanation
Indices: 77500498--77500589 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
77500488 TTGCATTCAC
* * *
77500498 ATTCTAATTCTGATTATGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
77500523 ATACTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
77500548 ATTCTAATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
77500573 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
77500590 CATTTTGATT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:77500550 original size:13 final size:13
Alignment explanation
Indices: 77500532--77500578 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
77500522 GATACTGATT
77500532 CTGATTCTGTCAC
1 CTGATTCTGTCAC
* *
77500545 CTGATTC--TAATT
1 CTGATTCTGTCA-C
77500557 CTGATTCTGTCAC
1 CTGATTCTGTCAC
77500570 CTGATTCTG
1 CTGATTCTG
77500579 ATTCTGATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.07
12 7 0.26
13 16 0.59
14 2 0.07
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.43
Consensus pattern (13 bp):
CTGATTCTGTCAC
Found at i:77503986 original size:30 final size:29
Alignment explanation
Indices: 77503892--77503993 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
77503882 TATAGTGAAT
* * *
77503892 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
77503921 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
77503949 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
77503979 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
77503994 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:77505793 original size:27 final size:27
Alignment explanation
Indices: 77505631--77505851 Score: 160
Period size: 27 Copynumber: 8.2 Consensus size: 27
77505621 TTAATTTACC
** * * *
77505631 AAATTACTGAAATACCCACGATTAGAA
1 AAATTACCAAAATACCCTCGATTTGTA
*
77505658 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
77505684 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* *
77505711 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** * * ** *
77505738 AAATTACTGAAGTACCCTCAACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
77505765 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
77505792 AAATTAACAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* ** **
77505819 GAATTACCAATTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
77505846 AAATTA
1 AAATTA
77505852 TTGAAATATC
Statistics
Matches: 156, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.13
27 134 0.86
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:77505877 original size:27 final size:27
Alignment explanation
Indices: 77505847--77505970 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
77505837 CGATTTACAA
*
77505847 AATTATTGAAATATCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
77505874 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* * *
77505901 AATTACTGGAATACCCCTGTAAGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
*** *
77505928 AATTACCAAAATACCCCTGTAGGATAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
77505955 AATTATCGAGATACCC
1 AATTATTGAAATACCC
77505971 TCGTGGGGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAG
Found at i:77505905 original size:54 final size:53
Alignment explanation
Indices: 77505847--77505989 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 53
77505837 CGATTTACAA
*** *
77505847 AATTATTGAAATATCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATA-CCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAG
* * *
77505901 AATTACTGGAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGATAG
1 AATTATTGAAATA-CCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAG
* * * *
77505955 AATTATCGAGATACCCTCGTGGGGTAAAATTACCA
1 AATTATTGAAATACCCT-GTAGGGTAGAATTACCA
77505990 TTTTGCCCCT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 4 0.05
54 69 0.95
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (53 bp):
AATTATTGAAATACCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAG
Found at i:77506303 original size:20 final size:20
Alignment explanation
Indices: 77506278--77506318 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
77506268 TGGGTGCTGT
77506278 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCTTCGTATCGA
*
77506298 TATTGTGGGCTTCGTGTCGA
1 TATTGTGGGCTTCGTATCGA
77506318 T
1 T
77506319 TATAGACCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.32, T:0.41
Consensus pattern (20 bp):
TATTGTGGGCTTCGTATCGA
Found at i:77506367 original size:22 final size:22
Alignment explanation
Indices: 77506335--77506393 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
77506325 CCCGATATCG
*
77506335 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
77506357 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
77506379 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
77506394 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:77506581 original size:27 final size:26
Alignment explanation
Indices: 77506551--77506658 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
77506541 ATTCTGTTAA
* *
77506551 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
77506578 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
77506605 GTGGCTCTGCTACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
77506632 GTGACTCTGTCACAATATCTATTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
77506658 G
1 G
77506659 CAGTCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.19
27 50 0.72
28 6 0.09
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:77506817 original size:31 final size:31
Alignment explanation
Indices: 77506776--77506879 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
77506766 TTGCATTCAC
* *
77506776 ATTCTAATTCTGATTATGTTACCTGATACTA
1 ATTCTGATTCTGATTATGTTACCTGATTCTA
* ** * * *
77506807 ATTCTGATTCTG-TCACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTATGTTA-CCTGATTCTA
* * *
77506838 ATTCTGATTCTGATTCTGGTACCTAATTCTA
1 ATTCTGATTCTGATTATGTTACCTGATTCTA
77506869 ATTCTGATTCT
1 ATTCTGATTCT
77506880 CATTTTGATT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
30 4 0.07
31 48 0.89
32 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTATGTTACCTGATTCTA
Found at i:77506828 original size:19 final size:18
Alignment explanation
Indices: 77506804--77506874 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 18
77506794 TTACCTGATA
77506804 CTAATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGT-AC
*
77506823 CTAATTCTGATTCTG-ATT
1 CTAATTCTGATTCTGTA-C
*
77506841 CTGATTCTGATTCTGGTAC
1 CTAATTCTGATTCT-GTAC
*
77506860 CTAATTCTAATTCTG
1 CTAATTCTGATTCTG
77506875 ATTCTCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.02
18 14 0.32
19 28 0.64
20 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (18 bp):
CTAATTCTGATTCTGTAC
Found at i:77506835 original size:6 final size:6
Alignment explanation
Indices: 77506826--77506891 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
77506816 CTGTCACCTA
* * * *
77506826 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG GTACCTA ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG
* *
77506875 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
77506892 TGTTCTAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
6 46 0.94
7 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:77506839 original size:37 final size:37
Alignment explanation
Indices: 77506798--77506891 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 37
77506788 ATTATGTTAC
* *
77506798 CTGATACTAATTCTGATTCT-GTCACCTAATTCTGATT
1 CTGATTCTAATTCTGATTCTGGT-ACCTAATTCTAATT
*
77506835 CTGATTCTGATTCTGATTCTGGTACCTAATTCTAATT
1 CTGATTCTAATTCTGATTCTGGTACCTAATTCTAATT
* *
77506872 CTGATTCTCATTTTGATTCT
1 CTGATTCTAATTCTGATTCT
77506892 TGTTCTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 49 0.96
38 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTCTAATTCTGATTCTGGTACCTAATTCTAATT
Found at i:77506841 original size:25 final size:25
Alignment explanation
Indices: 77506776--77506843 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
77506766 TTGCATTCAC
* * *
77506776 ATTCTAATTCTGATTATGTTACCTG
1 ATTCTAATTCTGATTCTGTCACCTA
*
77506801 ATACTAATTCTGATTCTGTCACCTA
1 ATTCTAATTCTGATTCTGTCACCTA
*
77506826 ATTCTGATTCTGATTCTG
1 ATTCTAATTCTGATTCTG
77506844 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTAATTCTGATTCTGTCACCTA
Found at i:77514817 original size:44 final size:45
Alignment explanation
Indices: 77514753--77514843 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
77514743 ACCGGAACGA
* * *
77514753 CTATTTGACACCTTTAGATTTCATCCAATCCAAATCTGA-TTCCT
1 CTATTTGACAACTTTAGATTTCACCCAATCCAAATCCGATTTCCT
* * *
77514797 CTATTTGACAACTTTGGATTTCCCCCGATCCAAATCCGATTTCCT
1 CTATTTGACAACTTTAGATTTCACCCAATCCAAATCCGATTTCCT
77514842 CT
1 CT
77514844 TTTCTTGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 33 0.82
45 7 0.17
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37
Consensus pattern (45 bp):
CTATTTGACAACTTTAGATTTCACCCAATCCAAATCCGATTTCCT
Found at i:77521735 original size:6 final size:6
Alignment explanation
Indices: 77521721--77521788 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
77521711 ATAGGAAAAC
* *
77521721 AAAATA AACATA AACATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
77521769 AAAATA GACATA AAGATA AA
1 AAAATA AAAATA AAAATA AA
77521789 TGGACTTAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:77522928 original size:27 final size:27
Alignment explanation
Indices: 77522887--77522969 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
77522877 ATCTCATATC
* * *
77522887 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
77522914 TGTAGGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
*
77522941 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
77522968 TG
1 TG
77522970 GTTATAAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCT
Found at i:77523008 original size:27 final size:27
Alignment explanation
Indices: 77522951--77523040 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
77522941 TGTAGGGTAG
* *
77522951 AATTACCAAAATACCCTTG-G-TTATAA
1 AATTACCAAAATACCC-CGAGTTTGTAA
*
77522977 GATTACCAAAATAACCCCGA-TTTGTAA
1 AATTACCAAAAT-ACCCCGAGTTTGTAA
*
77523004 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCGAGTTTGTAA
*
77523031 AATTGCCAAA
1 AATTACCAAA
77523041 GTACTCTCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 18 0.33
27 36 0.67
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCGAGTTTGTAA
Found at i:77523062 original size:54 final size:53
Alignment explanation
Indices: 77522948--77523062 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 53
77522938 CCTTGTAGGG
* * *
77522948 TAGAATTACCAAAATACCCTTGGTTATAAGATTACCAAAATAACCCCGATTTG
1 TAGAATTACCAAAATACCCTAGGTTATAAAATTACCAAAATAACCCCGATTTA
* * * * * *
77523001 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTGCCAAAGT-ACTCTCGATTTA
1 TAGAATTACCAAAATA-CCCTAGGTTATAAAATTACCAAAATAAC-CCCGATTTA
77523055 TAGAATTA
1 TAGAATTA
77523063 TCGTTTTACC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
53 17 0.34
54 33 0.66
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
TAGAATTACCAAAATACCCTAGGTTATAAAATTACCAAAATAACCCCGATTTA
Found at i:77523087 original size:54 final size:54
Alignment explanation
Indices: 77523046--77523316 Score: 348
Period size: 54 Copynumber: 5.0 Consensus size: 54
77523036 CCAAAGTACT
*
77523046 CTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * * *
77523100 CTCAATTTATAGAATTA-CTGTTTTACCCTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * * *
77523154 CTCTATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCATTTTACC
1 CTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * * * *
77523208 CTCGATTTACAAAATTA-CTATTTTACCCTCGATTTACAGAATTATTGTTTTACC
1 CTCGATTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * * *
77523262 CTCGATTTACCGAATTATCGTTTTACCCTCGATTTATAAAATTACCATGTTACC
1 CTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
77523316 C
1 C
77523317 CTAGGGTGTT
Statistics
Matches: 187, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 183 0.98
55 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (54 bp):
CTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
Found at i:77523314 original size:27 final size:27
Alignment explanation
Indices: 77523046--77523316 Score: 308
Period size: 27 Copynumber: 10.0 Consensus size: 27
77523036 CCAAAGTACT
* * *
77523046 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
**
77523073 CTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* * * *
77523100 CTCAATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* *
77523127 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* *
77523154 CTCTATTTACAAAATTATCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* *
77523181 CTCGATTTATAAAATTACCATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
**
77523208 CTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* **
77523235 CTCGATTTACAGAATTATTGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
** *
77523262 CTCGATTTACCGAATTATCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* * *
77523289 CTCGATTTATAAAATTACCATGTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
77523316 C
1 C
77523317 CTAGGGTGTT
Statistics
Matches: 212, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 212 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
CTCGATTTACAAAATTACCGTTTTACC
Found at i:77523762 original size:6 final size:6
Alignment explanation
Indices: 77523753--77523846 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
77523743 TTGCATTCAC
* *
77523753 ATTCTG ATTCTG ATTCTG -TCACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
77523802 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
77523847 AATGTTCCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
5 3 0.04
6 62 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:77523837 original size:37 final size:31
Alignment explanation
Indices: 77523753--77523832 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
77523743 TTGCATTCAC
77523753 ATTCTGATTCTGATTCTGTCACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
77523784 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
77523815 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
77523833 ATTCTAGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:77525722 original size:27 final size:27
Alignment explanation
Indices: 77525681--77525736 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
77525671 ATCTCATATC
* **
77525681 TGTAGGCTAGCATTACGGAAATACCCT
1 TGTAGGCTAGAATTACCAAAATACCCT
*
77525708 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGCTAGAATTACCAAAATACCCT
77525735 TG
1 TG
77525737 GTTTATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
TGTAGGCTAGAATTACCAAAATACCCT
Found at i:77525748 original size:27 final size:26
Alignment explanation
Indices: 77525718--77525802 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
77525708 TGTAGGGTAG
* *
77525718 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TAGTTTGTAA
*
77525745 AATTACCAAAATAACCCCAGTTTGTAA
1 AATTACCAAAAT-ACCCTAGTTTGTAA
77525772 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
77525799 AATT
1 AATT
77525803 GCTAAAGTAC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.90
28 4 0.08
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:77525848 original size:27 final size:27
Alignment explanation
Indices: 77525818--77526111 Score: 356
Period size: 27 Copynumber: 10.9 Consensus size: 27
77525808 AGTACTATCA
*
77525818 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* * *
77525845 ATTTACATAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
* * *
77525872 ATTTCCAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* * *
77525899 TTTTACAGAATTACTGTTTTACCATCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
77525926 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
77525953 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
77525980 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *** **
77526007 ATTTACAAAATTATTATTTTACCCTTT
1 ATTTACAGAATTACCGTTTTACCCTCG
77526034 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
77526061 ATTTACAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
77526088 ATTTATA-AATTTACCATTTTACCC
1 ATTTACAGAA-TTACCGTTTTACCC
77526112 CTAGGATGTT
Statistics
Matches: 228, Mismatches: 38, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 226 0.99
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:77526556 original size:6 final size:6
Alignment explanation
Indices: 77526547--77526634 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
77526537 TTGCATTCAC
* * *
77526547 ATTCTG ATTCTG ATACTG -TCACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
77526596 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
77526635 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.05
6 55 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (6 bp):
ATTCTG
Found at i:77526623 original size:31 final size:31
Alignment explanation
Indices: 77526547--77526625 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
77526537 TTGCATTCAC
* *
77526547 ATTCTGATTCTGATACTGTCACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
77526578 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
77526609 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
77526626 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:77529801 original size:38 final size:39
Alignment explanation
Indices: 77529715--77529807 Score: 127
Period size: 37 Copynumber: 2.4 Consensus size: 39
77529705 GGACTAGGAT
* *
77529715 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCAAGTTAATAAACCCGGGCTAAGC
* *
77529754 CCGAAGGCATT-G-GCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCAAGTTAATAAACCCGGGCTAAG-C
77529792 CCGAAGGCATTCGTGC
1 CCGAAGGCATTCGTGC
77529808 GAGTCGCTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 20 0.43
38 13 0.28
39 12 0.26
40 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCAAGTTAATAAACCCGGGCTAAGC
Found at i:77529802 original size:77 final size:80
Alignment explanation
Indices: 77529662--77529842 Score: 201
Period size: 77 Copynumber: 2.3 Consensus size: 80
77529652 TCGAATGATG
* * * *
77529662 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
77529727 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
77529742 TCCGGGCTAAG-CCCGAAGGCATTG-GC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
77529803 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
77529820 T-CGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77529843 TGAGCGAGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
76 1 0.01
77 45 0.52
78 17 0.20
79 12 0.14
80 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:77531740 original size:27 final size:27
Alignment explanation
Indices: 77531699--77531781 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
77531689 ATCTCATATC
* *
77531699 TGTAGGATAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
77531726 TGTAGGGTAGAATTACTGAAATGCACT
1 TGTAGGGTAGAATTACTGAAATACCCT
**
77531753 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
77531780 TG
1 TG
77531782 GTTTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:77531793 original size:27 final size:26
Alignment explanation
Indices: 77531763--77531853 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 26
77531753 TGTAGGGTAG
*
77531763 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TGGTTTGTAA
* *
77531790 AATTACCAAAATAACCCCGATTTGTAA
1 AATTACCAAAAT-ACCCTGGTTTGTAA
*
77531817 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTGGTTTGTAA
*
77531844 AATTGCCAAA
1 AATTACCAAA
77531854 GTACTCTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.91
28 4 0.07
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTGGTTTGTAA
Found at i:77531865 original size:54 final size:54
Alignment explanation
Indices: 77531763--77531875 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
77531753 TGTAGGGTAG
* * *
77531763 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATAACCCCGATTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATAACCCCGATTTATAA
* * * * *
77531817 AATTACCAAAATACCCCTAGTTTGTAAAATTGCCAAAGT-ACTCTCGATTTATAG
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATAAC-CCCGATTTATAA
77531871 AATTA
1 AATTA
77531876 TCGTTTTACC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATAACCCCGATTTATAA
Found at i:77531889 original size:27 final size:27
Alignment explanation
Indices: 77531859--77532156 Score: 341
Period size: 27 Copynumber: 11.0 Consensus size: 27
77531849 CCAAAGTACT
* * *
77531859 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
77531886 CTCGATTTACAAAATTA-CTATTTTACC
1 CTCGATTTACAAAATTATC-ATTTTACC
* *
77531913 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
*
77531940 CTCGATTTACAAAATTATTATTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
* **
77531967 TTCGATTTACAAAATTATTGTTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
**
77531994 CTTTATTTACAAAATTA-CAGTTTTACC
1 CTCGATTTACAAAATTATCA-TTTTACC
* *
77532021 CTTGATTTACAAAATTACCATTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
77532048 CTCGATTTACAAAATTA-CTATTTTACC
1 CTCGATTTACAAAATTATC-ATTTTACC
* * *
77532075 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
* ** *
77532102 CTCGATTTACAGAATTATTGTTTTACT
1 CTCGATTTACAAAATTATCATTTTACC
* * *
77532129 CTCAATTTGCAAAATTACCATTTTACC
1 CTCGATTTACAAAATTATCATTTTACC
77532156 C
1 C
77532157 CTAGGGTGTT
Statistics
Matches: 235, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 229 0.97
28 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
CTCGATTTACAAAATTATCATTTTACC
Found at i:77531900 original size:54 final size:54
Alignment explanation
Indices: 77531859--77532156 Score: 391
Period size: 54 Copynumber: 5.5 Consensus size: 54
77531849 CCAAAGTACT
* * *
77531859 CTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
*
77531913 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
* ** **
77531967 TTCGATTTACAAAATTATTGTTTTACCCTTTATTTACAAAATTAC-AGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTA-TTTTACC
* *
77532021 CTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * * * * * *
77532075 CTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATTGTTTTACT
1 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
* * *
77532129 CTCAATTTGCAAAATTACCATTTTACCC
1 CTCGATTTACAAAATTACCGTTTTACCC
77532157 CTAGGGTGTT
Statistics
Matches: 214, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 212 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (54 bp):
CTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACC
Found at i:77532463 original size:27 final size:26
Alignment explanation
Indices: 77532423--77532482 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
77532413 ATATATATAT
* *
77532423 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
77532449 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
77532476 ATATCTG
1 ATATCTG
77532483 GAGCCTCGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:77532649 original size:18 final size:17
Alignment explanation
Indices: 77532622--77532678 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
77532612 ATTCTGTCAC
*
77532622 CTGATACTGATACTGATT
1 CTGATACTGATTCT-ATT
*
77532640 CTGATTCTGATTCTAGTT
1 CTGATACTGATTCTA-TT
* *
77532658 CTGATAATGTTTCTTATT
1 CTGATACTGATTC-TATT
77532676 CTG
1 CTG
77532679 TAATGGGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (17 bp):
CTGATACTGATTCTATT
Found at i:77533891 original size:60 final size:60
Alignment explanation
Indices: 77533798--77533918 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
77533788 CATACGATGA
*
77533798 CATCACTCACTAAAGGTAAAACGTCGAGCAAAAATCCAAAGTAAGCTCCATCTATGTGGG
1 CATCACTCACTAAAGGTAAAACGTCGAGCAAAAATCCAAAGTAAGCTCCATATATGTGGG
* *
77533858 CATCACTCGCTGAAGGTAAAACGTCGAGCAAAAATCCAAAGTAAGCTCCATATATGTGGG
1 CATCACTCACTAAAGGTAAAACGTCGAGCAAAAATCCAAAGTAAGCTCCATATATGTGGG
77533918 C
1 C
77533919 TCAATGATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (60 bp):
CATCACTCACTAAAGGTAAAACGTCGAGCAAAAATCCAAAGTAAGCTCCATATATGTGGG
Found at i:77543773 original size:43 final size:44
Alignment explanation
Indices: 77543723--77543877 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 44
77543713 GTCCCAGATG
* *
77543723 TGGTCTTACATGTAATCACATTTCGATGCC-ACTGTCCTAGACA
1 TGGTCTTACACGTAATCACATATCGATGCCAACTGTCCTAGACA
* * * *
77543766 AGGTCTTACACG-AA-CTCATATACGATGCCGA-TGTCCCAGACA
1 TGGTCTTACACGTAATCACATAT-CGATGCCAACTGTCCTAGACA
* *
77543808 TGGTCTTACATGTAAATCACAAATCGATGCCAAC-GTCCTAGACA
1 TGGTCTTACACGT-AATCACATATCGATGCCAACTGTCCTAGACA
* *
77543852 TCGTCTTACACGAAATCACATATCGA
1 TGGTCTTACACGTAATCACATATCGA
77543878 AATCTTATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 5 0.05
42 29 0.32
43 23 0.25
44 29 0.32
45 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
TGGTCTTACACGTAATCACATATCGATGCCAACTGTCCTAGACA
Found at i:77550759 original size:14 final size:15
Alignment explanation
Indices: 77550727--77550760 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
77550717 GTAACCTGAT
77550727 TCATGTTATATATGAA
1 TCATGTTATATAT-AA
77550743 TCATGTTATATAT-A
1 TCATGTTATATATAA
77550757 TCAT
1 TCAT
77550761 CAAATAACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
16 13 0.72
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (15 bp):
TCATGTTATATATAA
Found at i:77551071 original size:28 final size:28
Alignment explanation
Indices: 77551039--77551128 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
77551029 GAATCATTCG
*
77551039 ATATTTTGCACACTAAGCGCCATTCTCA
1 ATATTTCGCACACTAAGCGCCATTCTCA
*
77551067 ATATTTCGTACACTAAGCGCCATTCTCA
1 ATATTTCGCACACTAAGCGCCATTCTCA
* *
77551095 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGCGCCATTCTCA
77551123 ATATTT
1 ATATTT
77551129 TTCCCACTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGCGCCATTCTCA
Found at i:77551136 original size:28 final size:28
Alignment explanation
Indices: 77551039--77551145 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
77551029 GAATCATTCG
77551039 ATATTTTGCACACTAAGCGCCATTCTCA
1 ATATTTTGCACACTAAGCGCCATTCTCA
* *
77551067 ATATTTCGTACACTAAGCGCCATTCTCA
1 ATATTTTGCACACTAAGCGCCATTCTCA
* * *
77551095 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGCGCCATTCTCA
* * *
77551123 ATATTTTTCCCACTAAGTGCCAT
1 ATATTTTGCACACTAAGCGCCAT
77551146 AGTTGATGTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTTGCACACTAAGCGCCATTCTCA
Found at i:77552718 original size:17 final size:18
Alignment explanation
Indices: 77552696--77552729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77552686 TCACATTGAA
77552696 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
77552713 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
77552730 TCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:77553844 original size:29 final size:29
Alignment explanation
Indices: 77553775--77553886 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
77553765 ACCCCTACAT
* * * *
77553775 ACATGCATATGGCCTACTGGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
77553803 TCATTCATATGGCCCATTTGGCCTAGTTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * *
77553832 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
77553861 ACATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
77553887 ATCATATTAT
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:77553892 original size:58 final size:57
Alignment explanation
Indices: 77553782--77553894 Score: 154
Period size: 58 Copynumber: 2.0 Consensus size: 57
77553772 CATACATGCA
* * * * * **
77553782 TATGGCCTACTGGGCCCAATCTCATTCATATGGCCCATTTGGCCTAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATATTCT
77553839 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAAATCATATT
77553895 ATACTCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 17 0.35
58 31 0.65
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATATTCT
Found at i:77554003 original size:19 final size:19
Alignment explanation
Indices: 77553966--77554013 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
77553956 ATGGGCCCAA
*
77553966 TAGCCCATT-AGGCCCATT
1 TAGCCCATTCTGGCCCATT
*
77553984 TAGCCCATTCTGGCCTATT
1 TAGCCCATTCTGGCCCATT
* *
77554003 TGGCCAATTCT
1 TAGCCCATTCT
77554014 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:77554152 original size:24 final size:23
Alignment explanation
Indices: 77554107--77554152 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
77554097 ACCGTAGCCC
* *
77554107 AACTTTTGGCTTTTCGATATTTT
1 AACTTTTGGCATTTCGACATTTT
*
77554130 AACTTTTCGGCATTTCGGCATTT
1 AACTTTT-GGCATTTCGACATTT
77554153 CGGCTTTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (23 bp):
AACTTTTGGCATTTCGACATTTT
Found at i:77557575 original size:33 final size:33
Alignment explanation
Indices: 77557538--77557607 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
77557528 GTTGTGAACT
77557538 ATAGACAAAAGACTATTGAGTTGAAATGTCAAA
1 ATAGACAAAAGACTATTGAGTTGAAATGTCAAA
* * *
77557571 ATAGACGAAAGACTATTGAGTTGGAATGTCAGA
1 ATAGACAAAAGACTATTGAGTTGAAATGTCAAA
77557604 ATAG
1 ATAG
77557608 GGTTGCAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (33 bp):
ATAGACAAAAGACTATTGAGTTGAAATGTCAAA
Found at i:77569355 original size:53 final size:53
Alignment explanation
Indices: 77569286--77569492 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
77569276 TTCCTTTTTA
* * * *
77569286 AACTTACCATTTCCATGTTTTGACATGGTCTTACGTGGTATCCTTGCCTTATC
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * * *
77569339 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
** * * * * * * *
77569392 GTAGTTTATCAATGCCTTGTCTTGACATGGTTTTACATGATTTCCTTGCCTTGTAA
1 --AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-C
* *
77569448 AACTTACCAATGCCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
77569493 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 38 0.32
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
Found at i:77571240 original size:18 final size:17
Alignment explanation
Indices: 77571219--77571273 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
77571209 ACAATTCTTT
77571219 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
77571237 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
77571254 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
77571271 TCT
1 TCT
77571274 ATAGCCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:77573853 original size:39 final size:39
Alignment explanation
Indices: 77573806--77573988 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
77573796 AATGTTCGAG
77573806 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
77573845 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
77573884 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
77573923 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
77573963 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
77573989 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:77581273 original size:39 final size:39
Alignment explanation
Indices: 77581226--77581408 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
77581216 AATGTTCGAG
77581226 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
77581265 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
77581304 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
77581343 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
77581383 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
77581409 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:77583188 original size:27 final size:28
Alignment explanation
Indices: 77583150--77583239 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
77583140 GAGGAAGCGT
77583150 TCTGGTGGCCATGCCACAAATATCTG-A
1 TCTGGTGGCCATGCCACAAATATCTGTA
* * *
77583177 TCTGGTGGCCATACCAAAAATATCTGTT
1 TCTGGTGGCCATGCCACAAATATCTGTA
*
77583205 TCTGGTGGCTC-TGCCACAATTATCTGTA
1 TCTGGTGGC-CATGCCACAAATATCTGTA
77583233 TCTGGTG
1 TCTGGTG
77583240 ACTCTGTCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.44
28 29 0.54
29 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (28 bp):
TCTGGTGGCCATGCCACAAATATCTGTA
Found at i:77583244 original size:28 final size:28
Alignment explanation
Indices: 77583150--77583263 Score: 112
Period size: 28 Copynumber: 4.2 Consensus size: 28
77583140 GAGGAAGCGT
77583150 TCTGGTGGC-CATGCCACAAATATCTG-A
1 TCTGGTGGCTC-TGCCACAAATATCTGTA
* * *
77583177 TCTGGTGGC-CATACCAAAAATATCTGTT
1 TCTGGTGGCTC-TGCCACAAATATCTGTA
*
77583205 TCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
77583233 TCTGGTGACTCTGTCA-GAATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
77583259 TCTGG
1 TCTGG
77583264 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.07
27 32 0.43
28 36 0.49
29 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:77591697 original size:24 final size:24
Alignment explanation
Indices: 77591638--77591726 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
77591628 TCTGTTAAAC
*
77591638 TGGCTTTTTGTGAGCTTCCCGATA
1 TGGCTCTTTGTGAGCTTCCCGATA
*
77591662 -GGCTCTTCGTGAGCTTCCCGATA
1 TGGCTCTTTGTGAGCTTCCCGATA
* *
77591685 TGGTTCTTTGTGAACTTCCCGATTA
1 TGGCTCTTTGTGAGCTTCCCGA-TA
*
77591710 TGGCTC-TTATGAGCTTC
1 TGGCTCTTTGTGAGCTTC
77591727 TCGTTGTACA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 21 0.38
24 27 0.49
25 7 0.13
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (24 bp):
TGGCTCTTTGTGAGCTTCCCGATA
Found at i:77597284 original size:40 final size:40
Alignment explanation
Indices: 77597195--77597319 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
77597185 CGGAATTTAA
** * *
77597195 CCGGATATAACGACTCGCTCAAATGCCTTCGGGACGAAGC
1 CCGGATATAGTGACTCGCACAAATGCCTTCGGGACCAAGC
* * * *
77597235 CCGGTTATAGTGACTCGCACGAATGCCTTC-GGATCCTAGT
1 CCGGATATAGTGACTCGCACAAATGCCTTCGGGA-CCAAGC
* * **
77597275 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTGAC-TCGCACAAATGCCTTCGGGACCAAGC
77597315 CCGGA
1 CCGGA
77597320 CATCATTCGA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.04
40 55 0.81
41 10 0.15
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTGACTCGCACAAATGCCTTCGGGACCAAGC
Found at i:77599594 original size:97 final size:96
Alignment explanation
Indices: 77599427--77599728 Score: 461
Period size: 97 Copynumber: 3.2 Consensus size: 96
77599417 CCCTTCGGGA
* * * * * *
77599427 CTTATCACATTTATACA-CTTCCACATCCATCACTTTGGCCACT-GGCCCTATCACATATAT--A
1 CTTATCACATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
77599488 CACTTTCACATTCATCACATTGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
77599520 CTTATCACATATATATCACCTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATA-CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
77599585 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
77599617 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
77599681 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
77599714 CTTATCACATATATA
1 CTTATCACATATATA
77599729 TATCTCATAC
Statistics
Matches: 193, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
93 14 0.07
94 19 0.10
95 19 0.10
96 3 0.02
97 102 0.53
98 36 0.19
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77599616 original size:49 final size:49
Alignment explanation
Indices: 77599427--77599728 Score: 458
Period size: 48 Copynumber: 6.3 Consensus size: 49
77599417 CCCTTCGGGA
* * * * * *
77599427 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACT-GGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77599473 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
77599520 CTTATCACATATATATCAC-C-TTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-CACACTTTCACATTCATCACATCGGCCATTAGGC
77599568 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77599617 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77599666 CTTATCACA-ATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77599714 CTTATCACATATATA
1 CTTATCACATATATA
77599729 TATCTCATAC
Statistics
Matches: 238, Mismatches: 9, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
46 34 0.14
47 20 0.08
48 91 0.38
49 91 0.38
50 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77599694 original size:146 final size:143
Alignment explanation
Indices: 77599427--77599728 Score: 450
Period size: 146 Copynumber: 2.1 Consensus size: 143
77599417 CCCTTCGGGA
* * *
77599427 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTGGCCCTATCACATATATACA
1 CTTATCACATATATACACACTTCCACATCCATCACATCGGCCACTGGCCCTATCACATATATACA
* *
77599490 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATCACCTTCTCATTCATCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATCACCTTCACATTCATCACA
77599555 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * * *
77599568 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTCCACATCCATCACATCGGCCACT-GGCCCTATCACATATAT--
77599633 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATA-CACACTTTCACATTCA
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATCAC-C-TTCACATTCA
77599696 TCACATCGGCCATTAGGC
126 TCACATCGGCCATTAGGC
77599714 CTTATCACATATATA
1 CTTATCACATATATA
77599729 TATCTCATAC
Statistics
Matches: 145, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 26 0.18
144 19 0.13
145 6 0.04
146 83 0.57
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACACTTCCACATCCATCACATCGGCCACTGGCCCTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATCACCTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:77603105 original size:16 final size:16
Alignment explanation
Indices: 77603084--77603123 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
77603074 TCAATTTACC
77603084 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
77603100 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
*
77603116 GGCCCGAA
1 GGCACGAA
77603124 TACACGTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.33, G:0.28, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTACTA
Found at i:77603257 original size:40 final size:40
Alignment explanation
Indices: 77603159--77603327 Score: 288
Period size: 40 Copynumber: 4.3 Consensus size: 40
77603149 CGGGACCTAC
77603159 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
*
77603199 G--ACATCACTAGCATGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
77603237 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
* *
77603277 AATACATCACTAGCACGAATGCTCTTTGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
*
77603317 GATATATCACT
1 GATACATCACT
77603328 CTCAATTCTC
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 37 0.31
40 84 0.69
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (40 bp):
GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
Found at i:77606164 original size:49 final size:49
Alignment explanation
Indices: 77606009--77606263 Score: 394
Period size: 49 Copynumber: 5.3 Consensus size: 49
77605999 CCCTTCGGGA
* * * * * * *
77606009 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77606056 CCTATCACATATAT--ACACTTTCACATTCATCACAT-TGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77606102 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77606151 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77606200 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77606249 CTTATCACATATATA
1 CTTATCACATATATA
77606264 TATCTCATAC
Statistics
Matches: 194, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
46 21 0.11
47 27 0.14
48 22 0.11
49 124 0.64
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77609632 original size:16 final size:16
Alignment explanation
Indices: 77609611--77609651 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
77609601 TCAATTTACC
77609611 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
77609627 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
77609643 GGCACGAAG
1 GGCACGAAG
77609652 GCCCGAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTACTA
Found at i:77609727 original size:40 final size:40
Alignment explanation
Indices: 77609678--77609869 Score: 303
Period size: 40 Copynumber: 4.8 Consensus size: 40
77609668 CCAGCATGAT
* * *
77609678 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
** *
77609718 TGCTCTTCGGAACTTAGTCCGGACGCATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
77609758 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
77609798 TGCTCTTCGGAACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
77609838 TGCTCTTTGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
77609870 CTCAATTCTC
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:77611403 original size:561 final size:560
Alignment explanation
Indices: 77610320--77611422 Score: 2055
Period size: 561 Copynumber: 2.0 Consensus size: 560
77610310 TCTGATACCA
*
77610320 ATAAAATTGTAACACCCCTAGCCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAGACTTA
1 ATAAAATTGTAACACCCCTACCCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAGACTTA
77610385 ACTTAATTGTTTTCACAGTCCATAAAAAAATTTCCAGCCAGCTGGCTAACTGTGTCACTGTCACC
66 ACTTAATTGTTTTCACAGTCCATAAAAAAATTTCCAGCCAGCTGGCTAACTGTGTCACTGTCACC
77610450 TTAAAAATCATATCTTGAGTTCCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGA
131 TTAAAAATCATATCTTGAGTTCCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGA
* * *
77610515 CTCATATATGCATCTACAAATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTA
196 CTCATATATGCATCTACAAATATTTTTCTAGAATTTTTGGCCAGGCCAATTAGTACAGTTTATTA
77610580 GTTAAAGTCTCCCATGTTACAGGGATCAACTACACTGACCTTCGCGCATTACAACTTGGATATCT
261 GTTAAAGTCTCCCATGTTACAGGGATCAACTACACTGACCTTCGCGCATTACAACTTGGATATCT
77610645 CCCTGTACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCT
326 CCCTGTACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCT
* * *
77610710 ATACATATATGTCATGACTCCTAATTATCTCTGGTTAATTTAAAATGAATTTCCAAATTCGGAAT
391 ATACATATATGGCATGACTCCTAATTATCTCTAGTTAATTTAAAATGAATTTCCAAATTCGGAAC
* *
77610775 AGGAAATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACTTTAACATCTCATAATATAATGTTC
456 AGGAAATCCAGAAACCGTTCTGACCCTATCTCACGAAAACTTTAACATCTCATAATATAATGTTC
77610840 ATATGAACGTTTCGTTACTTTCTGTTTTTGGGGACATCCG
521 ATATGAACGTTTCGTTACTTTCTGTTTTTGGGGACATCCG
77610880 ATAAAATTGTAACACCCCGTACCCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAGACTT
1 ATAAAATTGTAACACCCC-TACCCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAGACTT
77610945 AACTTAATTGTTTTCACAGTCCATAAAAAAATTTCCAGCCAGCTGGCTAACTGTGTCACTGTCAC
65 AACTTAATTGTTTTCACAGTCCATAAAAAAATTTCCAGCCAGCTGGCTAACTGTGTCACTGTCAC
77611010 CTTAAAAATCATATCTTGAGTTCCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAG
130 CTTAAAAATCATATCTTGAGTTCCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAG
77611075 ACTCATATATGCATCTACAAATATTTTTCTAGAATTTTTGGCCAGGCCAATTAGTACAGTTTATT
195 ACTCATATATGCATCTACAAATATTTTTCTAGAATTTTTGGCCAGGCCAATTAGTACAGTTTATT
*
77611140 AGTTAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTCGCGCATTACAACTTGGATATC
260 AGTTAAAGTCTCCCATGTTACAGGGATCAACTACACTGACCTTCGCGCATTACAACTTGGATATC
* *
77611205 TCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAGAAGCTAGACTCAAAGAGGAATC
325 TCCCTGTACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAGAGGAATC
*
77611270 TATACATATATGGCATGACTCCTAATTATCTCTAGTTAATTTACAATGAATTTCCAAAGTT-GGA
390 TATACATATATGGCATGACTCCTAATTATCTCTAGTTAATTTAAAATGAATTTCCAAA-TTCGGA
77611334 ACAGGAAATCCAGAAACCGTTCTGACCCTATCTCACGAAAACTTTAACATCTCATAATATAATGT
454 ACAGGAAATCCAGAAACCGTTCTGACCCTATCTCACGAAAACTTTAACATCTCATAATATAATGT
*
77611399 TCATATGAATGTTTCGTTACTTTC
519 TCATATGAACGTTTCGTTACTTTC
77611423 CATTTGAAAA
Statistics
Matches: 527, Mismatches: 14, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
560 18 0.03
561 507 0.96
562 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (560 bp):
ATAAAATTGTAACACCCCTACCCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAGACTTA
ACTTAATTGTTTTCACAGTCCATAAAAAAATTTCCAGCCAGCTGGCTAACTGTGTCACTGTCACC
TTAAAAATCATATCTTGAGTTCCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGA
CTCATATATGCATCTACAAATATTTTTCTAGAATTTTTGGCCAGGCCAATTAGTACAGTTTATTA
GTTAAAGTCTCCCATGTTACAGGGATCAACTACACTGACCTTCGCGCATTACAACTTGGATATCT
CCCTGTACAGGGCTTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAAAGAGGAATCT
ATACATATATGGCATGACTCCTAATTATCTCTAGTTAATTTAAAATGAATTTCCAAATTCGGAAC
AGGAAATCCAGAAACCGTTCTGACCCTATCTCACGAAAACTTTAACATCTCATAATATAATGTTC
ATATGAACGTTTCGTTACTTTCTGTTTTTGGGGACATCCG
Found at i:77612725 original size:49 final size:49
Alignment explanation
Indices: 77612551--77612901 Score: 563
Period size: 49 Copynumber: 7.3 Consensus size: 49
77612541 CCCTTCGGGA
* * * * * * *
77612551 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77612598 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
77612645 CTTATCACATATATACAC-C-TTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77612692 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77612741 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77612790 CTTATCACATATATACACACTTTCAC-TTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77612838 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
77612887 CTTATCACATATATA
1 CTTATCACATATATA
77612902 TATCTCATAC
Statistics
Matches: 287, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
47 94 0.33
48 51 0.18
49 142 0.49
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77612870 original size:146 final size:144
Alignment explanation
Indices: 77612551--77612901 Score: 566
Period size: 146 Copynumber: 2.4 Consensus size: 144
77612541 CCCTTCGGGA
* * * * * * * *
77612551 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGCCCTATCACATATAT-A
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
*
77612613 CACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTTCTCATTCATCAC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCTCATTCATCAC
77612678 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
77612692 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-
77612757 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT-TCACTTCAT
65 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC-CTTCTCA-TTCAT
77612821 CACATCGGCCATTAGGC
128 CACATCGGCCATTAGGC
77612838 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
77612902 TATCTCATAC
Statistics
Matches: 195, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
141 10 0.05
142 1 0.01
143 42 0.22
145 53 0.27
146 89 0.46
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCTCATTCATCAC
ATCGGCCATTAGGC
Found at i:77618774 original size:18 final size:18
Alignment explanation
Indices: 77618743--77618797 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
77618733 TTTGAATGAG
*
77618743 TATAAAATTATAAAAATAT
1 TATAAAATTCTAAAAAT-T
*
77618762 TA-ATAATTCTAAAAATT
1 TATAAAATTCTAAAAATT
77618779 TATAAAATTCATAAAAATT
1 TATAAAATTC-TAAAAATT
77618798 ATGAACTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 18 0.58
19 10 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAAATTCTAAAAATT
Found at i:77618933 original size:17 final size:17
Alignment explanation
Indices: 77618894--77618937 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
77618884 ATTTAAAAAT
*
77618894 ATTTTTTTATATTTTTA
1 ATTTTTTTATATTTTGA
*
77618911 ACTTTTTTCATA-TTTGA
1 A-TTTTTTTATATTTTGA
77618928 ATTTTTTTAT
1 ATTTTTTTAT
77618938 GTCAATAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 9 0.39
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTTTTTTATATTTTGA
Found at i:77622323 original size:12 final size:12
Alignment explanation
Indices: 77622306--77622331 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77622296 CATTCGAAGA
77622306 ACATTTTTGTAT
1 ACATTTTTGTAT
77622318 ACATTTTTGTAT
1 ACATTTTTGTAT
77622330 AC
1 AC
77622332 CTCTTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (12 bp):
ACATTTTTGTAT
Found at i:77634735 original size:40 final size:40
Alignment explanation
Indices: 77634679--77634885 Score: 247
Period size: 40 Copynumber: 5.2 Consensus size: 40
77634669 GAATGATACT
* * *
77634679 CGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* *
77634719 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* *
77634759 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATC
* * ** *
77634799 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* * * *
77634839 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
77634879 C-GGCTAA
1 CGGGCTAA
77634886 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
Found at i:77638533 original size:40 final size:40
Alignment explanation
Indices: 77638496--77638681 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
77638486 GCTACTCGTT
*
77638496 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
77638536 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
77638576 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
77638616 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
77638657 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77638682 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:77646628 original size:40 final size:40
Alignment explanation
Indices: 77646512--77646698 Score: 204
Period size: 40 Copynumber: 4.7 Consensus size: 40
77646502 GCTACTCGTT
*
77646512 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
77646552 C-AATGCCTTCGGGACTTCGGACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AG-CCCGGATTTAGTAACTCGCA
* *
77646593 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
77646633 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
77646674 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77646699 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 15 0.12
40 68 0.53
41 31 0.24
42 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:77646692 original size:80 final size:82
Alignment explanation
Indices: 77646512--77646698 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 82
77646502 GCTACTCGTT
* * *
77646512 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGACTTCGGACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAATGCCTTCGGGACTTCAGACCC
* *
77646576 GGATTTAGTAACTCGCA
66 GGATATAGTAACTAGCA
*
77646593 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCACACGAATGCCTTC-GGATCTT-AG-
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCACAC-AATGCCTTCGGGA-CTTCAGA
* *
77646653 TCCGGATATAGTCACTTAGCA
63 CCCGGATATAGTAAC-TAGCA
77646674 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77646699 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 13
0.81 0.08 0.12
Matches are distributed among these distances:
80 31 0.34
81 46 0.51
82 14 0.15
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAATGCCTTCGGGACTTCAGACCC
GGATATAGTAACTAGCA
Found at i:77649049 original size:44 final size:44
Alignment explanation
Indices: 77648962--77649049 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
77648952 ATTACATGTA
* *
77648962 TCGCATCCATAATGGACTTGGACCAACTCAACGAGCTTAGATGC
1 TCGCATCCATAATGAACTTGGACCAACTCAACGAGCTCAGATGC
*
77649006 TCGCATCCATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTTGGACCAACTCAACGAGCTCAGATGC
77649050 CTCATACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
TCGCATCCATAATGAACTTGGACCAACTCAACGAGCTCAGATGC
Found at i:77652818 original size:15 final size:15
Alignment explanation
Indices: 77652800--77652829 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77652790 CTTAAAGAAA
77652800 AATAAAATATAGTCC
1 AATAAAATATAGTCC
77652815 AATAAAATATAGTCC
1 AATAAAATATAGTCC
77652830 TAAAGTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
AATAAAATATAGTCC
Found at i:77662327 original size:27 final size:25
Alignment explanation
Indices: 77662280--77662331 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
77662270 AAAACCGTAA
* *
77662280 TTAAGGGAAAATTACCGAAATACCC
1 TTAAGGGAAAATGACCAAAATACCC
77662305 TTAAGGGAAAAAATGACCAAAATACCC
1 TTAAGGG--AAAATGACCAAAATACCC
77662332 CTAGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (25 bp):
TTAAGGGAAAATGACCAAAATACCC
Found at i:77686870 original size:29 final size:27
Alignment explanation
Indices: 77686819--77686930 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
77686809 TGAGTATAAT
* * *
77686819 ATGATTTGAGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTGGGCCATATGA
*
77686846 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAGTGGGCCATATG-A
* *
77686876 TATGAACTGGGCC-AGATGGGCCATTTGA
1 -ATGAATTGGGCCTAG-TGGGCCATATGA
* *
77686904 ATAAGATTCGGCCTAGTGGGCCATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
77686931 CATGTATGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.06
28 19 0.28
29 42 0.63
30 1 0.01
31 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTGGGCCATATGA
Found at i:77692272 original size:46 final size:45
Alignment explanation
Indices: 77692217--77692376 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 45
77692207 GAGAGCTAGT
*
77692217 GTAAAACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCCAGA
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGT--GCCAGA
* * *
77692263 GTAAGACATGTCTGGGACATGCATC-GACTACGAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCCAGA
* * * * *
77692307 GTAAGACCATGTCTGGGACATGGCATCGGCACGTA-TAAAGGTGTCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TACGAGATGTGCCAGA
77692355 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
77692377 GTATCGGCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 37 0.37
47 2 0.02
48 32 0.32
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCCAGA
Found at i:77692361 original size:48 final size:47
Alignment explanation
Indices: 77692263--77692531 Score: 208
Period size: 48 Copynumber: 5.7 Consensus size: 47
77692253 GTAAGCCAGA
* *
77692263 GTAAGA-CATGTCTGGGACAT-GCATCGACTACG--AGATGTGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-ACGATAGAGGTGTCAGT
*
77692307 GTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGTGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACG-ATAGAGGTGTCAGT
* * * *
77692355 GTAAGACCATGTCTGGGACATGGTATCGGCACAAATATGTGAGAGAT-AGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCAC-GATA-GAG-GTG-TCAGT
* * * * *** *
77692405 GTAAAACCATGTTTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGG-CACGATAGAGGT-GTCAGT
* * * ** * * *
77692454 GTAAGGCCATGTCTGAGACATGGCATCGTCTTGATGGATGAGAT-AGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAGGTG-TCAGT
77692501 GTAAGACCATGTCTGGGACATGGCATCGGCA
1 GTAAGACCATGTCTGGGACATGGCATCGGCA
77692532 TTATACCCTA
Statistics
Matches: 176, Mismatches: 36, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
44 6 0.03
45 17 0.10
46 7 0.04
47 31 0.18
48 51 0.29
49 29 0.16
50 32 0.18
51 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAGGTGTCAGT
Found at i:77693699 original size:21 final size:20
Alignment explanation
Indices: 77693664--77693703 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
77693654 ATGTTCAAGT
77693664 TCCACACGGCTGTGTTGCCCA
1 TCCACACGGCTGTG-TGCCCA
77693685 TCCACACGGGC-GTGTGCCC
1 TCCACAC-GGCTGTGTGCCC
77693704 TGTTTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 10 0.56
22 3 0.17
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
TCCACACGGCTGTGTGCCCA
Found at i:77701603 original size:38 final size:38
Alignment explanation
Indices: 77701501--77701613 Score: 172
Period size: 38 Copynumber: 3.0 Consensus size: 38
77701491 ATATCTAGGT
** *
77701501 TAAATCCCGCAGGCTTCGTGCTGGTAAAATATCCGGGT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
77701539 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
* * *
77701577 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
77701614 CCTTCGTGCC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (38 bp):
TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
Found at i:77701654 original size:43 final size:43
Alignment explanation
Indices: 77701606--77701760 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
77701596 GCTGGTATTA
77701606 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
77701649 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
77701692 TATTCGGGCCTTCGAGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
77701735 TATTCCGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
77701761 GTAATGCCGG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:77702157 original size:45 final size:42
Alignment explanation
Indices: 77702090--77702197 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
77702080 TTGACTTGAT
* *
77702090 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
** *
77702135 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
77702177 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
77702198 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Done.