Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 171 of 292
Found at i:50805119 original size:71 final size:71
Alignment explanation
Indices: 50805031--50805194 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50805021 GAGATGTATC
50805031 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50805096 AGGACA
66 AGGACA
50805102 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50805167 AGGACA
66 AGGACA
50805173 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50805195 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50812336 original size:24 final size:24
Alignment explanation
Indices: 50812304--50812353 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
50812294 TCCTTTCGTA
50812304 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
50812328 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
50812352 TT
1 TT
50812354 GTAATCTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (24 bp):
TTACCACTTCTATTTCACTTATCC
Found at i:50817341 original size:22 final size:23
Alignment explanation
Indices: 50817300--50817366 Score: 91
Period size: 24 Copynumber: 2.9 Consensus size: 23
50817290 AAGCTTTCTG
50817300 ATATGGTTCTTTATGAACTTCCCA
1 ATATGGTTC-TTATGAACTTCCCA
50817324 ATATGGTTCTT-TGAACTTCCCA
1 ATATGGTTCTTATGAACTTCCCA
* *
50817346 ATTATGGCTCTTATGAGCTTC
1 A-TATGGTTCTTATGAACTTC
50817367 TTGTTATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.31
23 11 0.28
24 16 0.41
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (23 bp):
ATATGGTTCTTATGAACTTCCCA
Found at i:50821813 original size:24 final size:24
Alignment explanation
Indices: 50821786--50821854 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
50821776 AACCTTTCCG
*
50821786 ATATGGTTCTTTGTGAACTTCCTA
1 ATATGGTTCTTTGTGAACTTCCAA
50821810 ATATGGTTCTTTGTGAACTTCCAA
1 ATATGGTTCTTTGTGAACTTCCAA
* * *
50821834 ATAAGGTTCTTTCTTAACTTC
1 ATATGGTTCTTTGTGAACTTC
50821855 TCGATAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (24 bp):
ATATGGTTCTTTGTGAACTTCCAA
Found at i:50822992 original size:12 final size:12
Alignment explanation
Indices: 50822975--50823007 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50822965 AGAACATGGG
50822975 CGTGTGGCAGGC
1 CGTGTGGCAGGC
*
50822987 CGTGTGGCAGGT
1 CGTGTGGCAGGC
50822999 CGTGTGGCA
1 CGTGTGGCA
50823008 CAAGTCAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.48, T:0.21
Consensus pattern (12 bp):
CGTGTGGCAGGC
Found at i:50826903 original size:45 final size:45
Alignment explanation
Indices: 50826848--50826946 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
50826838 CCTACATAAA
**
50826848 TAAGATAACCATTACTCAACCACAGTGGGATAATCACTTGTATCAC
1 TAAGA-AACCATTACTCAACCACAGTGAAATAATCACTTGTATCAC
*
50826894 TAAGAAACCATTACTCAACCACAGTGAAATAATCACTTTTATCAC
1 TAAGAAACCATTACTCAACCACAGTGAAATAATCACTTGTATCAC
*
50826939 TAAAAAAC
1 TAAGAAAC
50826947 TCTTCGGCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.25
Consensus pattern (45 bp):
TAAGAAACCATTACTCAACCACAGTGAAATAATCACTTGTATCAC
Found at i:50828337 original size:20 final size:22
Alignment explanation
Indices: 50828312--50828351 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50828302 ACACTGCATT
50828312 AATAAT-T-GAAAGAATTTGCC
1 AATAATGTAGAAAGAATTTGCC
*
50828332 AATAATGTAGACAGAATTTG
1 AATAATGTAGAAAGAATTTG
50828352 AGGTTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (22 bp):
AATAATGTAGAAAGAATTTGCC
Found at i:50832281 original size:27 final size:27
Alignment explanation
Indices: 50832201--50832619 Score: 210
Period size: 27 Copynumber: 15.6 Consensus size: 27
50832191 TTAGTTTACC
* *
50832201 AAATTACTGAAATACCCTC-AGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
50832227 AAATCACC-AAACTACCC-CGGTTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *
50832253 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
50832280 AAATTACCGAAATACCCTC-AGTTTACA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
50832307 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * **
50832334 AAATTATC-AAAGTACCC-CTGAATTACA
1 AAATTACCGAAA-TACCCTC-GATTTGTA
* *** * *
50832361 AAATTACTGTTTTACCCTCAATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *** **
50832388 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * **
50832415 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
* * **
50832442 AAATTACCAAAATACCCTCCATCAGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
50832469 AAATTACCAAAATAGCCTTGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
50832496 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** **
50832523 AAATTACTAAAATACCC-CTGGCTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** *
50832550 AAATTACTAAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
50832577 AAATTATCAAAATACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
50832604 AAA-TATCGAAATACCC
1 AAATTACCGAAATACCC
50832620 CTGTAGGGTA
Statistics
Matches: 314, Mismatches: 67, Indels: 24
0.78 0.17 0.06
Matches are distributed among these distances:
25 4 0.01
26 42 0.13
27 265 0.84
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:50832651 original size:27 final size:27
Alignment explanation
Indices: 50832610--50832799 Score: 245
Period size: 27 Copynumber: 7.0 Consensus size: 27
50832600 TGTAAAATAT
50832610 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
50832637 CGCAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* **
50832664 TGAAATAATCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
50832691 TGAAATACCCCTGTAGGGCAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
50832718 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
50832745 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
50832772 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
50832799 C
1 C
50832800 ATTTTGCCCC
Statistics
Matches: 139, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:50833042 original size:25 final size:25
Alignment explanation
Indices: 50833001--50833069 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
50832991 GAGGAAGTGC
* *
50833001 AAAGGGCTATGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACCAA
* *
50833026 AAAGGGCTTTGCACCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTACCAA
50833051 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
50833070 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCAA
Found at i:50833338 original size:31 final size:31
Alignment explanation
Indices: 50833289--50833371 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
50833279 CGCTTACAGT
50833289 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
50833319 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
50833350 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
50833372 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:50835779 original size:27 final size:27
Alignment explanation
Indices: 50835735--50835803 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
50835725 GAAGTGTATT
* *
50835735 ATACCGGTGGCTTCGCCACATATACTG
1 ATACTGGTGGCTTTGCCACATATACTG
*
50835762 TTACTGGTGGCTTTGCCACATATACTG
1 ATACTGGTGGCTTTGCCACATATACTG
*
50835789 ATACTGGTAGCTTTG
1 ATACTGGTGGCTTTG
50835804 TTGCGATACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
ATACTGGTGGCTTTGCCACATATACTG
Found at i:50835819 original size:26 final size:26
Alignment explanation
Indices: 50835756--50835837 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
50835746 TTCGCCACAT
* ** *
50835756 ATACTGTTACTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTAGCTTTGCTGC-G
* *
50835783 ATACTGATACTGGTAGCTTTGTTGCG
1 ATACTGTTACTGGTAGCTTTGCTGCG
* * *
50835809 ATACTGTTACTAGCAGCCTTGCTGCG
1 ATACTGTTACTGGTAGCTTTGCTGCG
50835835 ATA
1 ATA
50835838 TTGGTGTGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
26 24 0.55
27 20 0.45
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGTAGCTTTGCTGCG
Found at i:50841065 original size:40 final size:40
Alignment explanation
Indices: 50841037--50841188 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
50841027 TTATAGTGAT
*
50841037 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * * * *
50841077 TCGCACGAATGCCTTCAGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
50841117 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * *
50841157 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGA
50841189 CACCATTCGA
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 65 0.71
41 26 0.28
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:50841079 original size:80 final size:80
Alignment explanation
Indices: 50841022--50841187 Score: 208
Period size: 80 Copynumber: 2.1 Consensus size: 80
50841012 TGGGACATTG
* * *
50841022 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAACTCGCACGAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTCGCACGAA
50841086 TGCCTTCAGGACTTAA
65 TGCCTTCAGGACTTAA
* * * * *
50841102 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAAC-TCGCACGAA
* * *
50841167 AGCCTTCGGGACTTAG
65 TGCCTTCAGGACTTAA
50841183 CCCGG
1 CCCGG
50841188 ACACCATTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 47 0.64
81 26 0.36
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTCGCACGAAT
GCCTTCAGGACTTAA
Found at i:50849142 original size:80 final size:81
Alignment explanation
Indices: 50849057--50849222 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 81
50849047 CGGGACATTG
* * * * *
50849057 CCCGGTTATAGTGATTCGTACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAA
*
50849120 ATGCCTTCAGGACTTAA
65 AAGCCTTCAGGACTTAA
* * *
50849137 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAA
* *
50849202 AGCCTTCGGGACTTAG
66 AGCCTTCAGGACTTAA
50849218 CCCGG
1 CCCGG
50849223 ACACCATTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 46 0.63
81 27 0.37
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (81 bp):
CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAA
AGCCTTCAGGACTTAA
Found at i:50849207 original size:41 final size:39
Alignment explanation
Indices: 50849044--50849223 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 39
50849034 GCTTGATTGT
* * * * *
50849044 CTTCGGGACATTGCCCGG-TTATAGTGATTCGTACAATTGC
1 CTTCGGGA-ATTACCCGGATT-TAGTAACTCGCACAAATGC
50849084 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTA-CCCGGATTTAGTAACTCGCACAAATGC
* * * *
50849124 CTTCAGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATT-ACCCGGATTTAGTAACTCGCACAAATGC
* * *
50849164 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATT-ACCCGGATTTAGTAAC-TCGCACAAATGC
*
50849205 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTA-CCCGGA
50849224 CACCATTCGA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 85 0.73
41 29 0.25
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTCGGGAATTACCCGGATTTAGTAACTCGCACAAATGC
Found at i:50852963 original size:119 final size:119
Alignment explanation
Indices: 50852778--50853210 Score: 713
Period size: 119 Copynumber: 3.6 Consensus size: 119
50852768 ACATTTATGT
* * *
50852778 TGAAGCAGATCCAAGATGATTTGGTATTCTTATGTCTACAAGAAACAAATCAAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
* * *
50852843 TTTGACTCTCAGACATTCTCAAAGATAACAGATCTAACCTTCAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* *
50852897 TGAAACAGAGCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
50852962 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* *
50853016 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
* **
50853081 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATGT
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* * * *
50853135 TGAAGCAGATCCATGATGATTTGGTATTCTTGTATTTACAAGGAACAAATCGAGGACATAACAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
50853200 TTTGACTCTCA
66 TTTGACTCTCA
50853211 AATTTTCTGA
Statistics
Matches: 295, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 295 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (119 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
Found at i:50853293 original size:83 final size:83
Alignment explanation
Indices: 50853170--50853415 Score: 350
Period size: 84 Copynumber: 3.0 Consensus size: 83
50853160 ATTCTTGTAT
** * *
50853170 TTACAAGGAACAAATCGAGGACATAACAGATTTGACTCTCAAATTTTCTGAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATTTTCTCAAACAGACTCAAGAT
50853235 GGTTTGGCATCCTTGTGC
66 GGTTTGGCATCCTTGTGC
* *
50853253 TTACAAGGAACAAATCGAGGACATTGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATTTTCTCAAACAGACTCAAGAT
* *
50853318 GGTTTAAGCACCCTTGTGC
66 GGTTT-GGCATCCTTGTGC
* * *
50853337 TTACAAGGAACAAGTCGAGGACCTTGCAGATATGACTCTCAAATGTTT-TCAGACAGACTCAAGA
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT-TTTCTCAAACAGACTCAAGA
* *
50853401 TGATTTGACATCCTT
65 TGGTTTGGCATCCTT
50853416 ACAAATAGAA
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
83 70 0.49
84 72 0.50
85 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (83 bp):
TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATTTTCTCAAACAGACTCAAGAT
GGTTTGGCATCCTTGTGC
Found at i:50854922 original size:16 final size:17
Alignment explanation
Indices: 50854901--50854934 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50854891 TTATATTATA
50854901 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
50854917 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
50854934 T
1 T
50854935 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:50854932 original size:17 final size:16
Alignment explanation
Indices: 50854901--50854989 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 16
50854891 TTATATTATA
*
50854901 TATTATAAAATTATTT
1 TATTATAATATTATTT
50854917 TATTATAAGTATTATTTT
1 TATTATAA-TATTA-TTT
50854935 TAATTAT-ATATTATTAT
1 T-ATTATAATATTATT-T
50854952 TACTTATTATATATTATTTT
1 TA-TTA-TA-ATATTA-TTT
*
50854972 TCTTA-AATTATTATTT
1 TATTATAA-TATTATTT
50854988 TA
1 TA
50854990 CATCTCTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
16 16 0.27
17 20 0.33
18 6 0.10
19 8 0.13
20 8 0.13
21 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTATAATATTATTT
Found at i:50854951 original size:20 final size:20
Alignment explanation
Indices: 50854889--50854986 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 20
50854879 CTAATTTTAC
*
50854889 TTTTATATTATATATTATAAAAT
1 TTTTA-ATTATATATTAT--TAT
* *
50854912 TATTTTATTATA-AGTATTAT
1 T-TTTAATTATATATTATTAT
50854932 TTTTAATTATATATTATTAT
1 TTTTAATTATATATTATTAT
*
50854952 TACTT-ATTATATATTATT-T
1 T-TTTAATTATATATTATTAT
50854971 TTCTTAAATTAT-TATT
1 TT-TT-AATTATATATT
50854987 TTACATCTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 13 0.21
20 28 0.45
21 7 0.11
22 4 0.06
23 7 0.11
24 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTAATTATATATTATTAT
Found at i:50854968 original size:54 final size:54
Alignment explanation
Indices: 50854850--50854988 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 54
50854840 TATTATTCCA
** * * *
50854850 TATATATATATTTTATTATTCGT-TTATTTCTAATTTTACTTTTATATTATATAT
1 TATATAT-TATTTTATTATAAGTATTATTTTTAATTATACTATTATATTATATAT
*
50854904 TATAAAATTATTTTATTATAAGTATTATTTTTAATTATA-TATTATTATTACT-TAT
1 TAT-ATATTATTTTATTATAAGTATTATTTTTAATTATACTATTA-TATTA-TATAT
* *
50854959 TATATATTATTTTTCTTA-AATTATTATTTT
1 TATATATTA-TTTTATTATAAGTATTATTTT
50854989 ACATCTCTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
54 36 0.51
55 34 0.48
56 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (54 bp):
TATATATTATTTTATTATAAGTATTATTTTTAATTATACTATTATATTATATAT
Found at i:50854985 original size:44 final size:44
Alignment explanation
Indices: 50854916--50855051 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 44
50854906 TAAAATTATT
*
50854916 TTATTATA-AGTATTAT-TTTTAAT-TA-TATA-TTATTATTAC
1 TTATTATATATTATTATATTTTAATATATTATATTTATTATTAC
*
50854955 TTATTATATATTATT-T-TTCTTAA-ATTATTAT-TTTA-CATCT-C
1 TTATTATATATTATTATATT-TTAATA-TATTATATTTATTAT-TAC
*
50854996 TTA-TATATATTATTATATTTTCATATATTATATTTATTAATTAC
1 TTATTATATATTATTATATTTTAATATATTATATTTATT-ATTAC
50855040 TTATATATATAT
1 TTAT-TATATAT
50855052 ATTGTTACTT
Statistics
Matches: 77, Mismatches: 4, Indels: 25
0.73 0.04 0.24
Matches are distributed among these distances:
39 11 0.14
40 20 0.26
41 18 0.23
42 14 0.18
43 1 0.01
44 6 0.08
46 7 0.09
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (44 bp):
TTATTATATATTATTATATTTTAATATATTATATTTATTATTAC
Found at i:50854986 original size:3 final size:3
Alignment explanation
Indices: 50854910--50854969 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
50854900 ATATTATAAA
* * *
50854910 ATT ATT -TT ATT ATA AGT ATT ATT TTT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
50854957 ATT ATAT ATT ATT
1 ATT AT-T ATT ATT
50854970 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 33 0.72
4 11 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:50855739 original size:16 final size:17
Alignment explanation
Indices: 50855718--50855751 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50855708 TTTTTTTTTG
*
50855718 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
50855734 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
50855751 C
1 C
50855752 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:50859135 original size:19 final size:19
Alignment explanation
Indices: 50859111--50859150 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
50859101 GATGCCTTTG
*
50859111 TTACATTCATA-CATTTGCA
1 TTACA-TCATATCATATGCA
50859130 TTACATCATATCATATGCA
1 TTACATCATATCATATGCA
50859149 TT
1 TT
50859151 CAAGGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (19 bp):
TTACATCATATCATATGCA
Found at i:50861340 original size:40 final size:41
Alignment explanation
Indices: 50861255--50861350 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
50861245 AAGTCGGTAT
* **
50861255 CGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCTACT
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
*
50861295 CGCACACTTAGTGCCATT-TATAGCCGAAGCTAT-ATTAAA
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
50861334 CAGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
50861351 ATCATAGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.06
40 45 0.90
41 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (41 bp):
CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
Found at i:50867658 original size:30 final size:29
Alignment explanation
Indices: 50867594--50867667 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
50867584 TATAGTGAAT
* *
50867594 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTCAAC
* *
50867623 TCGCACACTTAGTGCTGTACAATTTT-ATAC
1 CCGCACACTTAGTGCTATA-AATTTTCA-AC
50867653 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50867668 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTCAAC
Found at i:50870037 original size:170 final size:170
Alignment explanation
Indices: 50869749--50870085 Score: 575
Period size: 170 Copynumber: 2.0 Consensus size: 170
50869739 AGACTCCCCC
* * *
50869749 TAATGGCAACATCAGATTATATCTTTGAGTCGACACATTTCAATCTTGTTTCATAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* *
50869814 TGTTGAAGTTGGCAATTCCTTGGTAAAAGGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
66 TGTTGAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
50869879 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
131 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
* *
50869919 TAATGCCAACATCAGATTATATCTTTGATTCAACACATTCCAATCTTGTTTCGTAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* * *
50869984 TGTTGAAGTTGGCAATGCCTTGGTAAAAAGATTTGCTAAATTATCATTAGAACGAATTTTTTGAA
66 TGTTGAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
*
50870049 CTTCTATGTCACCTTTCTTCTCAAGATCGTGAGTGAA
131 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAA
50870086 GAATAATTTT
Statistics
Matches: 156, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
170 156 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (170 bp):
TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
TGTTGAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
Found at i:50871544 original size:27 final size:28
Alignment explanation
Indices: 50871514--50871583 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
50871504 ATAGTGAGTC
*
50871514 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
50871541 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
50871569 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50871584 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:50875573 original size:12 final size:13
Alignment explanation
Indices: 50875545--50875580 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
50875535 AAGTATATAA
*
50875545 TTATTTTTTTTTG
1 TTATTTTATTTTG
50875558 TTATTTTATTTT-
1 TTATTTTATTTTG
50875570 TTATTTTATTT
1 TTATTTTATTT
50875581 CTCTTGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTATTTTATTTTG
Found at i:50880621 original size:25 final size:26
Alignment explanation
Indices: 50880593--50880649 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
50880583 ATTTTTTTAC
50880593 ATTTTA-CATTTTGAATTTTTTGAAT
1 ATTTTATCATTTTGAATTTTTTGAAT
* * *
50880618 ATTTTATGATTTTTATTTTTTTGAAT
1 ATTTTATCATTTTGAATTTTTTGAAT
50880644 -TTTTAT
1 ATTTTAT
50880650 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.67
Consensus pattern (26 bp):
ATTTTATCATTTTGAATTTTTTGAAT
Found at i:50880655 original size:26 final size:26
Alignment explanation
Indices: 50880608--50880662 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
50880598 ACATTTTGAA
50880608 TTTTTTGAATATTTTATGATTTTTAT
1 TTTTTTGAATATTTTATGATTTTTAT
*
50880634 TTTTTTGAAT-TTTTATATATTTTTAT
1 TTTTTTGAATATTTTAT-GATTTTTAT
50880660 TTT
1 TTT
50880663 CTTTTATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTTTGAATATTTTATGATTTTTAT
Found at i:50880658 original size:35 final size:36
Alignment explanation
Indices: 50880561--50880659 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 36
50880551 TTTTTTTACG
*
50880561 TATTGTTTTTGAATTTTTATATATTTTT-TTACATTT
1 TATT-TTTTTGAATTTTTATATATTTTTATGACATTT
** *
50880597 TA-CATTTTGAATTTTT-TGA-ATATTTTATGA-TTTT
1 TATTTTTTTGAATTTTTAT-ATAT-TTTTATGACATTT
50880631 TATTTTTTTGAATTTTTATATATTTTTAT
1 TATTTTTTTGAATTTTTATATATTTTTAT
50880660 TTTCTTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
33 3 0.06
34 22 0.43
35 21 0.41
36 5 0.10
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (36 bp):
TATTTTTTTGAATTTTTATATATTTTTATGACATTT
Found at i:50880661 original size:16 final size:17
Alignment explanation
Indices: 50880616--50880662 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
50880606 AATTTTTTGA
50880616 ATATTTTATGATTTTTAT
1 ATATTTT-TGATTTTTAT
50880634 -T-TTTTTGAATTTTTAT
1 ATATTTTTG-ATTTTTAT
50880650 ATATTTTT-ATTTT
1 ATATTTTTGATTTT
50880663 CTTTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 2 0.08
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
ATATTTTTGATTTTTAT
Found at i:50880667 original size:21 final size:21
Alignment explanation
Indices: 50880644--50880683 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
50880634 TTTTTTGAAT
50880644 TTTTAT-ATATTTT-TATTTTC
1 TTTTATGA-ATTTTGTATTTTC
50880664 TTTTATGAATTTTGTATTTT
1 TTTTATGAATTTTGTATTTT
50880684 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATGAATTTTGTATTTTC
Found at i:50883961 original size:2 final size:2
Alignment explanation
Indices: 50883956--50883988 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50883946 CATCCTTTTA
50883956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50883989 ATACTCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50884031 original size:26 final size:23
Alignment explanation
Indices: 50884001--50884048 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
50883991 ACTCCATATT
50884001 ATGCACATGTATATTAATATTATGTC
1 ATGCACAT-TATA-T-ATATTATGTC
*
50884027 ATGCATATTATATATATTATGT
1 ATGCACATTATATATATTATGT
50884049 ACATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 4 0.19
26 7 0.33
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (23 bp):
ATGCACATTATATATATTATGTC
Found at i:50884034 original size:20 final size:22
Alignment explanation
Indices: 50883996--50884041 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
50883986 ATAATACTCC
*
50883996 ATATTATGCACATGTATATTA-
1 ATATTATGCACATGCATATTAT
*
50884017 ATATTATG-TCATGCATATTAT
1 ATATTATGCACATGCATATTAT
50884038 ATAT
1 ATAT
50884042 ATTATGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
ATATTATGCACATGCATATTAT
Found at i:50884221 original size:25 final size:26
Alignment explanation
Indices: 50884188--50884242 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
50884178 TATATATATA
50884188 TTTTAATACCATATG-TATTATTATCG
1 TTTTAATACCAT-TGCTATTATTATCG
* *
50884214 TTTT-ATACTATTGCTATTATTATTG
1 TTTTAATACCATTGCTATTATTATCG
50884239 TTTT
1 TTTT
50884243 CGTCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 20 0.77
26 4 0.15
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTAATACCATTGCTATTATTATCG
Found at i:50886184 original size:19 final size:18
Alignment explanation
Indices: 50886127--50886184 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
50886117 ATATATATAA
*
50886127 ATTTTTTAAAATATTATT
1 ATTTTTTTAAATATTATT
50886145 ATTTTTTATGAAAT-TGT-TT
1 ATTTTTT-T-AAATAT-TATT
50886164 ATTTTTTTAAATATTAATT
1 ATTTTTTTAAATATT-ATT
50886183 AT
1 AT
50886185 CAATTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
17 5 0.15
18 9 0.27
19 14 0.42
20 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTTTTAAATATTATT
Found at i:50890158 original size:23 final size:23
Alignment explanation
Indices: 50890128--50890175 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
50890118 TGATAGGCGA
50890128 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
50890151 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
50890174 TT
1 TT
50890176 TTATTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (23 bp):
TTACTAATTAAATTATATAGGAT
Found at i:50903084 original size:17 final size:17
Alignment explanation
Indices: 50903025--50903084 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
50903015 TAATAAATTT
50903025 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
50903044 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
50903058 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
50903076 AAAATATAA
1 AAAATATAA
50903085 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:50903601 original size:18 final size:17
Alignment explanation
Indices: 50903565--50903697 Score: 185
Period size: 18 Copynumber: 7.5 Consensus size: 17
50903555 AATCATATCT
50903565 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
50903584 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
50903602 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
50903619 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
50903637 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
50903654 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
50903672 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
50903689 TCTAAGATT
1 TCTAAGATT
50903698 ACATATCATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:50903623 original size:35 final size:35
Alignment explanation
Indices: 50903565--50903706 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
50903555 AATCATATCT
50903565 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
50903602 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
50903637 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
50903672 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
50903707 TGAAGATTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 87 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:50906415 original size:28 final size:28
Alignment explanation
Indices: 50906375--50906451 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
50906365 GCGGGTTCAA
* *
50906375 ATTATACAGCACTAAGTGTGCAAGTTTG
1 ATTATATAGCACTAAGTGTGCAAGTTCG
*
50906403 ATTATATAGCACTAAGTGTGCGAGTTCG
1 ATTATATAGCACTAAGTGTGCAAGTTCG
*
50906431 ACTAT-TAAGCACTAAGTGTGC
1 ATTATAT-AGCACTAAGTGTGC
50906452 GGGCTTATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (28 bp):
ATTATATAGCACTAAGTGTGCAAGTTCG
Found at i:50906452 original size:28 final size:28
Alignment explanation
Indices: 50906354--50906452 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
50906344 TCACAAATTG
* * * * *
50906354 GCACTATGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCGAGTTC-GACTATATA
* * *
50906383 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGACTATATA
50906411 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGACTATAT-A
50906439 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50906453 GGCTTATTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.73
29 15 0.25
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATATA
Found at i:50914882 original size:46 final size:46
Alignment explanation
Indices: 50914829--50915011 Score: 217
Period size: 46 Copynumber: 3.8 Consensus size: 46
50914819 TATTTGGGCA
50914829 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50914875 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAT-GATGTCCGAACTTAGGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--CG-----A-GCG
*
50914927 ATCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 -TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
50914975 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50915012 GCGGGTTACA
Statistics
Matches: 118, Mismatches: 7, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
44 4 0.03
45 3 0.03
46 62 0.53
47 4 0.03
48 2 0.02
49 1 0.01
51 1 0.01
52 3 0.03
53 6 0.05
54 25 0.21
55 3 0.03
56 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50916879 original size:28 final size:28
Alignment explanation
Indices: 50916839--50916916 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
50916829 GCGGGTTCAA
*
50916839 ATTATACAGCACTAAGTGTGCAAGTTTG
1 ATTATATAGCACTAAGTGTGCAAGTTTG
*
50916867 ATTATATAGCACTAAGTGTGCGAGTTTG
1 ATTATATAGCACTAAGTGTGCAAGTTTG
*
50916895 ACTAT-TAAGCACTAAGTGTGCA
1 ATTATAT-AGCACTAAGTGTGCA
50916917 GGCTTATTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTATATAGCACTAAGTGTGCAAGTTTG
Found at i:50931616 original size:14 final size:14
Alignment explanation
Indices: 50931593--50931622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50931583 TTGAAAATAT
50931593 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
50931607 GTTGATTTGGATTG
1 GTTGAATTGGATTG
50931621 GT
1 GT
50931623 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:50944691 original size:16 final size:17
Alignment explanation
Indices: 50944660--50944693 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
50944650 CTATAAATTT
50944660 ATATTTAATTATGTTATA
1 ATATTTAA-TATGTTATA
50944678 ATATTTAA-ATGTTATA
1 ATATTTAATATGTTATA
50944694 TGCATGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATTTAATATGTTATA
Found at i:50947471 original size:21 final size:22
Alignment explanation
Indices: 50947447--50947493 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
50947437 AACTGTACTG
50947447 TACTAGC-AGCTCTGCTACAAC
1 TACTAGCTAGCTCTGCTACAAC
* * *
50947468 TACT-GCTAGCTTTGCTGCAAT
1 TACTAGCTAGCTCTGCTACAAC
50947489 TACTA
1 TACTA
50947494 AATAGTGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (22 bp):
TACTAGCTAGCTCTGCTACAAC
Found at i:50961402 original size:40 final size:39
Alignment explanation
Indices: 50961358--50961510 Score: 159
Period size: 40 Copynumber: 3.9 Consensus size: 39
50961348 GTTCAAAACA
* ** * *
50961358 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGAC-TAGCCCGGATATCATAACTCGCACAATTG
* *
50961398 CCTTCGGGACTTGACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTAG-CCCGGATATCATAACTCGCACAATTG
*
50961438 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGAC-TAGCCCGGATATCATAACTCGCACAATTG
* *
50961477 CCTTC-GG-CTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGAC-TAGCCCGGATATCATAACTCGCACA
50961511 TTCATTCACA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 26 0.27
39 32 0.33
40 40 0.41
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTAGCCCGGATATCATAACTCGCACAATTG
Found at i:50961495 original size:38 final size:39
Alignment explanation
Indices: 50961388--50961510 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
50961378 TATGGTAACC
*
50961388 CGCACAAATGCCTTCGGGACTT-GACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAG-CCCGGATATCACAACT
* *
50961428 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50961467 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50961505 CGCACA
1 CGCACA
50961511 TTCATTCACA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 26 0.34
39 32 0.42
40 18 0.24
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50969106 original size:40 final size:40
Alignment explanation
Indices: 50969048--50969201 Score: 168
Period size: 39 Copynumber: 3.9 Consensus size: 40
50969038 GTTCAAAACA
** * ** * *
50969048 CCTTCGGGAGGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* * *
50969088 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTA
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
*
50969128 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* * *
50969167 CCTTCGGG-TTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACA
50969202 TTCATTCACA
Statistics
Matches: 96, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 58 0.60
40 38 0.40
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:50969159 original size:39 final size:39
Alignment explanation
Indices: 50969078--50969201 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
50969068 TATGGTAACC
* *
50969078 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
50969118 CGCACAATTACCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
50969157 CGCACAATTGCCTTCGGGTTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50969196 CGCACA
1 CGCACA
50969202 TTCATTCACA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 58 0.78
40 16 0.22
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50978593 original size:28 final size:26
Alignment explanation
Indices: 50978542--50978597 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
50978532 TAACGCCAAG
50978542 ATAATATATATTTTAAAAATAAAACA
1 ATAATATATATTTTAAAAATAAAACA
*
50978568 ATAATATATATTTTAAAAATAAAAAA
1 ATAATATATATTTTAAAAATAAAACA
50978594 ATAA
1 ATAA
50978598 ACCAATAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAATATATATTTTAAAAATAAAACA
Found at i:50984165 original size:18 final size:17
Alignment explanation
Indices: 50984137--50984188 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
50984127 TTGTATAATC
*
50984137 ATTTTAAGATATTATAT
1 ATTTCAAGATATTATAT
* *
50984154 ATTTACAAGATATTTTAA
1 ATTT-CAAGATATTATAT
50984172 ATTTC-AGA-ATTATAT
1 ATTTCAAGATATTATAT
50984187 AT
1 AT
50984189 ACACGCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 3 0.10
17 5 0.17
18 14 0.48
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTCAAGATATTATAT
Found at i:50984616 original size:18 final size:18
Alignment explanation
Indices: 50984593--50984630 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
50984583 ATACTCAATA
*
50984593 TAATATCAATAAAGTCAT
1 TAATATCAATAAAGCCAT
50984611 TAATATCAATAAAGCCAT
1 TAATATCAATAAAGCCAT
50984629 TA
1 TA
50984631 GAACACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (18 bp):
TAATATCAATAAAGCCAT
Found at i:50987919 original size:41 final size:41
Alignment explanation
Indices: 50987874--50987991 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
50987864 TGAAAGATAA
50987874 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50987915 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50987945 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50987986 ATGTAG
1 ATGTAG
50987992 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:50987930 original size:71 final size:71
Alignment explanation
Indices: 50987842--50988005 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50987832 GAGATGTATC
50987842 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50987907 AGGACA
66 AGGACA
50987913 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50987978 AGGACA
66 AGGACA
50987984 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50988006 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50995124 original size:48 final size:48
Alignment explanation
Indices: 50995053--50995279 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 48
50995043 GTTATGTATG
*
50995053 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
**
50995101 ATTTCATGTAAGACCATAG-CTGGG-C-T---ATTGGCATCGATATG-A
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTA
* * * * ***
50995143 GATCCAATGTAAGACCATGTCTAGGACATGACATTGGCATCGATCTACG
1 -ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* * * *
50995192 ATCCCACGTAAGACCATGTCTGGGACATAGCATTGGAATTGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
** ** *
50995240 ATCCCATGTAAGACCAAATCCAGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
50995280 CTACCATAAG
Statistics
Matches: 140, Mismatches: 30, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.01
43 32 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.72
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
Found at i:50995305 original size:38 final size:38
Alignment explanation
Indices: 50995248--50995324 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
50995238 TAATCCCATG
*
50995248 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
1 TAAGACCAAATCCAGGATATGGAATTGGCATCCTACCA
50995286 TAAGACCAAATCC-GAGATATGGAATTGGCATCCTACCA
1 TAAGACCAAATCCAG-GATATGGAATTGGCATCCTACCA
50995324 T
1 T
50995325 GTGTATGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (38 bp):
TAAGACCAAATCCAGGATATGGAATTGGCATCCTACCA
Found at i:50998078 original size:26 final size:26
Alignment explanation
Indices: 50998049--50998100 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
50998039 CATGTTGTAG
50998049 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
50998075 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
50998101 GTGTATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (26 bp):
TATGCTCTTGTTTAACCTTTGATATT
Found at i:51000159 original size:29 final size:30
Alignment explanation
Indices: 51000071--51000203 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
51000061 GTGACGAGAT
*
51000071 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTAGAAATATA
51000100 TGGCACTAAGTGTGC-ATGCTAGAAATATA
1 TGGCACTAAGTGTGCGATGCTAGAAATATA
* ***
51000129 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTAGAAATATA
* * **
51000158 TGGCACTATGTGTGCGA-GCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTAGAAAT-ATA
51000187 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
51000204 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.02
29 88 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTAGAAATATA
Found at i:51000241 original size:2 final size:2
Alignment explanation
Indices: 51000236--51000270 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
51000226 GTGCGTACTC
51000236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51000271 CTCCGATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51003065 original size:59 final size:60
Alignment explanation
Indices: 51002988--51003131 Score: 168
Period size: 59 Copynumber: 2.4 Consensus size: 60
51002978 AATTTACCTA
* * * *
51002988 CATTACTGTTAGCTTGTCCATAATACTGACAGCTT-TTCTGCAAT-CT-GAGAGTTTATATG
1 CATTACTGGTGGCTTGTCCACAATACTGACAGCTTATT-TGCAATACTGGAGACTTT-TATG
* * *
51003047 CATTACTGGTGGCTTGTCCACAATACTGATAGCTTATTTGCAATACTGGTGACTTTTTTG
1 CATTACTGGTGGCTTGTCCACAATACTGACAGCTTATTTGCAATACTGGAGACTTTTATG
* *
51003107 CAATATTGGTGGCTTGTCCACAATA
1 CATTACTGGTGGCTTGTCCACAATA
51003132 TTGATGTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 37 0.51
60 30 0.41
61 6 0.08
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (60 bp):
CATTACTGGTGGCTTGTCCACAATACTGACAGCTTATTTGCAATACTGGAGACTTTTATG
Found at i:51003131 original size:60 final size:59
Alignment explanation
Indices: 51002999--51003136 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
51002989 ATTACTGTTA
* * * *
51002999 GCTTGTCCATAATACTGACAGCTTTTCTGCAATCTGAGAGTTTATATGCATTACTGGTG
1 GCTTGTCCACAATACTGATAGCTTTTCTGCAATCTGAGACTTTATATGCAATACTGGTG
* * *
51003058 GCTTGTCCACAATACTGATAGCTTATT-TGCAATACTGGTGACTTT-TTTGCAATATTGGTG
1 GCTTGTCCACAATACTGATAGCTT-TTCTGCAAT-CT-GAGACTTTATATGCAATACTGGTG
*
51003118 GCTTGTCCACAATATTGAT
1 GCTTGTCCACAATACTGAT
51003137 GTGTTATTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 28 0.41
60 34 0.50
61 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (59 bp):
GCTTGTCCACAATACTGATAGCTTTTCTGCAATCTGAGACTTTATATGCAATACTGGTG
Found at i:51005490 original size:22 final size:22
Alignment explanation
Indices: 51005458--51005513 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
51005448 ACTACCATCA
*
51005458 GTGTCGTGACATAGGTAAGAGG
1 GTGTCGCGACATAGGTAAGAGG
51005480 GTGTCGCGACATAGGTAAGAGG
1 GTGTCGCGACATAGGTAAGAGG
51005502 GTGTCGCGACAT
1 GTGTCGCGACAT
51005514 TGCCTTCACG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.21
Consensus pattern (22 bp):
GTGTCGCGACATAGGTAAGAGG
Found at i:51008991 original size:28 final size:27
Alignment explanation
Indices: 51008928--51008997 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
51008918 ATAGTGAGTC
51008928 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
51008955 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
51008983 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51008998 GTTCAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:51014528 original size:35 final size:35
Alignment explanation
Indices: 51014489--51014559 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
51014479 GTTATGTGAA
51014489 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
51014524 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
51014559 T
1 T
51014560 TATAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
Found at i:51015480 original size:2 final size:2
Alignment explanation
Indices: 51015473--51015501 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51015463 TCATGACATG
51015473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51015502 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51030207 original size:40 final size:40
Alignment explanation
Indices: 51030099--51030308 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51030089 CGGGATTTAA
* * * * *
51030099 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
51030139 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51030179 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51030219 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51030259 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51030299 CCGGATATAT
1 CCGGATATAT
51030309 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:51038343 original size:40 final size:40
Alignment explanation
Indices: 51038235--51038444 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51038225 CGGGATTTAA
* * * * *
51038235 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
51038275 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51038315 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51038355 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51038395 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
51038435 CCGGATATAT
1 CCGGATATAT
51038445 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:51045925 original size:40 final size:40
Alignment explanation
Indices: 51045797--51045927 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
51045787 TATGCTGGAA
* * * *
51045797 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
51045837 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
51045877 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
51045917 ATTATATCCGG
1 ATTATATCCGG
51045928 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:51048218 original size:34 final size:34
Alignment explanation
Indices: 51048173--51048240 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
51048163 TGGTTGATGC
* *
51048173 CTTCATTAGAAAGGCAATGTTTAAATTGAGGGCT
1 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
51048207 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
1 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
51048241 ATGTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (34 bp):
CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
Found at i:51059814 original size:28 final size:28
Alignment explanation
Indices: 51059761--51059828 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
51059751 GCGTAGATCA
51059761 CGAAATTACCCCT-AAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51059788 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51059816 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51059829 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51062547 original size:17 final size:19
Alignment explanation
Indices: 51062505--51062548 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
51062495 ATGAAATTTT
*
51062505 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
51062524 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
51062542 AA-TATTA
1 AATTATTA
51062549 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:51064398 original size:28 final size:28
Alignment explanation
Indices: 51064366--51064434 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51064356 GCGTAGATCA
51064366 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51064394 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51064422 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51064435 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51070302 original size:44 final size:43
Alignment explanation
Indices: 51070176--51070302 Score: 109
Period size: 44 Copynumber: 2.9 Consensus size: 43
51070166 GTAATTCAGT
* * * *
51070176 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA-AA--ACAG
1 ATCGATGCC-GTGTCCCAGACACGGTCTTATACGATAATTTCAA
* ** *
51070217 ATACGATGCCGATGTCTCAGACTTGGTCTTACAC-ATAAATTTCAA
1 AT-CGATGCCG-TGTCCCAGACACGGTCTTATACGAT-AATTTCAA
51070262 ATCGATGCCAGTGTCCCAGACACGGTCTTATACGATAATTT
1 ATCGATGCC-GTGTCCCAGACACGGTCTTATACGATAATTT
51070303 AGATCAATAC
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.04
42 25 0.37
43 2 0.03
44 30 0.45
45 7 0.10
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
ATCGATGCCGTGTCCCAGACACGGTCTTATACGATAATTTCAA
Found at i:51072827 original size:45 final size:45
Alignment explanation
Indices: 51072747--51072868 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
51072737 ATCCATAATG
* * * * *
51072747 AACTCAGACCAACTCAACGAGCTCGGA-TGCTTCACATATATCATA
1 AACTCGGACCAACTCAACAAGCTCAGATTTC-TCACATATATCACA
* *
51072792 AACTTGGACCAACTCAACAAGTTCAGATTTCTCACATATATCACA
1 AACTCGGACCAACTCAACAAGCTCAGATTTCTCACATATATCACA
* *
51072837 AACTCGGACTAACTCAACGAGCTCAGATTTCT
1 AACTCGGACCAACTCAACAAGCTCAGATTTCT
51072869 AAATTCCTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 63 0.97
46 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (45 bp):
AACTCGGACCAACTCAACAAGCTCAGATTTCTCACATATATCACA
Found at i:51075538 original size:49 final size:48
Alignment explanation
Indices: 51075445--51075611 Score: 158
Period size: 49 Copynumber: 3.5 Consensus size: 48
51075435 ATCATGATTA
* * * *
51075445 ATGAGAT-CCGTGTAAGACCGTGTCGAGGACATGGCATTGACATCCGAG
1 ATGAGATCCCGTGTAAGACCATGTCG-GGACATGGCATCGGCATCCAAG
* *
51075493 ATGAGATCCCGTGTAAAAACATGTCCGGGACATGGCATCGGCATCCAAG
1 ATGAGATCCCGTGTAAGACCATGT-CGGGACATGGCATCGGCATCCAAG
* * ** * *
51075542 ATAAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT-CAAT
1 ATGAGATCCCGTGTAAGACCATG-TCGGGACATGGCATCGGCATCCAAG
* * *
51075590 ATGTGATCCCATATAAGACCAT
1 ATGAGATCCCGTGTAAGACCAT
51075612 ATCAAGGATA
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
48 25 0.26
49 67 0.71
50 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (48 bp):
ATGAGATCCCGTGTAAGACCATGTCGGGACATGGCATCGGCATCCAAG
Found at i:51075634 original size:48 final size:48
Alignment explanation
Indices: 51075573--51075676 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 48
51075563 TGTTTGGGAC
* *
51075573 ATGGCATCGGCATCAATATGTGATCCCATATAAGACCATATCAAGGAT
1 ATGGCATCAGCATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
* ** ** * **
51075621 ATGGCTTCAGCATCGTTAAGTGATTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGCATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
51075669 ATGGCATC
1 ATGGCATC
51075677 GATATGCGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (48 bp):
ATGGCATCAGCATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
Found at i:51080459 original size:40 final size:40
Alignment explanation
Indices: 51080414--51080579 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
51080404 CGGAATATAA
51080414 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51080454 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51080494 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51080533 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51080572 CCGGATAT
1 CCGGATAT
51080580 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51091009 original size:40 final size:40
Alignment explanation
Indices: 51090964--51091129 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
51090954 CGGAATATAA
51090964 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51091004 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51091044 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51091083 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51091122 CCGGATAT
1 CCGGATAT
51091130 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51098741 original size:48 final size:49
Alignment explanation
Indices: 51098640--51098777 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
51098630 ACCATGGTTT
*
51098640 ATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGACATTCAAG
1 ATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGACATCCAAG
*
51098689 ATGAGATCCCGTGTAAGACCATGTC-CGGACATGGCATC-AGCATCCGAA-
1 ATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGA-CATCC-AAG
* ** *
51098737 ATGAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 ATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGA
51098778 TGTTGATATG
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
47 1 0.01
48 38 0.48
49 39 0.49
50 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (49 bp):
ATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGACATCCAAG
Found at i:51098850 original size:48 final size:49
Alignment explanation
Indices: 51098639--51098854 Score: 183
Period size: 48 Copynumber: 4.5 Consensus size: 49
51098629 CACCATGGTT
* *
51098639 TATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGACATTCAA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAA
* *
51098688 GATGAGATCCCGTGTAAGACCATGTC-CGGACATGGCATC-AGCATCCGAA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGA-CATCC-AA
* ** ** **
51098737 -ATGAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGATGT-TGA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAA
** ** * *
51098784 TATG-TTTACTAGAGTAAGACCATGTCTGGGACATGGCATCGGCA-CCAA
1 TATGAGAT-CCCGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAA
* * *
51098832 TATGTGATCCCTTATAAGACCAT
1 TATGAGATCCCGTGTAAGACCAT
51098855 ATCAGGGATA
Statistics
Matches: 132, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
47 2 0.02
48 88 0.67
49 41 0.31
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (49 bp):
TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAA
Found at i:51100643 original size:78 final size:82
Alignment explanation
Indices: 51100513--51100696 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 82
51100503 ACGACTCGCT
** * *
51100513 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
51100576 GGGTTTAGTAAC-T-GCA
65 GGATATAGTAACTTAGCA
* **
51100592 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
51100655 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
51100672 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51100697 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.03
78 43 0.48
79 26 0.29
80 18 0.20
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:51100696 original size:40 final size:39
Alignment explanation
Indices: 51100506--51100696 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
51100496 GGATATAACG
* ** * *
51100506 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51100546 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
51100586 ACT-GCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51100624 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
51100664 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
51100697 CATCATTCGA
Statistics
Matches: 121, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
38 22 0.18
39 23 0.19
40 66 0.55
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:51108616 original size:79 final size:81
Alignment explanation
Indices: 51108515--51108699 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
51108505 ACGACTCGCT
** * *
51108515 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
51108578 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
51108595 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
51108659 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
51108675 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51108700 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:51108699 original size:40 final size:39
Alignment explanation
Indices: 51108508--51108699 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
51108498 GGATATAACG
* ** * *
51108508 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51108548 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51108588 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51108627 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
51108667 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
51108700 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:51116621 original size:79 final size:81
Alignment explanation
Indices: 51116520--51116704 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
51116510 ACGACTCGCT
** * *
51116520 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
51116583 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
51116600 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
51116664 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
51116680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51116705 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:51116704 original size:40 final size:39
Alignment explanation
Indices: 51116513--51116704 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
51116503 GGATATAACG
* ** * *
51116513 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51116553 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51116593 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51116632 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
51116672 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
51116705 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:51124879 original size:31 final size:31
Alignment explanation
Indices: 51124844--51124941 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
51124834 GCATCCACAA
* *
51124844 AGATAATTCTCTAGGACAGTAAACACAGAAG
1 AGATAATTCTCTAGGATAGTAAACATAGAAG
* ** * * *
51124875 AGATAGTTAACTAAGATAGTAAACATAAAAA
1 AGATAATTCTCTAGGATAGTAAACATAGAAG
* *
51124906 ATATAA-TCTGCTTGGATAGTAAACATAGAAG
1 AGATAATTCT-CTAGGATAGTAAACATAGAAG
51124937 AGATA
1 AGATA
51124942 GTCCATTGAG
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
30 1 0.02
31 48 0.98
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.23
Consensus pattern (31 bp):
AGATAATTCTCTAGGATAGTAAACATAGAAG
Found at i:51125018 original size:33 final size:32
Alignment explanation
Indices: 51124923--51125024 Score: 118
Period size: 31 Copynumber: 3.2 Consensus size: 32
51124913 CTGCTTGGAT
*
51124923 AGTAAACATAGA-AGAGATAGTCCATTGAGAC
1 AGTAAACATAGATAGAGATAGTCCATTGGGAC
* * *
51124954 AGTAAAAATAG-TAGAGATAGTCCACTAGGAC
1 AGTAAACATAGATAGAGATAGTCCATTGGGAC
* *
51124985 AGTAAGCATAGGATAGAGATAGTTCATTGGGAC
1 AGTAAACATA-GATAGAGATAGTCCATTGGGAC
*
51125018 AATAAAC
1 AGTAAAC
51125025 TCAAAATAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
31 34 0.60
32 1 0.02
33 22 0.39
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (32 bp):
AGTAAACATAGATAGAGATAGTCCATTGGGAC
Found at i:51132883 original size:43 final size:43
Alignment explanation
Indices: 51132818--51132979 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
51132808 AGCTCGAACA
* *
51132818 ATGCC-ATATCCTAGATATGGTCTTACATGTAATTATATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATTATATATCG
* * * *
51132860 ATACCACTATCCCAGACAGGGTCTTACAT-TAATTCGAT-TAACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATT--ATATATCG
* * *
51132903 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCT-TA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAT-TATATAT-CG
* *
51132946 ATGCTAATTTCCCAGACATGGTCTTACATGTAAT
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAT
51132980 CACATCTTGA
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 11 0.11
43 79 0.81
44 6 0.06
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATTATATATCG
Found at i:51141758 original size:43 final size:43
Alignment explanation
Indices: 51141708--51141819 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
51141698 CCTAGATATC
* * * *
51141708 GTCTTACATGTAATCATATATCGATGTCACTGTCCTAGACAGG
1 GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGG
* * * *
51141751 GTCTTACATGAAATCACCTAACGATGCCAATGTCCCAGACATG
1 GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGG
*
51141794 GTCTTACATGTAATCACATCTCGATG
1 GTCTTACATGTAATCACATATCGATG
51141820 ATCCTATTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGG
Found at i:51153487 original size:8 final size:8
Alignment explanation
Indices: 51153474--51153503 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
51153464 CTAGATCGGC
51153474 AAAAGCCG
1 AAAAGCCG
51153482 AAAAGCCG
1 AAAAGCCG
*
51153490 AAATGCCG
1 AAAAGCCG
51153498 AAAAGC
1 AAAAGC
51153504 GGTATTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:51153791 original size:28 final size:28
Alignment explanation
Indices: 51153751--51153826 Score: 152
Period size: 28 Copynumber: 2.7 Consensus size: 28
51153741 ATGTACTAGA
51153751 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
51153779 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
51153807 ATACCCCTATGTATGCAAAA
1 ATACCCCTATGTATGCAAAA
51153827 ATCTATGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:51154018 original size:27 final size:27
Alignment explanation
Indices: 51153960--51154049 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
51153950 AGGAAGCGTC
51153960 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
51153988 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
51154015 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
51154044 CTGGTG
1 CTGGTG
51154050 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:51154068 original size:55 final size:56
Alignment explanation
Indices: 51153960--51154074 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
51153950 AGGAAGCGTC
* *
51153960 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
51154015 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
51154071 CTGG
1 CTGG
51154075 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:51155148 original size:11 final size:10
Alignment explanation
Indices: 51155120--51155153 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
51155110 AGCCTGTAAG
51155120 TATTCTGAAT
1 TATTCTGAAT
*
51155130 TTTTCTGAAT
1 TATTCTGAAT
51155140 ATATTCTGAAT
1 -TATTCTGAAT
51155151 TAT
1 TAT
51155154 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:51161352 original size:8 final size:8
Alignment explanation
Indices: 51161339--51161368 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
51161329 CTAGATCGGC
51161339 AAAAGCCG
1 AAAAGCCG
51161347 AAAAGCCG
1 AAAAGCCG
*
51161355 AAATGCCG
1 AAAAGCCG
51161363 AAAAGC
1 AAAAGC
51161369 TGATATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:51161672 original size:27 final size:28
Alignment explanation
Indices: 51161619--51161708 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
51161609 GCACTAGAAC
*
51161619 ACCCCTATGTATACAAAATTACCATTAT
1 ACCCCTATGTATGCAAAATTACCATTAT
51161647 ACCCCTATGTATGC-AAATTACCATTAT
1 ACCCCTATGTATGCAAAATTACCATTAT
* *
51161674 ACCCCTATGTATGCAAAATGACCTTTAT
1 ACCCCTATGTATGCAAAATTACCATTAT
51161702 ACCCCTA
1 ACCCCTA
51161709 AGGTTAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 27 0.47
28 31 0.53
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (28 bp):
ACCCCTATGTATGCAAAATTACCATTAT
Found at i:51161855 original size:28 final size:27
Alignment explanation
Indices: 51161814--51161895 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
51161804 AGGAAGCGTC
51161814 CTAGTGGCTA-TGCCACAAATGATCTGTT
1 CTAGTGGC-ACTGCCACAAAT-ATCTGTT
* * *
51161842 CTAGTGGCCCTGCCAGATATATCTGTT
1 CTAGTGGCACTGCCACAAATATCTGTT
*
51161869 CTGGTGGCACTGCCACAAAATATCTGT
1 CTAGTGGCACTGCCAC-AAATATCTGT
51161896 ATCTGGTGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 20 0.44
28 25 0.56
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (27 bp):
CTAGTGGCACTGCCACAAATATCTGTT
Found at i:51161875 original size:27 final size:28
Alignment explanation
Indices: 51161824--51161903 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
51161814 CTAGTGGCTA
* *
51161824 TGCCAC-AAATGATCTGTTCTAGTGGCCC
1 TGCCACAAAAT-ATCTGTTCTGGTGGCAC
* *
51161852 TGCCA-GATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
51161879 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
51161904 ACTCTGTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 20 0.45
28 17 0.39
29 7 0.16
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:51161914 original size:29 final size:28
Alignment explanation
Indices: 51161824--51161914 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
51161814 CTAGTGGCTA
* * *
51161824 TGCCAC-AAATGATCTGTTCTAGTGGCCC
1 TGCCACAAAAT-ATCTGTTCTGGTGACAC
* * *
51161852 TGCCA-GATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
51161879 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
51161908 TGTCACA
1 TGCCACA
51161915 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.38
28 17 0.33
29 15 0.29
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:51170094 original size:27 final size:27
Alignment explanation
Indices: 51170056--51170129 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
51170046 CATACCTGAA
51170056 CCCTTATGTGATAAAATGACGATAATG
1 CCCTTATGTGATAAAATGACGATAATG
*
51170083 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATAATG
*
51170110 CCTTTATGTGATAAAATGAC
1 CCCTTATGTGATAAAATGAC
51170130 AATTTTACCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATAATG
Found at i:51170143 original size:27 final size:27
Alignment explanation
Indices: 51170055--51170156 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
51170045 GCATACCTGA
*
51170055 ACCCTTATGTGATAAAATGACGATAAT
1 ACCCTTATGTGATAAAATGACGATATT
*
51170082 GCCCTTATGTGATAAAATGACGATATT
1 ACCCTTATGTGATAAAATGACGATATT
* * * *
51170109 GCCTTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATATT
*
51170136 ACCCTTATAG-GGTAAAATGAC
1 ACCCTTAT-GTGATAAAATGAC
51170157 CGAAATACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 65 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATATT
Found at i:51170254 original size:80 final size:80
Alignment explanation
Indices: 51170170--51170319 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
51170160 AATACCCCCA
* * *
51170170 TAGGGTAAAATGACTATAATACCTCCA-TAGGGAAAAATAACTGTAATA-CCTTGTAGGGTAAAA
1 TAGGGTAAAATGACTATAATA-C-CCAGTAGGGAAAAATAACTATAATACCCCTGTAAGGTAAAA
51170233 TGACTGTGAGACCCATG
64 TGACTGTGAGACCCATG
* * * *
51170250 TAGGGTAAAATGACTGTGATACCCATGTAGGGTAAAATGACTATAATACCCCTGTAAGGTAAAAT
1 TAGGGTAAAATGACTATAATACCCA-GTAGGGAAAAATAACTATAATACCCCTGTAAGGTAAAAT
51170315 GACTG
65 GACTG
51170320 ATTTGCTCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.05
79 1 0.02
80 37 0.62
81 19 0.32
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGGGTAAAATGACTATAATACCCAGTAGGGAAAAATAACTATAATACCCCTGTAAGGTAAAATG
ACTGTGAGACCCATG
Found at i:51170318 original size:27 final size:27
Alignment explanation
Indices: 51170143--51170318 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
51170133 TTTACCCTTA
* **
51170143 TAGGGTAAAATGACCGA-AATACCCCCA
1 TAGGGTAAAATGA-CTATAATACCCCTG
*
51170170 TAGGGTAAAATGACTATAATACCTCC-A
1 TAGGGTAAAATGACTATAATACC-CCTG
* * * *
51170197 TAGGGAAAAATAACTGTAATA-CCTTG
1 TAGGGTAAAATGACTATAATACCCCTG
* * * *
51170223 TAGGGTAAAATGACTGTGAGACCCATG
1 TAGGGTAAAATGACTATAATACCCCTG
* * *
51170250 TAGGGTAAAATGACTGTGATACCCATG
1 TAGGGTAAAATGACTATAATACCCCTG
51170277 TAGGGTAAAATGACTATAATACCCCTG
1 TAGGGTAAAATGACTATAATACCCCTG
*
51170304 TAAGGTAAAATGACT
1 TAGGGTAAAATGACT
51170319 GATTTGCTCT
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
25 1 0.01
26 20 0.16
27 106 0.82
28 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACTATAATACCCCTG
Found at i:51170736 original size:18 final size:19
Alignment explanation
Indices: 51170709--51170759 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
51170699 TATTTGCATT
51170709 CTGCACTGATTACTG-TTA
1 CTGCACTGATTACTGTTTA
* *
51170727 CTGCATTGATCA-TGTTTA
1 CTGCACTGATTACTGTTTA
*
51170745 CTGCACTAATTACTG
1 CTGCACTGATTACTG
51170760 CCACTGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (19 bp):
CTGCACTGATTACTGTTTA
Found at i:51174212 original size:53 final size:54
Alignment explanation
Indices: 51174030--51174236 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
51174020 ATTAGGGTTT
* * * * *
51174030 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTATGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
51174084 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * ** *
51174139 AAAGATCCCATGTAAGACCATGCCAAGGTATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
51174192 AAGGATACCACGTAAGACCATGTCAAGACATGGCCATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
51174237 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.30
55 41 0.34
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:51185682 original size:40 final size:40
Alignment explanation
Indices: 51185638--51185741 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
51185628 ATAACCGCAT
* * *
51185638 TAAGACCCGAAGGCAATGGTGCTAGTAGCTATATCCGGGC
1 TAAGACCCGAAGGCAATCGTGCAAGTAGCTAAATCCGGGC
* * *
51185678 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCAATCGTGCAAGTAGCTAAATCCGGGC
* *
51185718 TAAGACCCGAAGGCATTTGTGCAA
1 TAAGACCCGAAGGCAATCGTGCAA
51185742 ATCGTGATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (40 bp):
TAAGACCCGAAGGCAATCGTGCAAGTAGCTAAATCCGGGC
Found at i:51185754 original size:40 final size:40
Alignment explanation
Indices: 51185668--51185771 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
51185658 GCTAGTAGCT
* * *
51185668 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* *
51185708 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* * *
51185748 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
51185772 CTTGGTGCGG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
Found at i:51191282 original size:31 final size:31
Alignment explanation
Indices: 51191244--51191307 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
51191234 ATAATGCCAC
*
51191244 ACTTGCATCATATACCATATATCAAAATCAA
1 ACTTGCATCACATACCATATATCAAAATCAA
51191275 ACTTGCATCACATACCATATATCAAAATCAA
1 ACTTGCATCACATACCATATATCAAAATCAA
51191306 AC
1 AC
51191308 CATAAGTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.27
Consensus pattern (31 bp):
ACTTGCATCACATACCATATATCAAAATCAA
Found at i:51193888 original size:30 final size:30
Alignment explanation
Indices: 51193835--51193925 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
51193825 GGACAGGTAA
* *
51193835 CTTGATATAAATTTCATCTTGTATGAGCAAC
1 CTTGATAT-AATGTCAGCTTGTATGAGCAAC
*
51193866 CTTGATATAATGTCAGCTTGTATGAGAAAC
1 CTTGATATAATGTCAGCTTGTATGAGCAAC
* * * *
51193896 CCTAATATAATGTCAGTTTGTGTGAGCAAC
1 CTTGATATAATGTCAGCTTGTATGAGCAAC
51193926 TTATTTCACC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 44 0.85
31 8 0.15
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (30 bp):
CTTGATATAATGTCAGCTTGTATGAGCAAC
Found at i:51194294 original size:14 final size:14
Alignment explanation
Indices: 51194275--51194301 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51194265 ATGAGATTTA
51194275 AATGAATTAATGTC
1 AATGAATTAATGTC
51194289 AATGAATTAATGT
1 AATGAATTAATGT
51194302 TGAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
AATGAATTAATGTC
Found at i:51198685 original size:8 final size:8
Alignment explanation
Indices: 51198672--51198697 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
51198662 GATAACATAT
51198672 TTTTTTTC
1 TTTTTTTC
51198680 TTTTTTTC
1 TTTTTTTC
51198688 TTTTTTTC
1 TTTTTTTC
51198696 TT
1 TT
51198698 CTCTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Done.