Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 55 of 203
Found at i:17805826 original size:114 final size:114
Alignment explanation
Indices: 17805621--17806101 Score: 694
Period size: 114 Copynumber: 4.2 Consensus size: 114
17805611 TAAATTATTT
* * * * * *
17805621 TAAATCCCTGAGTATTAGCGGCGCTTACATACAAACGTCGCTAAATCCCCAAAAGCTCAAAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCAAAAGCTCAGAAAAC
* *
17805686 GGCGTCGTTGGGCTTAAGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
17805735 TAAAGCCCTGAGCATTAGCGGTGCTTACATAAAAACGCCACTAAATCCCCGAAAGCTCAGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCAAAAGCTCAGAAAAC
* * *
17805800 AGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGA
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
17805849 TAAAGCCCTGAGCATTAGCGGCACTTACTTAAAAACGCCACTAAATCCCCAAAAGCTCACAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCAAAAGCTCAGAAAAC
*
17805914 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACACCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* ** *
17805963 TAAAGCCCTGAGCATTAGCGGCGCATATTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCAAAAGCTCAGAAAAC
* * * *
17806028 GGCGTCGTTGGGCTTAGGTTTTTTTGTGGTGCTTTCTCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
17806077 TAAAG-CCTGAACATTATCAGCGCTT
1 TAAAGCCCTGAGCATTAGCGGCGCTT
17806102 TCTGGGAAAC
Statistics
Matches: 329, Mismatches: 38, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
113 16 0.05
114 313 0.95
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCAAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:17807283 original size:19 final size:19
Alignment explanation
Indices: 17807259--17807297 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17807249 AAATGCTCTG
17807259 AGGGTTTGTGCATCAGTAA
1 AGGGTTTGTGCATCAGTAA
17807278 AGGGTTTGTGCATCAGTAA
1 AGGGTTTGTGCATCAGTAA
17807297 A
1 A
17807298 AAAAATGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.31, T:0.31
Consensus pattern (19 bp):
AGGGTTTGTGCATCAGTAA
Found at i:17809949 original size:13 final size:12
Alignment explanation
Indices: 17809915--17809959 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
17809905 CTTAATGATT
*
17809915 AAAAACTTGATG
1 AAAAACTTTATG
* *
17809927 GAAAATTTTATG
1 AAAAACTTTATG
17809939 AAAAGACTTTATG
1 AAAA-ACTTTATG
17809952 AAAAACTT
1 AAAAACTT
17809960 AAAAAGAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (12 bp):
AAAAACTTTATG
Found at i:17809979 original size:23 final size:22
Alignment explanation
Indices: 17809939--17809984 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17809929 AAATTTTATG
*
17809939 AAAAGACTTTATGAAAAACTTA
1 AAAAGACTTGATGAAAAACTTA
*
17809961 AAAAGAACTTGATGCAAAACTTA
1 AAAAG-ACTTGATGAAAAACTTA
17809984 A
1 A
17809985 TAGAAAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (22 bp):
AAAAGACTTGATGAAAAACTTA
Found at i:17810089 original size:24 final size:24
Alignment explanation
Indices: 17810062--17810107 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17810052 CACTTAATGA
* *
17810062 ATGACTTAATTGAAAGCTTGATTC
1 ATGAATTAATTGAAAACTTGATTC
17810086 ATGAATTAATTGAAAACTTGAT
1 ATGAATTAATTGAAAACTTGAT
17810108 GAATAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (24 bp):
ATGAATTAATTGAAAACTTGATTC
Found at i:17810576 original size:43 final size:43
Alignment explanation
Indices: 17810489--17810578 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
17810479 CTAAATTTTA
** ** *
17810489 CGGCGTTTATGATAAAAGCACCGCTAAAGGTCATGTTCTTTAG
1 CGGCGTTTATGATAAAAGCACCGCTAAAGAACATGACCTGTAG
* *
17810532 CGGCGTTTGTGATAAAAGCGCCGCTAAAGAACATGACCTGTAG
1 CGGCGTTTATGATAAAAGCACCGCTAAAGAACATGACCTGTAG
17810575 CGGC
1 CGGC
17810579 ACTTTTATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (43 bp):
CGGCGTTTATGATAAAAGCACCGCTAAAGAACATGACCTGTAG
Found at i:17815179 original size:159 final size:158
Alignment explanation
Indices: 17814985--17815280 Score: 405
Period size: 159 Copynumber: 1.9 Consensus size: 158
17814975 ATAAAGCGCC
* *
17814985 GCTAAAACTCGATCTATAGCGACGTTTTTTAAAAAGCGCCGT-TAATGCCACTAAAGCTCAACAT
1 GCTAAAACTCGATCTATAGCGACATTTTTCAAAAAGCGCC-TCTAATGCCACTAAAGCTCAACAT
* * * * ***
17815049 AAAATGATGGCATTGTGCTTAATTTTTTTTGTGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGAC
65 AAAACGACGGCATTGTGCTTAA-TTTTTTTGCGGCATTTTTCAAAAAACACCGCTAATGGTCGAC
17815114 CTATAGCGGCGTTTTTTTTTTAAAAGAGCT
129 CTATAGCGGCGTTTTTTTTTTAAAAGAGCT
* * * * *
17815144 GCTAAAGCTCGATCTATAGCGGCATTTTTCAAAAAGGGTCTCTAGTGCCACTAAAGCTCAACATA
1 GCTAAAACTCGATCTATAGCGACATTTTTCAAAAAGCGCCTCTAATGCCACTAAAGCTCAACATA
** *
17815209 AAACGACGGTGTTGTGCTTAATTTTTTTGCGGCATTTTTTAAAAAACACCGCTAATGGTCGACCT
66 AAACGACGGCATTGTGCTTAATTTTTTTGCGGCATTTTTCAAAAAACACCGCTAATGGTCGACCT
*
17815274 ATGGCGG
131 ATAGCGG
17815281 AACGCCGCTA
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
158 45 0.38
159 73 0.62
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (158 bp):
GCTAAAACTCGATCTATAGCGACATTTTTCAAAAAGCGCCTCTAATGCCACTAAAGCTCAACATA
AAACGACGGCATTGTGCTTAATTTTTTTGCGGCATTTTTCAAAAAACACCGCTAATGGTCGACCT
ATAGCGGCGTTTTTTTTTTAAAAGAGCT
Found at i:17817513 original size:24 final size:24
Alignment explanation
Indices: 17817485--17817536 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17817475 TTAGTAAGTC
* *
17817485 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17817509 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17817533 AAAT
1 AAAT
17817537 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17828044 original size:96 final size:96
Alignment explanation
Indices: 17827855--17828057 Score: 266
Period size: 96 Copynumber: 2.1 Consensus size: 96
17827845 AATACAGCGA
* * * * *
17827855 AGAGTTAGTCCAAGGTTTCAAAATCTACCAAACTGTGGTAACTCGAACATTGAGAAGATATGGAA
1 AGAGCTAGCCCAAGGTTTCAAAATCTACCAAACTGTGGGAACTCAAACATTGAGAAGATAAGGAA
*
17827920 TGCAACTAAATCAAGAAAAACATTAAATACT
66 TGCAACTAAATCAAGAAAAACATCAAATACT
* *
17827951 AGAGGTAGCCCAAGGTTTCAAAATCTACTAAAC-GTTGGGAACTCAAACATTGAGAAGATAAGGA
1 AGAGCTAGCCCAAGGTTTCAAAATCTACCAAACTG-TGGGAACTCAAACATTGAGAAGATAAGGA
* * * *
17828015 ATGCGACTGACTCAGGAAAGAA-ATCAAATACT
65 ATGCAACTAAATCAAGAAA-AACATCAAATACT
17828047 AGAGCTAGCCC
1 AGAGCTAGCCC
17828058 TAACTCAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 90 0.97
97 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (96 bp):
AGAGCTAGCCCAAGGTTTCAAAATCTACCAAACTGTGGGAACTCAAACATTGAGAAGATAAGGAA
TGCAACTAAATCAAGAAAAACATCAAATACT
Found at i:17828077 original size:69 final size:69
Alignment explanation
Indices: 17827990--17828126 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
17827980 AAACGTTGGG
**
17827990 AACTCAAACATTGAGAAGATAAGGAATGCGACTGACTCAGG-AAAGAAATCAAATACTAGAGCTA
1 AACTCAAACATTGAGAAGATAAGGAATGAAACTGACTC-GGCAAAGAAATCAAATACTAGAGCTA
17828054 GCCCT
65 GCCCT
* * * * *
17828059 AACTCAAATATTGTGAAGATACGGAATGAAACTGACTCGGCAAAGATATCAAATACTAGAGTTAG
1 AACTCAAACATTGAGAAGATAAGGAATGAAACTGACTCGGCAAAGAAATCAAATACTAGAGCTAG
17828124 CCC
66 CCC
17828127 GAGGTTCCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (69 bp):
AACTCAAACATTGAGAAGATAAGGAATGAAACTGACTCGGCAAAGAAATCAAATACTAGAGCTAG
CCCT
Found at i:17828204 original size:81 final size:82
Alignment explanation
Indices: 17828064--17828225 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 82
17828054 GCCCTAACTC
* * * *
17828064 AAATATTGTGAAGATACGGAATGAAACTGACTCGGCAAAGATATCAAATACTAGAGTTAGCCCGA
1 AAATATTGTGAAGATACGGAATGAAACTGACACAGCAAAGAAATCAAATACTAGAGTTAGCCCAA
17828129 GGTTCCAAAATCTACCA
66 GGTTCCAAAATCTACCA
* * *
17828146 AAAT-TTGTGAAGATGCGGGATGCAACTGACACAAG-AAAGAAATCAAATACTAGAGTTAGCCCA
1 AAATATTGTGAAGATACGGAATGAAACTGACAC-AGCAAAGAAATCAAATACTAGAGTTAGCCCA
*
17828209 AGGTTTCAAAATCTACC
65 AGGTTCCAAAATCTACC
17828226 TAATGGTGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
81 66 0.93
82 5 0.07
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (82 bp):
AAATATTGTGAAGATACGGAATGAAACTGACACAGCAAAGAAATCAAATACTAGAGTTAGCCCAA
GGTTCCAAAATCTACCA
Found at i:17828388 original size:81 final size:81
Alignment explanation
Indices: 17828247--17828579 Score: 244
Period size: 81 Copynumber: 3.9 Consensus size: 81
17828237 ACTCCAACAA
*
17828247 TGAGAAGAAAAGGGATGCAACTCTCTCAACAAAGACATCAAATACTAGAGCTAGCCCAAGGTTCC
1 TGAGAAGAAAAGGGATGCAACTCACTCAACAAAGACATCAAATACTAGAGCTAGCCCAAGGTTCC
17828312 AAAATCTACCAAATAT
66 AAAATCTACCAAATAT
* * * * **
17828328 TGAGAAGATATGGGATGCAAC-CGACTCAAGAACA-ACATCAAATACTAGAGTTAGTTCAAGGTT
1 TGAGAAGAAAAGGGATGCAACTC-ACTCAACAA-AGACATCAAATACTAGAGCTAGCCCAAGGTT
* * **
17828391 TCAAAATCTACCTAATGG
64 CCAAAATCTACCAAATAT
* * * * *
17828409 TG-GTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCCCTCAACAAAGACATCAAATACTAGA
1 TGAG-AA---GAA-AA-GGGATG-CAA---CT-C-A----CTCAACAAAGACATCAAATACTAGA
*
17828473 GTTAGCCCAAGGTTCCAAAATCTACCAAA-ATT
50 GCTAGCCCAAGGTTCCAAAATCTACCAAATA-T
* * * * * *
17828505 TGAGAAGATATGGGGTGCAAC-CGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTC
1 TGAGAAGAAAAGGGATGCAACTC-ACTCAACAAAGACATCAAATACTAGAGCTAGCCCAAGGTTC
17828569 CAAAATCTACC
65 CAAAATCTACC
17828580 TAATGGTGAT
Statistics
Matches: 194, Mismatches: 37, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
80 2 0.01
81 119 0.61
82 1 0.01
84 1 0.01
85 3 0.02
86 4 0.02
87 2 0.01
90 2 0.01
91 3 0.02
92 3 0.02
93 1 0.01
95 1 0.01
96 51 0.26
97 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (81 bp):
TGAGAAGAAAAGGGATGCAACTCACTCAACAAAGACATCAAATACTAGAGCTAGCCCAAGGTTCC
AAAATCTACCAAATAT
Found at i:17828402 original size:177 final size:177
Alignment explanation
Indices: 17828099--17828800 Score: 933
Period size: 177 Copynumber: 3.9 Consensus size: 177
17828089 ACTGACTCGG
* * * **
17828099 CAAAGATATCAAATACTAGAGTTAGCCCGAGGTTCCAAAATCTACCAAAATTTGTGAAGATGCGG
1 CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAAATTTGAGAAGATATGG
* *
17828164 GATGCAACTGACACAAGAAAGAAATCAAATACTAGAGTTAGCCCAAGGTTTCAAAATCTACCTAA
66 GATGCAACCGACACAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTTCAAAATCTACCTAA
17828229 TGGTGGTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCTCTCAA
131 TGGTGGTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCTCTCAA
*
17828276 CAAAGACATCAAATACTAGAGCTAGCCCAAGGTTCCAAAATCTACC-AAATATTGAGAAGATATG
1 CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAAAT-TTGAGAAGATATG
* **
17828340 GGATGCAACCGACTCAAGAACA-ACATCAAATACTAGAGTTAGTTCAAGGTTTCAAAATCTACCT
65 GGATGCAACCGACACAAGAA-AGACATCAAATACTAGAGTTAGCCCAAGGTTTCAAAATCTACCT
*
17828404 AATGGTGGTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCCCTCAA
129 AATGGTGGTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCTCTCAA
17828453 CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAAATTTGAGAAGATATGG
1 CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAAATTTGAGAAGATATGG
* * *
17828518 GGTGCAACCGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCTAA
66 GATGCAACCGACACAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTTCAAAATCTACCTAA
* * *
17828583 TGGTGATAACTCCAACACTGAGAA-ATTAAGGGATGCAACTCTCTCAA
131 TGGTGGTAACTCCAACAATGAGAAGA-AAAGGGATGCAACTCTCTCAA
* * *
17828630 TAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCAAAC
1 CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACC--A-----A-AA-T-----
* * * * * *
17828695 ATTGAGAAGACATGGGATCCAACTGACTCAAGAAAGACGTTAAATACTAGAGTTAGCCCAAGGTT
52 -TTGAGAAGATATGGGATGCAACCGACACAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTT
* * * * *
17828760 TCAAACTCTACCAAATGGTGATAACTCAAACATTGAGAAGA
116 TCAAAATCTACCTAATGGTGGTAACTCCAACAATGAGAAGA
17828801 TACAGAATGT
Statistics
Matches: 467, Mismatches: 37, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
176 6 0.01
177 359 0.77
178 5 0.01
179 1 0.00
184 1 0.00
185 2 0.00
186 1 0.00
192 91 0.19
193 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (177 bp):
CAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAAATTTGAGAAGATATGG
GATGCAACCGACACAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTTCAAAATCTACCTAA
TGGTGGTAACTCCAACAATGAGAAGAAAAGGGATGCAACTCTCTCAA
Found at i:17828669 original size:96 final size:96
Alignment explanation
Indices: 17828531--17828800 Score: 373
Period size: 96 Copynumber: 2.8 Consensus size: 96
17828521 GCAACCGACC
* * *
17828531 CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCTAATGGTGATAACTCC
1 CAAGAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
* * * *
17828596 AACACTGAGAA-ATTAAGGGATGCAACTCTCT
66 AACATTGAGAAGA-CAAGGGATCCAACTCACT
* * *
17828627 CAATAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCA
1 CAAGAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
* *
17828692 AACATTGAGAAGACATGGGATCCAACTGACT
66 AACATTGAGAAGACAAGGGATCCAACTCACT
* * *
17828723 CAAGAAAGACGT-TAAATACTAGAGTTAGCCCAAGGTTTCAAACTCTACCAAATGGTGATAACTC
1 CAAGAAAGACATCT-AATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTC
17828787 AAACATTGAGAAGA
65 AAACATTGAGAAGA
17828801 TACAGAATGT
Statistics
Matches: 154, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.01
96 152 0.99
97 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (96 bp):
CAAGAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
AACATTGAGAAGACAAGGGATCCAACTCACT
Found at i:17828822 original size:96 final size:95
Alignment explanation
Indices: 17828531--17828849 Score: 367
Period size: 96 Copynumber: 3.3 Consensus size: 95
17828521 GCAACCGACC
* *
17828531 CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCTAATGGTGATAACTCC
1 CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
* *
17828596 AACACTGAGAA-ATTAAGGGATGCAACTC--TCT
66 AACATTGAGAAGA-TAA-GGATG-AACCCGAT-T
* * * *
17828627 CAATAAAGACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCA
1 CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
* * * * *
17828692 AACATTGAGAAGACATGGGATCCAA-CTGACT
66 AACATTGAGAAGATA-AGGAT-GAACCCGATT
* * * *
17828723 CAAGAAAGACGTTAAATACTAGAGTTAGCCCAAGGTTTCAAACTCTACCAAATGGTGATAACTCA
1 CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
* *
17828788 AACATTGAGAAGATACAGAATGTACCCGATT
66 AACATTGAGAAGATA-AGGATGAACCCGATT
*
17828819 CAAGAAAGACACCAAATACTAGAGTTAGCCC
1 CAAGAAAGACATCAAATACTAGAGTTAGCCC
17828850 CAGACTCCAA
Statistics
Matches: 185, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 183 0.99
97 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.22
Consensus pattern (95 bp):
CAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTCCAAAATCTACCAAATGGTGATAACTCA
AACATTGAGAAGATAAGGATGAACCCGATT
Found at i:17828839 original size:192 final size:192
Alignment explanation
Indices: 17828504--17828849 Score: 466
Period size: 192 Copynumber: 1.8 Consensus size: 192
17828494 CTACCAAAAT
* * *
17828504 TTGAGAAGATATGGGGTGCAACCGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTC
1 TTGAGAAGACATGGGATCCAACCGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTC
* * * * *
17828569 CAAAATCTACCTAATGGTGATAACTCCAACACTGAGAAATTAAGGGATGCAACTCTCTCAATAAA
66 CAAAATCTACCAAATGGTGATAACTCAAACACTGAGAAATTAAGGAATGCAACCCTCTCAAGAAA
* *
17828634 GACATCTAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCAAACA
131 GACACCAAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCAAACA
* * * * *
17828696 TTGAGAAGACATGGGATCCAACTGACTCAAGAAAGACGTTAAATACTAGAGTTAGCCCAAGGTTT
1 TTGAGAAGACATGGGATCCAACCGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTC
* * *
17828761 CAAACTCTACCAAATGGTGATAACTCAAACATTGAGAAGA-TACA-GAATG-TACCCGAT-TCAA
66 CAAAATCTACCAAATGGTGATAACTCAAACACTGAGAA-ATTA-AGGAATGCAACCC--TCTCAA
17828822 GAAAGACACCAAATACTAGAGTTAGCCC
127 GAAAGACACCAAATACTAGAGTTAGCCC
17828850 CAGACTCCAA
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
191 3 0.02
192 126 0.95
193 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (192 bp):
TTGAGAAGACATGGGATCCAACCGACCCAAGAAAGACATCAAATACTAGAGTTAGCCCAAGGTTC
CAAAATCTACCAAATGGTGATAACTCAAACACTGAGAAATTAAGGAATGCAACCCTCTCAAGAAA
GACACCAAATACTAGAGTTAGCCCAAGGTTCCAAAATGTACCAAATGTTGATAACTCAAACA
Found at i:17833381 original size:15 final size:15
Alignment explanation
Indices: 17833361--17833394 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17833351 TGATGATAGT
17833361 TACAGCAAAAAAGTA
1 TACAGCAAAAAAGTA
17833376 TACAGCAAAAAAGTA
1 TACAGCAAAAAAGTA
17833391 TACA
1 TACA
17833395 TATATGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (15 bp):
TACAGCAAAAAAGTA
Found at i:17842569 original size:17 final size:17
Alignment explanation
Indices: 17842547--17842583 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17842537 CCTTTCTCCA
17842547 TTTTCTTTCTTCTTCTT
1 TTTTCTTTCTTCTTCTT
*
17842564 TTTTCTTTCTTTTTCTT
1 TTTTCTTTCTTCTTCTT
17842581 TTT
1 TTT
17842584 GTTTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTCTTCTTCTT
Found at i:17842593 original size:16 final size:16
Alignment explanation
Indices: 17842547--17842603 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
17842537 CCTTTCTCCA
17842547 TTTTCTTTC-TTCTTCTT
1 TTTTCTTTCATT-TTC-T
*
17842564 TTTTCTTTCTTTTTCT
1 TTTTCTTTCATTTTCT
* **
17842580 TTTTGTTTCATTTTGG
1 TTTTCTTTCATTTTCT
17842596 TTTTCTTT
1 TTTTCTTT
17842604 TTCTTTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 20 0.59
17 12 0.35
18 2 0.06
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTCTTTCATTTTCT
Found at i:17845301 original size:22 final size:21
Alignment explanation
Indices: 17845261--17845309 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
17845251 TCTGAAATTT
*
17845261 TAATTTTTTTGAG-ATTTTTC
1 TAATTTTTTTGAGAATTTTTG
*
17845281 TGAATTTGTTTTGATAATTTTTG
1 T-AATTT-TTTTGAGAATTTTTG
17845304 TAATTT
1 TAATTT
17845310 CACCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 11 0.46
23 7 0.29
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (21 bp):
TAATTTTTTTGAGAATTTTTG
Found at i:17846296 original size:10 final size:10
Alignment explanation
Indices: 17846281--17846310 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17846271 AACAAAATTG
17846281 AAACATTATT
1 AAACATTATT
*
17846291 AAACATAATT
1 AAACATTATT
17846301 AAACATTATT
1 AAACATTATT
17846311 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
AAACATTATT
Found at i:17846306 original size:20 final size:21
Alignment explanation
Indices: 17846271--17846310 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17846261 GATAATCAAC
17846271 AACAAAATTGAAACATTATTA
1 AACAAAATTGAAACATTATTA
*
17846292 AACATAATT-AAACATTATT
1 AACAAAATTGAAACATTATT
17846311 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
AACAAAATTGAAACATTATTA
Found at i:17846453 original size:13 final size:13
Alignment explanation
Indices: 17846435--17846459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17846425 TCTATTTATT
17846435 TTTTAAATATTTA
1 TTTTAAATATTTA
17846448 TTTTAAATATTT
1 TTTTAAATATTT
17846460 TACTATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAATATTTA
Found at i:17850556 original size:35 final size:34
Alignment explanation
Indices: 17850507--17850592 Score: 122
Period size: 32 Copynumber: 2.6 Consensus size: 34
17850497 NNNNNNNNNN
* *
17850507 AGGGAATCTCTCCTGTTCACACATTATTTTGTTGC
1 AGGGAATCTCTCCTGTTCACACATCA-TTTCTTGC
*
17850542 AGGGAATCTTTCCTGTT--CACATCATTTCTTGC
1 AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
17850574 AGGGAATCTCTCCTGTTCA
1 AGGGAATCTCTCCTGTTCA
17850593 TGTATTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 23 0.51
33 6 0.13
35 16 0.36
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (34 bp):
AGGGAATCTCTCCTGTTCACACATCATTTCTTGC
Found at i:17853415 original size:21 final size:22
Alignment explanation
Indices: 17853385--17853429 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
17853375 GAGCAAATTG
17853385 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
17853407 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
17853428 TT
1 TT
17853430 CTCGTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:17856630 original size:50 final size:51
Alignment explanation
Indices: 17856546--17856678 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 51
17856536 TTACAAATAG
* *
17856546 CCTCTTTCATCTAT-GATCTTACGCCATATACCTTAAACCAGACTGTCAT-A
1 CCTCGTTCATCTATAG-TCTTACGCCATATACCTTAAACCAGACTGGCATAA
* * * *
17856596 CCTCGTTCGTCTATAGTCTTATGCCATATACCTTATACCAGATTGGCATAA
1 CCTCGTTCATCTATAGTCTTACGCCATATACCTTAAACCAGACTGGCATAA
* * *
17856647 CCTCTTTCATCTATGGTTTTACGCCATATACC
1 CCTCGTTCATCTATAGTCTTACGCCATATACC
17856679 GCTGTCATGG
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 41 0.59
51 29 0.41
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.36
Consensus pattern (51 bp):
CCTCGTTCATCTATAGTCTTACGCCATATACCTTAAACCAGACTGGCATAA
Found at i:17859727 original size:12 final size:12
Alignment explanation
Indices: 17859710--17859734 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17859700 AACTCTGTAA
17859710 TTAGTTTAAATT
1 TTAGTTTAAATT
17859722 TTAGTTTAAATT
1 TTAGTTTAAATT
17859734 T
1 T
17859735 GGTTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAGTTTAAATT
Found at i:17871172 original size:586 final size:586
Alignment explanation
Indices: 17870060--17871231 Score: 2317
Period size: 586 Copynumber: 2.0 Consensus size: 586
17870050 AGCTTTAATT
17870060 TCATATCTCACTCAACTTCTAATTCTATTTCCACTATTTTTGGTGATTTTTCAAAATTACATCAA
1 TCATATCTCACTCAACTTCTAATTCTATTTCCACTATTTTTGGTGATTTTTCAAAATTACATCAA
17870125 TGTTGCTGTTCAAAAACTGTTCTATTGGAAATTTAAAAAAATTCAATATAACCCTTTTATAATTA
66 TGTTGCTGTTCAAAAACTGTTCTATTGGAAATTTAAAAAAATTCAATATAACCCTTTTATAATTA
17870190 CCTAACCTTCCCTGCAAATTTCAAATCACAACCAACTTCAGTATTTCAACTATTTCACTTGAATA
131 CCTAACCTTCCCTGCAAATTTCAAATCACAACCAACTTCAGTATTTCAACTATTTCACTTGAATA
17870255 CTAATGAAGTTCAACCAATCAACCATTTTAAACTAAAAACATGTATTTTTCAATGTCTAACACAA
196 CTAATGAAGTTCAACCAATCAACCATTTTAAACTAAAAACATGTATTTTTCAATGTCTAACACAA
*
17870320 CCATCACATTCAATTTTACTTTGCATACTTAGTCATTCATTCTATTACTTTTTACTTCAATTCCC
261 CCATCACATTCAATTTTACTTTGCATACTTAGTAATTCATTCTATTACTTTTTACTTCAATTCCC
17870385 TATACATGCCATATAAATCCAAAAAGTTATTTAACAAAATCTACCGGAGTATATCTGGATAGTGT
326 TATACATGCCATATAAATCCAAAAAGTTATTTAACAAAATCTACCGGAGTATATCTGGATAGTGT
*
17870450 GATTCTTGATGTAGATCTGATCCTCTGAATGTATAAATATGTCAATGTAACACCCCCTAACCCTA
391 GATTCTTGATGTAGATCTAATCCTCTGAATGTATAAATATGTCAATGTAACACCCCCTAACCCTA
17870515 AACCATCGCCGAAATAGAGCTACGAGGCATTACCGGACATATCAGATAATTTACAATATTTCTTA
456 AACCATCGCCGAAATAGAGCTACGAGGCATTACCGGACATATCAGATAATTTACAATATTTCTTA
17870580 AATAAATATTAAACACATTAAGATAAAATCATAAAATCATATAATATTTAGTAATTGACTTCATT
521 AATAAATATTAAACACATTAAGATAAAATCATAAAATCATATAATATTTAGTAATTGACTTCATT
17870645 C
586 C
17870646 TCATATCTCACTCAACTTCTAATTCTATTTCCACTATTTTTGGTGATTTTTCAAAATTACATCAA
1 TCATATCTCACTCAACTTCTAATTCTATTTCCACTATTTTTGGTGATTTTTCAAAATTACATCAA
17870711 TGTTGCTGTTCAAAAACTGTTCTATTGGAAATTTAAAAAAATTCAATATAACCCTTTTATAATTA
66 TGTTGCTGTTCAAAAACTGTTCTATTGGAAATTTAAAAAAATTCAATATAACCCTTTTATAATTA
17870776 CCTAACCTTCCCTGCAAATTTCAAATCACAACCAACTTCAGTATTTCAACTATTTCACTTGAATA
131 CCTAACCTTCCCTGCAAATTTCAAATCACAACCAACTTCAGTATTTCAACTATTTCACTTGAATA
17870841 CTAATGAAGTTCAACCAATCAACCATTTTAAACTAAAAACATGTATTTTTCAATGTCTAACACAA
196 CTAATGAAGTTCAACCAATCAACCATTTTAAACTAAAAACATGTATTTTTCAATGTCTAACACAA
*
17870906 CCATCACATTTAATTTTACTTTGCATACTTAGTAATTCATTCTATTACTTTTTACTTCAATTCCC
261 CCATCACATTCAATTTTACTTTGCATACTTAGTAATTCATTCTATTACTTTTTACTTCAATTCCC
17870971 TATACATGCCATATAAATCCAAAAAGTTATTTAACAAAATCTACCGGAGTATATCTGGATAGTGT
326 TATACATGCCATATAAATCCAAAAAGTTATTTAACAAAATCTACCGGAGTATATCTGGATAGTGT
17871036 GATTCTTGATGTAGATCTAATCCTCTGAATGTATAAATATGTCAATGTAACACCCCCTAACCCTA
391 GATTCTTGATGTAGATCTAATCCTCTGAATGTATAAATATGTCAATGTAACACCCCCTAACCCTA
17871101 AACCATCGCCGAAATAGAGCTACGAGGCATTACCGGACATATCAGATAATTTACAATATTTCTTA
456 AACCATCGCCGAAATAGAGCTACGAGGCATTACCGGACATATCAGATAATTTACAATATTTCTTA
17871166 AATAAATATTAAACACATTAAGATAAAATCATAAAATCATATAATATTTAGTAATTGACTTCATT
521 AATAAATATTAAACACATTAAGATAAAATCATAAAATCATATAATATTTAGTAATTGACTTCATT
17871231 C
586 C
17871232 ATTTTTTCTA
Statistics
Matches: 583, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
586 583 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (586 bp):
TCATATCTCACTCAACTTCTAATTCTATTTCCACTATTTTTGGTGATTTTTCAAAATTACATCAA
TGTTGCTGTTCAAAAACTGTTCTATTGGAAATTTAAAAAAATTCAATATAACCCTTTTATAATTA
CCTAACCTTCCCTGCAAATTTCAAATCACAACCAACTTCAGTATTTCAACTATTTCACTTGAATA
CTAATGAAGTTCAACCAATCAACCATTTTAAACTAAAAACATGTATTTTTCAATGTCTAACACAA
CCATCACATTCAATTTTACTTTGCATACTTAGTAATTCATTCTATTACTTTTTACTTCAATTCCC
TATACATGCCATATAAATCCAAAAAGTTATTTAACAAAATCTACCGGAGTATATCTGGATAGTGT
GATTCTTGATGTAGATCTAATCCTCTGAATGTATAAATATGTCAATGTAACACCCCCTAACCCTA
AACCATCGCCGAAATAGAGCTACGAGGCATTACCGGACATATCAGATAATTTACAATATTTCTTA
AATAAATATTAAACACATTAAGATAAAATCATAAAATCATATAATATTTAGTAATTGACTTCATT
C
Found at i:17871999 original size:45 final size:45
Alignment explanation
Indices: 17871935--17872087 Score: 216
Period size: 45 Copynumber: 3.4 Consensus size: 45
17871925 CACCAGTATA
* *
17871935 CAGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
* ** * *
17871981 CTGTAACAGTAATGGTAACAGTATTCGACACACAACGTGCTAAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
* *
17872026 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
17872071 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
17872088 GTCGGCACAT
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 88 0.95
46 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
Found at i:17872111 original size:38 final size:39
Alignment explanation
Indices: 17872032--17872114 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
17872022 AAATCGGTAA
*
17872032 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* *
17872071 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-GAAT
17872109 CAGTAA
1 CAGTAA
17872115 GCCGGCAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 15 0.38
39 25 0.62
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (39 bp):
CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
Found at i:17872375 original size:39 final size:40
Alignment explanation
Indices: 17872291--17872376 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
17872281 TTCTTTACTT
* * * *
17872291 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
17872331 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
17872370 CAGTATT
1 CAGTATT
17872377 CTATAATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.47
40 21 0.52
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:17873638 original size:45 final size:46
Alignment explanation
Indices: 17873571--17873694 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
17873561 CATATGACCT
*
17873571 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
17873614 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
17873660 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
17873695 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:17873677 original size:46 final size:45
Alignment explanation
Indices: 17873571--17873768 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
17873561 CATATGACCT
*
17873571 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
17873614 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
17873660 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
17873697 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
17873734 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
17873769 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:17873698 original size:37 final size:37
Alignment explanation
Indices: 17873657--17873795 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
17873647 GCTGAAGCTA
* *
17873657 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
17873694 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
17873731 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
17873768 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
17873796 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:17877077 original size:17 final size:17
Alignment explanation
Indices: 17877057--17877096 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
17877047 TTTCCTATTC
*
17877057 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
17877074 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
17877091 TAGTTT
1 T-GTTT
17877097 ATGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:17877140 original size:16 final size:17
Alignment explanation
Indices: 17877112--17877143 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17877102 TTGTTTATTA
17877112 TTTAATAAATATAATAC
1 TTTAATAAATATAATAC
17877129 TTTAAT-AATATAATA
1 TTTAATAAATATAATA
17877144 TAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAAATATAATAC
Found at i:17877164 original size:25 final size:25
Alignment explanation
Indices: 17877108--17877169 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
17877098 TGTTTTGTTT
*
17877108 ATTATTTAATAAATATAATACTTTA
1 ATTATATAATAAATATAATACTTTA
* *
17877133 ATAATATAATATAATATAATA-TTTT
1 ATTATATAATA-AATATAATACTTTA
*
17877158 CTTATATAATAA
1 ATTATATAATAA
17877170 GTAATTACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.68
26 9 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATATAATAAATATAATACTTTA
Found at i:17877278 original size:19 final size:19
Alignment explanation
Indices: 17877256--17877306 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 19
17877246 CATCTTATTT
*
17877256 ATTTTATAATATAATAATA
1 ATTTAATAATATAATAATA
17877275 ATTTAATAAT-T--TAATA
1 ATTTAATAATATAATAATA
17877291 ATTTAATAATAATAAT
1 ATTTAATAAT-ATAAT
17877307 TTAATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 15 0.56
18 2 0.07
19 9 0.33
20 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAATAATATAATAATA
Found at i:17877311 original size:19 final size:18
Alignment explanation
Indices: 17877252--17877311 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
17877242 TCACCATCTT
*
17877252 ATTT-ATTTTATAATATA
1 ATTTAATTTAATAATATA
* *
17877269 ATAATAATTTAATAATTTA
1 AT-TTAATTTAATAATATA
17877288 A--TAATTTAATAATAATA
1 ATTTAATTTAATAAT-ATA
17877305 ATTTAAT
1 ATTTAAT
17877312 AATATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 12 0.35
17 5 0.15
18 1 0.03
19 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTAATTTAATAATATA
Found at i:17877324 original size:14 final size:14
Alignment explanation
Indices: 17877266--17877315 Score: 82
Period size: 14 Copynumber: 3.4 Consensus size: 14
17877256 ATTTTATAAT
17877266 ATAATAATAATTTA
1 ATAATAATAATTTA
17877280 ATAATTTAATAATTTA
1 ATAA--TAATAATTTA
17877296 ATAATAATAATTTA
1 ATAATAATAATTTA
17877310 ATAATA
1 ATAATA
17877316 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 20 0.59
16 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:17878009 original size:36 final size:36
Alignment explanation
Indices: 17877962--17878032 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
17877952 CTAAGCTACC
17877962 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGA
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGA
17877998 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17878033 CTAAAGCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (36 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGA
Found at i:17878049 original size:46 final size:46
Alignment explanation
Indices: 17877998--17878151 Score: 220
Period size: 46 Copynumber: 3.6 Consensus size: 46
17877988 TAAGTGTAGA
17877998 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
*
17878044 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCT---
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
17878087 AC----CA---TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
*
17878126 ACTTATCACTTTGTCACCTGATCAGA
1 ACTTATCACTTTGTCACTTGATCAGA
17878152 AGTACTCAAA
Statistics
Matches: 95, Mismatches: 3, Indels: 20
0.81 0.03 0.17
Matches are distributed among these distances:
36 31 0.33
39 4 0.04
43 4 0.04
46 56 0.59
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (46 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
Found at i:17878056 original size:82 final size:80
Alignment explanation
Indices: 17877919--17878151 Score: 346
Period size: 82 Copynumber: 2.9 Consensus size: 80
17877909 ACATATGATC
*
17877919 ACTTATCACTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTG
1 ACTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
17877982 ATCAGATAAGTGTAG
66 ATCAGATAAGTGTAG
*
17877997 AACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 -ACTTATCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
17878062 TGATCAGATAAGTGTAG
64 TGATCAGATAAGTGTAG
* * *
17878079 -CTAAAGCTACCATGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
1 ACT-TATC-A-CTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
*
17878143 CTGATCAGA
63 TTGATCAGA
17878152 AGTACTCAAA
Statistics
Matches: 141, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
79 9 0.06
80 7 0.05
81 22 0.16
82 102 0.72
83 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (80 bp):
ACTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
ATCAGATAAGTGTAG
Found at i:17878100 original size:36 final size:36
Alignment explanation
Indices: 17878055--17878126 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17878045 CTTATCACTT
*
17878055 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
17878091 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
17878127 CTTATCACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
Found at i:17882464 original size:26 final size:25
Alignment explanation
Indices: 17882442--17882518 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
17882432 TCAGGAATGT
17882442 TCATATGAGCACATA-AACGGGAAGC
1 TCATATGAGC-CATATAACGGGAAGC
* *
17882467 TCTTTTGAGCCATATAACGGGAAGC
1 TCATATGAGCCATATAACGGGAAGC
* * * * *
17882492 TCATGTCAGCCATGTAATGGAAAGC
1 TCATATGAGCCATATAACGGGAAGC
17882517 TC
1 TC
17882519 TGAAAAGTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.09
25 39 0.91
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
TCATATGAGCCATATAACGGGAAGC
Found at i:17885216 original size:24 final size:24
Alignment explanation
Indices: 17885184--17885239 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
17885174 CGAAAGAGCG
17885184 TCCCGTTACAAGCCCTTTCAAGCT
1 TCCCGTTACAAGCCCTTTCAAGCT
17885208 TCCCGTTACAAGCCCTTTCAAGCT
1 TCCCGTTACAAGCCCTTTCAAGCT
17885232 TCCCGTTA
1 TCCCGTTA
17885240 TAGTGTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (24 bp):
TCCCGTTACAAGCCCTTTCAAGCT
Found at i:17885469 original size:24 final size:24
Alignment explanation
Indices: 17885442--17885487 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17885432 ATGCTACCCT
17885442 TTAATTGCTCTTCGGAACTACCTG
1 TTAATTGCTCTTCGGAACTACCTG
* *
17885466 TTAATTGCTCTTTGGAGCTACC
1 TTAATTGCTCTTCGGAACTACC
17885488 CATTATAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTAATTGCTCTTCGGAACTACCTG
Found at i:17885499 original size:24 final size:25
Alignment explanation
Indices: 17885472--17885519 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17885462 CCTGTTAATT
17885472 GCTCTTTG-GAGCTACCCATTATAG
1 GCTCTTTGTGAGCTACCCATTATAG
* *
17885496 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTTGTGAGCTACCCATTATA
17885520 TTGCTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTTTGTGAGCTACCCATTATAG
Found at i:17888362 original size:31 final size:30
Alignment explanation
Indices: 17888304--17888792 Score: 258
Period size: 31 Copynumber: 16.0 Consensus size: 30
17888294 ATCCAATGCT
* * * *
17888304 CAAATCAATTCAACAATATATATTCATATA
1 CAAATAAATTCAGCAATGTATAATCATATA
* *
17888334 CAAATCAAATTCGGTAATGTATAATCATATA
1 CAAAT-AAATTCAGCAATGTATAATCATATA
* ** * *
17888365 CAAATCAATTTGGGAATGTATAACCATATA
1 CAAATAAATTCAGCAATGTATAATCATATA
** *
17888395 TGAATCAAGTTCAGCAATGTATAATCATATA
1 CAAAT-AAATTCAGCAATGTATAATCATATA
* * *
17888426 CGAATTAATTCGGCAACT-TAT-ATCCATATA
1 CAAATAAATTCAGCAA-TGTATAAT-CATATA
* * * *
17888456 CAATTTAATTTCA-AAATGTATAACCATATA
1 CAA-ATAAATTCAGCAATGTATAATCATATA
* *
17888486 CAAATTAATTTCAGCAATGTATAATTATATA
1 CAAA-TAAATTCAGCAATGTATAATCATATA
* * * **
17888517 CGAATTAATTCGGCAACT-TATCTTCATATA
1 CAAATAAATTCAGCAA-TGTATAATCATATA
* * * *
17888547 CAAATCAATTTCTA-TAATGTATAACCAGATA
1 CAAAT-AAATTC-AGCAATGTATAATCATATA
* * *
17888578 CAAATAAATTTTAGCAATGTACAACCATATA
1 CAAATAAA-TTCAGCAATGTATAATCATATA
* *
17888609 CGAATTAATTCAGCAACT-TAT-ATCCATATA
1 CAAATAAATTCAGCAA-TGTATAAT-CATATA
* * * *
17888639 CAATTCAATTTCAACAATGTATAACCATATA
1 CAAAT-AAATTCAGCAATGTATAATCATATA
* * *
17888670 CAAATTAATTTCAGCAAAGTATATTCATATA
1 CAAA-TAAATTCAGCAATGTATAATCATATA
* * * **
17888701 CGAATTAATTCGGCAACT-TATCTTCATATA
1 CAAATAAATTCAGCAA-TGTATAATCATATA
* * *
17888731 CAAATCAATTTC-GATAATGTATAACCATATA
1 CAAAT-AAATTCAG-CAATGTATAATCATATA
* * *
17888762 CAAATAAATTTTAGCAATGTACAACCATATA
1 CAAATAAA-TTCAGCAATGTATAATCATATA
17888793 TATCCATATA
Statistics
Matches: 345, Mismatches: 87, Indels: 53
0.71 0.18 0.11
Matches are distributed among these distances:
29 4 0.01
30 143 0.41
31 195 0.57
32 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (30 bp):
CAAATAAATTCAGCAATGTATAATCATATA
Found at i:17888610 original size:92 final size:92
Alignment explanation
Indices: 17888304--17888792 Score: 590
Period size: 92 Copynumber: 5.3 Consensus size: 92
17888294 ATCCAATGCT
* * * * * * * *
17888304 CAAATCAA-TTCAACAATATATATTCATATACAAATCAAATTCGGTAA-TGTATAATCATATACA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAAT-TAATTCGGCAACT-TATATTCATATACA
**
17888367 AATCAATTT-GGGAATGTATAACCATATA
64 AATCAATTTCGATAATGTATAACCATATA
** * * * *
17888395 TGAATCAAGTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAAT
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATTCATATACAAA
* *
17888460 TTAATTTC-AAAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
17888486 CAAATTAATTTCAGCAATGTATAATTATATACGAATTAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATTCATATACAAA
* *
17888551 TCAATTTCTATAATGTATAACCAGATA
66 TCAATTTCGATAATGTATAACCATATA
* * * * * *
17888578 CAAATAAATTTTAGCAATGTACAACCATATACGAATTAATTCAGCAACTTATATCCATATACAAT
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATTCATATACAAA
* *
17888643 TCAATTTCAACAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * * *
17888670 CAAATTAATTTCAGCAAAGTATATTCATATACGAATTAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATTCATATACAAA
17888735 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
17888762 CAAATAAATTTTAGCAATGTACAACCATATA
1 CAAATAAATTTCAGCAATGTATAATCATATA
17888793 TATCCATATA
Statistics
Matches: 339, Mismatches: 55, Indels: 7
0.85 0.14 0.02
Matches are distributed among these distances:
91 114 0.34
92 225 0.66
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (92 bp):
CAAATAAATTTCAGCAATGTATAATCATATACGAATTAATTCGGCAACTTATATTCATATACAAA
TCAATTTCGATAATGTATAACCATATA
Found at i:17888762 original size:61 final size:60
Alignment explanation
Indices: 17888328--17888792 Score: 268
Period size: 61 Copynumber: 7.6 Consensus size: 60
17888318 AATATATATT
* * * * * * * *
17888328 CATATACAAATCAAATTCGGTAATGTATAATCATATACAAATCAATTTGGGAATGTATAAC
1 CATATACAAAT-TAATTCAGCAATGTATCACCATATACAAATTAATTTCGAAATGTATAAC
** * * * * * *
17888389 CATATATGAATCAAGTTCAGCAATGTATAATCATATACGAATTAA-TTCGGCAACT-TATATC
1 CATATACAAATTAA-TTCAGCAATGTATCACCATATACAAATTAATTTC-G-AAATGTATAAC
* * * * *
17888450 CATATACAATTTAATTTCA-AAATGTATAACCATATACAAATTAATTTCAGCAATGTATAAT
1 CATATACAAATTAA-TTCAGCAATGTATCACCATATACAAATTAATTTC-GAAATGTATAAC
* * * ** * *
17888511 TATATACGAATTAATTCGGCAACT-TATCTTCATATACAAATCAATTTCTATAATGTATAAC
1 CATATACAAATTAATTCAGCAA-TGTATCACCATATACAAATTAATTTCGA-AATGTATAAC
* * * * * *
17888572 CAGATACAAATAAATTTTAGCAATGTA-CAACCATATACGAATTAA-TTCAGCAACT-TATATC
1 CATATACAAATTAA-TTCAGCAATGTATC-ACCATATACAAATTAATTTC-G-AAATGTATAAC
* * **
17888633 CATATAC-AATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAAA-GTATATT
1 CATATACAAATT-AA-TTCAGCAATGTATCACCATATACAAATTAATTTC-G-AAATGTATAAC
* * ** *
17888695 CATATACGAATTAATTCGGCAACT-TATCTTCATATACAAATCAATTTCGATAATGTATAAC
1 CATATACAAATTAATTCAGCAA-TGTATCACCATATACAAATTAATTTCGA-AATGTATAAC
* *
17888756 CATATACAAATAAATTTTAGCAATGTA-CAACCATATA
1 CATATACAAATTAA-TTCAGCAATGTATC-ACCATATA
17888793 TATCCATATA
Statistics
Matches: 309, Mismatches: 71, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
59 1 0.00
60 37 0.12
61 204 0.66
62 62 0.20
63 5 0.02
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (60 bp):
CATATACAAATTAATTCAGCAATGTATCACCATATACAAATTAATTTCGAAATGTATAAC
Found at i:17888813 original size:41 final size:41
Alignment explanation
Indices: 17888750--17888833 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
17888740 TTCGATAATG
* *
17888750 TATAACCATATACAAATAAATTTTAGCAATGTACAACCATA
1 TATAACCATATACAAATAAATTTCACCAATGTACAACCATA
* * * * *
17888791 TATATCCATATACAATTCAATTTCACCATTGTATAACCATA
1 TATAACCATATACAAATAAATTTCACCAATGTACAACCATA
17888832 TA
1 TA
17888834 CAAATTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (41 bp):
TATAACCATATACAAATAAATTTCACCAATGTACAACCATA
Found at i:17888831 original size:31 final size:31
Alignment explanation
Indices: 17888791--17888874 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
17888781 TACAACCATA
* *
17888791 TATATCCATATAC-AATTCAATTTCACCATTG
1 TATAACCATATACAAATT-AATTTCACCAATG
*
17888822 TATAACCATATACAAATTAATTTCAGCAATG
1 TATAACCATATACAAATTAATTTCACCAATG
*** *
17888853 TATAGTTATATACGAATTAATT
1 TATAACCATATACAAATTAATT
17888875 CGGCAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 41 0.91
32 4 0.09
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (31 bp):
TATAACCATATACAAATTAATTTCACCAATG
Found at i:17891592 original size:16 final size:17
Alignment explanation
Indices: 17891571--17891604 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
17891561 AATTGAGTTA
17891571 AGAAAATTA-TTTAATT
1 AGAAAATTAGTTTAATT
17891587 AGAAAATTAGTTTAATT
1 AGAAAATTAGTTTAATT
17891604 A
1 A
17891605 ATTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AGAAAATTAGTTTAATT
Found at i:17891614 original size:13 final size:13
Alignment explanation
Indices: 17891598--17891633 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
17891588 GAAAATTAGT
*
17891598 TTAATTAATTTAA
1 TTAATTAAATTAA
*
17891611 TTAACTAAATTAA
1 TTAATTAAATTAA
17891624 TTAATTAAAT
1 TTAATTAAAT
17891634 AATATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:17891925 original size:24 final size:23
Alignment explanation
Indices: 17891889--17891934 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
17891879 AAATTATAAA
*
17891889 ATATAATATAATACAATAAAAAC
1 ATATAATATAATAAAATAAAAAC
*
17891912 ATATACTAGTAATAAAATAAAAA
1 ATATAATA-TAATAAAATAAAAA
17891935 AATTGGGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
ATATAATATAATAAAATAAAAAC
Found at i:17892276 original size:20 final size:20
Alignment explanation
Indices: 17892248--17892288 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17892238 AAAGTAGAGG
* *
17892248 AATTTTATTTTCTTAGAATA
1 AATTCTATTTTCTGAGAATA
17892268 AATTCTATTTTCTGAGAATA
1 AATTCTATTTTCTGAGAATA
17892288 A
1 A
17892289 TAATTTCTAC
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:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
AATTCTATTTTCTGAGAATA
Found at i:17892296 original size:23 final size:21
Alignment explanation
Indices: 17892248--17892297 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
17892238 AAAGTAGAGG
*
17892248 AATTT-TATTTTCTTAGAATA
1 AATTTCTATTTTCTGAGAATA
17892268 AA-TTCTATTTTCTGAGAATAA
1 AATTTCTATTTTCTGAGAAT-A
17892289 TAATTTCTA
1 -AATTTCTA
17892298 CAGATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 1 0.04
22 2 0.08
23 5 0.20
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (21 bp):
AATTTCTATTTTCTGAGAATA
Found at i:17895736 original size:14 final size:14
Alignment explanation
Indices: 17895717--17895744 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17895707 ACCTTTGGTT
17895717 AATTTCCATTTAAG
1 AATTTCCATTTAAG
17895731 AATTTCCATTTAAG
1 AATTTCCATTTAAG
17895745 TTCTCAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCCATTTAAG
Found at i:17904130 original size:20 final size:19
Alignment explanation
Indices: 17904105--17904143 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17904095 TGATTGGGCA
*
17904105 TCTTTGGATCTGGGTGTTCT
1 TCTTTGGATC-GAGTGTTCT
*
17904125 TCTTTGTATCGAGTGTTCT
1 TCTTTGGATCGAGTGTTCT
17904144 GGTGTTCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.15, G:0.26, T:0.51
Consensus pattern (19 bp):
TCTTTGGATCGAGTGTTCT
Found at i:17905166 original size:20 final size:19
Alignment explanation
Indices: 17905134--17905172 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17905124 GAAAATCTAT
*
17905134 TTAATTTTCTTAACTTTTA
1 TTAATTTTCTTAAATTTTA
17905153 TTAATTTTCTTTAAATTTTA
1 TTAATTTTC-TTAAATTTTA
17905173 CCTTTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAATTTTCTTAAATTTTA
Found at i:17908415 original size:14 final size:14
Alignment explanation
Indices: 17908396--17908435 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17908386 TTGATTGCCA
17908396 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
17908410 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
17908424 GGAAAATGTTTT
1 GTAAAATGTTTT
17908436 ACTTTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:17914698 original size:26 final size:26
Alignment explanation
Indices: 17914667--17914722 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
17914657 CCCATTTTTT
* * *
17914667 AATAAACACCAAAAAATTATTTTAAA
1 AATAAAAAACAAAAAAGTATTTTAAA
*
17914693 AATAAAAAATAAAAAAGTATTTTAAA
1 AATAAAAAACAAAAAAGTATTTTAAA
17914719 AATA
1 AATA
17914723 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAAAAAACAAAAAAGTATTTTAAA
Found at i:17914736 original size:36 final size:38
Alignment explanation
Indices: 17914678--17914752 Score: 120
Period size: 36 Copynumber: 2.0 Consensus size: 38
17914668 ATAAACACCA
17914678 AAAAATTATTTTAAAAATAAAAAATAAAAAAGTAT-TTT
1 AAAAATTATTTTAAAAATAAAAAATAAAAAA-TATATTT
17914716 AAAAA-TATTTT-AAAATAAAAAATAAAAAATATATTT
1 AAAAATTATTTTAAAAATAAAAAATAAAAAATATATTT
17914752 A
1 A
17914753 TTATATATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.08
36 22 0.61
37 6 0.17
38 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (38 bp):
AAAAATTATTTTAAAAATAAAAAATAAAAAATATATTT
Found at i:17917738 original size:5 final size:5
Alignment explanation
Indices: 17917728--17917753 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17917718 AGCTATATGG
17917728 TCACC TCACC TCACC TCACC TCACC T
1 TCACC TCACC TCACC TCACC TCACC T
17917754 GCAAGTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (5 bp):
TCACC
Found at i:17918612 original size:19 final size:18
Alignment explanation
Indices: 17918588--17918633 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17918578 ATTAATTAAT
17918588 TTTTTTAAAAAAATTATA
1 TTTTTTAAAAAAATTATA
* *
17918606 CTTTTTT-AATAAATTTTA
1 -TTTTTTAAAAAAATTATA
17918624 TTTTTTAAAA
1 TTTTTTAAAA
17918634 TAGTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.26
18 11 0.48
19 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTAAAAAAATTATA
Found at i:17918635 original size:19 final size:20
Alignment explanation
Indices: 17918588--17918635 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
17918578 ATTAATTAAT
17918588 TTTTTTAAAA-AAATTATAC
1 TTTTTTAAAATAAATTATAC
*
17918607 TTTTTT--AATAAATTTTA-
1 TTTTTTAAAATAAATTATAC
17918624 TTTTTTAAAATA
1 TTTTTTAAAATA
17918636 GTTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAATAAATTATAC
Found at i:17918640 original size:18 final size:17
Alignment explanation
Indices: 17918596--17918633 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17918586 ATTTTTTTAA
*
17918596 AAAAATTATACTTTTTT
1 AAAAATTTTACTTTTTT
17918613 AATAAATTTTA-TTTTTT
1 AA-AAATTTTACTTTTTT
17918630 AAAA
1 AAAA
17918634 TAGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 10 0.53
18 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAAATTTTACTTTTTT
Found at i:17920158 original size:19 final size:19
Alignment explanation
Indices: 17920136--17920215 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
17920126 AAATCGTAAT
*
17920136 ATATATAAATTGTAAAAAA
1 ATATATAAATTATAAAAAA
* *
17920155 ATATTTAAATTATTAAAAA
1 ATATATAAATTATAAAAAA
* * *
17920174 ATGTTACAAATTAAAAAAAA
1 AT-ATATAAATTATAAAAAA
* * *
17920194 CATTTAAAAATTGTAAAAAA
1 -ATATATAAATTATAAAAAA
17920214 AT
1 AT
17920216 TAATTATTGT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
19 20 0.42
20 26 0.54
21 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (19 bp):
ATATATAAATTATAAAAAA
Found at i:17920254 original size:19 final size:18
Alignment explanation
Indices: 17920197--17920269 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
17920187 AAAAAAACAT
* *
17920197 TTAAAAATTGTAAAAAAA
1 TTAAATATTGTAAAAATA
* *
17920215 TTAATTATTGTAATAATTA
1 TTAAATATTGTAA-AAATA
17920234 TTAAATATTGTTAAAAATA
1 TTAAATATTG-TAAAAATA
* *
17920253 TTTTAATGTTGTAAAAA
1 -TTAAATATTGTAAAAA
17920270 AAGTTATTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 11 0.25
19 22 0.50
20 11 0.25
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TTAAATATTGTAAAAATA
Found at i:17920286 original size:10 final size:10
Alignment explanation
Indices: 17920267--17920324 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
17920257 AATGTTGTAA
17920267 AAAAAGTTATT
1 AAAAA-TTATT
17920278 AAAAATTA-T
1 AAAAATTATT
*
17920287 AAAACCTTATT
1 AAAA-ATTATT
*
17920298 TAAAATT-TGT
1 AAAAATTAT-T
17920308 AAAAATTATT
1 AAAAATTATT
17920318 AAAAATT
1 AAAAATT
17920325 GGGGAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 6 0.15
10 23 0.59
11 10 0.26
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:17920296 original size:20 final size:19
Alignment explanation
Indices: 17920267--17920324 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
17920257 AATGTTGTAA
17920267 AAAAAGTTATTAAAAATTAT
1 AAAAA-TTATTAAAAATTAT
* * *
17920287 AAAACCTTATTTAAAATTTGT
1 AAAA-ATTA-TTAAAAATTAT
17920308 AAAAATTATTAAAAATT
1 AAAAATTATTAAAAATT
17920325 GGGGAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 8 0.26
20 10 0.32
21 13 0.42
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTATTAAAAATTAT
Found at i:17920385 original size:21 final size:21
Alignment explanation
Indices: 17920334--17920387 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
17920324 TGGGGAAAAT
*
17920334 ATTAAAAAA-TGCT-AATAATT
1 ATTAAAAAATTG-TAAATAATG
17920354 ATTAAAAAATTGTAAATAATG
1 ATTAAAAAATTGTAAATAATG
*
17920375 ATTAAATAATTGT
1 ATTAAAAAATTGT
17920388 GAATTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTAAAAAATTGTAAATAATG
Found at i:17920554 original size:12 final size:12
Alignment explanation
Indices: 17920539--17920565 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17920529 ACAACATAGA
17920539 AGAAGAAGAAGG
1 AGAAGAAGAAGG
17920551 AGAAGAAGAAGG
1 AGAAGAAGAAGG
17920563 AGA
1 AGA
17920566 TTTGTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAGG
Found at i:17920600 original size:20 final size:20
Alignment explanation
Indices: 17920571--17920764 Score: 88
Period size: 20 Copynumber: 9.9 Consensus size: 20
17920561 GGAGATTTGT
*
17920571 TAATTATTTACAATTTTTAA
1 TAATTTTTTACAATTTTTAA
** *
17920591 TAATTTTTTA-AAAATTAAA
1 TAATTTTTTACAATTTTTAA
* **
17920610 TAAATTTTTATTATTTTTAA
1 TAATTTTTTACAATTTTTAA
* *
17920630 TAACCTTTTTAGAA-TTTTAA
1 TAA-TTTTTTACAATTTTTAA
**
17920650 -AATATTTTTAACAA-CATT--
1 TAAT-TTTTT-ACAATTTTTAA
17920668 TAATTTTTTACAATTTTTAA
1 TAATTTTTTACAATTTTTAA
*
17920688 -ATATATTTTAC-ATTTTTAA
1 TA-ATTTTTTACAATTTTTAA
*
17920707 T-ATTTTTATA-TATTTTTAA
1 TAATTTTT-TACAATTTTTAA
**
17920726 -ATATTATTTTATGATTTTTAA
1 TA-ATT-TTTTACAATTTTTAA
*
17920747 T-ATTTTATTATAATTTTT
1 TAATTTT-TTACAATTTTT
17920765 TGGTCTAGTC
Statistics
Matches: 134, Mismatches: 22, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
17 4 0.03
18 12 0.09
19 46 0.34
20 54 0.40
21 18 0.13
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TAATTTTTTACAATTTTTAA
Found at i:17920697 original size:28 final size:26
Alignment explanation
Indices: 17920666--17920725 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
17920656 TTTAACAACA
17920666 TTTAATTTTTTACA-ATTTTTAAATATAT
1 TTTAA-TTTTTA-ATATTTTTAAATAT-T
*
17920694 TTTACATTTTTAATATTTTTATATATT
1 TTTA-ATTTTTAATATTTTTAAATATT
17920721 TTTAA
1 TTTAA
17920726 ATATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 21 0.72
29 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTAATTTTTAATATTTTTAAATATT
Found at i:17920697 original size:38 final size:38
Alignment explanation
Indices: 17920635--17920736 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
17920625 TTTAATAACC
* *
17920635 TTTTTAGAATTTTAAAATAT-TTTTAACAACATTTAAT-
1 TTTTTACAATTTTTAAATATATTTTAAC-ACATTTAATA
**
17920672 TTTTTACAATTTTTAAATATATTTT-ACATTTTTAATA
1 TTTTTACAATTTTTAAATATATTTTAACACATTTAATA
*
17920709 TTTTTATATATTTTTAAATATTATTTTA
1 TTTTTACA-ATTTTTAAATA-TATTTTA
17920737 TGATTTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
36 7 0.13
37 27 0.49
38 15 0.27
39 6 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (38 bp):
TTTTTACAATTTTTAAATATATTTTAACACATTTAATA
Found at i:17931827 original size:48 final size:50
Alignment explanation
Indices: 17931744--17931842 Score: 175
Period size: 48 Copynumber: 2.0 Consensus size: 50
17931734 CTTTGCATGG
17931744 TAAGCCATTTTTCACCTTTCTTTTCGTAAATTTATGTGTTTTGAAATTGT
1 TAAGCCATTTTTCACCTTTCTTTTCGTAAATTTATGTGTTTTGAAATTGT
*
17931794 TAAGCCA-TTTTCACCTTT-TTTTTGTAAATTTATGTGTTTTGAAATTGT
1 TAAGCCATTTTTCACCTTTCTTTTCGTAAATTTATGTGTTTTGAAATTGT
17931842 T
1 T
17931843 GTAGCTTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 30 0.62
49 11 0.23
50 7 0.15
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (50 bp):
TAAGCCATTTTTCACCTTTCTTTTCGTAAATTTATGTGTTTTGAAATTGT
Found at i:17932548 original size:22 final size:21
Alignment explanation
Indices: 17932515--17932557 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
17932505 AATATATGTG
17932515 ATATGTGTTTATTTGAGAATTA
1 ATATGTGTTTATTTGA-AATTA
17932537 ATATG-GTGTTATTTGAAATTA
1 ATATGTGT-TTATTTGAAATTA
17932558 TAAGTATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (21 bp):
ATATGTGTTTATTTGAAATTA
Found at i:17941393 original size:26 final size:26
Alignment explanation
Indices: 17941364--17941420 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
17941354 CCGTGATATA
17941364 GCTCTTCGTGAGCTTTCC-GATTAAAG
1 GCTCTTCGTGAGC-TTCCTGATTAAAG
* *
17941390 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTTCGTGAGCTTCCTGATTAAAG
17941416 GCTCT
1 GCTCT
17941421 CCAGAGCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCTGATTAAAG
Found at i:17943845 original size:14 final size:14
Alignment explanation
Indices: 17943826--17943858 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
17943816 AAGGTGTACG
17943826 AGTGTAAAATAAGA
1 AGTGTAAAATAAGA
17943840 AGTGTAAAATAAGA
1 AGTGTAAAATAAGA
17943854 AGTGT
1 AGTGT
17943859 GCATTGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (14 bp):
AGTGTAAAATAAGA
Found at i:17947808 original size:2 final size:2
Alignment explanation
Indices: 17947801--17947833 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17947791 AAAAGAGTGA
17947801 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17947834 TGGAGGGTTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17951621 original size:9 final size:9
Alignment explanation
Indices: 17951607--17951631 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17951597 AAATAACTTG
17951607 TTTTCCTCA
1 TTTTCCTCA
17951616 TTTTCCTCA
1 TTTTCCTCA
17951625 TTTTCCT
1 TTTTCCT
17951632 GTAAGATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTCCTCA
Found at i:17959920 original size:5 final size:5
Alignment explanation
Indices: 17959912--17959937 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17959902 GAGATGGAAT
17959912 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
17959938 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:17968729 original size:30 final size:31
Alignment explanation
Indices: 17968690--17968749 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
17968680 AGAGGTGAGA
**
17968690 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
* *
17968721 TGGG-AGGGAGTAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAA
17968750 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
Found at i:17972613 original size:14 final size:15
Alignment explanation
Indices: 17972594--17972627 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17972584 TCTTTTATAA
*
17972594 TTTTTAAATCATT-T
1 TTTTTAAATAATTGT
17972608 TTTTTAAATAATTGT
1 TTTTTAAATAATTGT
17972623 TTTTT
1 TTTTT
17972628 TATTTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTAAATAATTGT
Found at i:17972913 original size:21 final size:19
Alignment explanation
Indices: 17972863--17972914 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
17972853 GATTTTTATC
* *
17972863 ATTTTTTTTAAAATTTTTA
1 ATTTTATTTAAAATTTTAA
17972882 ATTATTGATTTAAGAATTTTCAA
1 ATT-TT-ATTTAA-AATTTT-AA
17972905 ATTTTATTTA
1 ATTTTATTTA
17972915 TTTTTGGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTATTTAAAATTTTAA
Found at i:17974119 original size:105 final size:101
Alignment explanation
Indices: 17974008--17974202 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 101
17973998 ATTTGTAGTA
* *
17974008 CCATAACCCAGTTATGGTC-TTATAATCAAAATGTCATAGTCC-AGCTGTGGTCTTACACATGTA
1 CCATAACCCAGTTATGGTCATT-TAATCAAAATGCCATAG-CCTAGCTATGGTCTT--ACAT-T-
**
17974071 TCTACACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTG
60 TAAACACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTG
* * * *
17974113 CCATAACCCAGTTATGGTCATTTCATTAAAATGCCATTGCCTAGTTATGGTCTTACATTTAAACA
1 CCATAACCCAGTTATGGTCATTTAATCAAAATGCCATAGCCTAGCTATGGTCTTACATTTAAACA
*
17974178 TTGCCATGGTCCAACCATGGTCTTA
66 CTGCCATGGTCCAACCATGGTCTTA
17974203 TCTGTCAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
101 28 0.35
102 1 0.01
103 4 0.05
104 2 0.03
105 42 0.53
106 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
CCATAACCCAGTTATGGTCATTTAATCAAAATGCCATAGCCTAGCTATGGTCTTACATTTAAACA
CTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTG
Found at i:17977975 original size:26 final size:26
Alignment explanation
Indices: 17977936--17977987 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17977926 TTAAATTGAG
17977936 TTAGTGTCTAACTAACTTGTAATATT
1 TTAGTGTCTAACTAACTTGTAATATT
*
17977962 TTAGTGTCTGACTAACTTGTAATATT
1 TTAGTGTCTAACTAACTTGTAATATT
17977988 AACTTAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (26 bp):
TTAGTGTCTAACTAACTTGTAATATT
Found at i:17995432 original size:41 final size:41
Alignment explanation
Indices: 17995375--17995456 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
17995365 AACTTAAAAC
17995375 TATAATTATGTCTCCCTCAAAGTGAGATAAATAAATCTTTA
1 TATAATTATGTCTCCCTCAAAGTGAGATAAATAAATCTTTA
17995416 TATAATTATGTCTCCCTCAAAGTGAGATAAATAAATCTTTA
1 TATAATTATGTCTCCCTCAAAGTGAGATAAATAAATCTTTA
17995457 AACCTCGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (41 bp):
TATAATTATGTCTCCCTCAAAGTGAGATAAATAAATCTTTA
Found at i:17997167 original size:29 final size:30
Alignment explanation
Indices: 17997108--17997165 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17997098 TCCGAGCCTT
*
17997108 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
17997138 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
17997166 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:17997395 original size:13 final size:13
Alignment explanation
Indices: 17997377--17997408 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17997367 TTTCCAGCAA
17997377 TTATGAATTTATT
1 TTATGAATTTATT
17997390 TTATGAATTTATT
1 TTATGAATTTATT
*
17997403 TGATGA
1 TTATGA
17997409 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:17997583 original size:50 final size:50
Alignment explanation
Indices: 17997503--17997687 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
17997493 ATTTGGGTAA
*
17997503 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
17997553 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
17997603 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
17997653 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
17997688 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18002469 original size:41 final size:40
Alignment explanation
Indices: 18002409--18002526 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 40
18002399 TACTGAAGTA
* *
18002409 CACCAGCATGAAGCCTGCTAGATAATAAGTCTGAAATAATT
1 CACCGGCATCAAGCCTGCTAGA-AATAAGTCTGAAATAATT
* * *
18002450 CACCGGCATCAAGCTTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATCAAGCCTGCTAGAAAT-AAGTCTGAAATAATT
* *
18002491 CACCGGCATCAAGCCTGCTAGACATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGA-AATAAGTCTGAAA
18002527 ACCAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.03
41 62 0.95
42 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (40 bp):
CACCGGCATCAAGCCTGCTAGAAATAAGTCTGAAATAATT
Found at i:18003912 original size:13 final size:13
Alignment explanation
Indices: 18003894--18003918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18003884 TCAAACTATC
18003894 AAATTTTCACACG
1 AAATTTTCACACG
18003907 AAATTTTCACAC
1 AAATTTTCACAC
18003919 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:18009704 original size:63 final size:63
Alignment explanation
Indices: 18009605--18009807 Score: 312
Period size: 63 Copynumber: 3.3 Consensus size: 63
18009595 AATTGACGGT
*
18009605 AAAAATGATCTAGCCCGGACGAGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGGACGAGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
*
18009668 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGGACGAGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
*
18009731 AAAAA-GATCTAGCCCGGACGAGTGA---TAT--TGATATAGCCCTCCCGAAGAATATGTG-G
1 AAAAAGGATCTAGCCCGGACGAGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
* *
18009787 AAAATGGATTTAGCCCGGACG
1 AAAAAGGATCTAGCCCGGACG
18009808 GGTAATCCGA
Statistics
Matches: 133, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
56 5 0.04
57 40 0.30
59 3 0.02
62 19 0.14
63 66 0.50
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (63 bp):
AAAAAGGATCTAGCCCGGACGAGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
Found at i:18011478 original size:13 final size:13
Alignment explanation
Indices: 18011460--18011484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18011450 TCAAACTATC
18011460 AAATTTTCACACG
1 AAATTTTCACACG
18011473 AAATTTTCACAC
1 AAATTTTCACAC
18011485 ATATAACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:18011757 original size:18 final size:17
Alignment explanation
Indices: 18011731--18011773 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
18011721 AACACATTTA
18011731 ATTTATTATAT-TGTTTT
1 ATTTATTATATCT-TTTT
18011748 ATTTATTTATATCTTTTT
1 ATTTA-TTATATCTTTTT
18011766 ATTT-TTAT
1 ATTTATTAT
18011774 TTTTTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 14 0.58
19 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTATTATATCTTTTT
Found at i:18016910 original size:11 final size:11
Alignment explanation
Indices: 18016890--18016947 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
18016880 TGTTTCATAA
18016890 AAAAAGAAAAG
1 AAAAAGAAAAG
*
18016901 AAAAATAAAAG
1 AAAAAGAAAAG
18016912 AAAGGAA-AAAATG
1 AAA--AAGAAAA-G
18016925 AAAAAAGAAAAG
1 -AAAAAGAAAAG
*
18016937 AAAAATAAAAG
1 AAAAAGAAAAG
18016948 GAGAGGCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 23 0.57
12 7 0.17
13 7 0.17
14 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:18016910 original size:16 final size:16
Alignment explanation
Indices: 18016891--18016947 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
18016881 GTTTCATAAA
18016891 AAAAGAAAAGAAAAAT
1 AAAAGAAAAGAAAAAT
*
18016907 AAAAGAAAGGAAAAAAT
1 AAAAGAAAAG-AAAAAT
18016924 GAAAAAAGAAAAGAAAAAT
1 ---AAAAGAAAAGAAAAAT
18016943 AAAAG
1 AAAAG
18016948 GAGAGGCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 14 0.40
17 6 0.17
19 6 0.17
20 9 0.26
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAT
Found at i:18018168 original size:44 final size:44
Alignment explanation
Indices: 18018105--18018535 Score: 180
Period size: 44 Copynumber: 9.6 Consensus size: 44
18018095 ATAGCAAACA
* *
18018105 TTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTTCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTTCAAGTC
* * **
18018149 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTTC-AAGTC
* * * * * *
18018194 TTATTTTCCTGAAATTGCAGTAGAACAGATTGAAGCTATAAATTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-T---TCA-AG-TC
* * * * * * * **
18018245 TTATCTCTCTAAAGTTGTAGTAGAGTATA-TCATAG---CAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTTCAAGTC
* * *
18018286 TTATCTCCCTGAATTTGCAGTGGAGCAGGTTGAAGTTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTTCAAGTC
** * * ** *
18018330 TTATCTCTTTGAAGTTGCAGTGGAGTAGACTGAAGAAAGTGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--TTTCAAGTC
* * *
18018375 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---T---TT-CAAGTC
* * * * * **
18018426 TTATCTCTCTAAAGTTGCAGTTGAGTAGA-TCATAG---CAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTTCAAGTC
* * * *
18018467 TTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTTCAAGTC
* * *
18018511 TTATCTTCCTAAAGTTGTAGTGGAG
1 TTATCTCCCTGAAGTTGCAGTGGAG
18018536 TACACTCAAG
Statistics
Matches: 280, Mismatches: 80, Indels: 54
0.68 0.19 0.13
Matches are distributed among these distances:
41 54 0.19
42 5 0.02
43 1 0.00
44 89 0.32
45 66 0.24
46 5 0.02
48 1 0.00
49 2 0.01
50 6 0.02
51 51 0.18
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTTCAAGTC
Found at i:18018227 original size:89 final size:88
Alignment explanation
Indices: 18018105--18018559 Score: 278
Period size: 89 Copynumber: 5.0 Consensus size: 88
18018095 ATAGCAAACA
* * ** * *
18018105 TTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTTCAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAGTTTCAAGTCTTATCTCTCTGAAGTTGCAGT
18018170 AGAGCAGACTGAAGATAGCGAATC
66 AGAG-AGACTGAAGATAGCGAATC
* * * *
18018194 TTATTTTCCTGAAATTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTAAAG
1 TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAG-T-T---TCA-AG-TCTTATCTCTCTGAAG
* * ** * *
18018259 TTGTAGTAGAG-TA-T-ATCATAGCAAACC
59 TTGCAGTAGAGAGACTGAAGATAGCGAATC
* * * * * *
18018286 TTATCTCCCTGAATTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCTTTGAAGTTGCAGT
1 TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAGTTTCAAGTCTTATCTCTCTGAAGTTGCAGT
* * *
18018351 GGAGTAGACTGAAGAAAGTGAATC
66 AGAG-AGACTGAAGATAGCGAATC
* * *
18018375 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTAAAG
1 TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAG---T---TT-CAAGTCTTATCTCTCTGAAG
* * * *
18018440 TTGCAGTTGAGTAGA-T---CATAGCAAACC
59 TTGCAGTAGAG-AGACTGAAGATAGCGAATC
* * * * * * * * *
18018467 TTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCT-TCCTAAAGTTGTAG
1 TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAGTTTCAAGTCTTATCTCT-CTGAAGTTGCAG
* * * *
18018531 TGGAGTACACTCAAGATAGCGGATC
65 TAGAG-AGACTGAAGATAGCGAATC
18018556 TTAT
1 TTAT
18018560 CATATCAAAC
Statistics
Matches: 280, Mismatches: 63, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
84 1 0.00
85 52 0.19
86 4 0.01
87 2 0.01
88 1 0.00
89 78 0.28
90 2 0.01
91 2 0.01
92 75 0.27
93 1 0.00
94 3 0.01
95 4 0.01
96 55 0.20
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (88 bp):
TTATTTCCCTGAAATTGCAGTGGAACAGATTGAAGTTTCAAGTCTTATCTCTCTGAAGTTGCAGT
AGAGAGACTGAAGATAGCGAATC
Found at i:18018292 original size:181 final size:181
Alignment explanation
Indices: 18018091--18018559 Score: 713
Period size: 181 Copynumber: 2.6 Consensus size: 181
18018081 AGATTAAATC
* * *
18018091 TATCATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTTCAAGTCTTATCTC
1 TATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC
* * *
18018156 CCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTTCCTGAAATTGCAGTAGAACA
66 CCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAATTGCAGTAGAACA
* *
18018221 GATTGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGTAGTAGAGTA
131 GATTGAAGCTATAAATTACAAATCTTATCTCTCTAAAGTTGCAGTAGAGTA
*
18018272 TATCATAGCAAACCTTATCTCCCTGAATTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC
1 TATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC
** * * * *
18018337 TTTGAAGTTGCAGTGGAGTAGACTGAAGAAAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACA
66 CCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAATTGCAGTAGAACA
*
18018402 GATTGAAGCTATAAATTACAAATCTTATCTCTCTAAAGTTGCAGTTGAGTA
131 GATTGAAGCTATAAATTACAAATCTTATCTCTCTAAAGTTGCAGTAGAGTA
* * * *
18018453 GATCATAGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTT
1 TATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC
* * * * *
18018518 CCTAAAGTTGTAGTGGAGTACACTCAAGATAGCGGATCTTAT
66 CCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTAT
18018560 CATATCAAAC
Statistics
Matches: 258, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
181 258 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (181 bp):
TATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTC
CCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTGAAATTGCAGTAGAACA
GATTGAAGCTATAAATTACAAATCTTATCTCTCTAAAGTTGCAGTAGAGTA
Found at i:18018319 original size:92 final size:92
Alignment explanation
Indices: 18018147--18018490 Score: 317
Period size: 92 Copynumber: 3.7 Consensus size: 92
18018137 AAGTTTCAAG
* * * * * * * * *
18018147 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTTCCTGAAATTGC
1 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-T---CATAGCAAACCTTATCTCCCTGAAGTTGC
*
18018212 AGTAGAACAGATTGAAGCTATAAATTACAGA
62 AGTGGAACAGATTGAAGCTATAAATTACAGA
* * *
18018243 TCTTATCTCTCTAAAGTTGTAGTAGAGTATATCATAGCAAACCTTATCTCCCTGAATTTGCAGTG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
* * *
18018308 GAGCAGGTTGAAG-T-T--A-CA-AG-
66 GAACAGATTGAAGCTATAAATTACAGA
* * * * * * *
18018328 TCTTATCTCTTTGAAGTTGCAGTGGAGTAGACTGA-AGAAAGTGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-TCATAG-CA---AACCTTATCTCCCTGAAGTTG
*
18018392 CAGTGGAACAGATTGAAGCTATAAATTACAAA
61 CAGTGGAACAGATTGAAGCTATAAATTACAGA
* *
18018424 TCTTATCTCTCTAAAGTTGCAGTTGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTACAGTG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
18018489 GA
66 GA
18018491 GCAGGTTAAA
Statistics
Matches: 198, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
85 28 0.14
86 5 0.03
87 1 0.01
88 1 0.01
89 34 0.17
90 2 0.01
91 2 0.01
92 62 0.31
93 1 0.01
94 1 0.01
95 5 0.03
96 56 0.28
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (92 bp):
TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
GAACAGATTGAAGCTATAAATTACAGA
Found at i:18020194 original size:18 final size:18
Alignment explanation
Indices: 18020163--18020210 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18020153 TTTTAAACAC
*
18020163 GTTTAATTTATTATAT-T
1 GTTTTATTTATTATATCT
18020180 GTTTTATTTATTTATATCT
1 GTTTTATTTA-TTATATCT
18020199 -TTTTATTT-TTAT
1 GTTTTATTTATTAT
18020211 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 14 0.50
19 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (18 bp):
GTTTTATTTATTATATCT
Found at i:18020248 original size:12 final size:13
Alignment explanation
Indices: 18020231--18020285 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
18020221 TCTAAATTAT
18020231 TTATTATTAGT-A
1 TTATTATTAGTCA
*
18020243 TTATTATTAAT-A
1 TTATTATTAGTCA
*
18020255 TTATCATTA-TCA
1 TTATTATTAGTCA
*
18020267 TTATCATT-GTCA
1 TTATTATTAGTCA
18020279 TTATTAT
1 TTATTAT
18020286 ATTTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 1 0.03
12 37 0.97
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (13 bp):
TTATTATTAGTCA
Found at i:18020263 original size:18 final size:18
Alignment explanation
Indices: 18020242--18020285 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18020232 TATTATTAGT
18020242 ATTATTATTAAT-ATTATC
1 ATTATTATT-ATCATTATC
* *
18020260 ATTATCATTATCATTGTC
1 ATTATTATTATCATTATC
18020278 ATTATTAT
1 ATTATTAT
18020286 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTATTATCATTATC
Found at i:18024606 original size:24 final size:24
Alignment explanation
Indices: 18024549--18024607 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
18024539 GGTTTAATGC
* *
18024549 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
18024573 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
18024597 AAATGGATATA
1 AAATGGATATA
18024608 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:18024699 original size:20 final size:19
Alignment explanation
Indices: 18024673--18024737 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
18024663 AATATTTTTA
18024673 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
18024692 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
18024710 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
18024729 ATTTATGTA
1 A-TTATGTA
18024738 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:18024702 original size:37 final size:37
Alignment explanation
Indices: 18024648--18024760 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
18024638 TTATGTTTTA
*
18024648 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
18024684 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
18024721 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
18024758 ATT
1 ATT
18024761 TAATTCGGGT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 4 0.05
37 69 0.95
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:18024716 original size:17 final size:17
Alignment explanation
Indices: 18024660--18024754 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
18024650 TCAAGACTTG
18024660 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
18024677 TGTAGTGATTCAAAGACTTA
1 TGTAAT-ATTTTTA-A-TTA
18024697 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
18024714 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
*
18024734 TGTAATGTTTTTAATTA
1 TGTAATATTTTTAATTA
18024751 TGTA
1 TGTA
18024755 GTGATTTAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
17 20 0.36
18 10 0.18
19 9 0.16
20 16 0.29
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:18024787 original size:9 final size:9
Alignment explanation
Indices: 18024761--18024886 Score: 180
Period size: 9 Copynumber: 13.6 Consensus size: 9
18024751 TGTAGTGATT
18024761 TAATTCGGG
1 TAATTCGGG
18024770 TAATTTTCGGG
1 TAA--TTCGGG
18024781 TAATTCGGG
1 TAATTCGGG
18024790 TAATTCGGG
1 TAATTCGGG
* *
18024799 TAATTTGGA
1 TAATTCGGG
18024808 TAATTTTCGGG
1 TAA--TTCGGG
18024819 TAATTCGGG
1 TAATTCGGG
18024828 TAATTCGGG
1 TAATTCGGG
*
18024837 TAAGTCGGG
1 TAATTCGGG
18024846 TAATTCGGG
1 TAATTCGGG
*
18024855 TAAGTCGGG
1 TAATTCGGG
18024864 TAATTCGGG
1 TAATTCGGG
18024873 TAATTCGGG
1 TAATTCGGG
18024882 TAATT
1 TAATT
18024887 TTTAACCAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
9 89 0.85
11 16 0.15
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:18025064 original size:12 final size:12
Alignment explanation
Indices: 18025047--18025071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18025037 AAGAATTTCG
18025047 GGTCGGTTAACC
1 GGTCGGTTAACC
18025059 GGTCGGTTAACC
1 GGTCGGTTAACC
18025071 G
1 G
18025072 ACTGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:18033299 original size:18 final size:19
Alignment explanation
Indices: 18033276--18033315 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18033266 TTTAGGGATT
*
18033276 AAATTTAA-TAAAATGTGA
1 AAATTTAAGGAAAATGTGA
*
18033294 AAATTTAAGGAAATTGTGA
1 AAATTTAAGGAAAATGTGA
18033313 AAA
1 AAA
18033316 CTAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (19 bp):
AAATTTAAGGAAAATGTGA
Found at i:18033784 original size:22 final size:22
Alignment explanation
Indices: 18033733--18033785 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18033723 GTGTATTCTA
* *
18033733 ATTCGCACTTCTATTCCTATTG
1 ATTCGCACTTCTATGCCTACTG
*
18033755 ATTCGCACTTTTATGCCTACT-
1 ATTCGCACTTCTATGCCTACTG
18033776 ATTCTGCACT
1 ATTC-GCACT
18033786 CTGGTGCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTCGCACTTCTATGCCTACTG
Found at i:18042655 original size:15 final size:15
Alignment explanation
Indices: 18042635--18042670 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18042625 AACAACATGA
*
18042635 AATAATAGGAATAAT
1 AATAATAGCAATAAT
18042650 AATAATAGCAATAAT
1 AATAATAGCAATAAT
18042665 AATAAT
1 AATAAT
18042671 GATAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (15 bp):
AATAATAGCAATAAT
Found at i:18046440 original size:18 final size:17
Alignment explanation
Indices: 18046400--18046440 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
18046390 ATTAGAAGTT
*
18046400 GTTCAAAAGTTTATCCA
1 GTTCAAAAGTTTATCAA
18046417 GTTTCAAAAGTTTATTCAA
1 G-TTCAAAAGTTTA-TCAA
18046436 GTTCA
1 GTTCA
18046441 GCTTAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (17 bp):
GTTCAAAAGTTTATCAA
Found at i:18050847 original size:25 final size:25
Alignment explanation
Indices: 18050813--18050867 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
18050803 CCAAAGCTTC
18050813 TTTATTAAAATATTC-ACTAAAACAT-
1 TTTATTAAAATA-TCAACTAAAA-ATA
18050838 TTTATTAAAATATCAACTAAAAATA
1 TTTATTAAAATATCAACTAAAAATA
18050863 TTTAT
1 TTTAT
18050868 ACTTATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTATTAAAATATCAACTAAAAATA
Found at i:18059637 original size:15 final size:15
Alignment explanation
Indices: 18059619--18059654 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18059609 TAAATTTTAA
18059619 ATTTTTTTAATAAAT-
1 ATTTTTTTAA-AAATG
18059634 ATTTTTTTAAAAATG
1 ATTTTTTTAAAAATG
18059649 ATTTTT
1 ATTTTT
18059655 AGAGTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTTTTTAAAAATG
Found at i:18059745 original size:16 final size:17
Alignment explanation
Indices: 18059715--18059747 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18059705 AATTAGTTCT
18059715 GAAGCTAGACTGTTAAA
1 GAAGCTAGACTGTTAAA
18059732 GAAGCTAG-CTGTTAAA
1 GAAGCTAGACTGTTAAA
18059748 AAACTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
GAAGCTAGACTGTTAAA
Done.