Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 84 of 182
Found at i:25293174 original size:26 final size:26
Alignment explanation
Indices: 25293142--25293192 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
25293132 CTTTTTTAAG
25293142 ATACACATTCCCAATCAATTTCTTTT
1 ATACACATTCCCAATCAATTTCTTTT
25293168 ATACACATTCCCAATCAATTTCTTT
1 ATACACATTCCCAATCAATTTCTTT
25293193 GCTATCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.41
Consensus pattern (26 bp):
ATACACATTCCCAATCAATTTCTTTT
Found at i:25294394 original size:88 final size:88
Alignment explanation
Indices: 25294290--25295041 Score: 944
Period size: 88 Copynumber: 8.5 Consensus size: 88
25294280 TAAAACTTGT
* * *
25294290 CCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
**
25294355 ATGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * * * *
25294378 CCTTGCCTCCCAGGGTTACAGCGGAGTAAGTTAAAAAATAGCAGATCTTGCCTTTCTGCACCGAC
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCTGCACCGAC
*
25294443 AGCGAAGCAGATCGAAGACACTAG
65 AGCGAAGCAGATCGAAGACACCAG
* * * * *
25294467 CCTTGCCTCCCTGAGTTGTAGCGAAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
25294532 GCGAAACAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* ** * * *
25294555 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
25294620 GTGAAGCAGATCGAAGACACC-G
66 GCGAAGCAGATCGAAGACACCAG
* * * * *
25294642 CCCTTGCCTCTCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCAAT
1 -CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
25294707 AGCGAAGCAGATCGAAGACACCAAG
65 AGCGAAGCAGATCGAAGACACC-AG
* * * * *
25294732 -CTTGCCTCCCTGGGTTGCAACGGAACATGTTAAAAATAACAGATCTTGCCTTCCTACACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* * *
25294796 GGGAAGCAAATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* * *
25294819 CCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGATA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
25294884 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * ** *
25294907 CCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTA-CAGATCTTTTCTCCCTAAGCA--G
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCT--GCACCG
*
25294969 TAGAG-G-AGCAGATCGAAGACACCAG
63 -ACAGCGAAGCAGATCGAAGACACCAG
**
25294994 CCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTT
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTT
25295042 ATCTCCCTAA
Statistics
Matches: 582, Mismatches: 73, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
87 66 0.11
88 430 0.74
89 82 0.14
90 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (88 bp):
CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
GCGAAGCAGATCGAAGACACCAG
Found at i:25295017 original size:87 final size:87
Alignment explanation
Indices: 25294359--25295402 Score: 685
Period size: 88 Copynumber: 11.9 Consensus size: 87
25294349 CCGACAATGA
* * * * *
25294359 AGCAGATCGAAGACACCAGCCTTGCCTCCCAGGGTTACAGCGGAG-TAAGTTAAAAAATAGCAGA
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCT-GGTTAAAAATTA-CAGA
** ** *
25294423 TCTTGCCTTTCT--GCACCG-ACAGCG
64 TCTTATCTCCCTAAGCA--GTAGAG-G
* * * **
25294447 AAGCAGATCGAAGACACTAGCCTTGCCTCCCTGAGTTGTAGCGAAGCAAGTTAAAAA-TAGCAGA
1 -AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTA-CAGA
** * * * ** * *
25294511 TCTTGCCTTCCTGCACCAACAGCGA
64 TCTTATCTCCCT-AAGCAGTAGAGG
* ** * *
25294536 AACAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAA-TAGCAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTA-CAGAT
** * * * ** * *
25294600 CTTGCCTTCCTGCACCAACAGTGA
65 CTTATCTCCCT-AAGCAGTAGAGG
* * * *
25294624 AGCAGATCGAAGACACC-GCCCTTGCCTCTCTGGGTTGCAGCAGAGCAGGTTAAAAA-TAGCAGA
1 AGCAGATCGAAGACACCAG-CCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTA-CAGA
** * * * * * * *
25294687 TCTTGCCTTCTTGCACCAATAGCGA
64 TCTTATCTCCCT-AAGCAGTAGAGG
* * * *
25294712 AGCAGATCGAAGACACCAAG-CTTGCCTCCCTGGGTTGCAACGGAACAT-GTTAAAAATAACAGA
1 AGCAGATCGAAGACACC-AGCCTTGCCTCCCTGAGTTGCAGCGGAGC-TGGTTAAAAATTACAGA
** * * *
25294775 TCTTGCCTTCCTACA-CCG-ACAGGG
64 TCTTATCTCCCTA-AGCAGTAGA-GG
* * * * * *
25294799 AAGCAAATCGAAGACACTAGCCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGA
1 -AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTA-CAGA
** * * *
25294863 TCTTGCCTTCCT--GCACCGATAGCGA
64 TCTTATCTCCCTAAGCA--G-TAGAGG
* *
25294888 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTACAGATC
*
25294953 TTTTCTCCCTAAGCAGTAGAGG
66 TTATCTCCCTAAGCAGTAGAGG
* *
25294975 AGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTACAGATC
*
25295040 TTATCTCCCTAAGCAGCAGAGG
66 TTATCTCCCTAAGCAGTAGAGG
* * * ** * *
25295062 AGCATATCAAAGAC-CGCAGCCTTGTCTCCCTGAGCAGCAGTGGAG-TAGGTTGAAAATTACAGA
1 AGCAGATCGAAGACAC-CAGCCTTGCCTCCCTGAGTTGCAGCGGAGCT-GGTTAAAAATTACAGA
*
25295125 TCTTATCTCCCTAAGCAGTAGTGG
64 TCTTATCTCCCTAAGCAGTAGAGG
* * * ** * * *
25295149 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG-TAGGTTGAAAATTACAAAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCT-GGTTAAAAATTACAGAT
25295213 CTTATCTCCCTAAGCAGTAGTA-G
65 CTTATCTCCCTAAGCAGTAG-AGG
* * * ** * *
25295236 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG-TAGGTTGAAAATTACAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCT-GGTTAAAAATTACAGAT
25295300 CTTATCTCCCTAAGCAGTAGTA-G
65 CTTATCTCCCTAAGCAGTAG-AGG
* * ** * * * *
25295323 AGCAGATCGAAGTC-CCAGCCTTGTCTCCCTGAGCAGCGGTGGAG-TAAGTTGAAAATTACAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCT-GGTTAAAAATTACAGAT
*
25295386 CTTATCTCCCTGAGCAG
65 CTTATCTCCCTAAGCAG
25295403 CAGTGGAGTA
Statistics
Matches: 833, Mismatches: 94, Indels: 59
0.84 0.10 0.06
Matches are distributed among these distances:
86 66 0.08
87 342 0.41
88 364 0.44
89 52 0.06
90 7 0.01
91 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (87 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCTGGTTAAAAATTACAGATC
TTATCTCCCTAAGCAGTAGAGG
Found at i:25295051 original size:44 final size:44
Alignment explanation
Indices: 25294929--25295620 Score: 266
Period size: 44 Copynumber: 15.9 Consensus size: 44
25294919 GGGTTGTAGC
* * *
25294929 GGAGCTGGTTAAAAATTACAGATCTTTTCTCCCTAAGCAGTAGA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* ** * * * ** ** *
25294973 GGAGCAGATCGAAGA-CACCAG-CCTTGCCTCCCTAAGTTGCAGC
1 GGAGCAGGTTAAAAATTA-CAGATCTTATCTCCCTAAGCAGCAGA
25295016 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
** * * *** * * * *
25295060 GGAGCATATCAAAGACCGCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
25295103 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* ** * ** * * * *
25295147 GGAGCA-GATCGAAGTCGCCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
25295190 GGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-A
* ** * ** * * * *
25295235 -GAGCA-GATCGAAGTCCCCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* * *
25295277 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-A
* ** * ** * * * * *
25295322 -GAGCA-GATCGAAGTCCCAG-CCTTGTCTCCCTGAGCAGCGGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * * *
25295363 GGAGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
25295407 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * ** * * * * *
25295451 GGAGTA-GATCGAAGTCCT-CAG-CCTTGTCTCCC-AGAGCAGTAGT
1 GGAGCAGGTTAAAAAT--TACAGATCTTATCTCCCTA-AGCAGCAGA
* * * *
25295494 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * * ** * * * * *
25295538 GGAGTA-GATAGAAGTCCCCAG-CCTTGTCTCCATGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* *
25295581 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAG
25295621 TAGTGAAGCA
Statistics
Matches: 466, Mismatches: 156, Indels: 52
0.69 0.23 0.08
Matches are distributed among these distances:
42 22 0.05
43 198 0.42
44 244 0.52
45 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (44 bp):
GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
Found at i:25295142 original size:174 final size:173
Alignment explanation
Indices: 25294800--25295410 Score: 687
Period size: 174 Copynumber: 3.5 Consensus size: 173
25294790 CCGACAGGGA
* * * * * **
25294800 AGCAAATCGAAGACACTAGCCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTA-CAGAT
** * * * * * ** *
25294864 CTTGCCTTCCT--GCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
65 CTTATCTCCCTAAGCAGC-AGAG-G-AGCAGATCGAAGAC-CCAGCCTTGTCTCCCTGAGCAGCA
* * *
25294927 GCGGAGCT-GGTTAAAAATTACAGATCTTTTCTCCCTAAGCAGTAGAGG
126 GTGGAG-TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
* **
25294975 AGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
25295040 TTATCTCCCTAAGCAGCAGAGGAGCATATCAAAGACCGCAGCCTTGTCTCCCTGAGCAGCAGTGG
66 TTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACC-CAGCCTTGTCTCCCTGAGCAGCAGTGG
*
25295105 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
130 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
* * * * * * *
25295149 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
25295214 TTATCTCCCTAAGCAGTAGTA-GAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTG
66 TTATCTCCCTAAGCAGCAG-AGGAGCAGATCGAAG-ACCCAGCCTTGTCTCCCTGAGCAGCAGTG
25295278 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA-G
129 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG-AGG
* * * * * * *
25295323 AGCAGATCGAAGTC-CCAGCCTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
25295387 TTATCTCCCTGAGCAGCAGTGGAG
66 TTATCTCCCTAAGCAGCAGAGGAG
25295411 TAGGTTGAAA
Statistics
Matches: 384, Mismatches: 43, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
173 69 0.18
174 239 0.62
175 67 0.17
176 5 0.01
177 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (173 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
TTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACCCAGCCTTGTCTCCCTGAGCAGCAGTGGA
GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
Found at i:25295257 original size:261 final size:260
Alignment explanation
Indices: 25294888--25295410 Score: 737
Period size: 261 Copynumber: 2.0 Consensus size: 260
25294878 CCGATAGCGA
* ** * *
25294888 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCTGGTTAAAAATTACAAATC
* **
25294953 TTTTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGG
66 TTATCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGCGG
*
25295018 AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-AGGAGCATATCAAAGACCGCAGC
131 AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTA-GAGCAGATCAAAGACC-CAGC
* *
25295082 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
194 CTTGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGT
25295147 GG
259 GG
* * * * *
25295149 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG-TAGGTTGAAAATTACAAAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCT-GGTTAAAAATTACAAAT
* * * * *
25295213 CTTATCTCCCTAAGCAGTAGTA-GAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGT
65 CTTATCTCCCTAAGCAGTAG-AGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGC
* * * * *
25295277 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGTCCCAGC
129 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTAGAGCAGATCAAAGACCCAGC
* *
25295342 CTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAGCAGT
194 CTTGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGT
25295407 GG
259 GG
25295409 AG
1 AG
25295411 TAGGTTGAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
260 70 0.30
261 159 0.69
262 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (260 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCTGGTTAAAAATTACAAATC
TTATCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGCGG
AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTAGAGCAGATCAAAGACCCAGCCT
TGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGTGG
Found at i:25295415 original size:217 final size:218
Alignment explanation
Indices: 25295173--25295625 Score: 773
Period size: 217 Copynumber: 2.1 Consensus size: 218
25295163 GCCAGCCTTG
25295173 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
*
25295238 CAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
* * *
25295303 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGT-CCCAGCCTTGTCTCCCTGAGCAGCGGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
25295367 TAAGTTGAAAATTACAGATCTTA
196 TAAGTTGAAAATTACAGATCTTA
* *
25295390 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
* * *
25295455 TAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
* *
25295520 ATCTCCCTAAGCAGTAGTGGAGTAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
*
25295585 TAGGTTGAAAATTACAGATCTTA
196 TAAGTTGAAAATTACAGATCTTA
* *
25295608 TCTCCCTAAGCAGTAGTG
1 TCTCCCTGAGCAGCAGTG
25295626 AAGCAGATCG
Statistics
Matches: 221, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
217 154 0.70
218 67 0.30
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (218 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
TAAGTTGAAAATTACAGATCTTA
Found at i:25295498 original size:87 final size:87
Alignment explanation
Indices: 25295390--25295638 Score: 428
Period size: 87 Copynumber: 2.9 Consensus size: 87
25295380 ACAGATCTTA
*
25295390 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
25295455 TAGATCGAAGTCCTCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
25295477 TCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
25295542 TAGATAGAAGTCCCCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
25295564 TCT-CCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAA
1 TCTCCCA-GAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
25295628 GCAGATCGAAG
65 GTAGATCGAAG
25295639 ATGGCACATC
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 3 0.02
87 150 0.98
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
TAGATCGAAGTCCCCAGCCTTG
Found at i:25295505 original size:304 final size:304
Alignment explanation
Indices: 25295086--25295638 Score: 1002
Period size: 304 Copynumber: 1.8 Consensus size: 304
25295076 CGCAGCCTTG
25295086 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
25295151 CAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
66 CAGATCGAAGTCGCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
* *
25295216 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
25295281 TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT-AGAGCAGATCGAAGTCCCAGCCTT
196 TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGA-AGCAGATCGAAGTCCCAGCCTT
25295345 GTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
260 GTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
25295390 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * *
25295455 TAGATCGAAGTC-CTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCT
66 CAGATCGAAGTCGC-CAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCT
* *
25295519 TATCTCCCTAAGCAGTAGTGGAGTAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGA
130 TATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGA
25295584 GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAG
195 GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAG
25295639 ATGGCACATC
Statistics
Matches: 239, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
303 1 0.00
304 237 0.99
305 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (304 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGTCGCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGTCCCAGCCTTG
TCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
Found at i:25297083 original size:15 final size:15
Alignment explanation
Indices: 25297030--25297095 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
25297020 TATTAGTTAT
*
25297030 TTATTATTAAATTAA
1 TTATTATTATATTAA
*
25297045 TTATT-TT-TA--CA
1 TTATTATTATATTAA
* *
25297056 TTCTTATTGTATTAA
1 TTATTATTATATTAA
25297071 TTATTATTATATT-A
1 TTATTATTATATTAA
25297085 TATATTATTAT
1 T-TATTATTAT
25297096 TGTACCTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.08
14 4 0.10
15 26 0.65
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATTATATTAA
Found at i:25297582 original size:8 final size:8
Alignment explanation
Indices: 25297546--25297583 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
25297536 TTTTTAACGC
25297546 ATAT-TTT
1 ATATATTT
25297553 ATA-ATTT
1 ATATATTT
*
25297560 ATATATAT
1 ATATATTT
25297568 ATATATTT
1 ATATATTT
25297576 ATATATTT
1 ATATATTT
25297584 TTCTTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 9 0.33
8 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATATTT
Found at i:25297827 original size:13 final size:12
Alignment explanation
Indices: 25297794--25297840 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
25297784 TCATAGATTG
25297794 TTATTT-TTTGT
1 TTATTTATTTGT
* *
25297805 ATATTAATTTCGT
1 TTATTTATTT-GT
25297818 TTATTTATTTGT
1 TTATTTATTTGT
25297830 TTATATTATTT
1 TTAT-TTATTT
25297841 CTATGCCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 16 0.55
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATTTATTTGT
Found at i:25300050 original size:13 final size:12
Alignment explanation
Indices: 25300004--25300050 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
25299994 CGTTATAGAT
25300004 TAAATTAATTTA
1 TAAATTAATTTA
* *
25300016 TAAAATATTTTA
1 TAAATTAATTTA
25300028 -AAATTTAATTGTA
1 TAAA-TTAATT-TA
25300041 TAAATTAATT
1 TAAATTAATT
25300051 CAATCTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 3 0.11
12 14 0.50
13 8 0.29
14 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:25302647 original size:3 final size:3
Alignment explanation
Indices: 25302641--25302687 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
25302631 TGATAAAAAA
* *
25302641 AAT AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25302688 ACTGAATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25303863 original size:24 final size:24
Alignment explanation
Indices: 25303826--25303871 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25303816 GACTGTGGGC
*
25303826 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
25303850 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
25303872 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:25305176 original size:20 final size:20
Alignment explanation
Indices: 25305123--25305169 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
25305113 AATATTTTCC
* *
25305123 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTCCAGAAA
25305143 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
25305163 AGTAAAA
1 AGTAAAA
25305170 TGATTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (20 bp):
AGTAAAACATTTTCCAGAAA
Found at i:25308141 original size:13 final size:12
Alignment explanation
Indices: 25308095--25308144 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
25308085 CGTTATAGAT
25308095 TAAATTAATTTA
1 TAAATTAATTTA
* *
25308107 TAAAATATTTTA
1 TAAATTAATTTA
* *
25308119 CAATTTAATTGTA
1 TAAATTAATT-TA
25308132 TAAATTAATTTA
1 TAAATTAATTTA
25308144 T
1 T
25308145 TTTATAGGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:25308732 original size:25 final size:26
Alignment explanation
Indices: 25308688--25308737 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
25308678 TATTAAATAT
25308688 ATATATTTATTTTTAATCAAATATAA
1 ATATATTTATTTTTAATCAAATATAA
25308714 ATATATTTA-TTTTAATCAAATATA
1 ATATATTTATTTTTAATCAAATATA
25308738 TATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATTTATTTTTAATCAAATATAA
Found at i:25315037 original size:30 final size:30
Alignment explanation
Indices: 25315003--25315059 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
25314993 TACAACTACA
25315003 GTTTTCTCTAAAATGAGTTTATTTAAAACG
1 GTTTTCTCTAAAATGAGTTTATTTAAAACG
25315033 GTTTTCTCTAAAATGAGTTTATTTAAA
1 GTTTTCTCTAAAATGAGTTTATTTAAA
25315060 GTCTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (30 bp):
GTTTTCTCTAAAATGAGTTTATTTAAAACG
Found at i:25315044 original size:15 final size:16
Alignment explanation
Indices: 25315002--25315052 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
25314992 GTACAACTAC
*
25315002 AGTTTTCTCTAAAATG
1 AGTTTTCTCTAAAACG
25315018 AGTTTAT-T-TAAAACG
1 AGTTT-TCTCTAAAACG
*
25315033 -GTTTTCTCTAAAATG
1 AGTTTTCTCTAAAACG
25315048 AGTTT
1 AGTTT
25315053 ATTTAAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 12 0.41
16 10 0.34
17 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (16 bp):
AGTTTTCTCTAAAACG
Found at i:25315059 original size:15 final size:15
Alignment explanation
Indices: 25315011--25315059 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
25315001 CAGTTTTCTC
25315011 TAAAATGAGTTTATT
1 TAAAATGAGTTTATT
*
25315026 TAAAACG-GTTT-TCT
1 TAAAATGAGTTTAT-T
25315040 CTAAAATGAGTTTATT
1 -TAAAATGAGTTTATT
25315056 TAAA
1 TAAA
25315060 GTCTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.04
14 5 0.18
15 16 0.57
16 5 0.18
17 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (15 bp):
TAAAATGAGTTTATT
Found at i:25315514 original size:14 final size:14
Alignment explanation
Indices: 25315495--25315522 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25315485 TACAACTTGA
25315495 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
25315509 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
25315523 GTACTCGCCA
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:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTGTCTGCCATAT
Found at i:25318025 original size:22 final size:22
Alignment explanation
Indices: 25317995--25318037 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25317985 ACAGCAGAAC
* *
25317995 AGGTTTTTAACGGCGTTTTTTT
1 AGGTCTTTAACGGCGCTTTTTT
*
25318017 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAACGGCGCTTTTT
25318038 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAACGGCGCTTTTTT
Found at i:25318212 original size:43 final size:43
Alignment explanation
Indices: 25318109--25318228 Score: 161
Period size: 42 Copynumber: 2.8 Consensus size: 43
25318099 ACGTCGCTAA
* * * *
25318109 CTTTTGCGGCGCTTACATAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT-TAGAAAAAAACGCCGCTAAAGATCATGTT
25318153 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAGATCATGTT
** *
25318195 CTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA
1 CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAA
25318229 AGTAATGTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.56
43 19 0.28
44 11 0.16
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:25318237 original size:43 final size:41
Alignment explanation
Indices: 25318148--25318293 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 41
25318138 GCTAAAGATC
* *
25318148 ATGTTCTTTAGCGGCGC-TTAGAAAAAAACGCCGCT-AAAGATC
1 ATGTTCTTTAGCGGCGCTTTAG--AAAAACGCCACTAAAAG-TA
*
25318190 ATGTTCTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAAAGTA
1 ATGTTCTTTAGCGGCGCTTTAGA--AAAACGCCACTAAAAGTA
* **
25318233 ATGTT-TTATAGCGGCACTTGTTCAAAAACGCCACTAAAAGTA
1 ATGTTCTT-TAGCGGCGCTT-TAGAAAAACGCCACTAAAAGTA
* *
25318275 GTGTTCTTTAGCAGCGCTT
1 ATGTTCTTTAGCGGCGCTT
25318294 ATTTCACAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 49 0.56
43 32 0.36
44 6 0.07
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
ATGTTCTTTAGCGGCGCTTTAGAAAAACGCCACTAAAAGTA
Found at i:25318271 original size:42 final size:43
Alignment explanation
Indices: 25318215--25318310 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
25318205 GCTTTAGAGG
* *
25318215 AAAACGCCTCTAAAAGTAATGTT-TTATAGCGGCACTT-GTTCA
1 AAAACGCCACTAAAAGTAATGTTCTT-TAGCAGCACTTAGTTCA
* * *
25318257 AAAACGCCACTAAAAGTAGTGTTCTTTAGCAGCGCTTATTTCA
1 AAAACGCCACTAAAAGTAATGTTCTTTAGCAGCACTTAGTTCA
*
25318300 CAAACGCCACT
1 AAAACGCCACT
25318311 GTTTTGATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
AAAACGCCACTAAAAGTAATGTTCTTTAGCAGCACTTAGTTCA
Found at i:25318746 original size:12 final size:12
Alignment explanation
Indices: 25318714--25318749 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
25318704 TTTTGAACCT
* *
25318714 CTGCTTCTATTG
1 CTGCTTCTCTCG
25318726 CTGCTTCTCTCG
1 CTGCTTCTCTCG
25318738 CTGCTTCTCTCG
1 CTGCTTCTCTCG
25318750 TTGTAGCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.36, G:0.17, T:0.44
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:25324043 original size:9 final size:9
Alignment explanation
Indices: 25324029--25324218 Score: 143
Period size: 9 Copynumber: 22.4 Consensus size: 9
25324019 AAGTTATTTA
25324029 TTATGTAAG
1 TTATGTAAG
25324038 TTATGTAAG
1 TTATGTAAG
*
25324047 TTGTGTAAG
1 TTATGTAAG
25324056 TTATGTAAG
1 TTATGTAAG
* *
25324065 CTGTGTAAG
1 TTATGTAAG
*
25324074 TTGTGT-A-
1 TTATGTAAG
* *
25324081 TTATGAAAC
1 TTATGTAAG
25324090 TTATGTAAG
1 TTATGTAAG
*
25324099 TTATGTCAG
1 TTATGTAAG
*
25324108 TTGTGT-A-
1 TTATGTAAG
* *
25324115 TTATGAAAC
1 TTATGTAAG
25324124 TTATGTAAG
1 TTATGTAAG
*
25324133 TTATGT--C
1 TTATGTAAG
25324140 TTATGTAAG
1 TTATGTAAG
* *
25324149 TGATGTAAA
1 TTATGTAAG
*
25324158 ATATGT-A-
1 TTATGTAAG
25324165 TTATGTAAG
1 TTATGTAAG
*
25324174 TTATGTTAG
1 TTATGTAAG
*
25324183 TTGTGT-A-
1 TTATGTAAG
*
25324190 TTATGTAAA
1 TTATGTAAG
25324199 TTATGT-A-
1 TTATGTAAG
25324206 TTATGTAAG
1 TTATGTAAG
25324215 TTAT
1 TTAT
25324219 AAAATTTGTG
Statistics
Matches: 144, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
7 30 0.21
8 10 0.07
9 104 0.72
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:25324118 original size:25 final size:25
Alignment explanation
Indices: 25324030--25324306 Score: 108
Period size: 25 Copynumber: 11.0 Consensus size: 25
25324020 AGTTATTTAT
*
25324030 TATGTAAGTTATGTAAGTTGTGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
25324057 TATGTAAGCTGTGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
25324082 TATGAAACTTATGTAAGTTATGTCAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
25324109 TGTGT-A-TTATGAAACTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
25324134 TATGT--CTTATGTAAGTGATGTAAAA
1 TATGTAAGTTATGTAAGTTATGT--AT
25324159 TATGT-A-TTATGTAAGTTATGTTAGT
1 TATGTAAGTTATGTAAGTTATG-TA-T
* *
25324184 TGTGT-A-TTATGTAAATTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
** * *
25324207 TATGTAAGTTATAAAATTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * * * *
25324232 TACGTAACTTATTTAATTTATGTAAG
1 TATGTAAGTTATGTAAGTTATGT-AT
* * *
25324258 TATGT-A-TTAT-TATGTAATTTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
25324280 TATGTAAGATATTATCTAAGTTATGTA
1 TATGTAAG---TTATGTAAGTTATGTA
25324307 AGTTTTTTTT
Statistics
Matches: 193, Mismatches: 41, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.03
23 12 0.06
24 8 0.04
25 119 0.62
26 11 0.06
27 29 0.15
28 8 0.04
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:25324139 original size:34 final size:34
Alignment explanation
Indices: 25324056--25324139 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
25324046 GTTGTGTAAG
* * *
25324056 TTATGTAAGCTGTGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
25324090 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
25324124 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTC
25324140 TTATGTAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (34 bp):
TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
Found at i:25324142 original size:16 final size:16
Alignment explanation
Indices: 25324018--25324218 Score: 105
Period size: 16 Copynumber: 12.5 Consensus size: 16
25324008 GATTTAGGAA
*
25324018 TAAGTTATTTATTATG
1 TAAGTTATGTATTATG
*
25324034 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
* *
25324052 TAAGTTATGTAAGCTGTG
1 TAAGTTATGT-A-TTATG
*
25324070 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
25324086 AAACTTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
25324104 TCAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
25324120 -AA---A---CTTATG
1 TAAGTTATGTATTATG
*
25324129 TAAGTTATGTCTTATG
1 TAAGTTATGTATTATG
* *
25324145 TAAGTGATGTAAAATATG
1 TAAGTTATGT--ATTATG
25324163 T-A-TTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
25324179 TTAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
25324195 TAAATTATGTATTATG
1 TAAGTTATGTATTATG
25324211 TAAGTTAT
1 TAAGTTAT
25324219 AAAATTTGTG
Statistics
Matches: 143, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
9 5 0.03
10 2 0.01
13 1 0.01
15 3 0.02
16 74 0.52
17 7 0.05
18 51 0.36
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:25324169 original size:41 final size:41
Alignment explanation
Indices: 25324124--25324218 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
25324114 ATTATGAAAC
25324124 TTATGTAAGTTATG-T-CTTATGTAAGTGATGTAAAATATGTA
1 TTATGTAAGTTATGTTACTTATGT-A-TGATGTAAAATATGTA
* * * *
25324165 TTATGTAAGTTATGTTAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTTACTTATGTATGATGTAAAATATGTA
25324206 TTATGTAAGTTAT
1 TTATGTAAGTTAT
25324219 AAAATTTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 41 0.85
42 2 0.04
43 5 0.10
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATGTTACTTATGTATGATGTAAAATATGTA
Found at i:25324228 original size:41 final size:41
Alignment explanation
Indices: 25324151--25324258 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
25324141 TATGTAAGTG
* ***
25324151 ATGTAAAATATGTATTATGTAAGTTATGTTAGTTGTGTATT
1 ATGTAAATTATGTATTATGTAAGTTATAAAAGTTGTGTATT
*
25324192 ATGTAAATTATGTATTATGTAAGTTATAAAATTTGTGTATT
1 ATGTAAATTATGTATTATGTAAGTTATAAAAGTTGTGTATT
* * *
25324233 ACGTAACTTATTTAATTTATGTAAGT
1 ATGTAAATTATGT-A-TTATGTAAGT
25324259 ATGTATTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 46 0.81
42 1 0.02
43 10 0.18
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (41 bp):
ATGTAAATTATGTATTATGTAAGTTATAAAAGTTGTGTATT
Found at i:25324275 original size:27 final size:25
Alignment explanation
Indices: 25324240--25324309 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
25324230 ATTACGTAAC
* *
25324240 TTATTTAATTTATGTAAGTATGTATTA
1 TTATCTAATTTATGTAAGTAAG-A-TA
* *
25324267 TTATGTAATTTAT-TATGTAAGATA
1 TTATCTAATTTATGTAAGTAAGATA
*
25324291 TTATCTAAGTTATGTAAGT
1 TTATCTAATTTATGTAAGT
25324310 TTTTTTTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 13 0.36
25 5 0.14
26 6 0.17
27 12 0.33
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (25 bp):
TTATCTAATTTATGTAAGTAAGATA
Found at i:25324567 original size:24 final size:23
Alignment explanation
Indices: 25324537--25324589 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
25324527 TCCAACACCA
*
25324537 TTAAAAACCAAATTGTTACAATATT
1 TTAAAAA-CAAATT-TTAAAATATT
* *
25324562 TTAAAAAGAAATTTTAAAATTTT
1 TTAAAAACAAATTTTAAAATATT
25324585 TTAAA
1 TTAAA
25324590 TCAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 5 0.20
25 7 0.28
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAAAACAAATTTTAAAATATT
Found at i:25325229 original size:7 final size:7
Alignment explanation
Indices: 25325219--25325245 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25325209 ATTTAAAGCA
25325219 ATTGCCG
1 ATTGCCG
25325226 ATTGCCG
1 ATTGCCG
25325233 ATTGCCG
1 ATTGCCG
25325240 ATTGCC
1 ATTGCC
25325246 AAGTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (7 bp):
ATTGCCG
Found at i:25325714 original size:41 final size:41
Alignment explanation
Indices: 25325668--25325791 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 41
25325658 GGGGGGATTT
25325668 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAATTGG
1 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAATTGG
* *
25325709 GGGAATTTGGGGATTTAGGGAAATTAAATCGGGGAAACTGG
1 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAATTGG
* ** *
25325750 GGGAA--TAGGAATTGGGGGGAAATGAAATCGGGG-AATTGG
1 GGGAATTTAGGGATT-TAGGGAAATTAAATCGGGGAAATTGG
25325789 GGG
1 GGG
25325792 GAATACGAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.19
40 16 0.22
41 44 0.59
ACGTcount: A:0.32, C:0.03, G:0.42, T:0.23
Consensus pattern (41 bp):
GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAATTGG
Found at i:25325792 original size:40 final size:40
Alignment explanation
Indices: 25325726--25325805 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
25325716 TGGGGATTTA
* * *
25325726 GGGAAATTAAATCGGGGAAACTGGGGGAATAGGAATTGGG
1 GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
*
25325766 GGGAAATGAAATCGGGG-AATTGGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAAACT-GGGGGAATACGAAATGGG
25325806 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.35, C:0.05, G:0.44, T:0.16
Consensus pattern (40 bp):
GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
Found at i:25325810 original size:24 final size:24
Alignment explanation
Indices: 25325759--25325810 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
25325749 GGGGAATAGG
* *
25325759 AATTGGGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
25325783 AATTGGGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
25325807 AATT
1 AATT
25325811 AGGGAATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:25326379 original size:22 final size:22
Alignment explanation
Indices: 25326343--25326395 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
25326333 ATAGGCCCCT
*
25326343 AACTTT-AACCTGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
25326364 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
*
25326386 AAATTTAAAC
1 AACTTTAAAC
25326396 TCTTAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:25326381 original size:29 final size:29
Alignment explanation
Indices: 25326348--25326440 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
25326338 CCCCTAACTT
*
25326348 TAACCTGTAACCTTTAAACTTTAAACCCG
1 TAACCTCTAACCTTTAAACTTTAAACCCG
* **
25326377 TAACCTTTAAAATTTAAACTCTTAAACCC-
1 TAACCTCTAACCTTTAAACT-TTAAACCCG
* * * *
25326406 TAAACTACAAACC-TTACACTCTAAACCCG
1 TAACCT-CTAACCTTTAAACTTTAAACCCG
25326435 TAACCT
1 TAACCT
25326441 TACACTCAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.14
29 33 0.66
30 10 0.20
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (29 bp):
TAACCTCTAACCTTTAAACTTTAAACCCG
Found at i:25327087 original size:114 final size:115
Alignment explanation
Indices: 25326969--25327556 Score: 368
Period size: 114 Copynumber: 5.1 Consensus size: 115
25326959 ACAAAACGCT
* * *
25326969 GCGTTTTA-TTAAAATACGTGGTGGCGCTTTATCCAAAGTGCCGTTGAAGCTATTTTTAACGGCG
1 GCGTTTTAGTTAAGATACGTTGCGGCGCTTTATCCAAAGTGCCGTTGAAGCTATTTTTAACGGCG
25327033 TTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
66 TTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
* ** ** * *
25327083 GCGTTTTAGTTAAGAT--GTATACATCG--AGA-CCAAAACAGTG-CGTTTTGGTTCAGATA-TT
1 GCGTTTTAGTTAAGATACGT-TGCGGCGCTTTATCC--AA-AGTGCCG--TT-G--AAGCTATTT
* * * * * * * * *
25327141 TT-GCGGCGTTTTCAT-GTATGCGCCACTAAATGTAA-CATAGC-TTAAGA-CAAAAC-GC
57 TTAACGGCGTTTTCCTAGTAAGCGCCACT-AATATAAGTATA-CATCAAAATTAAAACTAC
* * *
25327196 TGCGTTTT-GTTAAGATACGTTGCGGCGCTTTATCCAAAGCGCCGCTGAAGCTATTCTTTAATGG
1 -GCGTTTTAGTTAAGATACGTTGCGGCGCTTTATCCAAAGTGCCGTTGAAGCTATT-TTTAACGG
25327260 CGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
64 CGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
* ** ** * *
25327312 GCGTTTTAGTTAAGAT--GTATACATCG--AGA-CCAAAACGGTG-CGTTTTGGTTCAGATA-TT
1 GCGTTTTAGTTAAGATACGT-TGCGGCGCTTTATCC-AAA--GTGCCG--TT-G--AAGCTATTT
* * * * * * * * * **
25327370 TT-GCAGCGTTTTCAT-GTATGCGCCACTAAATGTAA-CATAGC-TTAAGA-CAAAACGCC
57 TTAACGGCGTTTTCCTAGTAAGCGCCACT-AATATAAGTATA-CATCAAAATTAAAACTAC
* * *
25327426 GCGTTTT-GTTAAGATACGTTGCGGCGCTTTATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGT
1 GCGTTTTAGTTAAGATACGTTGCGGCGCTTTATCCAAAGTGCCGTTGAAGCTATT-TTTAACGGC
25327490 GTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
65 GTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
25327541 GCGTTTTAGTTAAGAT
1 GCGTTTTAGTTAAGAT
25327557 GTATACATCG
Statistics
Matches: 341, Mismatches: 80, Indels: 104
0.65 0.15 0.20
Matches are distributed among these distances:
110 8 0.02
111 4 0.01
112 11 0.03
113 62 0.18
114 92 0.27
115 85 0.25
116 58 0.17
117 12 0.04
118 5 0.01
119 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (115 bp):
GCGTTTTAGTTAAGATACGTTGCGGCGCTTTATCCAAAGTGCCGTTGAAGCTATTTTTAACGGCG
TTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTAC
Found at i:25327381 original size:229 final size:229
Alignment explanation
Indices: 25326868--25327777 Score: 1484
Period size: 229 Copynumber: 4.0 Consensus size: 229
25326858 TGTACTAATT
*
25326868 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCCTATAAG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATATAAG
* * * * *
25326933 CGCCACTAAATGTAACGTAGCTTAAGACAAAACGCTGCGTTTTATTAAAATACGTGGTGGCGCTT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
* *
25326998 TATCCAAAGTGCCGTTGAAGCTATT-TTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
131 TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
25327062 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
196 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
* *
25327096 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATGTATG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATATAAG
25327161 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
*
25327226 TATCCAAAGCGCCGCTGAAGCTATTCTTTAATGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
131 TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
25327291 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
196 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
* * * *
25327325 GATGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATATTTTGCAGCGTTTTCATGTATG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATATAAG
*
25327390 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCCGCGTTTTGTTAAGATACGTTGCGGCGCTT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
*
25327455 TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGTGTTTTCCTAGTAAGCGCCACTAATATAAGT
131 TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
25327520 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
196 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
* * * *
25327554 GATGTATACATCGAGACTAAAACGGTGCGTTTTAGTTCAGATATTTTGCGGCGTTTTCCTATAAG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATATAAG
* * *
25327619 CGCCACTAAATGTAACATAGCTTAATACAAAACACTGCGTTTTGTTAAGATACTTTGCGGCGCTT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
25327684 TGGAT-C-AAGCGCCGCT-AATGCTATTCTTTAACGGCGTTTT-CTAGTAAGCGCCAC---T-T-
131 T--ATCCAAAGCGCCGCTGAA-GCTATTCTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATA
*
25327740 A-TCTA-ATCAAAATTAAAACTACGCGTTTTAGTTAA
193 AGTATACATCAAAATTAAAACTACGCGTTTTAGTTAA
25327775 GAT
1 GAT
25327778 ATTTTTGCGG
Statistics
Matches: 650, Mismatches: 28, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
221 33 0.05
222 3 0.00
223 1 0.00
224 1 0.00
225 1 0.00
228 161 0.25
229 447 0.69
230 1 0.00
231 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (229 bp):
GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCATATAAG
CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTTTTGTTAAGATACGTTGCGGCGCTT
TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
Found at i:25327393 original size:115 final size:115
Alignment explanation
Indices: 25327028--25327627 Score: 421
Period size: 115 Copynumber: 5.2 Consensus size: 115
25327018 CTATTTTTAA
25327028 CGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
1 CGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
*
25327093 TAAGATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTG
66 TAAGATGTATACATCGAGACCAAAAC-GTGCGTTTTAGTTCAGATATTTTG
* * * * * * * *
25327144 CGGCGTTTTCAT-GTATGCGCCACTAAATGTAA-CATAGC-TTAAGA-CAAAAC-GCTGCGTTTT
1 CGGCGTTTTCCTAGTAAGCGCCACT-AATATAAGTATA-CATCAAAATTAAAACTAC-GCGTTTT
* ** ** * * * ** * * * **
25327204 -GTTAAGATACGT-TGCGGCGCTTTATCCAAAGCG-CCGCTGAAGCT-A-TTCTTTAA
63 AGTTAAGAT--GTATACATCG--AGA-CCAAAACGTGCGTTTTAGTTCAGATATTTTG
*
25327257 TGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
1 CGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
*
25327322 TAAGATGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCAGATATTTTG
66 TAAGATGTATACATCGAGACCAAAAC-GTGCGTTTTAGTTCAGATATTTTG
* * * * * * * * **
25327373 CAGCGTTTTCAT-GTATGCGCCACTAAATGTAA-CATAGC-TTAAGA-CAAAACGCCGCGTTTT-
1 CGGCGTTTTCCTAGTAAGCGCCACT-AATATAAGTATA-CATCAAAATTAAAACTACGCGTTTTA
* ** ** * * * ** * * * **
25327433 GTTAAGATACGT-TGCGGCGCTTTATCCAAAGCG-CCGCTGAAGCT-A-TTCTTTAA
64 GTTAAGAT--GTATACATCG--AGA-CCAAAACGTGCGTTTTAGTTCAGATATTTTG
*
25327486 CGGTGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
1 CGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
*
25327551 TAAGATGTATACATCGAGACTAAAACGGTGCGTTTTAGTTCAGATATTTTG
66 TAAGATGTATACATCGAGACCAAAAC-GTGCGTTTTAGTTCAGATATTTTG
25327602 CGGCGTTTTCCTA-TAAGCGCCACTAA
1 CGGCGTTTTCCTAGTAAGCGCCACTAA
25327628 ATGTAACATA
Statistics
Matches: 344, Mismatches: 104, Indels: 73
0.66 0.20 0.14
Matches are distributed among these distances:
112 11 0.03
113 62 0.18
114 86 0.25
115 98 0.28
116 75 0.22
117 12 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (115 bp):
CGGCGTTTTCCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
TAAGATGTATACATCGAGACCAAAACGTGCGTTTTAGTTCAGATATTTTG
Found at i:25327575 original size:39 final size:39
Alignment explanation
Indices: 25327518--25327595 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
25327508 ACTAATATAA
* *
25327518 GTATACATCAAAATTAAAACTACGCGTTTTAGTTAAGAT
1 GTATACATCAAAACTAAAACGACGCGTTTTAGTTAAGAT
* * ** *
25327557 GTATACATCGAGACTAAAACGGTGCGTTTTAGTTCAGAT
1 GTATACATCAAAACTAAAACGACGCGTTTTAGTTAAGAT
25327596 ATTTTGCGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (39 bp):
GTATACATCAAAACTAAAACGACGCGTTTTAGTTAAGAT
Found at i:25329335 original size:37 final size:37
Alignment explanation
Indices: 25329279--25329389 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 37
25329269 TCCAAAAAAA
*
25329279 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
**
25329315 TAATACTTATCTTAATAGTTTTTTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGTTTAATATTAAATTTAATAT
*
25329352 TAAAATGATTATCGTAATA--TTAA-ATTAAATTTAATAT
1 T--AAT-ATTATCTTAATAGTTTAATATTAAATTTAATAT
25329389 T
1 T
25329390 TATCTTGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
36 16 0.25
37 33 0.52
39 13 0.21
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
Found at i:25334588 original size:183 final size:183
Alignment explanation
Indices: 25334256--25334628 Score: 423
Period size: 183 Copynumber: 2.0 Consensus size: 183
25334246 ACAAAATTTG
* * *
25334256 CATTTTTCCCACTGTATCCAACCCTCAAAGCTGGACACTCTAGTGAAGACATACTATTTTTGTCT
1 CATTATTCCCACTGTATCCAACCCTCAAAGCTGGACACTCCAGTGAAGACACACTATTTTTGTCT
* * *** *
25334321 TTAATAATAGACTCATGCCCAGTATCCATCAAAATATCAGCCCTAATTAAAAACATTGTCCCGAC
66 TTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCAAC
* *
25334386 CAAATATTCATTCCCCAAAACACT-AAATGCGTTAGTATCATATGTCGCAACAT
131 CAAATATTCATTCCCCAAAACACTAAAAT-CGTTAGTATCATATGCCGCAACAC
* *
25334439 CATTATTCCCACTGTCTCCAACCC-CAGAAGCTGGACACTCCA-TCGAAGACCCACTATTTTTGT
1 CATTATTCCCACTGTATCCAACCCTCA-AAGCTGGACACTCCAGT-GAAGACACACTATTTTTGT
* **** * * *
25334502 CTTTATTAATAGACCCATGCCCAATATCCATCAAAATATTTTTCCTATTTGAAGACATCAACCCA
64 CTTTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCA
* ** * * *
25334567 ACCGAAAT-TTTAGTT-CCCAAAATGCTAAAATTGTTAGTATCATGTGCCGCAACCC
129 ACC-AAATATTCA-TTCCCCAAAACACTAAAATCGTTAGTATCATATGCCGCAACAC
25334622 CATTATT
1 CATTATT
25334629 GTTTGCCCTA
Statistics
Matches: 158, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
182 3 0.02
183 145 0.92
184 10 0.06
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.30
Consensus pattern (183 bp):
CATTATTCCCACTGTATCCAACCCTCAAAGCTGGACACTCCAGTGAAGACACACTATTTTTGTCT
TTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCAAC
CAAATATTCATTCCCCAAAACACTAAAATCGTTAGTATCATATGCCGCAACAC
Found at i:25336382 original size:27 final size:26
Alignment explanation
Indices: 25336350--25336416 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
25336340 GGGTCTACTA
*
25336350 TATTTTTTATTTGAAAATCTCTTTTTC
1 TATTTTTTATTT-AAAATCCCTTTTTC
* * *
25336377 TGTTTTTCTCTTTATAATCCCTTTTTC
1 TATTTTT-TATTTAAAATCCCTTTTTC
*
25336404 TAATTTTTATTTA
1 TATTTTTTATTTA
25336417 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.16
27 23 0.72
28 4 0.12
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTTTTATTTAAAATCCCTTTTTC
Found at i:25337779 original size:27 final size:26
Alignment explanation
Indices: 25337747--25337813 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
25337737 GGGTCTACTA
*
25337747 TATTTTTTATTTGAAAATCTCTTTTTC
1 TATTTTTTATTT-AAAATCCCTTTTTC
* * *
25337774 TGTTTTTCTCTTTATAATCCCTTTTTC
1 TATTTTT-TATTTAAAATCCCTTTTTC
*
25337801 TAATTTTTATTTA
1 TATTTTTTATTTA
25337814 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.16
27 23 0.72
28 4 0.12
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTTTTATTTAAAATCCCTTTTTC
Found at i:25349329 original size:43 final size:41
Alignment explanation
Indices: 25349263--25349462 Score: 186
Period size: 43 Copynumber: 4.7 Consensus size: 41
25349253 TAAATTTAGT
* * *
25349263 GATACGGGGAATCAACACATAGCATCCCCTTTCACAGTCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAGTCAAA
* * * * **
25349305 GGTACGGTGGAATTAGCACTTAGCAACCACCTTTATATTCAGT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAGTCAAA
* *
25349348 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAGTCAAA
* *
25349390 GAAACGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATA
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAGTCAA-A
* * *
25349434 -ATTCGGGGAATTAACACTTAGCAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
25349463 CGGGGAATCT
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
41 8 0.06
42 53 0.41
43 56 0.44
44 11 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAGTCAAA
Found at i:25349365 original size:42 final size:42
Alignment explanation
Indices: 25349237--25349459 Score: 184
Period size: 42 Copynumber: 5.3 Consensus size: 42
25349227 GTGAATTCAA
* * * * *
25349237 CACTTAGAAACCA-CTTTAAATTTAGTGATACGGGGAATCAA
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
* * * * * *
25349278 CACATAGCATCC-CCTTTCACAGTCAAAGGTACGGTGGAATTAG
1 CACTTAGCAACCACCTTT-AAAGTCAATGATACGG-GGAATCAG
* * *
25349321 CACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAG
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
* * *
25349363 CACATAGCAACC-CCTTTCACAA-TCAAAGAAACGGTGGAATCAG
1 CACTTAGCAACCACCTTT-A-AAGTCAATGATACGG-GGAATCAG
* * * *
25349406 CACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATTAA
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
25349448 CACTTAGCAACC
1 CACTTAGCAACC
25349460 CCTCGGGGAA
Statistics
Matches: 142, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
41 18 0.13
42 58 0.41
43 56 0.39
44 10 0.07
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
Found at i:25349367 original size:85 final size:85
Alignment explanation
Indices: 25349237--25349462 Score: 310
Period size: 85 Copynumber: 2.7 Consensus size: 85
25349227 GTGAATTCAA
* * * *
25349237 CACTTAGAAACCA-CTTTAAATTTAGTGATACGGGGAATCAACACATAGCATCCCCTTTCACAGT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
** *
25349301 CAAAGGTACGGTGGAATTAG
66 CAAAGAAACGGTGGAATCAG
* *
25349321 CACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAAT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
25349386 CAAAGAAACGGTGGAATCAG
66 CAAAGAAACGGTGGAATCAG
* * * * * *
25349406 CACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATTAACACTTAGCAACCCCT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
25349463 CGGGGAATCT
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 12 0.10
85 112 0.90
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (85 bp):
CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
CAAAGAAACGGTGGAATCAG
Found at i:25357005 original size:85 final size:85
Alignment explanation
Indices: 25356862--25357099 Score: 354
Period size: 85 Copynumber: 2.8 Consensus size: 85
25356852 ATCCGTTACT
25356862 CGGT-GAATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAA
1 CGGTGGAA-TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAA
* *
25356925 CCCCTTTCACAGTCAAGGACA
65 CCCCTTTCACAATCAAAGACA
* * *
25356946 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATAAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
*
25357011 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGACA
* * * * *
25357031 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
25357096 CCCT
66 CCCT
25357100 CGGGGAATCT
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 23 0.17
85 115 0.83
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGACA
Found at i:25357008 original size:42 final size:43
Alignment explanation
Indices: 25356862--25357096 Score: 234
Period size: 42 Copynumber: 5.6 Consensus size: 43
25356852 ATCCGTTACT
*
25356862 CGGT-GAATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATA
1 CGGTGGAA-TCAGCACTTAGCAACCACCTTTACATTCAGTGATA
* * *
25356904 CGG-GGAATCAGCACATAGCAACC-CCTTTCACAGTCAAG-GACA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACATTC-AGTGATA
*
25356946 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAGTGATA
* * * * **
25356989 CAG-GGAATAAGCACATAGCAACC-CCTTTCACAATCAAAGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACATTCAGTGATA
* * * * *
25357031 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAGTGATA
25357074 CGG-GGAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
25357097 CCTCGGGGAA
Statistics
Matches: 160, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 22 0.14
42 67 0.42
43 59 0.37
44 10 0.06
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAGTGATA
Found at i:25357113 original size:26 final size:26
Alignment explanation
Indices: 25357073--25357125 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
25357063 AGTCAATAAT
25357073 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
*
25357099 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
25357125 T
1 T
25357126 TTTTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:25361119 original size:23 final size:23
Alignment explanation
Indices: 25361093--25361138 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25361083 TGTGTTTTTA
25361093 CATGGCCTTTTTAACTTAAAATC
1 CATGGCCTTTTTAACTTAAAATC
25361116 CATGGCCTTTTTAACTTAAAATC
1 CATGGCCTTTTTAACTTAAAATC
25361139 ATTCTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (23 bp):
CATGGCCTTTTTAACTTAAAATC
Found at i:25361630 original size:20 final size:20
Alignment explanation
Indices: 25361605--25361644 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25361595 TACAAAGAAG
*
25361605 CCCTTGAAGAACTTTCAACC
1 CCCTTGAAGAAATTTCAACC
25361625 CCCTTGAAGAAATTTCAACC
1 CCCTTGAAGAAATTTCAACC
25361645 TTGCATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.25
Consensus pattern (20 bp):
CCCTTGAAGAAATTTCAACC
Found at i:25368882 original size:22 final size:22
Alignment explanation
Indices: 25368857--25368901 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25368847 TGATAAACTT
25368857 TAATATATA-ATTATATTATTTA
1 TAATATATATATTAT-TTATTTA
* *
25368879 TAATTTATATATTATTTTTTTA
1 TAATATATATATTATTTATTTA
25368901 T
1 T
25368902 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATATATATATTATTTATTTA
Found at i:25373708 original size:746 final size:746
Alignment explanation
Indices: 25372277--25373770 Score: 2952
Period size: 746 Copynumber: 2.0 Consensus size: 746
25372267 TGTCGAATCA
*
25372277 TGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTGTTCGTAGCATTAG
1 TGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTGTTCATAGCATTAG
25372342 AATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGA
66 AATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGA
*
25372407 ACGGAATAAACCATAGTTGGTATTGTTTTTGGGGTCGCTTGAATTAAATTAATTATAGAATTAAT
131 ACGGAATAAACCATAGTTGGTATTGTTTTTAGGGTCGCTTGAATTAAATTAATTATAGAATTAAT
25372472 TTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTATAGTGAGGACATG
196 TTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTATAGTGAGGACATG
25372537 AATTTGGTTAGCATAAGAATTCAAATAAATATATGGTTTACCGAACTTATATTATAATTAATGTA
261 AATTTGGTTAGCATAAGAATTCAAATAAATATATGGTTTACCGAACTTATATTATAATTAATGTA
25372602 ATTATAATTTTCGGATTAAAATATTATTACATTTATTTAATTCTTAAAAAAAACCCTAAAACAAA
326 ATTATAATTTTCGGATTAAAATATTATTACATTTATTTAATTCTTAAAAAAAACCCTAAAACAAA
25372667 AGGATATATATAATCCCGTTTTTCTTTGTTTGAGTCTAGCAGCCTTCAAAGAAAAATAACTCTCA
391 AGGATATATATAATCCCGTTTTTCTTTGTTTGAGTCTAGCAGCCTTCAAAGAAAAATAACTCTCA
25372732 AAACTGTTTTGGGGATTCTTTCCGTTCATAGTCAACTGGGTGGATTACGTAGAGGCCGGAATCAC
456 AAACTGTTTTGGGGATTCTTTCCGTTCATAGTCAACTGGGTGGATTACGTAGAGGCCGGAATCAC
25372797 GATAGATTGCGGTTTGGTTCGACAACAGATCAAACTACTCGTTGTTGAGGTGTTGCTGTCTACTC
521 GATAGATTGCGGTTTGGTTCGACAACAGATCAAACTACTCGTTGTTGAGGTGTTGCTGTCTACTC
25372862 TGAATAAACATTAGGTAATTTCGCAACCTTTTTCACCCCGATTCGTTCCTCACACATGGATCCCT
586 TGAATAAACATTAGGTAATTTCGCAACCTTTTTCACCCCGATTCGTTCCTCACACATGGATCCCT
25372927 GGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGCCATAGGGGTGCTGGCGATCCAACAGTATAA
651 GGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGCCATAGGGGTGCTGGCGATCCAACAGTATAA
25372992 ACATAAGTTTAATAATTTTAAGTTAAAGGAG
716 ACATAAGTTTAATAATTTTAAGTTAAAGGAG
25373023 TGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTGTTCATAGCATTAG
1 TGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTGTTCATAGCATTAG
*
25373088 AATTGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGA
66 AATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGA
25373153 ACGGAATAAACCATAGTTGGTATTGTTTTTAGGGTCGCTTGAATTAAATTAATTATAGAATTAAT
131 ACGGAATAAACCATAGTTGGTATTGTTTTTAGGGTCGCTTGAATTAAATTAATTATAGAATTAAT
*
25373218 TTAATTCGGTAATCAAATTTCCAGCACATTATGTACAAGGTTGTTGTACGTATAGTGAGGACATG
196 TTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTATAGTGAGGACATG
25373283 AATTTGGTTAGCATAAGAATTCAAATAAATATATGGTTTACCGAACTTATATTATAATTAATGTA
261 AATTTGGTTAGCATAAGAATTCAAATAAATATATGGTTTACCGAACTTATATTATAATTAATGTA
25373348 ATTATAATTTTCGGATTAAAATATTATTACATTTATTTAATTCTTAAAAAAAACCCTAAAACAAA
326 ATTATAATTTTCGGATTAAAATATTATTACATTTATTTAATTCTTAAAAAAAACCCTAAAACAAA
25373413 AGGATATATATAATCCCGTTTTTCTTTGTTTGAGTCTAGCAGCCTTCAAAGAAAAATAACTCTCA
391 AGGATATATATAATCCCGTTTTTCTTTGTTTGAGTCTAGCAGCCTTCAAAGAAAAATAACTCTCA
25373478 AAACTGTTTTGGGGATTCTTTCCGTTCATAGTCAACTGGGTGGATTACGTAGAGGCCGGAATCAC
456 AAACTGTTTTGGGGATTCTTTCCGTTCATAGTCAACTGGGTGGATTACGTAGAGGCCGGAATCAC
25373543 GATAGATTGCGGTTTGGTTCGACAACAGATCAAACTACTCGTTGTTGAGGTGTTGCTGTCTACTC
521 GATAGATTGCGGTTTGGTTCGACAACAGATCAAACTACTCGTTGTTGAGGTGTTGCTGTCTACTC
25373608 TGAATAAACATTAGGTAATTTCGCAACCTTTTTCACCCCGATTCGTTCCTCACACATGGATCCCT
586 TGAATAAACATTAGGTAATTTCGCAACCTTTTTCACCCCGATTCGTTCCTCACACATGGATCCCT
25373673 GGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGCCATAGGGGTGCTGGCGATCCAACAGTATAA
651 GGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGCCATAGGGGTGCTGGCGATCCAACAGTATAA
25373738 ACATAAGTTTAATAATTTTAAGTTAAAGGAG
716 ACATAAGTTTAATAATTTTAAGTTAAAGGAG
25373769 TG
1 TG
25373771 TAATTAATCC
Statistics
Matches: 744, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
746 744 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (746 bp):
TGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTGTTCATAGCATTAG
AATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGA
ACGGAATAAACCATAGTTGGTATTGTTTTTAGGGTCGCTTGAATTAAATTAATTATAGAATTAAT
TTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTATAGTGAGGACATG
AATTTGGTTAGCATAAGAATTCAAATAAATATATGGTTTACCGAACTTATATTATAATTAATGTA
ATTATAATTTTCGGATTAAAATATTATTACATTTATTTAATTCTTAAAAAAAACCCTAAAACAAA
AGGATATATATAATCCCGTTTTTCTTTGTTTGAGTCTAGCAGCCTTCAAAGAAAAATAACTCTCA
AAACTGTTTTGGGGATTCTTTCCGTTCATAGTCAACTGGGTGGATTACGTAGAGGCCGGAATCAC
GATAGATTGCGGTTTGGTTCGACAACAGATCAAACTACTCGTTGTTGAGGTGTTGCTGTCTACTC
TGAATAAACATTAGGTAATTTCGCAACCTTTTTCACCCCGATTCGTTCCTCACACATGGATCCCT
GGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGCCATAGGGGTGCTGGCGATCCAACAGTATAA
ACATAAGTTTAATAATTTTAAGTTAAAGGAG
Found at i:25385553 original size:7 final size:7
Alignment explanation
Indices: 25385541--25385715 Score: 52
Period size: 7 Copynumber: 24.6 Consensus size: 7
25385531 TCAAAAAACA
25385541 TAAACCC
1 TAAACCC
25385548 TAAACCC
1 TAAACCC
* *
25385555 TTAGCCC
1 TAAACCC
25385562 -ATAACCC
1 TA-AACCC
*
25385569 TTAAACCT
1 -TAAACCC
25385577 TAAACCC
1 TAAACCC
*
25385584 -CAACCC
1 TAAACCC
*
25385590 TTAAACCA
1 -TAAACCC
25385598 TAAA-CC
1 TAAACCC
*
25385604 AAAATCCC
1 TAAA-CCC
25385612 TAAACCC
1 TAAACCC
* *
25385619 ATAATCCA
1 -TAAACCC
* *
25385627 TAATCCA
1 TAAACCC
*
25385634 TAAACCT
1 TAAACCC
***
25385641 TAAGATAG
1 TAA-ACCC
**
25385649 TAATTCC
1 TAAACCC
* *
25385656 TAAATCT
1 TAAACCC
25385663 TAAACCC
1 TAAACCC
* **
25385670 AAAACTA
1 TAAACCC
*
25385677 TATACCC
1 TAAACCC
*
25385684 TAAACCA
1 TAAACCC
25385691 TAAA-CC
1 TAAACCC
25385697 TAAACCC
1 TAAACCC
25385704 TAAAACCC
1 T-AAACCC
25385712 TAAA
1 TAAA
25385716 ACCAAAAATC
Statistics
Matches: 121, Mismatches: 36, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
6 14 0.12
7 77 0.64
8 29 0.24
9 1 0.01
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:25385577 original size:21 final size:21
Alignment explanation
Indices: 25385564--25385603 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25385554 CTTAGCCCAT
25385564 AACCCTTAAACCTTAAACCCC
1 AACCCTTAAACCTTAAACCCC
*
25385585 AACCCTTAAACCATAAACC
1 AACCCTTAAACCTTAAACC
25385604 AAAATCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTTAAACCTTAAACCCC
Found at i:25385620 original size:22 final size:22
Alignment explanation
Indices: 25385591--25385639 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
25385581 CCCCAACCCT
*
25385591 TAAA-CCATAAACCAAAATCCC
1 TAAACCCATAAACCAAAATCCA
* *
25385612 TAAACCCATAATCCATAATCCA
1 TAAACCCATAAACCAAAATCCA
25385634 TAAACC
1 TAAACC
25385640 TTAAGATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAACCCATAAACCAAAATCCA
Found at i:25385805 original size:15 final size:15
Alignment explanation
Indices: 25385770--25385818 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
25385760 CTTTAAATCG
25385770 TAAACCC-TAAACCA
1 TAAACCCATAAACCA
*
25385784 T-AACCCATAACCCA
1 TAAACCCATAAACCA
*
25385798 TAAACCCATAATCCA
1 TAAACCCATAAACCA
25385813 TAAACC
1 TAAACC
25385819 TTAAAATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 5 0.16
14 8 0.26
15 18 0.58
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAACCCATAAACCA
Found at i:25385823 original size:22 final size:21
Alignment explanation
Indices: 25385770--25385823 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
25385760 CTTTAAATCG
*
25385770 TAAACCCTAAACCATAACCCA
1 TAAACCATAAACCATAACCCA
* *
25385791 TAACCCATAAACCCATAATCCA
1 TAAACCATAAA-CCATAACCCA
*
25385813 TAAACCTTAAA
1 TAAACCATAAA
25385824 ATGGTAACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCATAAACCATAACCCA
Found at i:25385865 original size:14 final size:14
Alignment explanation
Indices: 25385520--25385881 Score: 110
Period size: 14 Copynumber: 24.9 Consensus size: 14
25385510 CCCTATCCCT
*
25385520 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * * *
25385534 AAAAACATAAACCC
1 TAAACCCTAAACCA
**
25385548 TAAACCCTTAGCCCA
1 TAAACCC-TAAACCA
*
25385563 T-AACCCTTAAACCT
1 TAAACCC-TAAACCA
* * *
25385577 TAAACCCCAACCCT
1 TAAACCCTAAACCA
*
25385591 TAAACCATAAACCA
1 TAAACCCTAAACCA
25385605 -AAATCCCTAAACCCA
1 TAAA-CCCTAAA-CCA
* * *
25385620 TAATCCATAATCCA
1 TAAACCCTAAACCA
* *
25385634 TAAACCTTAAGA-TA
1 TAAACCCTAA-ACCA
** * *
25385648 GTAATTCCTAAATCT
1 -TAAACCCTAAACCA
* *
25385663 TAAACCCAAAACTA
1 TAAACCCTAAACCA
*
25385677 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
25385691 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
25385704 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
* * *
25385720 AAAATCCTTAACACA
1 TAAACCCTAAAC-CA
*
25385735 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* *
25385749 TAAACCCTAGCCTTTAAATCG
1 TAAA--C---CC--TAAACCA
25385770 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
25385784 T-AACCCATAACCCA
1 TAAACCC-TAAACCA
*
25385798 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
25385813 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
25385825 TGGTAACACCTAAACCT
1 T--AAAC-CCTAAACCA
*
25385842 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
25385856 TATACCCTAAATCA
1 TAAACCCTAAACCA
*
25385870 AAAACCCTAAAC
1 TAAACCCTAAAC
25385882 TATAGTGATA
Statistics
Matches: 248, Mismatches: 72, Indels: 56
0.66 0.19 0.15
Matches are distributed among these distances:
12 2 0.01
13 17 0.07
14 137 0.55
15 69 0.28
16 9 0.04
17 2 0.01
19 2 0.01
20 1 0.00
21 9 0.04
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:25386318 original size:41 final size:42
Alignment explanation
Indices: 25386251--25386503 Score: 173
Period size: 41 Copynumber: 6.1 Consensus size: 42
25386241 TAAAGCCCCA
* * *
25386251 GCTAAAGCCCCCGAGCATTAGCGGCG-CTTATTGGAAAACATC
1 GCTAAAGCCCCAGAGCATTAGCGGCGCCTT-TTGAAAAACACC
* *
25386293 GCTAAAG-CCCAGAGCATTAGTGGCGCCTTTTGAAAAACGCC
1 GCTAAAGCCCCAGAGCATTAGCGGCGCCTTTTGAAAAACACC
* * * * *
25386334 ACTAAAGCCCCA-AGCATTAACGACG-TTTTTGAAAAACGCC
1 GCTAAAGCCCCAGAGCATTAGCGGCGCCTTTTGAAAAACACC
* ** *
25386374 CCTAAAG--CTTGAGCATTAGCGGCGCGCTTTTCGAAAAACGCC
1 GCTAAAGCCCCAGAGCATTAGCGGCGC-CTTTT-GAAAAACACC
* *** * **
25386416 GCTAAATCCCC-GAGCATTAGC-GATTCTTTCCGAAAAATGCC
1 GCTAAAGCCCCAGAGCATTAGCGGCGCCTTT-TGAAAAACACC
* * * *
25386457 GCTAAAGCCCCA-AGCATTAGCGCCGCTTTTTTAAAAACGCC
1 GCTAAAGCCCCAGAGCATTAGCGGCGCCTTTTGAAAAACACC
*
25386498 GTTAAA
1 GCTAAA
25386504 ACCCTAAAAG
Statistics
Matches: 166, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 20 0.12
41 90 0.54
42 33 0.20
43 10 0.06
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (42 bp):
GCTAAAGCCCCAGAGCATTAGCGGCGCCTTTTGAAAAACACC
Found at i:25386421 original size:123 final size:122
Alignment explanation
Indices: 25386263--25386497 Score: 278
Period size: 123 Copynumber: 1.9 Consensus size: 122
25386253 TAAAGCCCCC
* * * * *
25386263 GAGCATTAGCGGCGCTTATTGGAAAACATCGCTAAAGCCCAGAGCATTAGTGGCGCCTTT-TGAA
1 GAGCATTAGCGGCGCTTATTGAAAAACACCGCTAAAGCCCAGAGCATTAG-CGAGCCTTTCCGAA
25386327 AAACGCCACTAAAGCCCCAAGCATTAACGACG-TTTTTGAAAAACGCCCCTAAAGCTT
65 AAACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCCCCTAAAGCTT
* * * **
25386384 GAGCATTAGCGGCGCGCTT-TTCGAAAAACGCCGCTAAATCCCCGAGCATTAGCGATTCTTTCCG
1 GAGCATTAGC-G-GCGCTTATT-GAAAAACACCGCTAAAGCCCAGAGCATTAGCGAGCCTTTCCG
* * * * *
25386448 AAAAATGCCGCTAAAGCCCCAAGCATTAGCGCCGCTTTTTTAAAAACGCC
63 AAAAACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCC
25386498 GTTAAAACCC
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
121 10 0.11
122 8 0.09
123 62 0.66
124 14 0.15
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (122 bp):
GAGCATTAGCGGCGCTTATTGAAAAACACCGCTAAAGCCCAGAGCATTAGCGAGCCTTTCCGAAA
AACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCCCCTAAAGCTT
Found at i:25386484 original size:82 final size:78
Alignment explanation
Indices: 25386292--25386503 Score: 201
Period size: 82 Copynumber: 2.6 Consensus size: 78
25386282 TGGAAAACAT
* * *
25386292 CGCTAAAGCCCAGAGCATTAGTGGCGCCTTTTGAAAAACGCCACTAAAGCCCCAAGCATTAACGA
1 CGCTAAAGCCCA-AGCATTAGCGCCG-CTTTTGAAAAACGCCGCTAAAGCCCCAAGCATTAACGA
25386357 CGTTTTTGAAAAACGC
64 C-TTTTTGAAAAACGC
* *** * * *
25386373 CCCTAAAGCTTGAGCATTAGCGGCGCGCTTTTCGAAAAACGCCGCTAAATCCCCGAGCATTAGCG
1 CGCTAAAGCCCAAGCATTAGC-GC-CGCTTTT-GAAAAACGCCGCTAAAGCCCCAAGCATTAACG
*
25386438 A-TTCTTTCCGAAAAATGC
63 ACTT-TTT--GAAAAACGC
* *
25386456 CGCTAAAGCCCCAAGCATTAGCGCCGCTTTTTTAAAAACGCCGTTAAA
1 CGCTAAAG-CCCAAGCATTAGCGCCGC-TTTTGAAAAACGCCGCTAAA
25386504 ACCCTAAAAG
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
80 10 0.09
81 17 0.16
82 48 0.45
83 21 0.20
84 10 0.09
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (78 bp):
CGCTAAAGCCCAAGCATTAGCGCCGCTTTTGAAAAACGCCGCTAAAGCCCCAAGCATTAACGACT
TTTTGAAAAACGC
Found at i:25386637 original size:39 final size:40
Alignment explanation
Indices: 25386570--25386654 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 40
25386560 AGAAAATGGT
*
25386570 GCTAATGCTCTATTTTTAACGGCATTTTTCAAAAAGCGCC
1 GCTAATGCTCTAATTTTAACGGCATTTTTCAAAAAGCGCC
* * *
25386610 GCTAATGCTC-AATTTTAGA-GGCGTTTTTCTAAAAGCGCT
1 GCTAATGCTCTAATTTTA-ACGGCATTTTTCAAAAAGCGCC
25386649 GCTAAT
1 GCTAAT
25386655 TGTCGATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 29 0.73
40 11 0.28
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
GCTAATGCTCTAATTTTAACGGCATTTTTCAAAAAGCGCC
Found at i:25388800 original size:41 final size:40
Alignment explanation
Indices: 25388727--25388806 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
25388717 AAGTTTTTGG
* *
25388727 GGTCTTTAGCGGCGTTTCTGAAAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGACATTTCTGAAAAGCGCCGCTAATGCTCA
* *
25388767 GGTCTTTAGCGACATTTTTTAATAAGCGCCGCTAATGCTC
1 GGTCTTTAGCGACATTTCTGAA-AAGCGCCGCTAATGCTC
25388807 GTACCTTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (40 bp):
GGTCTTTAGCGACATTTCTGAAAAGCGCCGCTAATGCTCA
Found at i:25388815 original size:41 final size:40
Alignment explanation
Indices: 25388728--25388839 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
25388718 AGTTTTTGGG
* * *
25388728 GTCTTTAGCGGCGTTTCTGAA-AAGCGCCGCTAATGCTCA
1 GTCTTTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCA
* *
25388767 GGTCTTTAGCGACATTTTTTAATAAGCGCCGCTAATGCTC-
1 -GTCTTTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCA
* *
25388807 GTACCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
1 GT--CTTTAGCGACATTTTTGAAGAAGCGCCGC
25388840 AAAAACATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 17 0.28
41 42 0.69
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (40 bp):
GTCTTTAGCGACATTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:25389288 original size:7 final size:7
Alignment explanation
Indices: 25389278--25389310 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
25389268 AAGGTTTATT
25389278 GGTTAGG
1 GGTTAGG
25389285 GGTTAGG
1 GGTTAGG
25389292 GGTTAGG
1 GGTTAGG
25389299 GGTTAGG
1 GGTTAGG
25389306 GGTTA
1 GGTTA
25389311 AAGGTTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.55, T:0.30
Consensus pattern (7 bp):
GGTTAGG
Found at i:25389316 original size:14 final size:14
Alignment explanation
Indices: 25389285--25389318 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25389275 ATTGGTTAGG
**
25389285 GGTTAGGGGTTAGG
1 GGTTAGGGGTTAAA
25389299 GGTTAGGGGTTAAA
1 GGTTAGGGGTTAAA
25389313 GGTTAG
1 GGTTAG
25389319 AAGTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
GGTTAGGGGTTAAA
Found at i:25389316 original size:21 final size:21
Alignment explanation
Indices: 25389278--25389318 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25389268 AAGGTTTATT
**
25389278 GGTTAGGGGTTAGGGGTTAGG
1 GGTTAGGGGTTAAAGGTTAGG
25389299 GGTTAGGGGTTAAAGGTTAG
1 GGTTAGGGGTTAAAGGTTAG
25389319 AAGTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (21 bp):
GGTTAGGGGTTAAAGGTTAGG
Found at i:25389442 original size:20 final size:21
Alignment explanation
Indices: 25389408--25389446 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25389398 TAAATAATGT
25389408 TTAGGGGTTAGGGATTTAGGG
1 TTAGGGGTTAGGGATTTAGGG
*
25389429 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTAGGGATTTAG
25389447 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTTAGGG
Found at i:25389446 original size:14 final size:14
Alignment explanation
Indices: 25389407--25389440 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
25389397 TTAAATAATG
25389407 TTTAGGGGTTAGGGA
1 TTTA-GGGTTAGGGA
25389422 TTTAGGGTTAGGG-
1 TTTAGGGTTAGGGA
25389435 TTTAGG
1 TTTAGG
25389441 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTAGGGA
Found at i:25389541 original size:81 final size:82
Alignment explanation
Indices: 25389380--25389542 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 82
25389370 AATTAATATA
*
25389380 TTTTAAATTATATAATATTAAATAATGTTTAGGGGTTAGGGATTTAGGGTTAGGGTTTAGGATTT
1 TTTTAAATTATATAATATTAAATAATGTTTAGGGGTTAGGGA-GTAGGGTTAGGGTTTAGGATTT
*
25389445 AGATTAATTAGTTAGTGT
65 AGATTAATGAGTTAGTGT
* * * *
25389463 TTTTTAATT-TAT-ATATTAAATAATGTTTAGGGTTTAGGG-GTAGGGGTTTGGAGTTTAGGGTT
1 TTTTAAATTATATAATATTAAATAATGTTTAGGGGTTAGGGAGTA-GGGTTAGG-GTTTAGGATT
*
25389525 TAGGGTTAA-GAGTTAGTG
64 TA-GATTAATGAGTTAGTG
25389543 ATTTAAGGTT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
79 2 0.03
80 7 0.10
81 45 0.64
82 8 0.11
83 8 0.11
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (82 bp):
TTTTAAATTATATAATATTAAATAATGTTTAGGGGTTAGGGAGTAGGGTTAGGGTTTAGGATTTA
GATTAATGAGTTAGTGT
Found at i:25389547 original size:28 final size:28
Alignment explanation
Indices: 25389487--25389555 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
25389477 ATTAAATAAT
* * *
25389487 GTTTAGGGTTTAGGGGTAGGGGTTTGGA
1 GTTTAGGGTTTAGGGGTAAGAGTTAGGA
*
25389515 GTTTAGGGTTTAGGGTTAAGAGTTAGTGA
1 GTTTAGGGTTTAGGGGTAAGAGTTAG-GA
*
25389544 -TTTAAGGTTTAG
1 GTTTAGGGTTTAG
25389556 AGATTAAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (28 bp):
GTTTAGGGTTTAGGGGTAAGAGTTAGGA
Found at i:25389562 original size:81 final size:79
Alignment explanation
Indices: 25389396--25389562 Score: 169
Period size: 81 Copynumber: 2.1 Consensus size: 79
25389386 ATTATATAAT
* *
25389396 ATTAAATAATGTTTAGGGGTTAGGGATTTAGGGTTAGGGTTTAGGATTTAGATTAATTAGTTAGT
1 ATTAAATAATGTTTAGGGGTTAGGGA-GTAGGGTTAGGGTTTAGGATTTAGATTAATGAGTTAGT
* * *
25389461 GTTTTTTAATTTATAT
65 G-TATTTAATTTAGAG
* * * *
25389477 ATTAAATAATGTTTAGGGTTTAGGG-GTAGGGGTTTGGAGTTTAGGGTTTAGGGTTAA-GAGTTA
1 ATTAAATAATGTTTAGGGGTTAGGGAGTA-GGGTTAGG-GTTTAGGATTTA-GATTAATGAGTTA
25389540 GTG-ATTTAAGGTTTAGAG
63 GTGTATTTAA--TTTAGAG
25389558 ATTAA
1 ATTAA
25389563 GGTTTAAGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
79 7 0.10
80 7 0.10
81 53 0.74
82 5 0.07
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (79 bp):
ATTAAATAATGTTTAGGGGTTAGGGAGTAGGGTTAGGGTTTAGGATTTAGATTAATGAGTTAGTG
TATTTAATTTAGAG
Found at i:25390212 original size:21 final size:20
Alignment explanation
Indices: 25390173--25390217 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
25390163 GGACAGGACC
25390173 AAAATATAAGAAAAAATAAA
1 AAAATATAAGAAAAAATAAA
25390193 AAAATATAA-AAAGGAAATAAA
1 AAAATATAAGAAA--AAATAAA
25390214 AAAA
1 AAAA
25390218 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAATATAAGAAAAAATAAA
Found at i:25391768 original size:33 final size:33
Alignment explanation
Indices: 25391731--25391793 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
25391721 GATCTTTAAG
**
25391731 TTGGTTATATTTTTTTTGTATAGTTTAATTTTT
1 TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
25391764 TTGGTTATATTTTAGTTGTATAGTTTAATT
1 TTGGTTATATTTTAGTTGTATAGTTTAATT
25391794 ATTATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (33 bp):
TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
Found at i:25392733 original size:18 final size:16
Alignment explanation
Indices: 25392691--25392723 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25392681 AAACTTGTAG
25392691 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
25392707 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
25392723 A
1 A
25392724 TAATTGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (16 bp):
AAATAAGTTTGAAGAT
Found at i:25392799 original size:9 final size:9
Alignment explanation
Indices: 25392787--25392914 Score: 70
Period size: 9 Copynumber: 13.8 Consensus size: 9
25392777 TTAAAATAGT
25392787 TAACTTACA
1 TAACTTACA
25392796 TAACTTA-A
1 TAACTTACA
25392804 TTAA-TTA-A
1 -TAACTTACA
* *
25392812 T-ATTATATA
1 TAACT-TACA
25392821 TAACTTACA
1 TAACTTACA
25392830 TAACTTAC-
1 TAACTTACA
25392838 -AACTTACA
1 TAACTTACA
25392846 TAACTTACA
1 TAACTTACA
*
25392855 TTAATATTAAACA
1 -TAA-CTT--ACA
*
25392868 TAAATTACA
1 TAACTTACA
25392877 TAACTTACA
1 TAACTTACA
*
25392886 TTAATATTATACA
1 -T-A-ACT-TACA
*
25392899 TAAATTACA
1 TAACTTACA
25392908 TAACTTA
1 TAACTTA
25392915 ATTAATTAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 30
0.72 0.05 0.22
Matches are distributed among these distances:
6 1 0.01
7 9 0.09
8 7 0.07
9 52 0.54
10 8 0.08
11 7 0.07
12 6 0.06
13 7 0.07
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (9 bp):
TAACTTACA
Found at i:25392843 original size:16 final size:16
Alignment explanation
Indices: 25392822--25392854 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25392812 TATTATATAT
25392822 AACTTACATAACTTAC
1 AACTTACATAACTTAC
25392838 AACTTACATAACTTAC
1 AACTTACATAACTTAC
25392854 A
1 A
25392855 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:25392879 original size:31 final size:31
Alignment explanation
Indices: 25392841--25393298 Score: 510
Period size: 31 Copynumber: 14.5 Consensus size: 31
25392831 AACTTACAAC
*
25392841 TTACATAACTTACATTAATATTAAACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
25392872 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
** ***
25392903 TTACATAACTTA-ATTAATTAAAATACCGGAA
1 TTACATAACTTACATTAA-TATTATACATAAA
25392934 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
** ***
25392965 TTACATAACTTA-ATTAATTAAAATACCGGAA
1 TTACATAACTTACATTAA-TATTATACATAAA
25392996 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
25393027 TTACATAACTTAATTAATTAATATTAGACATAAA
1 TTACATAACTT-A--CATTAATATTATACATAAA
*
25393061 TTACATAACTTGCATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
25393092 TTACATGACTTAATTAATTAATATTATACATAAA
1 TTACATAACTT-A--CATTAATATTATACATAAA
***
25393126 TTACATAACTTACATTAATGCAATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
25393157 TTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTT-A--CATTAATATTATACATAAA
** *
25393191 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTACA--TTAAT-ATTATACATAAA
***
25393225 TTACATAACTTACATTAATGCAATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
*
25393256 TTACATAA-TTA-ATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACATAAA
25393285 TTACATAACTTACA
1 TTACATAACTTACA
25393299 ACTTACATAA
Statistics
Matches: 355, Mismatches: 54, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
29 22 0.06
30 16 0.05
31 192 0.54
32 15 0.04
33 5 0.01
34 105 0.30
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATACATAAA
Found at i:25393068 original size:9 final size:9
Alignment explanation
Indices: 25392820--25393324 Score: 89
Period size: 9 Copynumber: 53.2 Consensus size: 9
25392810 AATATTATAT
*
25392820 ATAACTTAC
1 ATAAATTAC
*
25392829 ATAACTTAC
1 ATAAATTAC
*
25392838 --AACTTAC
1 ATAAATTAC
*
25392845 ATAACTTAC
1 ATAAATTAC
25392854 ATTAATATTAAAC
1 A-TAA-ATT--AC
25392867 ATAAATTAC
1 ATAAATTAC
*
25392876 ATAACTTAC
1 ATAAATTAC
25392885 ATTAATATTATAC
1 A-TAA-A-T-TAC
25392898 ATAAATTAC
1 ATAAATTAC
*
25392907 ATAACTTA-
1 ATAAATTAC
* *
25392915 ATTAATTAAA
1 ATAAATT-AC
25392925 ATACCGGAATTAC
1 ATA----AATTAC
*
25392938 ATAACTTAC
1 ATAAATTAC
25392947 ATTAATATTATAC
1 A-TAA-A-T-TAC
25392960 ATAAATTAC
1 ATAAATTAC
*
25392969 ATAACTTA-
1 ATAAATTAC
* *
25392977 ATTAATTAAA
1 ATAAATT-AC
25392987 ATACCGGAATTAC
1 ATA----AATTAC
*
25393000 ATAACTTAC
1 ATAAATTAC
25393009 ATTAATATTATAC
1 A-TAA-A-T-TAC
25393022 ATAAATTAC
1 ATAAATTAC
*
25393031 ATAACTTA-
1 ATAAATTAC
*
25393039 ATTAATTA-
1 ATAAATTAC
25393047 AT--ATTAGAC
1 ATAAATT--AC
25393056 ATAAATTAC
1 ATAAATTAC
* *
25393065 ATAACTTGC
1 ATAAATTAC
25393074 ATTAATATTATAC
1 A-TAA-A-T-TAC
25393087 ATAAATTAC
1 ATAAATTAC
* *
25393096 ATGACTTA-
1 ATAAATTAC
*
25393104 ATTAATTA-
1 ATAAATTAC
*
25393112 AT-ATTATAC
1 ATAAAT-TAC
25393121 ATAAATTAC
1 ATAAATTAC
*
25393130 ATAACTTAC
1 ATAAATTAC
*
25393139 ATTAATGCAATAC
1 A-TAA---ATTAC
25393152 ATAAATTAC
1 ATAAATTAC
*
25393161 ATAACTTA-
1 ATAAATTAC
*
25393169 ATTAATTA-
1 ATAAATTAC
*
25393177 AT-ATTATAC
1 ATAAAT-TAC
*
25393186 ATAACTTAC
1 ATAAATTAC
*
25393195 ATAACTTAC
1 ATAAATTAC
***
25393204 ATTTTTTTA-
1 A-TAAATTAC
*
25393213 AT-TATT-C
1 ATAAATTAC
25393220 ATAAATTAC
1 ATAAATTAC
*
25393229 ATAACTTAC
1 ATAAATTAC
*
25393238 ATTAATGCAATAC
1 A-TAA---ATTAC
25393251 ATAAATTAC
1 ATAAATTAC
25393260 AT-AATTA-
1 ATAAATTAC
25393267 ATTAATATTATAC
1 A-TAA-A-T-TAC
*
25393280 ATAACTTAC
1 ATAAATTAC
*
25393289 ATAACTTAC
1 ATAAATTAC
*
25393298 --AACTTAC
1 ATAAATTAC
*
25393305 ATAACTTAC
1 ATAAATTAC
*
25393314 ATAACTTAC
1 ATAAATTAC
25393323 AT
1 AT
25393325 TGTGGGTACA
Statistics
Matches: 382, Mismatches: 49, Indels: 130
0.68 0.09 0.23
Matches are distributed among these distances:
6 3 0.01
7 24 0.06
8 49 0.13
9 181 0.47
10 39 0.10
11 13 0.03
12 30 0.08
13 35 0.09
14 8 0.02
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAATTAC
Found at i:25393103 original size:65 final size:65
Alignment explanation
Indices: 25392854--25393296 Score: 586
Period size: 65 Copynumber: 6.9 Consensus size: 65
25392844 CATAACTTAC
*
25392854 ATTAATATTAAACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
***
25392919 ATTAA-A--ATACCGGAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
***
25392981 ATTAA-A--ATACCGGAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
* * *
25393043 ATTAATATTAGACATAAATTACATAACTTGCATTAATATTATACATAAATTACATGACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
***
25393108 ATTAATATTATACATAAATTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
* ** *
25393173 ATTAATATTATACATAACTTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTACA--TTAAT-ATTATACATAAATTACATAACTTA-
25393238 ATTA
62 ATTA
** *
25393242 A-T-GCA--ATACATAAATTACATAA-TTA-ATTAATATTATACATAACTTACATAACTTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTA
25393297 CAACTTACAT
Statistics
Matches: 341, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
60 22 0.06
61 3 0.01
62 119 0.35
63 2 0.01
64 4 0.01
65 161 0.47
67 4 0.01
68 21 0.06
69 5 0.01
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (65 bp):
ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
Found at i:25393303 original size:16 final size:17
Alignment explanation
Indices: 25393277--25393324 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
25393267 ATTAATATTA
25393277 TACATAACTTACATAACT
1 TACA-AACTTACATAACT
25393295 TAC-AACTTACATAACT
1 TACAAACTTACATAACT
25393311 TACATAACTTACAT
1 TACA-AACTTACAT
25393325 TGTGGGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 16 0.57
18 12 0.43
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
TACAAACTTACATAACT
Found at i:25397005 original size:12 final size:12
Alignment explanation
Indices: 25396969--25397008 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
25396959 AGCAGAGGTC
*
25396969 GCAGTGAGAGAA
1 GCAGCGAGAGAA
*
25396981 ACAGCGAGAGAA
1 GCAGCGAGAGAA
*
25396993 GCAGCGATAGAA
1 GCAGCGAGAGAA
25397005 GCAG
1 GCAG
25397009 AGGTTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:25397519 original size:43 final size:42
Alignment explanation
Indices: 25397415--25397709 Score: 355
Period size: 42 Copynumber: 7.0 Consensus size: 42
25397405 GTTTGTGAAA
*
25397415 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* * *
25397458 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGACGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* * * *
25397500 TAAGCGCTGCTAAAGAACATGATCCTTAGCGGCATTTTCTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
* **
25397543 TAAGCGACGCTAAAGAACATGATCTTTAGCGGCGTTTACTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
25397585 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
25397627 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* * *
25397670 TGAGCGCCGCAAAAGAACATGATCTTTAACGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
25397710 TTCTGTAAGC
Statistics
Matches: 220, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 113 0.51
43 105 0.48
44 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:25397590 original size:85 final size:84
Alignment explanation
Indices: 25397415--25397727 Score: 355
Period size: 85 Copynumber: 3.7 Consensus size: 84
25397405 GTTTGTGAAA
** * * *
25397415 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
* *
25397478 A-CTTTTAGCGACGTTTTCTTCC
64 ATC-TTTAGCGGCGTTTAC-TCC
* * * *
25397500 TAAGCGCTGCTAAAGAACATGATCCTTAGCGGCATTTTCTTTCTAAGCGACGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCTAAGCGCCGCTAAAGAACATGA
25397565 TCTTTAGCGGCGTTTACTCC
65 TCTTTAGCGGCGTTTACTCC
* * *
25397585 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGTGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
*
25397650 CTTTAGCGGCGTTTATTTCC
66 CTTTAGCGGCGTTTA-CTCC
* * *
25397670 TGAGCGCCGCAAAAGAACATGATCTTTAACGGCGTTTTTTTTCTGTAAGCGCCG-TAAA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTC--TAAGCGCCGCTAAA
25397728 AAGTTAGCGA
Statistics
Matches: 195, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
84 40 0.21
85 101 0.52
86 41 0.21
87 5 0.03
88 8 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTACTCC
Found at i:25400865 original size:43 final size:42
Alignment explanation
Indices: 25400720--25400874 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
25400710 TCATACAATA
* * * * * *
25400720 CCAACATCCCAAACGTGGTCTTACATGTAATCAAATAACTATG
1 CCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACGACG
* * **
25400763 -CTACTGTCCCAGACAGGGTCTTACACGTAATCATGTACGACG
1 CCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATACGACG
* * *
25400805 CCAATGTCCTAGACATGGTCTTACACGTAAACTCAAAT-CGATG
1 CCAACGTCCCAGACATGGTCTTACACGT-AA-TCAAATACGACG
25400848 CCAACGTCCCAGACATGGTCTTACACG
1 CCAACGTCCCAGACATGGTCTTACACG
25400875 ATATCACATT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 28 0.31
43 57 0.64
44 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
CCAACGTCCCAGACATGGTCTTACACGTAATCAAATACGACG
Found at i:25403043 original size:20 final size:20
Alignment explanation
Indices: 25403018--25403058 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25403008 TGAAGACGAA
*
25403018 TTTAAATATGATAAAACAAT
1 TTTAAAAATGATAAAACAAT
*
25403038 TTTAAAAATGATAAAATAAT
1 TTTAAAAATGATAAAACAAT
25403058 T
1 T
25403059 ATAATAAAAC
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:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTAAAAATGATAAAACAAT
Found at i:25404751 original size:44 final size:44
Alignment explanation
Indices: 25404703--25404992 Score: 196
Period size: 44 Copynumber: 6.6 Consensus size: 44
25404693 TGTCTTCGAT
* *
25404703 CTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAAC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
** * ** * *
25404747 CTACTCCGTTACTGCTCAGGGAGATAAG-TCTTGTGA-CTTAAAT
1 CTACTCCACTACTGCTTAGGGAGATAAGATC-TGCAATCTTCAAC
* * * ** * * *
25404790 CTGCTTCC-CTACT-CATGGGGAAGATAAGAT-TCGCCGTCCTCGAT
1 CTAC-TCCACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTCAAC
* * *
25404834 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAAC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* * *** * *
25404878 CTACCCCACTACTGCTTAGGGAGATAAG-GCTGGTGTCTTCGAT
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* * * * *
25404921 CTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAGTTTTCAAC
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* *
25404965 CTACTCCACTGCTGTTTAGGGAGATAAG
1 CTACTCCACTACTGCTTAGGGAGATAAG
25404993 GCTTGTGACT
Statistics
Matches: 185, Mismatches: 51, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
42 5 0.03
43 57 0.31
44 118 0.64
45 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
Found at i:25404920 original size:87 final size:87
Alignment explanation
Indices: 25404829--25404995 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 87
25404819 TTCGCCGTCC
25404829 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
1 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
25404894 TAGGGAGATAAGGCTGGTGTCT
66 TAGGGAGATAAGGCTGGTGTCT
* * * * * * *
25404916 TCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAGTTTTCAACCTACTCCACTGCTGTT
1 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
25404981 TAGGGAGATAAGGCT
66 TAGGGAGATAAGGCT
25404996 TGTGACTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (87 bp):
TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
TAGGGAGATAAGGCTGGTGTCT
Found at i:25404923 original size:131 final size:131
Alignment explanation
Indices: 25404698--25404950 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
25404688 TTCACTGTCT
* * **
25404698 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCGTTACTGCT
1 TCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCT
* * *
25404763 CAGGGAGATAAGTCTTGTGACTTAAATCTGCTTCC-CTAC-TCATGGGGAAGATAAGATTCGCCG
66 CAGGGAGATAAGGCTGGTGACTTAAATCTGC-TCCACTACTTCATAGGG-AGATAAGATTCGCCG
25404826 TCC
129 TCC
* *
25404829 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
1 TCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCT
* * ** *
25404894 TAGGGAGATAAGGCTGGTGTCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGAT
66 CAGGGAGATAAGGCTGGTGACTTAAATCTGCTCCACTACTTCATAGGGAGATAAGAT
25404951 CTGTAGTTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
130 3 0.03
131 97 0.92
132 6 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (131 bp):
TCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCT
CAGGGAGATAAGGCTGGTGACTTAAATCTGCTCCACTACTTCATAGGGAGATAAGATTCGCCGTC
C
Found at i:25404972 original size:131 final size:131
Alignment explanation
Indices: 25404703--25404992 Score: 334
Period size: 131 Copynumber: 2.2 Consensus size: 131
25404693 TGTCTTCGAT
* **
25404703 CTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCGTTACTGCTCAGGG
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCTCAGGG
* * * * *
25404768 AGATAAGTCTTGTGACTTAAATCTGCTTCCCTACTCATGGGGAAGATAAGATTCGCCGTCCTCGA
66 AGATAAGGCTGGTGACTTAAATCTGCTTCCCTACTCATAGGGAAGATAAGATTCGCAGTCCTCAA
*
25404833 T
131 C
* * * *
25404834 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCTTAGGG
1 CTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCTCAGGG
* ** * * **
25404899 AGATAAGGCTGGTGTCTTCGATCTGC-TCCACTACTTCTTAGGG-AGATAAGA-TCTGTAGTTTT
66 AGATAAGGCTGGTGACTTAAATCTGCTTCC-CTAC-TCATAGGGAAGATAAGATTC-GCAGTCCT
25404961 CAAC
128 CAAC
* *
25404965 CTACTCCACTGCTGTTTAGGGAGATAAG
1 CTACTCCACTACTGCTTAGGGAGATAAG
25404993 GCTTGTGACT
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 5 0.04
131 121 0.92
132 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACCCCACTACTGCTCAGGG
AGATAAGGCTGGTGACTTAAATCTGCTTCCCTACTCATAGGGAAGATAAGATTCGCAGTCCTCAA
C
Found at i:25405266 original size:44 final size:44
Alignment explanation
Indices: 25405192--25405523 Score: 262
Period size: 44 Copynumber: 7.6 Consensus size: 44
25405182 AATCCACTCT
* * *
25405192 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
*
25405236 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* * * ** **
25405280 ACTGTAACCTCAGGGAGATAAGATTTGAAAT-TCTTCGGTCTTTTCC
1 ACTGTAATCTCAGGGAGATAAGATTT---CTGGCTTCAATCTGCTCC
* ** * * * * *
25405326 ACTGTAATCTCAAGGAGATAA-A-ACCT-GATGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* * ** * *
25405367 ACTGTAATTTCAGAGAGATAAGATCCTT-T-ATTTTAATCCGCTCC
1 ACTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGCTCC
* * * * * *
25405411 ACTATAATCTTAGGGAAATAAGATTACTGGCTTTAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* *
25405455 ACTGAAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* *
25405499 GCTGTAACCTCAGGGAGATAAGATT
1 ACTGTAATCTCAGGGAGATAAGATT
25405524 CTTCAGTCTA
Statistics
Matches: 222, Mismatches: 57, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
41 27 0.12
42 2 0.01
43 1 0.00
44 161 0.73
45 1 0.00
46 29 0.13
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
Found at i:25405481 original size:219 final size:218
Alignment explanation
Indices: 25405083--25405680 Score: 865
Period size: 212 Copynumber: 2.8 Consensus size: 218
25405073 GCCTGGGAAG
* * *
25405083 TAAGATTTGAAATTCTTCAATCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
* *
25405148 CTCTACTG---TTCAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAATCTCAGGGAAA
66 CTCTACTGTAATTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAA
* * *
25405210 TAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
131 TAGGATTACTGGCTTTAATCTGCTCCACTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
25405275 GCTCCACTGTAACCTCAGGGAGA
196 GCTCCACTGTAACCTCAGGGAGA
* * * *
25405298 TAAGATTTGAAATTCTTCGGTCTTTTCCACTGTAATCTCAAGGAGATAAAACCTGATGCGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
* *
25405363 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTTAGGGAA
66 CTCTACTGTAA-TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
* * *
25405428 ATAAGATTACTGGCTTTAATCTGCTCTACTGAAATCTTAGGGAGATAAGATTTCTGGCTTCAATC
130 ATAGGATTACTGGCTTTAATCTGCTCCACTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
*
25405493 TGCTCCGCTGTAACCTCAGGGAGA
195 TGCTCCACTGTAACCTCAGGGAGA
* * *
25405517 T-A-A---G--ATTCTTCAGTCTATTCCACTATAATATCAGGGAGATAAGACCTAATGCGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
* * *
25405575 CTCTACTGTAAATTCAAAGAGATAAGATCCTTTATTTTAATTCGCTCCACTGTAATCTCAAGGAA
66 CTCTACTGT-AATTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
** *
25405640 ATAGGATTACTGGCTTTAATCTGCTCCGTTGTAATCTCAGG
130 ATAGGATTACTGGCTTTAATCTGCTCCACTGAAATCTCAGG
25405681 AAGGTAATAT
Statistics
Matches: 342, Mismatches: 36, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
212 139 0.41
213 2 0.01
214 1 0.00
215 66 0.19
217 1 0.00
218 1 0.00
219 132 0.39
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (218 bp):
TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
CTCTACTGTAATTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAA
TAGGATTACTGGCTTTAATCTGCTCCACTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
GCTCCACTGTAACCTCAGGGAGA
Found at i:25418022 original size:36 final size:36
Alignment explanation
Indices: 25417975--25418049 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
25417965 TCCATGACAA
* *
25417975 TTTTCTAATTTAGTAACTGAACTTGAATCGACACTC
1 TTTTCTAATTTAGCAACTGAACTTGAATCAACACTC
25418011 TTTTCTAATTTAGCAACTGAACTTGAATCAACACTC
1 TTTTCTAATTTAGCAACTGAACTTGAATCAACACTC
25418047 TTT
1 TTT
25418050 CAAATATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (36 bp):
TTTTCTAATTTAGCAACTGAACTTGAATCAACACTC
Found at i:25442307 original size:26 final size:26
Alignment explanation
Indices: 25442277--25442359 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
25442267 ACCAACACAC
*
25442277 CAATATCGCAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
*
25442303 TAATAACGCAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
* * *
25442329 CAGTAACGCAGTAAAGCTACCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
25442355 CAATA
1 CAATA
25442360 TATGTGGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTGCCAGTAA
Found at i:25442571 original size:27 final size:27
Alignment explanation
Indices: 25442536--25442615 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
25442526 TTTCATCTCC
*
25442536 TAGAGGTATAACGATCATTTTATCCTA
1 TAGAGGTATAACGATCATTTTACCCTA
*
25442563 TAG-GAGTATAACGGTCATTTTACCCTA
1 TAGAG-GTATAACGATCATTTTACCCTA
**
25442590 TAGAGGTATTTCGATCATTTTACCCT
1 TAGAGGTATAACGATCATTTTACCCT
25442616 TCGATGGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
TAGAGGTATAACGATCATTTTACCCTA
Found at i:25442624 original size:27 final size:27
Alignment explanation
Indices: 25442579--25442770 Score: 180
Period size: 27 Copynumber: 7.1 Consensus size: 27
25442569 TATAACGGTC
* *
25442579 ATTTTACCCTATAGA-GGTATTTCGATC
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
25442606 ATTTTACCCTTCGATGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
25442633 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
25442660 ATTTTACCCTTCGAGGGTATTT-TAGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
** * * *
25442687 ATTTTACTTTTAG-GGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
25442713 ATTTTACCCTTTGAGGTTATTT-TACTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
*
25442740 ATTTTACCCTTTTG-GGGTATTTCGATA
1 ATTTTACCC-TTCGAGGGTATTTCGATA
25442767 ATTT
1 ATTT
25442771 ATGGCATATT
Statistics
Matches: 139, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
26 25 0.18
27 108 0.78
28 6 0.04
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:25442637 original size:54 final size:53
Alignment explanation
Indices: 25442579--25442770 Score: 226
Period size: 54 Copynumber: 3.6 Consensus size: 53
25442569 TATAACGGTC
* * *
25442579 ATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTTCGATGGTATTTCAGTA
1 ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTCGA-GGTATTTTAGTA
*
25442633 ATTTTACCC-TTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTTAGA-GGTATTTCGATAATTTTACCCTTCGA-GGTATTTTAGTA
* * * * * *
25442687 ATTTTA-CTTTTAGGGGTATTTTGGTAATTTTACCCTTTGAGGTTATTTTACTA
1 ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTCGAGG-TATTTTAGTA
* *
25442740 ATTTTACCCTTTTGGGGTATTTCGATAATTT
1 ATTTTACCCTTTAGAGGTATTTCGATAATTT
25442771 ATGGCATATT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.36
54 74 0.63
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (53 bp):
ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTCGAGGTATTTTAGTA
Found at i:25442769 original size:80 final size:81
Alignment explanation
Indices: 25442579--25442770 Score: 194
Period size: 80 Copynumber: 2.4 Consensus size: 81
25442569 TATAACGGTC
* * * * *
25442579 ATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTTCGATGGTATTTCAGTAATTTTACCCTT
1 ATTTTACCCTTTAGGGGTATTTCGATAATTTTACCCTTAGAGGGTATTTCAGTAATTTTACCCTT
25442644 CGAGGGTATTTCGATA
66 CGAGGGTATTTCGATA
* * ** **
25442660 ATTTTACCC-TTCGAGGGTATTT-TAGTAATTTTACTTTTAG-GGGTATTTTGGTAATTTTACCC
1 ATTTTACCCTTTAG-GGGTATTTCGA-TAATTTTACCCTTAGAGGGTATTTCAGTAATTTTACCC
* * *
25442722 TTTGAGGTTATTT-TACTA
64 TTCGAGGGTATTTCGA-TA
*
25442740 ATTTTACCCTTTTGGGGTATTTCGATAATTT
1 ATTTTACCCTTTAGGGGTATTTCGATAATTT
25442771 ATGGCATATT
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.01
80 58 0.64
81 31 0.34
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (81 bp):
ATTTTACCCTTTAGGGGTATTTCGATAATTTTACCCTTAGAGGGTATTTCAGTAATTTTACCCTT
CGAGGGTATTTCGATA
Found at i:25448486 original size:26 final size:28
Alignment explanation
Indices: 25448444--25448495 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
25448434 TAGCAAAACA
* *
25448444 TATTGATGGATTCATAAGGAA-AACTCC
1 TATTGATGGATTAATAAAGAAGAACTCC
25448471 TATT-ATGGATTAATAAAGAAGAACT
1 TATTGATGGATTAATAAAGAAGAACT
25448496 ACTCATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (28 bp):
TATTGATGGATTAATAAAGAAGAACTCC
Found at i:25455257 original size:26 final size:26
Alignment explanation
Indices: 25455224--25455277 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
25455214 AATTTAAATG
25455224 AATTGAAATTTTGAATTGGGTCTGAA
1 AATTGAAATTTTGAATTGGGTCTGAA
25455250 AATTGAAATTTTGAATTGGGTCTGAA
1 AATTGAAATTTTGAATTGGGTCTGAA
25455276 AA
1 AA
25455278 AAGGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (26 bp):
AATTGAAATTTTGAATTGGGTCTGAA
Found at i:25455286 original size:27 final size:26
Alignment explanation
Indices: 25455228--25455289 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
25455218 TAAATGAATT
**
25455228 GAAATTTTGAATTGGGTCTGAAAATT
1 GAAATTTTGAATTGGGTCTGAAAAAG
25455254 GAAATTTTGAATTGGGTCTGAAAAAAG
1 GAAATTTTGAATTGGGTCTG-AAAAAG
25455281 GAAATTTTG
1 GAAATTTTG
25455290 TGGTATAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.35
Consensus pattern (26 bp):
GAAATTTTGAATTGGGTCTGAAAAAG
Found at i:25455822 original size:42 final size:42
Alignment explanation
Indices: 25455775--25455859 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
25455765 ATTTTAAAAG
*
25455775 TAAAAGATAAAGAGATTACAAATTAAAAATCATGAAAGAAAT
1 TAAAAGATAAAGAGATTAAAAATTAAAAATCATGAAAGAAAT
25455817 TAAAAGATAAAGAGATTAAAAATTAAAAATCATGAAAGAAAT
1 TAAAAGATAAAGAGATTAAAAATTAAAAATCATGAAAGAAAT
25455859 T
1 T
25455860 CTTAAAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.22
Consensus pattern (42 bp):
TAAAAGATAAAGAGATTAAAAATTAAAAATCATGAAAGAAAT
Found at i:25463555 original size:3 final size:3
Alignment explanation
Indices: 25463547--25463580 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
25463537 TATTCTTTGC
25463547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25463581 AACATATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:25465405 original size:36 final size:36
Alignment explanation
Indices: 25465337--25465405 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
25465327 ATGACTAAAC
* *
25465337 AATTCAATAAAATAAATAGTACAAAATGTGAAATGT
1 AATTCAATAAAATAAATAGAACAAAATATGAAATGT
*
25465373 AATTCAATAATATAAATA-AACATAAATATGAAA
1 AATTCAATAAAATAAATAGAACA-AAATATGAAA
25465406 AAAAAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (36 bp):
AATTCAATAAAATAAATAGAACAAAATATGAAATGT
Found at i:25466588 original size:83 final size:83
Alignment explanation
Indices: 25466449--25466613 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
25466439 TTTGGTTTCC
25466449 TTAACCAATGTGTCTTCAGTCTGTGATAAACATCCTAACCGGTCTAAGAAAATTAACATAAAAAC
1 TTAACCAATGTGTCTTCAGTCTGTGATAAACATCCTAACCGGTCTAAGAAAATTAACATAAAAAC
25466514 CATGCTTCTTGGAGTTTG
66 CATGCTTCTTGGAGTTTG
*
25466532 TTAACCAATGTGTCTTCATTCTGTGATAAACATCCTAACCGGTCTAAGAAAATTAACATAAAAAC
1 TTAACCAATGTGTCTTCAGTCTGTGATAAACATCCTAACCGGTCTAAGAAAATTAACATAAAAAC
25466597 CATGCTTCTTGGAGTTT
66 CATGCTTCTTGGAGTTT
25466614 AACGTTTGTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (83 bp):
TTAACCAATGTGTCTTCAGTCTGTGATAAACATCCTAACCGGTCTAAGAAAATTAACATAAAAAC
CATGCTTCTTGGAGTTTG
Found at i:25479523 original size:19 final size:20
Alignment explanation
Indices: 25479491--25479537 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
25479481 ATTTGCGCAT
*
25479491 ATGACCAAGACATTAAT-AC
1 ATGACCAAGACATTAATAAA
*
25479510 ATGACCAA-ACCATTCATAAA
1 ATGACCAAGA-CATTAATAAA
25479530 ATGACCAA
1 ATGACCAA
25479538 TTCACTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (20 bp):
ATGACCAAGACATTAATAAA
Found at i:25485925 original size:26 final size:24
Alignment explanation
Indices: 25485872--25485925 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
25485862 TATCATTTTA
* *
25485872 ATGTTATTTAAATTGAATGTTATT
1 ATGTTATTTAAATTGAATGTGATG
25485896 ATGTTATTTATAATGTGAATG-GATCG
1 ATGTTATTTA-AAT-TGAATGTGAT-G
25485922 ATGT
1 ATGT
25485926 ATAAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 10 0.40
25 5 0.20
26 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (24 bp):
ATGTTATTTAAATTGAATGTGATG
Found at i:25487296 original size:25 final size:25
Alignment explanation
Indices: 25487262--25487318 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
25487252 TCAGAGAGTT
25487262 ACACGGCCTGACACATAGGG-ATGTG
1 ACACGGCCTGACACAT-GGGCATGTG
* *
25487287 ACACGGCCTGGCACATGGGCGTGTG
1 ACACGGCCTGACACATGGGCATGTG
25487312 ACACGGC
1 ACACGGC
25487319 TGTGTGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.14
Consensus pattern (25 bp):
ACACGGCCTGACACATGGGCATGTG
Found at i:25490730 original size:6 final size:6
Alignment explanation
Indices: 25490638--25490718 Score: 65
Period size: 6 Copynumber: 12.7 Consensus size: 6
25490628 GAAGTTTAAG
* * *
25490638 AAAATA AAAATA AAAATAA AACAACCA AAAGAAA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAAT-A AA-AA-TA AAA-ATA AAAATA AAAATA AAAATA
*
25490690 AAAATA AAAA-A GAAAACTA AAAAGA AAAA
1 AAAATA AAAATA -AAAA-TA AAAATA AAAA
25490719 AATAAAACTA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
5 1 0.02
6 42 0.68
7 12 0.19
8 7 0.11
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:25492439 original size:16 final size:16
Alignment explanation
Indices: 25492398--25492462 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
25492388 AAACACATAA
25492398 AAATAAGAATA-AGAA-
1 AAATAAGAATAGA-AAT
25492413 AAA-AA-AATAGAAAT
1 AAATAAGAATAGAAAT
25492427 AAATAAGAATAGAAAT
1 AAATAAGAATAGAAAT
* *
25492443 -AATAATAA-ATAAAT
1 AAATAAGAATAGAAAT
25492457 AAATAA
1 AAATAA
25492463 AATTTGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 6 0.14
14 11 0.26
15 17 0.40
16 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (16 bp):
AAATAAGAATAGAAAT
Found at i:25492481 original size:30 final size:30
Alignment explanation
Indices: 25492398--25492462 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
25492388 AAACACATAA
*
25492398 AAATAAGAATAAGAAA-AA-AA-AATAGAAAT
1 AAATAAGAAT-AGAAATAATAATAA-ATAAAT
25492427 AAATAAGAATAGAAATAATAATAAATAAAT
1 AAATAAGAATAGAAATAATAATAAATAAAT
25492457 AAATAA
1 AAATAA
25492463 AATTTGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.16
29 12 0.38
30 13 0.41
31 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (30 bp):
AAATAAGAATAGAAATAATAATAAATAAAT
Found at i:25494341 original size:17 final size:17
Alignment explanation
Indices: 25494319--25494357 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
25494309 ATGGATTTGC
25494319 CCTTGAAGAACTTTCAA
1 CCTTGAAGAACTTTCAA
25494336 CCTTGAAGAACTTTCAA
1 CCTTGAAGAACTTTCAA
25494353 CCTTG
1 CCTTG
25494358 CATTCAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (17 bp):
CCTTGAAGAACTTTCAA
Found at i:25510373 original size:16 final size:16
Alignment explanation
Indices: 25510340--25510373 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25510330 GGAAATCAAT
*
25510340 CAATTTTTAGAAATCC
1 CAATTTTTAGAAAACC
*
25510356 CAATTTTTATAAAACC
1 CAATTTTTAGAAAACC
25510372 CA
1 CA
25510374 TAATCCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (16 bp):
CAATTTTTAGAAAACC
Done.