Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 32 of 210
Found at i:10357227 original size:6 final size:6
Alignment explanation
Indices: 10357218--10357256 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
10357208 TAAAGTCCTT
* *
10357218 TACAGA TACAAA TACAGA TACAAA TACAGA TAACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA T-ACAGA TA
10357257 AACAAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.18
Consensus pattern (6 bp):
TACAGA
Found at i:10357235 original size:12 final size:12
Alignment explanation
Indices: 10357218--10357249 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
10357208 TAAAGTCCTT
10357218 TACAGATACAAA
1 TACAGATACAAA
10357230 TACAGATACAAA
1 TACAGATACAAA
10357242 TACAGATA
1 TACAGATA
10357250 ACAGATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (12 bp):
TACAGATACAAA
Found at i:10366005 original size:17 final size:17
Alignment explanation
Indices: 10365983--10366017 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10365973 GTCACCGGTG
10365983 TTAACCTAACCTCTATA
1 TTAACCTAACCTCTATA
10366000 TTAACCTAACCTCTATA
1 TTAACCTAACCTCTATA
10366017 T
1 T
10366018 AAGTACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAACCTAACCTCTATA
Found at i:10375071 original size:84 final size:84
Alignment explanation
Indices: 10374930--10375102 Score: 337
Period size: 84 Copynumber: 2.1 Consensus size: 84
10374920 TTCTTTTCCT
10374930 TTATTTTACATTAAGGTTTTGGGAAAGAAACATATGAGTGCCTTCAATTGATTTATCCTAGTTTT
1 TTATTTTACATTAAGGTTTTGGGAAAGAAACATATGAGTGCCTTCAATTGATTTATCCTAGTTTT
*
10374995 TGTCTAAGTATTATTATCA
66 TGTCTAAGTATTATTAGCA
10375014 TTATTTTACATTAAGGTTTTGGGAAAGAAACATATGAGTGCCTTCAATTGATTTATCCTAGTTTT
1 TTATTTTACATTAAGGTTTTGGGAAAGAAACATATGAGTGCCTTCAATTGATTTATCCTAGTTTT
10375079 TGTCTAAGTATTATTAGCA
66 TGTCTAAGTATTATTAGCA
10375098 TTATT
1 TTATT
10375103 GGAATTAGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (84 bp):
TTATTTTACATTAAGGTTTTGGGAAAGAAACATATGAGTGCCTTCAATTGATTTATCCTAGTTTT
TGTCTAAGTATTATTAGCA
Found at i:10387576 original size:102 final size:102
Alignment explanation
Indices: 10387457--10387666 Score: 366
Period size: 102 Copynumber: 2.1 Consensus size: 102
10387447 CCACAACAAC
*
10387457 TTTAATTAAATGAAATTATTTATTGTCGTAAAGATCTTATAAGGTTTATAGACAATAGATGTTAC
1 TTTAATTAAATGAAATTATTTATTGTAGTAAAGATCTTATAAGGTTTATAGACAATAGATGTTAC
10387522 ATAATGACTTAGCAACAATCATGAATAAAGTTTAAGG
66 ATAATGACTTAGCAACAATCATGAATAAAGTTTAAGG
*
10387559 TTTAATTAAATTAAATTATTTATTGTAGTAAAGATCTTATAAGGTTTATAGACAATAGATGTTAC
1 TTTAATTAAATGAAATTATTTATTGTAGTAAAGATCTTATAAGGTTTATAGACAATAGATGTTAC
* * *
10387624 ATAATGGCTTAGCAACAGTCTTGAATAAAGTTTAAGG
66 ATAATGACTTAGCAACAATCATGAATAAAGTTTAAGG
*
10387661 ATTAAT
1 TTTAAT
10387667 ATCTAGTTAA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (102 bp):
TTTAATTAAATGAAATTATTTATTGTAGTAAAGATCTTATAAGGTTTATAGACAATAGATGTTAC
ATAATGACTTAGCAACAATCATGAATAAAGTTTAAGG
Found at i:10388306 original size:31 final size:31
Alignment explanation
Indices: 10388268--10388326 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
10388258 GTTCCTGCTA
10388268 ATGTTCGTGACTCAATTGAGCATTATGAAAT
1 ATGTTCGTGACTCAATTGAGCATTATGAAAT
10388299 ATGTTCGTGACTCAATTGAGCATTATGA
1 ATGTTCGTGACTCAATTGAGCATTATGA
10388327 GAATGTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (31 bp):
ATGTTCGTGACTCAATTGAGCATTATGAAAT
Found at i:10408586 original size:20 final size:20
Alignment explanation
Indices: 10408561--10408599 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10408551 AGAGTAAAAA
10408561 AGAAAAAAAGAAGAAGAAGG
1 AGAAAAAAAGAAGAAGAAGG
* *
10408581 AGAAAAAGAGAAGAGGAAG
1 AGAAAAAAAGAAGAAGAAG
10408600 CTCAAGTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAGAAGAAGG
Found at i:10410587 original size:5 final size:5
Alignment explanation
Indices: 10410577--10410612 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
10410567 CCAATAAACG
10410577 ATAAA ATAAA ATAAA ATAAA ATAAA GA-AAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA -ATAAA ATAAA A
10410613 AACGAGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:10411002 original size:28 final size:28
Alignment explanation
Indices: 10410970--10411066 Score: 88
Period size: 28 Copynumber: 3.8 Consensus size: 28
10410960 AACTATGAAG
* *
10410970 ATATGTATCTATATATATATATGTAAAA
1 ATATGTATATATATATATATATATAAAA
* *
10410998 ATATGTATGTATATAAATATATATAAAA
1 ATATGTATATATATATATATATATAAAA
10411026 A-ATG-----A-A-ATATATATAT-AAA
1 ATATGTATATATATATATATATATAAAA
10411045 ATATGTATATATATATA-ATATA
1 ATATGTATATATATATATATATA
10411067 GAGAATGTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 1 0.02
22 1 0.02
25 1 0.02
26 6 0.11
27 6 0.11
28 26 0.46
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (28 bp):
ATATGTATATATATATATATATATAAAA
Found at i:10411301 original size:40 final size:41
Alignment explanation
Indices: 10411251--10411347 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
10411241 ATCTTCAAGG
*
10411251 ATATCCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
10411291 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
10411334 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
10411348 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.59
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:10411324 original size:19 final size:19
Alignment explanation
Indices: 10411250--10411321 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
10411240 AATCTTCAAG
*
10411250 GATATCCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10411269 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10411288 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
10411309 GATATGCAATCTT
1 GATATGCAATCTT
10411322 GGAAGATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10411529 original size:4 final size:4
Alignment explanation
Indices: 10411520--10411551 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
10411510 GCTTACTGTT
*
10411520 TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
10411552 CAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:10417158 original size:88 final size:88
Alignment explanation
Indices: 10417009--10418027 Score: 1552
Period size: 88 Copynumber: 11.6 Consensus size: 88
10416999 NNNNNCACAA
* * *
10417009 AGCCTTGCCTCCCTGGGTTGTAGTGAAGCAGGTTGAATATAGCAGATCTTGCCTTCATGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
10417074 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
10417097 AGCCTTGCCTCCTTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
10417162 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
10417185 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAACAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
* *
10417250 CAACGAAGCAGATCGAAGATACA
66 CAGCGAAGCAGATCGAAGATACC
*
10417273 AGCCTTGCCTCCCAGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
10417338 TAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * *
10417361 AGCCTTGCCTCCCTGGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCATTCCTACATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
10417426 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * * * *
10417449 AGCCTTCCCTCACTGAGTTGTAGTGGAGCAAGTTGAAGATAACAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
10417514 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * *
10417537 AGCCTTGCCTCCATGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTTCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
10417602 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
10417625 AACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTTCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
10417690 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * *
10417713 AGCCTTGCCTCCCTGGGTTGTAGTGGAACAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
* *
10417778 CAGTGAAGCAGATCGAATATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * * * *
10417801 AGACTTGTCTCCCTGGGTCGTAGTGGAGCAGGTTTATGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
10417866 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* ** *
10417889 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTATACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
* *
10417954 CAGTGAAGCAGATCAAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * *
10417977 AGCCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
10418028 TTTTCCCATA
Statistics
Matches: 857, Mismatches: 74, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 857 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
CAGCGAAGCAGATCGAAGATACC
Found at i:10418100 original size:132 final size:132
Alignment explanation
Indices: 10417956--10418297 Score: 305
Period size: 133 Copynumber: 2.6 Consensus size: 132
10417946 TATACCGACA
* * * * * * *
10417956 GTGAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGATAGC
1 GTGAAGCAGATCAAAGATAACAGACCTTACCTCCATGGATTGGCGCGAAGTAGATCAAAGATAGC
* * *
10418020 AGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATT
66 AGATCTTGTCTTCACATACTGG-CGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATT
10418085 GGC
130 GGC
* * * * *
10418088 GTGAAGTAGATCAAAGATAACAGATCTTATCTTCATGTATTGGCGCGAAGTAGATCAAAGATAGC
1 GTGAAGCAGATCAAAGATAACAGACCTTACCTCCATGGATTGGCGCGAAGTAGATCAAAGATAGC
** * * * * ***
10418153 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTG
66 AGATCTTGTCTTCACATACTGGCGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
*
10418218 GTG
131 G-C
* * * * * ** * * * *
10418221 GCGAAGTAGATCGAAGA-AAGTAGATCTTGTCTTCATGTATT-G-GCGAAGTAGATCGAAGAAAG
1 GTGAAGCAGATCAAAGATAA-CAGACCTTACCTCCATGGATTGGCGCGAAGTAGATCAAAGATAG
10418283 CAGATCTTGTCTTCA
65 CAGATCTTGTCTTCA
10418298 TGTATCGGCA
Statistics
Matches: 176, Mismatches: 31, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
131 33 0.19
132 61 0.35
133 82 0.47
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GTGAAGCAGATCAAAGATAACAGACCTTACCTCCATGGATTGGCGCGAAGTAGATCAAAGATAGC
AGATCTTGTCTTCACATACTGGCGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
GC
Found at i:10418113 original size:44 final size:44
Alignment explanation
Indices: 10417998--10418340 Score: 363
Period size: 44 Copynumber: 7.8 Consensus size: 44
10417988 CCTGGGTTGT
* * *** *
10417998 CGTGAAGTAGATCGAAGATAGCAGATCTTGTTTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG
* * *
10418042 TGGCGAAGTAAATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGG
* *
10418087 CGTGAAGTAGATCAAAGATAACAGATCTTATCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG
* * *
10418131 CGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG
* ***
10418175 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGG
1 CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG
* * *
10418219 TGGCGAAGTAGATCGAAGA-AAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGG
*
10418264 C--GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATCGG
1 CGTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGG
* * * * *
10418306 CATGAAATAGATCAAAGGTAGCAGATCTTGTCTTC
1 CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTC
10418341 CCATACTGGT
Statistics
Matches: 255, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
42 40 0.16
44 144 0.56
45 71 0.28
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG
Found at i:10418201 original size:177 final size:175
Alignment explanation
Indices: 10417998--10418340 Score: 553
Period size: 177 Copynumber: 1.9 Consensus size: 175
10417988 CCTGGGTTGT
*
10417998 CGTGAAGTAGATCGAAGATAGCAGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAGAAA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAAATCGAAGAAA
10418063 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA-CAGATCTTATCTTCATGTA
66 GCAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCAAAGA-AAGCAGATCTTATCTTCATGTA
* * *
10418127 TTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
128 TCGGCACGAAATAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
10418175 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAAATCGAAGAAA
* * *
10418240 GTAGATCTTGTCTTCATGTATTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCG
66 GCAGATCTTGTCTTCATGTATTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTATCG
* *
10418305 GCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTC
131 GCACGAAATAGATCAAAGATAGCAGATCTTGTCTTC
10418341 CCATACTGGT
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 66 0.43
177 86 0.56
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (175 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAAATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTATCG
GCACGAAATAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:10418317 original size:131 final size:133
Alignment explanation
Indices: 10418053--10418382 Score: 447
Period size: 131 Copynumber: 2.5 Consensus size: 133
10418043 GGCGAAGTAA
* *** * * *
10418053 ATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGATCTTA
1 ATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAACAGATCTTA
* * * *
10418117 TCTTCATGTATTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
66 TCTTCATGTATTGGCGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
10418182 TAG
131 TAG
*
10418185 ATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AAGTAGATCTT
1 ATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAA-CAGATCTT
* *
10418249 GTCTTCATGTATT-G-GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAA
65 ATCTTCATGTATTGGCGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAA
10418312 ATAG
130 ATAG
* * *
10418316 ATCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAT-ACA-AGTCTT
1 ATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAACAGA-TCTT
10418379 ATCT
65 ATCT
10418383 CCCTGAAGTT
Statistics
Matches: 175, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
129 1 0.01
130 8 0.05
131 99 0.57
132 33 0.19
133 34 0.19
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (133 bp):
ATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAACAGATCTTA
TCTTCATGTATTGGCGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
TAG
Found at i:10418406 original size:175 final size:176
Alignment explanation
Indices: 10418001--10418382 Score: 529
Period size: 177 Copynumber: 2.2 Consensus size: 176
10417991 GGGTTGTCGT
* * * *
10418001 GAAGTAGATCGAAGATAGCAGATCTTGTTTTCCCATACTGGTGGCGAAGTAAATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*
10418066 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCTTATCTTCATGTATTGG
66 GATCTTGTCTTCATGTATTGGCG-GAAGTAGATCAAAGATAACAGATCTTATCTTCATGTATCGG
* * ** * *
10418131 CGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
130 CACGAAATAGATCAAAGATAGCAGATCTTGTCTTCACATACTGGCGC
* *
10418178 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* *
10418243 GATCTTGTCTTCATGTATTGGC-GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATCGG
66 GATCTTGTCTTCATGTATTGGCGGAAGTAGATCAAAGATAA-CAGATCTTATCTTCATGTATCGG
* * * *
10418306 CATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGC
130 CACGAAATAGATCAAAGATAGCAGATCTTGTCTTCACATACTGG-CGC
10418354 GAAGTAGATCGAAGATA-CA-AGTCTTATCT
1 GAAGTAGATCGAAGATAGCAGA-TCTTATCT
10418383 CCCTGAAGTT
Statistics
Matches: 184, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
174 3 0.02
175 80 0.43
176 18 0.10
177 83 0.45
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (176 bp):
GAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCATGTATTGGCGGAAGTAGATCAAAGATAACAGATCTTATCTTCATGTATCGGC
ACGAAATAGATCAAAGATAGCAGATCTTGTCTTCACATACTGGCGC
Found at i:10418739 original size:21 final size:21
Alignment explanation
Indices: 10418714--10418791 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
10418704 ATCTTCAAGG
10418714 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
10418735 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
10418756 ATA--CAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
10418778 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
10418792 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 7 0.15
20 3 0.06
21 24 0.50
22 8 0.17
23 6 0.12
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:10422020 original size:2 final size:2
Alignment explanation
Indices: 10422013--10422048 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10422003 CTCATTTGAG
10422013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10422049 TGTCAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10422887 original size:18 final size:17
Alignment explanation
Indices: 10422864--10422906 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10422854 TAAAGTTATC
10422864 ATATAAAGAC-ATAACTTT
1 ATATAAA-ACAAT-ACTTT
*
10422882 ATATAAAACAATCCTTT
1 ATATAAAACAATACTTT
10422899 ATATAAAA
1 ATATAAAA
10422907 AAGGTATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATAAAACAATACTTT
Found at i:10427137 original size:13 final size:13
Alignment explanation
Indices: 10427110--10427142 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10427100 ATACATTCGA
10427110 ATAATT-ATAATT
1 ATAATTAATAATT
*
10427122 ATAATTAATCATT
1 ATAATTAATAATT
10427135 ATAATTAA
1 ATAATTAA
10427143 ACTCGTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:10428299 original size:19 final size:17
Alignment explanation
Indices: 10428265--10428298 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10428255 GACAGTATTG
*
10428265 TTATATATATTTAAAAA
1 TTATAAATATTTAAAAA
10428282 TTATAAATATTTAAAAA
1 TTATAAATATTTAAAAA
10428299 ATAGAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAAATATTTAAAAA
Found at i:10429330 original size:7 final size:7
Alignment explanation
Indices: 10429318--10429342 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10429308 TCTTTCATTT
10429318 CTTTGTC
1 CTTTGTC
10429325 CTTTGTC
1 CTTTGTC
10429332 CTTTGTC
1 CTTTGTC
10429339 CTTT
1 CTTT
10429343 TTCGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.60
Consensus pattern (7 bp):
CTTTGTC
Found at i:10429374 original size:20 final size:21
Alignment explanation
Indices: 10429340--10429379 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10429330 TCCTTTGTCC
*
10429340 TTTTTCGTTTTTTTAATTTTG
1 TTTTTCGTTTATTTAATTTTG
*
10429361 TTTTTC-TTTATTTACTTTT
1 TTTTTCGTTTATTTAATTTT
10429380 TTAGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTTCGTTTATTTAATTTTG
Found at i:10429401 original size:23 final size:23
Alignment explanation
Indices: 10429375--10429419 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10429365 TCTTTATTTA
*
10429375 CTTT-TTTAGTTTTTTTATTTGTC
1 CTTTATTT-GTTTTATTATTTGTC
10429398 CTTTATTTGTTTTATTATTTGT
1 CTTTATTTGTTTTATTATTTGT
10429420 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (23 bp):
CTTTATTTGTTTTATTATTTGTC
Found at i:10429417 original size:12 final size:12
Alignment explanation
Indices: 10429400--10429424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10429390 TATTTGTCCT
10429400 TTATTTGTTTTA
1 TTATTTGTTTTA
10429412 TTATTTGTTTTA
1 TTATTTGTTTTA
10429424 T
1 T
10429425 AATATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTATTTGTTTTA
Found at i:10429476 original size:31 final size:31
Alignment explanation
Indices: 10429419--10429478 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10429409 TTATTATTTG
* *
10429419 TTTTATAATATTTTTGATGTATATTTTAATT
1 TTTTATAATATTATTGATGTAAATTTTAATT
*
10429450 TTTTATAATATTATT-ATTTAAAATTTTAA
1 TTTTATAATATTATTGATGT-AAATTTTAA
10429479 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTATAATATTATTGATGTAAATTTTAATT
Found at i:10429491 original size:22 final size:23
Alignment explanation
Indices: 10429450--10429496 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
10429440 TATTTTAATT
10429450 TTTTATAATATTATTATTTAAAA
1 TTTTATAATATTATTATTTAAAA
* *
10429473 TTTTA-AATATTTTTTTTTAAAA
1 TTTTATAATATTATTATTTAAAA
10429495 TT
1 TT
10429497 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATTATTATTTAAAA
Found at i:10429501 original size:13 final size:13
Alignment explanation
Indices: 10429473--10429507 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10429463 TTATTTAAAA
*
10429473 TTTTAAATATTTTT
1 TTTTAAA-ATTATT
10429487 TTTTAAAATTATT
1 TTTTAAAATTATT
10429500 TTTTAAAA
1 TTTTAAAA
10429508 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:10429508 original size:14 final size:13
Alignment explanation
Indices: 10429473--10429511 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10429463 TTATTTAAAA
*
10429473 TTTTAAATATTTT
1 TTTTAAAAATTTT
*
10429486 TTTTTAAAATTATT
1 TTTTAAAAATT-TT
10429500 TTTTAAAAATTT
1 TTTTAAAAATTT
10429512 AAATATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAAAATTTT
Found at i:10429524 original size:35 final size:35
Alignment explanation
Indices: 10429445--10429532 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
10429435 ATGTATATTT
*
10429445 TAATTTTTTATAATATTATTATTTAAAATTTTAAATA
1 TAATTTTTTA-AA-ATTATTATTTAAAAATTTAAATA
** *
10429482 TTTTTTTTTAAAATTATTTTTTAAAAATTTAAATA
1 TAATTTTTTAAAATTATTATTTAAAAATTTAAATA
*
10429517 TAA-TTTTTAATATTAT
1 TAATTTTTTAAAATTAT
10429533 AAAACATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 12 0.27
35 22 0.50
36 2 0.05
37 8 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TAATTTTTTAAAATTATTATTTAAAAATTTAAATA
Found at i:10429644 original size:16 final size:16
Alignment explanation
Indices: 10429623--10429661 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
10429613 TAAAATTTTT
*
10429623 AATTATTATTTTTTAA
1 AATTATTATCTTTTAA
10429639 AATTATTATCTTTTAA
1 AATTATTATCTTTTAA
10429655 AATTATT
1 AATTATT
10429662 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTATTATCTTTTAA
Found at i:10436053 original size:20 final size:20
Alignment explanation
Indices: 10436028--10436085 Score: 53
Period size: 26 Copynumber: 2.6 Consensus size: 20
10436018 TTGTATTTGA
10436028 AACAGATTTAAAGAAAGAAG
1 AACAGATTTAAAGAAAGAAG
10436048 AACAGAAAATAATTTAAAGAAAGAAG
1 AACAG------ATTTAAAGAAAGAAG
*
10436074 AACAGACTTAAA
1 AACAGATTTAAA
10436086 CAATCGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
20 11 0.35
26 20 0.65
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.16
Consensus pattern (20 bp):
AACAGATTTAAAGAAAGAAG
Found at i:10437609 original size:21 final size:20
Alignment explanation
Indices: 10437563--10437609 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10437553 ACGGCACCCA
10437563 AGCAAAGACTAGAGAAATAG
1 AGCAAAGACTAGAGAAATAG
* **
10437583 ACCAAAGGTTAGAGAAACTAG
1 AGCAAAGACTAGAGAAA-TAG
10437604 AGCAAA
1 AGCAAA
10437610 TACAAATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.53, C:0.13, G:0.23, T:0.11
Consensus pattern (20 bp):
AGCAAAGACTAGAGAAATAG
Found at i:10438148 original size:24 final size:24
Alignment explanation
Indices: 10438112--10438157 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
10438102 AAGGGTTATT
*
10438112 CAAAGTCGATTACAACAAGCCAGC
1 CAAAGACGATTACAACAAGCCAGC
* * *
10438136 CAAAGACGGTTACTACTAGCCA
1 CAAAGACGATTACAACAAGCCA
10438158 TCAGAGCCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (24 bp):
CAAAGACGATTACAACAAGCCAGC
Found at i:10439641 original size:12 final size:13
Alignment explanation
Indices: 10439626--10439656 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
10439616 AAAATATCTA
10439626 AAAAAAAAGAAT-
1 AAAAAAAAGAATG
10439638 AAAAAAAAGAATG
1 AAAAAAAAGAATG
10439651 AAAAAA
1 AAAAAA
10439657 CTCTACCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAAGAATG
Found at i:10440155 original size:8 final size:8
Alignment explanation
Indices: 10440142--10440191 Score: 54
Period size: 9 Copynumber: 6.5 Consensus size: 8
10440132 TGAGTTGTAA
10440142 AAAAAATG
1 AAAAAATG
10440150 AAAAAAATG
1 -AAAAAATG
10440159 AAAAAATG
1 AAAAAATG
10440167 --AAAATG
1 AAAAAATG
10440173 -AAAAAT-
1 AAAAAATG
10440179 AAAAAATAG
1 AAAAAAT-G
10440188 AAAA
1 AAAA
10440192 GTAAAAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.16
7 11 0.30
8 8 0.22
9 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:10440176 original size:21 final size:21
Alignment explanation
Indices: 10440152--10440200 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
10440142 AAAAAATGAA
10440152 AAAAATGAAAAAAT-GAAAA-T
1 AAAAAT-AAAAAATAGAAAAGT
10440172 GAAAAATAAAAAATAGAAAAGT
1 -AAAAATAAAAAATAGAAAAGT
10440194 AAAAATA
1 AAAAATA
10440201 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 18 0.69
22 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAATAGAAAAGT
Found at i:10440184 original size:14 final size:14
Alignment explanation
Indices: 10440151--10440198 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10440141 AAAAAAATGA
10440151 AAAAAATGAAAAA-
1 AAAAAATGAAAAAT
*
10440164 ATGAAAATGAAAAAT
1 A-AAAAATGAAAAAT
*
10440179 AAAAAATAGAAAAGT
1 AAAAAAT-GAAAAAT
10440194 AAAAA
1 AAAAA
10440199 TAGAGAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 12 0.41
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AAAAAATGAAAAAT
Found at i:10442197 original size:167 final size:167
Alignment explanation
Indices: 10441711--10442227 Score: 669
Period size: 167 Copynumber: 3.1 Consensus size: 167
10441701 TGCAGTTAAA
*
10441711 CAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTAGATTGGCTGAAGTGGA
1 CAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTGGCTGAAGTGGA
* *
10441776 -AAGGATTAAAGCCGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGTC
66 GCA-GATTAAAGCCGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGCC
** * * * *
10441840 GTAATGGTGAATCTTACTTCCCTAGCGTTGCAGTGGAG
130 ACAACGGCGAATCTTACTTCCCTGGCGTTGCAGCGGAG
* * * * * * * *
10441878 TAGATTGAAACCATGACGACAAATCTTATCTCCCTGGTGTTAAGACTTGGATTGGATGAAGTGAA
1 CAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTGGCTGAAGTGGA
* ** * * *
10441943 GC-GAATTAAAGCTGTGGATAGCAAATCCTATCTCTTTGGCTTTACGGTGGAACGGATTGAAGCC
66 GCAG-ATTAAAGCCGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGCC
* *
10442007 ACAACGGCGAATCTTACTTCCCTGGCATTGCAGCAGAG
130 ACAACGGCGAATCTTACTTCCCTGGCGTTGCAGCGGAG
* * * * *
10442045 CAGATTGAAGCCACGATGGTGAATCTTATCTTCCTAGCATTAAGACTTGGATTGGCTGAAGTGGA
1 CAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTGGCTGAAGTGGA
*
10442110 GCAGATTAAAGCCATGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGCCA
66 GCAGATTAAAGCCGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGCCA
* * * * *
10442175 CAACAGCGAATCTTACTTCCCTGGCGGTGTAGGGGAA
131 CAACGGCGAATCTTACTTCCCTGGCGTTGCAGCGGAG
*
10442212 CAGATTGAAGTCACGA
1 CAGATTGAAGCCACGA
10442228 TGTTGAATCT
Statistics
Matches: 294, Mismatches: 53, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
166 1 0.00
167 292 0.99
168 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (167 bp):
CAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTGGCTGAAGTGGA
GCAGATTAAAGCCGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACGGATTGAAGCCA
CAACGGCGAATCTTACTTCCCTGGCGTTGCAGCGGAG
Found at i:10442361 original size:100 final size:100
Alignment explanation
Indices: 10442171--10442366 Score: 232
Period size: 100 Copynumber: 2.0 Consensus size: 100
10442161 ACGGATTGAA
* * * **
10442171 GCCACAACAGCGAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCACGATGTTGAAT
1 GCCACAACAGCGAATCTTACTTCCCTAGCGGTGCAGGGGAACAGATTGAAGTCACGACGGCGAAT
** * * *
10442236 CTTGTTTCCCTGACATTTCAATTAAATAGATAAAG
66 CTTGTTTCCCCAAAATTGCAATTAAACAGATAAAG
* * * * *
10442271 GCCACAACGGCGAATCTTACTTTCCTAGCTGTGCAGTGGAATAGATTGAAG-CTACGACGGCGAA
1 GCCACAACAGCGAATCTTACTTCCCTAGCGGTGCAGGGGAACAGATTGAAGTC-ACGACGGCGAA
*
10442335 TCTTGTTTCCCCAAAATTGCAGTTAAACAGAT
65 TCTTGTTTCCCCAAAATTGCAATTAAACAGAT
10442367 TGAAGGTACC
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
99 1 0.01
100 78 0.99
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
GCCACAACAGCGAATCTTACTTCCCTAGCGGTGCAGGGGAACAGATTGAAGTCACGACGGCGAAT
CTTGTTTCCCCAAAATTGCAATTAAACAGATAAAG
Found at i:10442481 original size:85 final size:84
Alignment explanation
Indices: 10442375--10442539 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 84
10442365 ATTGAAGGTA
* *
10442375 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATTTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
* *
10442440 TGCAGTAGAGTAGATTGCAT
66 TACAG-AGAGCAGATTGCAT
* ** * * *
10442460 CCAATCCTATTTTTCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAGGT
1 CCAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
10442525 TACAGAGAGCAGATT
66 TACAGAGAGCAGATT
10442540 ACGAGTAGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 9 0.13
85 61 0.87
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
CCAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
TACAGAGAGCAGATTGCAT
Found at i:10442562 original size:85 final size:84
Alignment explanation
Indices: 10442376--10442569 Score: 221
Period size: 85 Copynumber: 2.3 Consensus size: 84
10442366 TTGAAGGTAC
* * * *
10442376 CAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATTTCTCTGAAGTT
1 CAATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
10442441 GCAGTAGAGTAGATTGCAT
66 ACAGTAGAGCAGATTACAT
* * * *
10442460 CCAATCCTATTTTTCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAGGT
1 -CAATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
10442525 TACAG-AGAGCAGATTACGAGT
65 TACAGTAGAGCAGATTAC-A-T
* *
10442546 -AGATCTTATCTCTCTGATGTTGCA
1 CA-ATCCTATCTCTCTGAAGTTGCA
10442570 GAGAGTAGAT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
84 11 0.12
85 79 0.87
86 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (84 bp):
CAATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
ACAGTAGAGCAGATTACAT
Found at i:10443820 original size:3 final size:3
Alignment explanation
Indices: 10443812--10443871 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
10443802 GATTGTATGC
*
10443812 TTA TTA TTA -TA TTA TTTA TTA -TA TTTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
10443857 TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA T
10443872 ACATTTACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 6 0.12
3 39 0.78
4 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10443924 original size:25 final size:24
Alignment explanation
Indices: 10443888--10443935 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
10443878 ACACACGTAT
*
10443888 TTTTTTATAATATATATGCATATA
1 TTTTTTATAATACATATGCATATA
*
10443912 TTTTTTATAAATACATGTGCATAT
1 TTTTTTAT-AATACATATGCATAT
10443936 TTTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTTTATAATACATATGCATATA
Found at i:10443960 original size:11 final size:12
Alignment explanation
Indices: 10443932--10443965 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
10443922 ATACATGTGC
10443932 ATATTTTATATAT
1 ATATTTTAT-TAT
10443945 ATATTTTATTAT
1 ATATTTTATTAT
10443957 -TATTTTATT
1 ATATTTTATT
10443966 CTCATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 3 0.14
13 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:10444011 original size:18 final size:17
Alignment explanation
Indices: 10443974--10444012 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10443964 TTCTCATAGT
* *
10443974 TTTTATATACATTTATA
1 TTTTATATACATATACA
10443991 TTTTATAATACATATACA
1 TTTTAT-ATACATATACA
10444009 TTTT
1 TTTT
10444013 CCTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATACATATACA
Found at i:10444218 original size:13 final size:14
Alignment explanation
Indices: 10444200--10444228 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10444190 TTTCAAGATT
10444200 TACTTATATAT-TA
1 TACTTATATATATA
10444213 TACTTATATATATA
1 TACTTATATATATA
10444227 TA
1 TA
10444229 TTGCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TACTTATATATATA
Found at i:10446209 original size:16 final size:17
Alignment explanation
Indices: 10446184--10446217 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10446174 TCATTTTTCT
*
10446184 TTTAATTATAT-AATTA
1 TTTAAATATATCAATTA
10446200 TTTAAATATATCAATTA
1 TTTAAATATATCAATTA
10446217 T
1 T
10446218 AAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATATATCAATTA
Found at i:10452320 original size:44 final size:43
Alignment explanation
Indices: 10452272--10452394 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 43
10452262 TTTAGCAAAG
* * *
10452272 AAAAGAAGAGAAAAAGACATTAGGAAGAAGAAAGGTCATC-GGGA
1 AAAAGAA-AGAAAAAGAAATTAGGAAGAAGAAAGGT-AACAGAGA
* *
10452316 AAAAGAAAAGAAAAGGAAATTGGGAAGAAGAAAGGTAACAGAGA
1 AAAAG-AAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGA
*
10452360 AAAAGAAAGAAAAAAGGAAATTGGGAAGAAAGAAA
1 AAAAGAAAG-AAAAA-GAAATTAGGAAG-AAGAAA
10452395 AAAAAGAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.09
44 42 0.62
45 14 0.21
46 6 0.09
ACGTcount: A:0.61, C:0.03, G:0.28, T:0.07
Consensus pattern (43 bp):
AAAAGAAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGA
Found at i:10452340 original size:25 final size:25
Alignment explanation
Indices: 10452312--10452404 Score: 67
Period size: 26 Copynumber: 4.0 Consensus size: 25
10452302 AAAGGTCATC
10452312 GGGAAAAAGAAAAGAAAAGGAAATT
1 GGGAAAAAGAAAAGAAAAGGAAATT
* **
10452337 GGG---AAG--AAG-AAAGGTAACA
1 GGGAAAAAGAAAAGAAAAGGAAATT
* *
10452356 GAGAAAAAGAAAGAAAAAAGGAAATT
1 GGGAAAAAGAAA-AGAAAAGGAAATT
10452382 GGGAAGAAAGAAAA-AAAA-GAAAT
1 GGGAA-AAAGAAAAGAAAAGGAAAT
10452405 AGTTTTTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 17
0.66 0.12 0.22
Matches are distributed among these distances:
19 9 0.18
20 3 0.06
22 6 0.12
24 6 0.12
25 8 0.16
26 12 0.24
27 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.28, T:0.06
Consensus pattern (25 bp):
GGGAAAAAGAAAAGAAAAGGAAATT
Found at i:10456462 original size:20 final size:21
Alignment explanation
Indices: 10456424--10456463 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10456414 AATTAATAAA
*
10456424 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
10456445 TTAAAGAAAATAA-ACTTAA
1 TTAAAAAAAATAACACTTAA
10456464 CTATCTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:10458008 original size:29 final size:28
Alignment explanation
Indices: 10457955--10458019 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
10457945 AATTTTTTAT
*
10457955 ATTTTTTATACTTTTAAATCATTTTAATG
1 ATTTTTTATA-TTTTAAATCATTTTAATA
* *
10457984 ATTTTTTAT-TTTTAAAATGACTTTTTATA
1 ATTTTTTATATTTT-AAATCA-TTTTAATA
10458013 ATTTTTT
1 ATTTTTT
10458020 TGAATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 4 0.13
28 5 0.16
29 22 0.71
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (28 bp):
ATTTTTTATATTTTAAATCATTTTAATA
Found at i:10459874 original size:9 final size:8
Alignment explanation
Indices: 10459845--10459894 Score: 52
Period size: 7 Copynumber: 6.4 Consensus size: 8
10459835 AAAAATAATT
10459845 AAATATGA
1 AAATATGA
*
10459853 AAATACGAA
1 AAATATG-A
10459862 AAATATGA
1 AAATATGA
10459870 GAAATAT-A
1 -AAATATGA
10459878 AAATAT-A
1 AAATATGA
10459885 AAATAT-A
1 AAATATGA
10459892 AAA
1 AAA
10459895 AAATTACTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
7 17 0.45
8 8 0.21
9 13 0.34
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (8 bp):
AAATATGA
Found at i:10461523 original size:44 final size:44
Alignment explanation
Indices: 10461472--10461580 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
10461462 CTGCTCTCTG
* *
10461472 CAACTTCAGAAAGATAAGATCTGT-GATTTTAATCCGCTCCACTA
1 CAACTTCAGAGAGATAAGAT-TATAGATTTTAATCCGCTCCACTA
* * * * *
10461516 CAACTTCAGTGAGATAGGATTATAGGTTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTATAGATTTTAATCCGCTCCACTA
*
10461560 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGAGAGATAAGATT
10461581 TGCCATCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 53 0.96
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTATAGATTTTAATCCGCTCCACTA
Found at i:10464507 original size:23 final size:23
Alignment explanation
Indices: 10464481--10464561 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 23
10464471 CACAACTTAT
*
10464481 CGGGATGCTCCGAAGAGCTATAA
1 CGGGAAGCTCCGAAGAGCTATAA
* * *
10464504 CGGGAAGCT-CGCAAAAACTACATA
1 CGGGAAGCTCCG-AAGAGCTATA-A
**
10464528 CGGGAAGCTCATAAGAGCTAATAA
1 CGGGAAGCTCCGAAGAGCT-ATAA
*
10464552 CGGGATGCTC
1 CGGGAAGCTC
10464562 TTTTGAGCTA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
22 2 0.05
23 15 0.34
24 25 0.57
25 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (23 bp):
CGGGAAGCTCCGAAGAGCTATAA
Found at i:10464554 original size:24 final size:24
Alignment explanation
Indices: 10464493--10464561 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
10464483 GGATGCTCCG
*
10464493 AAGAGCT-ATAACGGGAAGCTCGC
1 AAGAGCTAATAACGGGAAGCTCAC
* * *
10464516 AAAAACTACAT-ACGGGAAGCTCAT
1 AAGAGCTA-ATAACGGGAAGCTCAC
*
10464540 AAGAGCTAATAACGGGATGCTC
1 AAGAGCTAATAACGGGAAGCTC
10464562 TTTTGAGCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
23 7 0.19
24 27 0.75
25 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
AAGAGCTAATAACGGGAAGCTCAC
Found at i:10467504 original size:19 final size:21
Alignment explanation
Indices: 10467480--10467520 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10467470 AAAGATATGC
10467480 AATCTTA-A-AGATAATTTGT
1 AATCTTAGATAGATAATTTGT
*
10467499 AATCTTAGATATATAATTTGT
1 AATCTTAGATAGATAATTTGT
10467520 A
1 A
10467521 GATAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (21 bp):
AATCTTAGATAGATAATTTGT
Found at i:10474218 original size:29 final size:30
Alignment explanation
Indices: 10474180--10474237 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
10474170 TATTTCTAGG
*
10474180 AGTTAATCTTCTCAATTGAATTTATAGATA
1 AGTTAATCTTCCCAATTGAATTTATAGATA
10474210 AGTT-ATCTTCCCAATTGAATTTATAGAT
1 AGTTAATCTTCCCAATTGAATTTATAGAT
10474238 GACATAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (30 bp):
AGTTAATCTTCCCAATTGAATTTATAGATA
Found at i:10482970 original size:19 final size:19
Alignment explanation
Indices: 10482946--10483055 Score: 166
Period size: 19 Copynumber: 5.8 Consensus size: 19
10482936 AATCTTTGAG
*
10482946 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
10482965 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
10482984 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10483003 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
10483022 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
10483041 GATATGCAATCTTAG
1 GATATGCAATCTTAG
10483056 GAGATATGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10483211 original size:18 final size:19
Alignment explanation
Indices: 10483171--10483211 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
10483161 CCCTTCATTG
* *
10483171 TAAATGGAGGAGGAGAGAA
1 TAAAAGGAGGAAGAGAGAA
10483190 -AAAAGGAGGAAGAG-GAA
1 TAAAAGGAGGAAGAGAGAA
10483207 TAAAA
1 TAAAA
10483212 AAGAGAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.56, C:0.00, G:0.37, T:0.07
Consensus pattern (19 bp):
TAAAAGGAGGAAGAGAGAA
Found at i:10484248 original size:98 final size:98
Alignment explanation
Indices: 10484125--10484319 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
10484115 AAAAATCATG
*
10484125 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
10484190 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
10484223 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
10484288 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
10484320 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:10489391 original size:132 final size:132
Alignment explanation
Indices: 10489154--10489699 Score: 988
Period size: 132 Copynumber: 4.1 Consensus size: 132
10489144 CTGCATTGAC
*
10489154 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
10489219 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATT-TCAGATCTTATCTCCCTAAGC
10489283 AGT
130 AGT
10489286 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
10489351 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATT-TCAGATCTTATCTCCCTAAGC
10489415 AGT
130 AGT
10489418 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
10489483 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAAATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
10489548 GT
131 GT
10489550 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
10489615 CAAGCCTTGTCTCCCTCAGTAGTAGCAGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
10489680 GT
131 GT
10489682 AGTGGAGCAGATCGAAGA
1 AGTGGAGCAGATCGAAGA
10489700 TGGCAGATTT
Statistics
Matches: 404, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
131 1 0.00
132 403 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:10489700 original size:44 final size:44
Alignment explanation
Indices: 10489228--10489718 Score: 193
Period size: 44 Copynumber: 11.2 Consensus size: 44
10489218 CCAAGCCTTG
* * * * * ** *
10489228 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
*
10489272 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAG-ATCTTA
* * * ** * *
10489316 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA-AGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAGA-TCTTA
* * * * ** *
10489360 TCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
*
10489404 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAG-ATCTTA
* * * ** * *
10489448 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA-AGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAGA-TCTTA
* * * * * *** *
10489492 TCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
*
10489536 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAG-ATCTTA
* * * ** * *
10489580 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA-AGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAGA-TCTTA
* * ** * * ***
10489624 TCTCCCTCAGTAGTAGCAGAGAAGGTTGAAGATTTCAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
* * *
10489668 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
*
10489712 CCTCCCT
1 TCTCCCT
10489719 GTGGTTATAG
Statistics
Matches: 316, Mismatches: 101, Indels: 60
0.66 0.21 0.13
Matches are distributed among these distances:
42 12 0.04
43 23 0.07
44 253 0.80
45 20 0.06
46 8 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAGATCTTA
Found at i:10489762 original size:132 final size:132
Alignment explanation
Indices: 10489230--10490274 Score: 868
Period size: 132 Copynumber: 7.9 Consensus size: 132
10489220 AAGCCTTGTC
* * *
10489230 TCCCTGAGCAGCAGCGGAGA-AGGTTGAAGATTGT-AGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCCCTCAGCAGTAGCGGAGATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * * * ** * * * **
10489293 CAGATCGAAGACGGCGAATCTTATCTTTCC--AAG--ATAGTGGGAAGCAGATTTAAGCCACCAA
65 CAGATCGAAGATGGCG-ATTTTA-CCTCCCTGTGGTTATAGT-GG-AGTACATTGAAGCCAGTAA
** **
10489354 GCCTTGT
126 TTCTACT
* * * *
10489361 CTCCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTGT-AGATCTTATCTCCCTAAGCAGTAGTGGA
1 -TCCCTCAGCAGTAGCGGAGATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGCAGTAGTGGA
* * * * ** * * * **
10489424 GCAGATCGAAGACGGCGAATCTTATCTTTCC--AAG--ATAGTGGGAAGCAGATTTAAGCCACCA
64 GCAGATCGAAGATGGCG-ATTTTA-CCTCCCTGTGGTTATAGT-GG-AGTACATTGAAGCCAGTA
** **
10489485 AGCCTTGT
125 ATTCTACT
* * *
10489493 CTCCCTCAGCAGCAGCGGAGA-AGGTTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGTGGAG
1 -TCCCTCAGCAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * * * ** * * * **
10489557 CAGATCGAAGACGGCGAATCTTATCTTTCC--AAG--ATAGTGGGAAGCAGATTTAAGCCACCAA
65 CAGATCGAAGATGGCG-ATTTTA-CCTCCCTGTGGTTATAGT-GG-AGTACATTGAAGCCAGTAA
** **
10489618 GCCTTGT
126 TTCTACT
* * *
10489625 CTCCCTCAGTAGTAGCAGAGA-AGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 -TCCCTCAGCAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
10489689 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
65 CAGATCGAAGATGGC-GATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
10489754 TACT
129 TACT
* * ** *
10489758 TCCCTGTA-TAACAGTGGA-ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCCCT-CAGCAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
10489821 TAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
65 CAGATCGAAGATGGC-GATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
10489886 TACT
129 TACT
* * ** *
10489890 TCTCT-GGACAACAGTGGA-ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCCCTCAG-CAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
10489953 CAGATCGAAGATGGCGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTAATTC
65 CAGATCGAAGATGGC-GATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
10490018 TACT
129 TACT
* **
10490022 TCCCT-GGACAACAGCGGA-ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCCCTCAG-CAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
10490085 CAGATCGAAGATGGCAGATTTTACCTCTCTGTAGG-TACAGTGGAGTACATTGAAGCCAGTAATT
65 CAGATCGAAGATGGC-GATTTTACCTCCCTGT-GGTTATAGTGGAGTACATTGAAGCCAGTAATT
*
10490149 CTATT
128 CTACT
* ** * * * * * *
10490154 TCCTTGGGCAATAGTGGA-ATAGATTGAATATTTCAGGTCTTATCTCCCAAAGCAGTAGTGGAGT
1 TCCCTCAGCAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* * *
10490218 AGATCGAAAAT-G-GATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTA
66 AGATCGAAGATGGCGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
10490275 GTCTTATCTT
Statistics
Matches: 845, Mismatches: 55, Indels: 29
0.91 0.06 0.03
Matches are distributed among these distances:
128 2 0.00
129 40 0.05
131 7 0.01
132 766 0.91
133 23 0.03
134 2 0.00
135 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
TCCCTCAGCAGTAGCGGAGATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGATGGCGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTA
CT
Found at i:10489787 original size:264 final size:262
Alignment explanation
Indices: 10489253--10490095 Score: 974
Period size: 264 Copynumber: 3.2 Consensus size: 262
10489243 GCGGAGAAGG
10489253 TTGAAGATTGT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT
1 TTGAAGATT-TCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT
* **
10489317 CTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGA
65 CTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAGCAGCAGAGA
* *
10489382 AGGTTGAAGATTGT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
130 AGGTTGAAGATT-TCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG-ATTT
* * * * * * ** ** ** *
10489446 TATCTTTCC-AAG--ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT-CAGCAGCA
193 TA-CCTCCCTTAGTTATAGT-GG-AGTACATTGAAGCCAGTAATTCTACT-TCCCTGCA-CAACA
*
10489507 GCGGAGA-AGG
253 GCGGA-ATAGA
*
10489517 TTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* *
10489582 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGTAGTAGCAGAGAA
66 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAGCAGCAGAGAA
10489647 GGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
131 GGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GATTTTA
* * * *
10489712 CCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGTATAACAGTGGAA
195 CCTCCCT-TAGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGCACAACAGCGGAA
10489777 TAGA
259 TAGA
* * * *
10489781 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTA-C
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * ** * * * ** ** ** * * * **
10489845 CTCCCTGTGGTTATAGT-GG-AGTACATTGAAGCCAGTAATTCTACT-TCTCT-GGACAACAGTG
66 TTTCC--AAG--ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAG-CAGCAGCA
*
10489906 GA-ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGG
126 GAGA-AGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-G
*
10489970 ATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
189 ATTTTACCTCCCT-TAGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGCACAACA
10490035 GCGGAATAGA
253 GCGGAATAGA
10490045 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
10490096 TGGCAGATTT
Statistics
Matches: 505, Mismatches: 59, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
263 13 0.03
264 440 0.87
265 38 0.08
266 4 0.01
267 10 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (262 bp):
TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAGCAGCAGAGAA
GGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGATTTTAC
CTCCCTTAGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGCACAACAGCGGAATA
GA
Found at i:10489849 original size:44 final size:45
Alignment explanation
Indices: 10489649--10490111 Score: 162
Period size: 44 Copynumber: 10.5 Consensus size: 45
10489639 GCAGAGAAGG
** * * *
10489649 TTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
* ** ** *
10489693 TCGAAGATGGCAGATTTTACCTCCCTGTGGTTA-TAGTGGAGTACA
1 TTGAAGATGGCAGATTTTACCTCCCT-AAGACAGTAGTGGAGTAGA
*** * * * * ** *
10489738 TTGAAGCCAGTA-ATTCTACTTCCCT--GTATAACAGTGGAATAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAG-ACAGTAGTGGAGTAGA
** * *
10489781 TTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGTAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
* * ** ** *
10489825 TCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-TAGTGGAGTACA
1 TTGAAGATGGCAGATTTTACCTCCCT-AAGACAGTAGTGGAGTAGA
*** * * * * * ** *
10489870 TTGAAGCCAGTA-ATTCTACTTCTCT-GGACAACAGTGGAATAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
** * * *
10489913 TTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
* * ** *
10489957 TCGAAGATGGCGGATTTTACCTCCCTATAGTTA-TAGTGGAGTACA
1 TTGAAGATGGCAGATTTTACCTCCCTA-AGACAGTAGTGGAGTAGA
*** * * * * ** * *
10490002 TTGAAGCCAGTA-ATTCTACTTCCCT-GGACAACAGCGGAATAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
** * * *
10490045 TTGAAGATTTCAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGA
1 TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
*
10490089 TCGAAGATGGCAGATTTTACCTC
1 TTGAAGATGGCAGATTTTACCTC
10490112 TCTGTAGGTA
Statistics
Matches: 285, Mismatches: 117, Indels: 34
0.65 0.27 0.08
Matches are distributed among these distances:
41 1 0.00
42 7 0.02
43 47 0.16
44 170 0.60
45 56 0.20
46 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
TTGAAGATGGCAGATTTTACCTCCCTAAGACAGTAGTGGAGTAGA
Found at i:10489919 original size:396 final size:393
Alignment explanation
Indices: 10489154--10490274 Score: 1186
Period size: 396 Copynumber: 2.8 Consensus size: 393
10489144 CTGCATTGAC
10489154 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGT-GGAAGCAGATTTAAGCCAC
10489219 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
65 CAAGCCTTGTCTCCCT-AGCAGCAGCGGAGAAGGTTGAAGATT-TCAGATCTTATCTCCCTAAGC
* * * * ** * * *
10489283 AGTAGTGGAGCAGATCGAAGACGGC-GAATCTTATCTTTCC--AAG-ATAGTGGGAAGCAGATTT
128 AGTAGTGGAGCAGATCGAAGATGGCAG-ATTTTA-CCTCCCTGTGGTATAGT-GG-AGTACATTG
** ** ** * *
10489344 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTGT-AGATCTTATCT
189 AAGCCAGTAATTCTACT-TCCCTGA-CAACAGTGGA-ATAGATTGAAGATT-TCAGATCTTATCT
* * * * * * **
10489407 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCC--AAG--ATAGTGGGAA
250 CCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTA-CCTCCCTGTGGTTATAGT-GG-A
* * * ** ** * *
10489468 GCAGATTTAAGCCACCAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTTCAAATC
312 GTACATTGAAGCCAGTAAGCCTACTCTCCCTCAGCAACAGCGGAGAAGATTGAAGATTTCAAATC
10489533 TTATCTCCCTAAGCAGT
377 TTATCTCCCTAAGCAGT
10489550 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGT-GGAAGCAGATTTAAGCCAC
* * *
10489615 CAAGCCTTGTCTCCCTCAGTAGTAGCAGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
65 CAAGCCTTGTCTCCCT-AGCAGCAGCGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
10489680 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
129 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGG-TATAGTGGAGTACATTGAAGC
*
10489745 CAGTAATTCTACTTCCCTGTATAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
193 CAGTAATTCTACTTCCCTG-ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
10489810 CAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
257 CAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
** * * * *
10489875 GCCAGTAATTCTACT-TCTCT-GGACAACAGTGGA-ATAGATTGAAGATTTCAGATCTTATCTCC
322 GCCAGTAAGCCTACTCTCCCTCAG-CAACAGCGGAGA-AGATTGAAGATTTCAAATCTTATCTCC
10489937 CTAAGCAGT
385 CTAAGCAGT
* * * * * * * *
10489946 AGTGGAGCAGATCGAAGATGGCGGATTTTA-CCTCCCTATAGTTATAGTGG-AGTACATTGAAGC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCC-A-AG--ATAGTGGAAGCAGATTTAAGC
** ** ** * * *
10490009 CAGTAATTCTACT-TCCCTGGACAACAGCGGA-ATAGATTGAAGATTTCAGATCTTATCTCCCTA
62 CACCAAGCCTTGTCTCCCTAG-CAGCAGCGGAGA-AGGTTGAAGATTTCAGATCTTATCTCCCTA
* *
10490072 AGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGTAGGTACAGTGGAGTACATTG
125 AGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGT-GGTATAGTGGAGTACATTG
* * * * * *
10490137 AAGCCAGTAATTCTATTTCCTTGGGCAATAGTGGAATAGATTGAATATTTCAGGTCTTATCTCCC
189 AAGCCAGTAATTCTACTTCCCT-GACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
* * * *
10490202 AAAGCAGTAGTGGAGTAGATCGAAAAT---GGATTTTACCTCCCTGTGGTTACAGTAGAGTACAT
253 TAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACAT
10490264 TGAAGCCAGTA
318 TGAAGCCAGTA
10490275 GTCTTATCTT
Statistics
Matches: 623, Mismatches: 79, Indels: 49
0.83 0.11 0.07
Matches are distributed among these distances:
393 44 0.07
395 19 0.03
396 479 0.77
397 60 0.10
398 6 0.01
399 15 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (393 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAGCAGATTTAAGCCACC
AAGCCTTGTCTCCCTAGCAGCAGCGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTATAGTGGAGTACATTGAAGCCAG
TAATTCTACTTCCCTGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAAGCCTACTCTCCCTCAGCAACAGCGGAGAAGATTGAAGATTTCAAATCTTATCTCCCTAAGC
AGT
Found at i:10490129 original size:264 final size:264
Alignment explanation
Indices: 10489649--10490274 Score: 1019
Period size: 264 Copynumber: 2.4 Consensus size: 264
10489639 GCAGAGAAGG
*
10489649 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* * *
10489714 TCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGTATAACAGTGGAATA
66 TCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAATA
* *
10489779 GATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTA
131 GATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
*
10489844 CCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTT-CTCTGGACAACAGTGGA
196 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCT-TGGACAACAGTGGA
10489908 ATAGA
260 ATAGA
10489913 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* *
10489978 TCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAATA
66 TCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAATA
10490043 GATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
131 GATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
* * * *
10490108 CCTCTCTGTAGG-TACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCTTGGGCAATAGTGGA
196 CCTCCCTGT-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAACAGTGGA
10490172 ATAGA
260 ATAGA
* * * * *
10490177 TTGAATATTTCAGGTCTTATCTCCCAAAGCAGTAGTGGAGTAGATCGAAAAT---GGATTTTACC
1 TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* *
10490239 TCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTA
66 TCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
10490275 GTCTTATCTT
Statistics
Matches: 338, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
261 42 0.12
264 292 0.86
265 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (264 bp):
TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
TCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAATA
GATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAACAGTGGAA
TAGA
Found at i:10490378 original size:45 final size:44
Alignment explanation
Indices: 10490274--10490560 Score: 218
Period size: 44 Copynumber: 6.6 Consensus size: 44
10490264 TGAAGCCAGT
* *
10490274 AGTCTTATCTTCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
10490318 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGGCTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCA
* *
10490363 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
* * * * * *
10490406 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
* * * * * * *
10490450 AGATCTTATCTCTCTGAACTTGCAG-AGAGCAGA-T-CG-CATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* **
10490491 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAACAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
10490535 AGTCTTATC-CTCCTGAAGTTGCAGTG
1 AGTCTTATCTC-CCTGAAGTTGCAGTG
10490561 AGGCGGACTG
Statistics
Matches: 197, Mismatches: 33, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
40 20 0.10
41 9 0.05
42 5 0.03
43 10 0.05
44 116 0.59
45 36 0.18
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:10490769 original size:19 final size:19
Alignment explanation
Indices: 10490745--10490854 Score: 166
Period size: 19 Copynumber: 5.8 Consensus size: 19
10490735 AATCTTTAAG
*
10490745 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
10490764 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
10490783 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10490802 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
10490821 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
10490840 GATATGCAATCTTAG
1 GATATGCAATCTTAG
10490855 GAGATATGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10491001 original size:21 final size:20
Alignment explanation
Indices: 10490975--10491013 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10490965 CATTGTAAAT
10490975 GGAAGAGGAGAGAAAAAAGGA
1 GGAAGAGGA-AGAAAAAAGGA
*
10490996 GGAAGAGGAATAAAAAAG
1 GGAAGAGGAAGAAAAAAG
10491014 AGAACGATTG
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:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (20 bp):
GGAAGAGGAAGAAAAAAGGA
Found at i:10492040 original size:98 final size:98
Alignment explanation
Indices: 10491920--10492111 Score: 339
Period size: 98 Copynumber: 2.0 Consensus size: 98
10491910 AATCATGAAG
*
10491920 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACATATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTCTTAAA
10491985 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
* * *
10492018 GAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTCTTAAA
*
10492083 TCTTGGATGAGTGGATGTTCTTTTAAAGT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGT
10492112 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
Found at i:10494799 original size:11 final size:11
Alignment explanation
Indices: 10494783--10494808 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10494773 TAAAAATTAA
10494783 AAAAGTATTTT
1 AAAAGTATTTT
10494794 AAAAGTATTTT
1 AAAAGTATTTT
10494805 AAAA
1 AAAA
10494809 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:10494828 original size:43 final size:42
Alignment explanation
Indices: 10494774--10494867 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 42
10494764 AATTTATTTT
* * *
10494774 AAAAATTAAAAAAGTA-TTTT-AAAAGTATTTTAAAATTAAA
1 AAAAATAAAAAAAATATTTTTAAAAAATATTTTAAAATTAAA
10494814 AAATAATAAAAAAAATATTTTTAAAAAATATTTTAAAATTAAA
1 AAA-AATAAAAAAAATATTTTTAAAAAATATTTTAAAATTAAA
*
10494857 AAAATTAAAAA
1 AAAAATAAAAA
10494868 TATATATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 3 0.06
41 11 0.23
42 11 0.23
43 22 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (42 bp):
AAAAATAAAAAAAATATTTTTAAAAAATATTTTAAAATTAAA
Found at i:10494833 original size:30 final size:30
Alignment explanation
Indices: 10494768--10494839 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
10494758 ACCAAAAATT
*** *
10494768 TATTTTAAAAATTAAAAAAGTATTTTAAAAG
1 TATTTT-AAAATTAAAAAAGTATAAAAAAAA
10494799 TATTTTAAAATTAAAAAA-TAATAAAAAAAA
1 TATTTTAAAATTAAAAAAGT-ATAAAAAAAA
10494829 TATTTTTAAAA
1 TA-TTTTAAAA
10494840 AATATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 20 0.57
31 14 0.40
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TATTTTAAAATTAAAAAAGTATAAAAAAAA
Found at i:10494839 original size:13 final size:12
Alignment explanation
Indices: 10494809--10494851 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10494799 TATTTTAAAA
*
10494809 TTAAAAAATAAT
1 TTAAAAAATATT
**
10494821 AAAAAAAATATTT
1 TTAAAAAATA-TT
10494834 TTAAAAAATATT
1 TTAAAAAATATT
10494846 TTAAAA
1 TTAAAA
10494852 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:10497435 original size:31 final size:31
Alignment explanation
Indices: 10497397--10497500 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
10497387 AGCCCATTTT
10497397 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
10497428 TATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAG
1 TATTTT-AAAA-A--TT----TT-AAAAAATTAAAAAAAG
*
10497468 TATTTTAAAAATATTT-TAAAATTAAAAAAAG
1 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
10497499 TA
1 TA
10497501 AAAAATATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
31 22 0.35
32 4 0.06
33 3 0.05
35 2 0.03
36 1 0.02
37 1 0.02
38 1 0.02
39 6 0.10
40 22 0.35
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAG
Found at i:10497437 original size:11 final size:11
Alignment explanation
Indices: 10497397--10497488 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
10497387 AGCCCATTTT
10497397 TATTTT-AAAA
1 TATTTTAAAAA
10497407 -ATTTTAAAAA
1 TATTTTAAAAA
**
10497417 -ATTAAAAAAA
1 TATTTTAAAAA
10497427 GTATTTTAAAAA
1 -TATTTTAAAAA
10497439 TATTTT--AAA
1 TATTTTAAAAA
10497448 -A--TTAAAAA
1 TATTTTAAAAA
* **
10497456 AATTAAAAAAA
1 TATTTTAAAAA
10497467 GTATTTTAAAAA
1 -TATTTTAAAAA
10497479 TATTTTAAAA
1 TATTTTAAAA
10497489 TTAAAAAAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 9 0.14
10 12 0.19
11 21 0.33
12 16 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:10497462 original size:40 final size:40
Alignment explanation
Indices: 10497397--10497580 Score: 255
Period size: 40 Copynumber: 4.5 Consensus size: 40
10497387 AGCCCATTTT
*
10497397 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
10497439 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
10497479 TATTTTAAAATTAAAAAAAGTAAAAAATA-TATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAA-AGTATTTTAAAAA
* *
10497519 TATTTTAAAATTAAAAAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAATT--AAAAAAATTAAAAAAAGTATTTTAAAAA
*
10497560 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAA-TTAAAAAAAT
10497581 AAATATATTT
Statistics
Matches: 131, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
40 86 0.66
41 29 0.22
42 16 0.12
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:10499925 original size:12 final size:12
Alignment explanation
Indices: 10499908--10499932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10499898 TGGTAATAGT
10499908 AGTAAAATAATA
1 AGTAAAATAATA
10499920 AGTAAAATAATA
1 AGTAAAATAATA
10499932 A
1 A
10499933 AAGAGTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AGTAAAATAATA
Found at i:10502576 original size:10 final size:11
Alignment explanation
Indices: 10502551--10502581 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
10502541 GATAGAGATT
10502551 AAAACTTCTAG
1 AAAACTTCTAG
10502562 AAAACTTCT-G
1 AAAACTTCTAG
10502572 AAAACTTCTA
1 AAAACTTCTA
10502582 ATAAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (11 bp):
AAAACTTCTAG
Found at i:10509624 original size:9 final size:9
Alignment explanation
Indices: 10509612--10509688 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
10509602 AAAATAAAAA
*
10509612 AATTCGAGT
1 AATTCGGGT
10509621 AATTCGGGT
1 AATTCGGGT
*
10509630 ATTTTTC-GGT
1 A--ATTCGGGT
*
10509640 AATTCGGTT
1 AATTCGGGT
* *
10509649 AATTAGGTT
1 AATTCGGGT
10509658 AATTCGGGT
1 AATTCGGGT
10509667 AATTCGGGT
1 AATTCGGGT
10509676 AATTCGGGT
1 AATTCGGGT
10509685 AATT
1 AATT
10509689 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.05
9 48 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:10509865 original size:12 final size:12
Alignment explanation
Indices: 10509848--10509872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10509838 AGTAATTTCG
10509848 GGTCGGTTAACC
1 GGTCGGTTAACC
10509860 GGTCGGTTAACC
1 GGTCGGTTAACC
10509872 G
1 G
10509873 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:10511575 original size:20 final size:21
Alignment explanation
Indices: 10511537--10511575 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10511527 ATCTAAACAT
10511537 AAATTGAATTCTTTATATTCA
1 AAATTGAATTCTTTATATTCA
* *
10511558 AAATT-AATTTTTTCTATT
1 AAATTGAATTCTTTATATT
10511576 TCCAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (21 bp):
AAATTGAATTCTTTATATTCA
Found at i:10512413 original size:31 final size:30
Alignment explanation
Indices: 10512377--10512450 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
10512367 TTAACGGCTC
10512377 AGTGACTAAAATGTTACAACATGTT-AA-CATA
1 AGTGACTAAAATGTT--AACAT-TTCAAGCATA
*
10512408 AGTGACTAAAACG-TAACATTTCAAGCATA
1 AGTGACTAAAATGTTAACATTTCAAGCATA
*
10512437 CGTGACTAAAATGT
1 AGTGACTAAAATGT
10512451 AACCTATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.05
28 7 0.19
29 15 0.41
30 1 0.03
31 12 0.32
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (30 bp):
AGTGACTAAAATGTTAACATTTCAAGCATA
Found at i:10517239 original size:108 final size:107
Alignment explanation
Indices: 10516993--10517710 Score: 1068
Period size: 108 Copynumber: 6.6 Consensus size: 107
10516983 AATTTGGCTA
* * * * * * *
10516993 AACGTGAAATTGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACTCAAAACATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10517058 TTATTTTTGAAAAGTTTTTTAAAAGGATATT-AG-CTATTTGGTCG
66 TTA-TTTTGAAAA--TTTTTAAAAGGATATTAAGTC-ATTTGGTCG
10517102 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
10517167 TTATTTTGAAATTTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTT-AAAAGGATATTAAGTCATTTGGTCG
* * *
10517210 AACGAGAAATGGAAACTCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
10517275 TTATTTTTTAAAAGTTTTTAAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTAAAAGGATATTAAGTC-ATTTGGTCG
10517319 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10517384 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTT-AAAAGGATATTAAGTCATTTGGTCG
10517427 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10517492 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTT-AAAAGGATATTAAGTCATTTGGTCG
* *
10517535 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAACATATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
10517600 TTATTTTG-AAATTTTTAAAAGGATATTAAGCCATTTGGTTG
66 TTATTTTGAAAATTTTTAAAAGGATATTAAGTCATTTGGTCG
* * * *
10517641 AACGAGAAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCTAAATA
1 AACGAG--AAATCGAA-ACCCAGTACCTTAGGGCACG-TTCCTCGAA-TTTCCAAACGCAAAATA
10517705 TTGCCT
61 TTGCCT
10517711 CTTTTAAAAA
Statistics
Matches: 565, Mismatches: 31, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
106 34 0.06
107 26 0.05
108 316 0.56
109 164 0.29
110 25 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTAAAAGGATATTAAGTCATTTGGTCG
Found at i:10517346 original size:217 final size:215
Alignment explanation
Indices: 10516993--10517710 Score: 1104
Period size: 217 Copynumber: 3.3 Consensus size: 215
10516983 AATTTGGCTA
* * * *
10516993 AACGTGAAATTGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACTCAAAACATTACC
1 AACGAGAAA-TGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
10517058 TTATTTTTGAAAAGTTTTTTAAAAGGATA-TTAGCTATTTGGTCGAACGAGAAATCGAAACCCAG
65 TTATTTTTGAAAAG-TTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAG
10517122 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTTGAA
129 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-TTTTTGAA
*
10517187 AAGGATATTAAGTCATTTGGTGG
193 AAGGATATTAAGTCATTTGGTCG
* *
10517210 AACGAGAAATGGAAACTCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAAT-GAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
10517275 TTATTTTTTAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
65 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
10517340 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
130 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTG-AAATTTTTGAAA
10517405 AGGATATTAAGTCATTTGGTCG
194 AGGATATTAAGTCATTTGGTCG
* *
10517427 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAAT-GAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
10517492 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAACCCA
65 TTATTTTTGAAAAGTTTTT-AAAAGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCA
* *
10517554 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAACATATTACCTTATTTTGAAATTTTT-AA
128 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTGAA
* *
10517618 AAGGATATTAAGCCATTTGGTTG
193 AAGGATATTAAGTCATTTGGTCG
* * * * *
10517641 AACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCTAAATAT
1 AACGAG--AAATGAA-ACCCAGCACCTTAGGGCACG-TTCCTCGAA-TTTCCAAACGCAAAACAT
10517706 TGCCT
61 TGCCT
10517711 CTTTTAAAAA
Statistics
Matches: 469, Mismatches: 22, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
214 29 0.06
215 16 0.03
216 138 0.29
217 261 0.56
218 25 0.05
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (215 bp):
AACGAGAAATGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
TATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTA
CCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTGAAAAG
GATATTAAGTCATTTGGTCG
Found at i:10517562 original size:325 final size:323
Alignment explanation
Indices: 10516971--10517710 Score: 1139
Period size: 325 Copynumber: 2.3 Consensus size: 323
10516961 AAAATTCAAG
* * *
10516971 AGGATATTTAGCAATTTGG-CTAAACGTGAAATTGAAACCCAGCACCTTAGGGCACGTTTCTCGA
1 AGGATATTTAGCAATTTGGTC-GAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGA
* * * *
10517035 ATTTCCAAACTCAAAACATTACCTTATTTTTGAAAAGTTTTTTAAAAGGATATTAGCTATTTGGT
65 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTGAAAAGGATATTAGCTATTTGGT
10517100 CGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTG
130 CGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTG
* * * *
10517165 CCTTATTTTGAAATTTTTTGAAAAGGATATTAAGTCATTTGGTGGAACGAGAAATGGAAACTCAG
195 CCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCAG
*
10517230 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTTAAAAGTTTTTA
260 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTA--TTTTAAAA-TTTTTA
10517295 AA
322 AA
* * *
10517297 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGTCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAA
10517362 TTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTGG
66 TTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTGAAAAGGATATT-AGCT-ATTTGG
10517424 TCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATT
129 TCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATT
10517489 GCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCA
194 GCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCA
* * *
10517554 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAACATATTACCTTATTTTGAAATTTTTAAA
259 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTTAAA
* * * *
10517619 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCT
1 AGGATATTTAGCAATTTGGTCGAACGAG--AAATCGAA-ACCCAGCACCTTAGGGCACG-TTTCT
*
10517683 CGAATTTTCCAAACGCTAAATATTGCCT
62 CGAA-TTTCCAAACGCAAAATATTGCCT
10517711 CTTTTAAAAA
Statistics
Matches: 381, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
322 33 0.09
323 9 0.02
324 40 0.10
325 197 0.52
326 101 0.27
327 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (323 bp):
AGGATATTTAGCAATTTGGTCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTGAAAAGGATATTAGCTATTTGGTC
GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
CTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTTTAAA
Found at i:10520525 original size:44 final size:44
Alignment explanation
Indices: 10520461--10521060 Score: 355
Period size: 44 Copynumber: 13.8 Consensus size: 44
10520451 CCTTTGTTTT
* * * *
10520461 AATCCGCTCCAGTGTGATCTCAGGGAGATATGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
10520505 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * * *
10520546 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* *
10520590 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
10520634 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
** * * * * *
10520680 GGTCTGTTCCACTGTAATCTCAGGGAAATAGGA--CCT-GAC-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-CTTC
* * ** * * * *
10520721 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-TCCTTCA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-T-AGCTTC
** * *
10520765 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
10520809 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT--T-GAC-AC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-CTTC
* * * * * * *
10520850 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* *
10520894 AATCCGCTCCACTGTAATCTCAGGGAGAT-AGAATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTC
*
10520938 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
10520982 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
** * *
10521028 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
10521061 CCTGACGCGA
Statistics
Matches: 425, Mismatches: 93, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.01
41 81 0.19
42 9 0.02
43 9 0.02
44 247 0.58
45 11 0.03
46 65 0.15
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:10520605 original size:85 final size:85
Alignment explanation
Indices: 10520505--10520797 Score: 302
Period size: 85 Copynumber: 3.4 Consensus size: 85
10520495 TACTAGCTTC
* * * * *
10520505 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGA
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGACCTGATACGATCTACTCTGCTGTAACTTCAGA
*
10520570 GAGATAAGATCCTTTATTTT
66 GAGATAAGATCCTTAATTTT
* * * * * *
10520590 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-TCT
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGA--CCT-GATACGATCTACTCTGCTGTAACT-T
* *
10520654 CAGGGAGATAAGAT-CTGAAATTCTT
62 CAGAGAGATAAGATCCT-TAATT-TT
** * * * **
10520679 CGGTCTGTTCCACTGTAATCTCAGGGAAATAGGACCTGACGCGATCTACTCTGCTGTAACTTCAG
1 -AATCCGCTCCACTGTAATCTCAGGGAGATAGGACCTGATACGATCTACTCTGCTGTAACTTCAG
*
10520744 AGAGATAAGATCCTTCATTTT
65 AGAGATAAGATCCTTAATTTT
*
10520765 AATCCACTCCACTGTAATCTCAGGGAGATAGGA
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGA
10520798 TTACTAACTT
Statistics
Matches: 165, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
85 57 0.35
86 2 0.01
87 38 0.23
88 38 0.23
89 2 0.01
90 28 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (85 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAGGACCTGATACGATCTACTCTGCTGTAACTTCAGA
GAGATAAGATCCTTAATTTT
Found at i:10520610 original size:129 final size:129
Alignment explanation
Indices: 10520371--10520671 Score: 476
Period size: 129 Copynumber: 2.3 Consensus size: 129
10520361 AAAATTATCG
* * * * * * * *
10520371 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGATCTACTCTACTGTAACT
1 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACT
* * * *
10520436 TCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCAGTGTGATCTCAGGGAGATATGATTACTA
66 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
*
10520500 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACT
1 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACT
10520565 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
66 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
*
10520629 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGA
10520672 AATTCTTCGG
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 158 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACT
TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
Found at i:10520865 original size:129 final size:129
Alignment explanation
Indices: 10520682--10520972 Score: 474
Period size: 129 Copynumber: 2.3 Consensus size: 129
10520672 AATTCTTCGG
* * * * ** * *
10520682 TCTGTTCCACTGTAATCTCAGGGAAATAGGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
*
10520747 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
66 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGAATTACTAACTTCAA
10520811 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
* * *
10520876 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTATCTTCAA
66 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGAATTACTAACTTCAA
10520940 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
10520973 ACTAGCTTCA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 150 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGAATTACTAACTTCAA
Found at i:10520932 original size:304 final size:304
Alignment explanation
Indices: 10520408--10520971 Score: 993
Period size: 304 Copynumber: 1.9 Consensus size: 304
10520398 GGGAGGTAAA
* ** * *
10520408 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCAG
1 ACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCAC
* * *
10520473 TGTGATCTCAGGGAGATATGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
10520538 CCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
131 CCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
10520603 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
196 GTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
10520668 CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAGG
261 CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAGG
*
10520712 ACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCAC
1 ACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCAC
10520777 TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
**
10520842 TTTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
131 CCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
10520907 GTAATCTCAGGGAGATAGAATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
196 GTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
10520972 TACTAGCTTC
Statistics
Matches: 245, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
304 245 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (304 bp):
ACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCAC
TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
CCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
GTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAGG
Found at i:10521224 original size:87 final size:87
Alignment explanation
Indices: 10521113--10521363 Score: 324
Period size: 87 Copynumber: 2.9 Consensus size: 87
10521103 CTTTTATTTT
* * * * * *
10521113 AATCAGCTTCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCGTTGTTAATGCAG
1 AATCAGCTCCACTACAACTGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAG
10521178 GAAGGCAAGATCTGCTATCTTC
66 GAAGGCAAGATCTGCTATCTTC
* *
10521200 AATCAGCTCCACTACAACTGATGGAGACAAGGCTTTGTTTTCAATCTGCTTTGTTGTTAACGCAG
1 AATCAGCTCCACTACAACTGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAG
*
10521265 GAAGGCCAGATCTGCTATCTTC
66 GAAGGCAAGATCTGCTATCTTC
* * * * ** * *
10521287 AACCAGTTCCACCACAACTGATGGAGACAAAGC-TTGTATCTTCGATCTGCTTCACTGTCAAGGC
1 AATCAGCTCCACTACAACTGATGGAGACAAGGCTTTGT-T-TTCGATCTGCTTCGTTGTTAACGC
10521351 AGGAAGGCAAGAT
64 AGGAAGGCAAGAT
10521364 TTGTTGCCTT
Statistics
Matches: 142, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
86 4 0.03
87 108 0.76
88 30 0.21
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
AATCAGCTCCACTACAACTGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGCAG
GAAGGCAAGATCTGCTATCTTC
Found at i:10522064 original size:28 final size:28
Alignment explanation
Indices: 10522032--10522087 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10522022 CCTTTAACTT
10522032 AGACTATTCCCTCTTAGATATTTCACCC
1 AGACTATTCCCTCTTAGATATTTCACCC
10522060 AGACTATTCCCTCTTAGATATTTCACCC
1 AGACTATTCCCTCTTAGATATTTCACCC
10522088 TTTAAACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (28 bp):
AGACTATTCCCTCTTAGATATTTCACCC
Found at i:10522081 original size:14 final size:15
Alignment explanation
Indices: 10522029--10522081 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
10522019 TAGCCTTTAA
10522029 CTTAGACTATTCCCT
1 CTTAGACTATTCCCT
10522044 CTTAGA-TATTTCACC-
1 CTTAGACTA-TTC-CCT
10522059 C--AGACTATTCCCT
1 CTTAGACTATTCCCT
10522072 CTTAGA-TATT
1 CTTAGACTATT
10522082 TCACCCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
12 2 0.06
13 7 0.22
14 8 0.25
15 13 0.41
16 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.40
Consensus pattern (15 bp):
CTTAGACTATTCCCT
Found at i:10522658 original size:21 final size:21
Alignment explanation
Indices: 10522632--10522678 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10522622 GGTATAGCAG
10522632 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
10522653 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
10522674 GATCA
1 GATCA
10522679 ATATTTGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:10523658 original size:7 final size:6
Alignment explanation
Indices: 10523637--10523677 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
10523627 TGACCTCTCC
10523637 TTTTCT TTTTCT TTTTCT TTTTC- -TTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT
10523678 CCTATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:10523670 original size:17 final size:16
Alignment explanation
Indices: 10523644--10523677 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
10523634 TCCTTTTCTT
10523644 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
10523660 TTTCTTCTTTCTTTTTC
1 TTTCTT-TTTCTTTTTC
10523677 T
1 T
10523678 CCTATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:10537173 original size:28 final size:27
Alignment explanation
Indices: 10537108--10537176 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
10537098 AAAATAGTTT
*
10537108 AAAATAATTAATTTTTTTTCTAATTTT
1 AAAATAATTAATTTTTTTTCTAATTTC
10537135 AAAATATATTAATTTTAATTTT-TAATATTC
1 AAAATA-ATTAATTTT--TTTTCTAAT-TTC
10537165 AAAA-AATTAATT
1 AAAATAATTAATT
10537177 AAATTATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 6 0.16
28 16 0.43
29 5 0.14
30 10 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
AAAATAATTAATTTTTTTTCTAATTTC
Found at i:10537629 original size:2 final size:2
Alignment explanation
Indices: 10537622--10537652 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10537612 GGGTTAATAA
10537622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10537653 AAAGTCGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10539184 original size:29 final size:31
Alignment explanation
Indices: 10539141--10539216 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
10539131 AAATTATGTT
* *
10539141 AAAATATTTTAAAATT-AAAATTATAAAT-AA
1 AAAATATCTAAAAATTCAAAA-TATAAATGAA
* *
10539171 AAAAT-TCTAAAAATTCAAAATATATATGTA
1 AAAATATCTAAAAATTCAAAATATAAATGAA
10539201 AAAATATCTAAAAATT
1 AAAATATCTAAAAATT
10539217 TTACAGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 14 0.36
30 15 0.38
31 10 0.26
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (31 bp):
AAAATATCTAAAAATTCAAAATATAAATGAA
Found at i:10539211 original size:31 final size:30
Alignment explanation
Indices: 10539121--10539216 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
10539111 ATAATAAATA
* *
10539121 AAAATATTAAAA-AT-TATGTTAAAATATTT
1 AAAA-ATTAAAATATATATGTAAAAATATCT
* **
10539150 TAAAATTAAAAT-TATAAATAAAAA-ATTCT
1 AAAAATTAAAATATATATGTAAAAATA-TCT
10539179 AAAAATTCAAAATATATATGTAAAAATATCT
1 AAAAATT-AAAATATATATGTAAAAATATCT
10539210 AAAAATT
1 AAAAATT
10539217 TTACAGAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 9 0.17
29 18 0.34
30 5 0.09
31 20 0.38
32 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAATTAAAATATATATGTAAAAATATCT
Found at i:10542918 original size:19 final size:21
Alignment explanation
Indices: 10542874--10542919 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
10542864 TTTTTTAACA
*
10542874 TAATTTTTAATAATTTATATT
1 TAATTTTAAATAATTTATATT
*
10542895 T-ATTTTAAAT-ATTT-TGTT
1 TAATTTTAAATAATTTATATT
10542913 TAATTTT
1 TAATTTT
10542920 TAGAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 8 0.36
21 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TAATTTTAAATAATTTATATT
Found at i:10552865 original size:20 final size:20
Alignment explanation
Indices: 10552828--10552866 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10552818 TTGGAAAAAT
*
10552828 AATTATAATATTTAATTTAG
1 AATTATAATATATAATTTAG
10552848 AATTATAAT-TATATATTTA
1 AATTATAATATATA-ATTTA
10552867 AAAGTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTATAATATATAATTTAG
Found at i:10552877 original size:44 final size:46
Alignment explanation
Indices: 10552822--10552924 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 46
10552812 TGACATTTGG
* * *
10552822 AAAAATAATTATAATATTTAATTTAGAA-T-T-ATAATTATATATTT
1 AAAAATAATTATAATACTTAA-TAAAAATTATGATAATTATATATTT
*
10552866 AAAAGTAATTAT-A-ACTTAATAAAAATTATGATAATTATATATTT
1 AAAAATAATTATAATACTTAATAAAAATTATGATAATTATATATTT
10552910 AAAAATAATTATAAT
1 AAAAATAATTATAAT
10552925 TTATTTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 4 0.08
42 6 0.12
43 2 0.04
44 36 0.73
45 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (46 bp):
AAAAATAATTATAATACTTAATAAAAATTATGATAATTATATATTT
Found at i:10552903 original size:26 final size:27
Alignment explanation
Indices: 10552871--10552921 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
10552861 TATTTAAAAG
10552871 TAATTATA-ACTTAATAAA-AATTATGA
1 TAATTATATACTTAA-AAATAATTATGA
*
10552897 TAATTATATATTTAAAAATAATTAT
1 TAATTATATACTTAAAAATAATTAT
10552922 AATTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TAATTATATACTTAAAAATAATTATGA
Found at i:10552923 original size:24 final size:23
Alignment explanation
Indices: 10552848--10552935 Score: 94
Period size: 24 Copynumber: 3.9 Consensus size: 23
10552838 TTTAATTTAG
*
10552848 AATTATAATTATATATTTAAAAGT
1 AATTATAATT-TATATTTAAAAAT
*
10552872 AATTATAACTTA-A--TAAAAAT
1 AATTATAATTTATATTTAAAAAT
* *
10552892 TATGATAATTATATATTTAAAAAT
1 AATTATAATT-TATATTTAAAAAT
10552916 AATTATAATTTAT-TTTAAAA
1 AATTATAATTTATATTTAAAA
10552936 TTATGATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
20 13 0.25
21 2 0.04
22 9 0.17
23 5 0.09
24 24 0.45
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTATAATTTATATTTAAAAAT
Found at i:10558040 original size:24 final size:24
Alignment explanation
Indices: 10558003--10558050 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10557993 TAAGTTTTTT
10558003 TATTCTCTCCTCTCCCTCTCAATA
1 TATTCTCTCCTCTCCCTCTCAATA
**
10558027 TATTCTCTTGTCTCCCTCTCAATA
1 TATTCTCTCCTCTCCCTCTCAATA
10558051 CATGGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.44
Consensus pattern (24 bp):
TATTCTCTCCTCTCCCTCTCAATA
Found at i:10558975 original size:16 final size:16
Alignment explanation
Indices: 10558954--10559012 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
10558944 CCTGACATGT
10558954 AGGTTTTTGGATTTTA
1 AGGTTTTTGGATTTTA
* *
10558970 AGG-TTTAGGGTTTTA
1 AGGTTTTTGGATTTTA
* *
10558985 TGGTTTTTAGGATTTTT
1 AGGTTTTT-GGATTTTA
*
10559002 AGGGTTTTGGA
1 AGGTTTTTGGA
10559013 GAAAAAAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 12 0.36
16 9 0.27
17 12 0.36
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (16 bp):
AGGTTTTTGGATTTTA
Found at i:10566582 original size:39 final size:39
Alignment explanation
Indices: 10566528--10566605 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
10566518 TTAAATTTTA
*
10566528 CATGTAATATAATATAGCACGTTGTTTCCTCTGTTTGCT
1 CATGTAATATAATATAGCACGCTGTTTCCTCTGTTTGCT
*
10566567 CATGTAATATAATATAGCACGCTGTTTCCTTTGTTTGCT
1 CATGTAATATAATATAGCACGCTGTTTCCTCTGTTTGCT
10566606 AAGATAGCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (39 bp):
CATGTAATATAATATAGCACGCTGTTTCCTCTGTTTGCT
Found at i:10568850 original size:5 final size:6
Alignment explanation
Indices: 10568799--10568857 Score: 64
Period size: 6 Copynumber: 9.0 Consensus size: 6
10568789 TAAAGTATTT
*
10568799 TAAAAT TAAAAA TTAAAAA TTAAAAA TTAAAAA TAAAAA TTTAAAAA TAAAAA
1 TAAAAA TAAAAA -TAAAAA -TAAAAA -TAAAAA TAAAAA --TAAAAA TAAAAA
10568852 TAAAAA
1 TAAAAA
10568858 ATATATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
6 23 0.47
7 20 0.41
8 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:10568860 original size:7 final size:7
Alignment explanation
Indices: 10568800--10568859 Score: 88
Period size: 7 Copynumber: 8.7 Consensus size: 7
10568790 AAAGTATTTT
10568800 AAAATTA
1 AAAATTA
10568807 AAAATTA
1 AAAATTA
10568814 AAAATTA
1 AAAATTA
10568821 AAAATTA
1 AAAATTA
10568828 AAAA-TA
1 AAAATTA
10568834 AAAATTTA
1 AAAA-TTA
10568842 AAAA-TA
1 AAAATTA
*
10568848 AAAATAA
1 AAAATTA
10568855 AAAAT
1 AAAAT
10568860 ATATATTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
6 12 0.24
7 31 0.63
8 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:10568868 original size:27 final size:28
Alignment explanation
Indices: 10568800--10568860 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
10568790 AAAGTATTTT
* *
10568800 AAAATTAAAAA-TTAAAAATTAAAAATT
1 AAAAATAAAAATTTAAAAATTAAAAATA
10568827 AAAAATAAAAATTTAAAAA-TAAAAATA
1 AAAAATAAAAATTTAAAAATTAAAAATA
10568854 AAAAATA
1 AAAAATA
10568861 TATATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (28 bp):
AAAAATAAAAATTTAAAAATTAAAAATA
Found at i:10574293 original size:22 final size:23
Alignment explanation
Indices: 10574264--10574355 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 23
10574254 TGCACTAATG
10574264 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
* * *
10574286 TACAGAGAGCAC-AGATGTGTTA
1 AACAGAGAGCACTAGAAGTGCTA
**
10574308 AACAGAGAGCACT-GGCGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
*
10574330 GTAATCAGAGAGCACT-GACGTGCTA
1 --AA-CAGAGAGCACTAGAAGTGCTA
10574355 A
1 A
10574356 TAATCAGAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
21 1 0.02
22 34 0.60
23 1 0.02
24 2 0.04
25 19 0.33
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.17
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:10574344 original size:25 final size:25
Alignment explanation
Indices: 10574258--10574367 Score: 99
Period size: 25 Copynumber: 4.6 Consensus size: 25
10574248 TTATTATGCA
* *
10574258 CTAATGAA-CAGAGAGCACTAAAGTG
1 CTAAT-AATCAGAGAGCACTGACGTG
* *
10574283 CT-AT-A-CAGAGAGCACAGATGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
10574305 -T--TAAACAGAGAGCACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
10574327 CTAGTAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
10574352 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
10574368 GCGCTAAAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
20 1 0.01
21 2 0.03
22 29 0.41
23 1 0.01
24 2 0.03
25 36 0.51
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:10575386 original size:23 final size:23
Alignment explanation
Indices: 10575356--10575402 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10575346 AATAAGTATG
10575356 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
10575379 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
10575402 T
1 T
10575403 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:10589156 original size:11 final size:11
Alignment explanation
Indices: 10589136--10589165 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
10589126 TAAAAATAAA
10589136 AAAAAGTATTTT
1 AAAAA-TATTTT
10589148 AAAAATATTTT
1 AAAAATATTTT
10589159 AAAAATA
1 AAAAATA
10589166 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Done.