Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 63 of 213
Found at i:17006110 original size:47 final size:47
Alignment explanation
Indices: 17006051--17006584 Score: 440
Period size: 47 Copynumber: 11.3 Consensus size: 47
17006041 TGGGCAGCAT
* * *
17006051 ATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* *
17006098 ATATATACACCAAATTGGACAACATTTATACATCAAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * *
17006145 ATTTATACATCAAAATTGGACAGCATATATACACC-AAATTAGACAAC
1 ATATATACA-CCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * *
17006192 ATTTATACACCAAAATTGGACAGCATTTATACACC-AATTTGGGCAGC
1 ATATATACACC-AAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * * *
17006239 ATATATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGC
1 --ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * *
17006288 ATATAGACACCAAATTAGG-CAGCATTTATACATCAAAATTGAATC-GC
1 ATATATACACCAAATT-GGACAGCATTTATACACCAAAATTGGA-CAGC
* * * * *
17006335 ATTTATACACTAAAATTGGACAGCATTTATACATC-AATTTGGGCAGC
1 ATATATACAC-CAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * * *
17006382 ATATATATATCAAATTGGACAACATTTTTACACCAAAATTGGACTGC
1 ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
* * * *
17006429 ATATAGACACCAAATTAGG-TAGCATTTATACATCAAAATTGGACAAC
1 ATATATACACCAAATT-GGACAGCATTTATACACCAAAATTGGACAGC
* * * * * **
17006476 ATTTATACATCAATTTGGGCAGCATATATATATA-TTAAATTGGACAGC
1 ATATATACACCAAATTGGACAGCAT-T-TATACACCAAAATTGGACAGC
* * * *
17006524 ATTTTTACACCAAAATTGGACTA-CATATAGACACC-AAATTAGG-CAGC
1 ATATATACACC-AAATTGGAC-AGCATTTATACACCAAAATT-GGACAGC
* *
17006571 ATTTATACATCAAA
1 ATATATACACCAAA
17006585 ATTTGACACG
Statistics
Matches: 391, Mismatches: 77, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
46 27 0.07
47 242 0.62
48 89 0.23
49 32 0.08
50 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (47 bp):
ATATATACACCAAATTGGACAGCATTTATACACCAAAATTGGACAGC
Found at i:17006142 original size:71 final size:69
Alignment explanation
Indices: 17006054--17006584 Score: 487
Period size: 71 Copynumber: 7.5 Consensus size: 69
17006044 GCAGCATATA
* * *
17006054 TATAAACC-AAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATACACCAAATTGGAC
1 TATACACCAAAATTGGACAGCATTTATACACC-AAATTGG-CAGCATATATACACCAAATTGGAC
17006118 AACATT
64 AACATT
* * *
17006124 TATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCATATATACACCAAATTAGAC
1 TATACACCAAAATTGGACAGCATTTATACA-CCAAATTGG-CAGCATATATACACCAAATTGGAC
17006189 AACATT
64 AACATT
* * * *
17006195 TATACACCAAAATTGGACAGCATTTATACACCAATTTGGGCAGCATATATATATATCAAAGTGGA
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGC--ATATATACACCAAATTGGA
17006260 CAACATT
63 CAACATT
* * * * * * *
17006267 TTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGAAT
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACA-CCAAATTGGA-
*
17006332 C-GCATT
63 CAACATT
* * * * *
17006338 TATACACTAAAATTGGACAGCATTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACA
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACACCAAATTGGACA
17006403 ACATT
65 ACATT
* * * * * * *
17006408 TTTACACCAAAATTGGACTGCATATAGACACCAAATTAGGTAGCATTTATACATCAAAATTGGAC
1 TATACACCAAAATTGGACAGCATTTATACACCAAATT-GGCAGCATATATACA-CCAAATTGGAC
17006473 AACATT
64 AACATT
* * * * ** * *
17006479 TATACATC-AATTTGGGCAGCATATATATATATTAAATTGGACAGCATTTTTACACCAAAATTGG
1 TATACACCAAAATTGGACAGCAT-T-TATACACCAAATTGG-CAGCATATATACACC-AAATTGG
* *
17006543 ACTACATA
62 ACAACATT
* *
17006551 TAGACACC-AAATTAGG-CAGCATTTATACATCAAA
1 TATACACCAAAATT-GGACAGCATTTATACACCAAA
17006585 ATTTGACACG
Statistics
Matches: 374, Mismatches: 73, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
69 1 0.00
70 95 0.25
71 165 0.44
72 111 0.30
73 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (69 bp):
TATACACCAAAATTGGACAGCATTTATACACCAAATTGGCAGCATATATACACCAAATTGGACAA
CATT
Found at i:17006433 original size:190 final size:190
Alignment explanation
Indices: 17006040--17006592 Score: 548
Period size: 190 Copynumber: 2.9 Consensus size: 190
17006030 ACAACATAGG
* * *
17006040 TTGGGCAGCATATATATAAACCAAATTGGACAACATTTTTACACCAAAATTGGACAGCATATATA
1 TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
*
17006105 CACCAAATTGGACAACATTTATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCA
66 CACCAAATTGGACAACATTTATACATCAAAATTGAACAGCATTTATACATCAAAATTGGACAGCA
* * *
17006170 TATATACACCAAATTAGACAACATTTATACACCAAAATTGGACAGCATTTATACACCAAT
131 TATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACCAAA
* * * *
17006230 TTGGGCAGCATATATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGCATATAGA
1 TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
*
17006295 CACCAAATTAGG-CAGCATTTATACATCAAAATTGAATC-GCATTTATACA-CTAAAATTGGACA
66 CACCAAATT-GGACAACATTTATACATCAAAATTGAA-CAGCATTTATACATC-AAAATTGGACA
* * * * * * * * *
17006357 GCATTTATACATCAATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCAAAA
128 GCATATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACC-AAA
* * * * * * * * * * *
17006420 TTGGACTGC--ATATAGACACCAAATTAGG-TAGCATTTATACATCAAAATTGGACAACATTTAT
1 TTGGACAGCATATATATAAACCAAAGT-GGACAACATTTTTACACCAAAATTGGACAGCATATAG
* * * * * * * * *
17006482 ACATCAATTTGGGCAGCATATATATATAT-TAAATTGGACAGCATTTTTACACCAAAATTGGACT
65 ACACCAAATTGGACAACAT-T-TATACATCAAAATTGAACAGCATTTATACATCAAAATTGGAC-
* * * * * *
17006546 A-CATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTTGACA
127 AGCATATATACACCAAATTAGACAACATATATACACCAAAATTGGACA
17006593 CGAATCGAAT
Statistics
Matches: 304, Mismatches: 47, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
187 2 0.01
188 53 0.17
189 80 0.26
190 166 0.55
191 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (190 bp):
TTGGACAGCATATATATAAACCAAAGTGGACAACATTTTTACACCAAAATTGGACAGCATATAGA
CACCAAATTGGACAACATTTATACATCAAAATTGAACAGCATTTATACATCAAAATTGGACAGCA
TATATACACCAAATTAGACAACATATATACACCAAAATTGGACAACATTTATACACCAAA
Found at i:17006561 original size:119 final size:117
Alignment explanation
Indices: 17006062--17006592 Score: 434
Period size: 119 Copynumber: 4.5 Consensus size: 117
17006052 TATATAAACC
* * ** * *
17006062 AAATTGGACAACATTTTTACACCAAAATT-GGACAGCATATATACA-CCAAATTGGACAACATTT
1 AAATTGGACTACATATAGACACC-AAATTAGG-CAGCATTTATACATCAAAATTGGACAACATTT
* * * * * * *
17006125 ATACATCAAAATTGGACAGCATTTATACATCAAAATTGGACAGCATATATACACC-
64 ATACATC-AATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCA
* * * * * * * *
17006180 AAATTAGACAACATTTATACACCAAAATT-GGACAGCATTTATACA-CCAATTTGGGCAGCATAT
1 AAATTGGACTACATATAGACACC-AAATTAGG-CAGCATTTATACATCAAAATTGGACAACAT-T
* ** * * * * * * ** * **
17006243 ATATATATCAAAGTGGACAACATTTTTACACCAAAATTGGACTGCATATAGACACC-
63 -TATACATCAATTTGGGCAGCATATATATATC-AAATTGGACAACATTTTTACACCA
* * * ** *
17006299 AAATTAGG-C-AGCATTTATACATCAAAATTGAATC-GCATTTATACA-CTAAAATTGGACAGCA
1 AAATT-GGACTA-CATATAGACA-CCAAATT-AGGCAGCATTTATACATC-AAAATTGGACAACA
17006360 TTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
61 TTTATACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
* *
17006417 AAATTGGACTGCATATAGACACCAAATTAGGTAGCATTTATACATCAAAATTGGACAACATTTAT
1 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAACATTTAT
* *
17006482 ACATCAATTTGGGCAGCATATATATATATTAAATTGGACAGCATTTTTACACCA
66 ACATCAATTTGGGCAGC--ATATATATATCAAATTGGACAACATTTTTACACCA
*
17006536 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTTGACA
1 AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACA
17006593 CGAATCGAAT
Statistics
Matches: 351, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
116 1 0.00
117 72 0.21
118 93 0.26
119 163 0.46
120 22 0.06
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (117 bp):
AAATTGGACTACATATAGACACCAAATTAGGCAGCATTTATACATCAAAATTGGACAACATTTAT
ACATCAATTTGGGCAGCATATATATATCAAATTGGACAACATTTTTACACCA
Found at i:17007438 original size:43 final size:44
Alignment explanation
Indices: 17007391--17007484 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
17007381 TCCCATACGT
** **
17007391 GGTCTTACAT-GCAATTATGTAA-CGATGCCACTGTCCCATGCAG
1 GGTCTTACATCGCAATTA-CAAATCGATGCCACTGTCCCACACAG
* *
17007434 GGTCTTA-TTCGTAATTACAAATCGATGCCACTGTCCCACACAG
1 GGTCTTACATCGCAATTACAAATCGATGCCACTGTCCCACACAG
17007477 GGTCTTAC
1 GGTCTTAC
17007485 TCGAAAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
42 3 0.07
43 39 0.93
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
GGTCTTACATCGCAATTACAAATCGATGCCACTGTCCCACACAG
Found at i:17011110 original size:55 final size:54
Alignment explanation
Indices: 17011040--17011143 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 54
17011030 GATTAAAATA
* *
17011040 TAAATTTTTATTTTTATTATATTGTATTGAATAATAATTATATTAAAATATGAT
1 TAAATTTTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAATATGAT
* *
17011094 TAAATTATTTATTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TAAATT-TTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAAT
17011144 TTAATAACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 6 0.13
55 39 0.87
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (54 bp):
TAAATTTTTATTTTTATTAAATTATATTGAATAATAATTATATTAAAATATGAT
Found at i:17014576 original size:15 final size:16
Alignment explanation
Indices: 17014550--17014581 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17014540 AAAAAATATG
17014550 GGCCCAAGCCCGGCCC
1 GGCCCAAGCCCGGCCC
17014566 GGCCC-AGCCCGGCCC
1 GGCCCAAGCCCGGCCC
17014581 G
1 G
17014582 TTTTGCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.09, C:0.56, G:0.34, T:0.00
Consensus pattern (16 bp):
GGCCCAAGCCCGGCCC
Found at i:17015182 original size:219 final size:219
Alignment explanation
Indices: 17014803--17015245 Score: 886
Period size: 219 Copynumber: 2.0 Consensus size: 219
17014793 AGACAGAAAT
17014803 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
1 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
17014868 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
66 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
17014933 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
131 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
17014998 TTATAGCATGCTAATTATACCTAA
196 TTATAGCATGCTAATTATACCTAA
17015022 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
1 AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
17015087 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
66 ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
17015152 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
131 AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
17015217 TTATAGCATGCTAATTATACCTAA
196 TTATAGCATGCTAATTATACCTAA
17015241 AAACA
1 AAACA
17015246 TGTTTACAAC
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 224 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (219 bp):
AAACAGAAAATAAGACCTTCATAATGGAAAAATCTTCATAATTGAATTAAACCCAAAAGTTCGAA
ATAACTATTCCTCAAGAATTACATGACTTAACCAACTATTCCCCAGGAATTACATAAAGCACTAC
AAGATGAATCACTCAAGCACACTATAATAATCCATAAACATAATCTTTAAGAGCTATGCAAAATC
TTATAGCATGCTAATTATACCTAA
Found at i:17023704 original size:11 final size:11
Alignment explanation
Indices: 17023688--17023718 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17023678 ATTGTAGACC
*
17023688 ATAAAAATATT
1 ATAAAAATATA
17023699 ATAAAAATATA
1 ATAAAAATATA
17023710 ATAAAAATA
1 ATAAAAATA
17023719 AAATTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:17027771 original size:50 final size:50
Alignment explanation
Indices: 17027652--17027893 Score: 371
Period size: 50 Copynumber: 4.8 Consensus size: 50
17027642 GATAATAACA
* * **
17027652 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
17027703 TGCTC-ATGCCATGT-CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17027752 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
17027802 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17027852 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17027894 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.01
49 22 0.12
50 141 0.80
51 11 0.06
52 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17028009 original size:13 final size:13
Alignment explanation
Indices: 17027988--17028017 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17027978 GCTTGGACCA
17027988 TCATCAAATAAAT
1 TCATCAAATAAAT
*
17028001 TCATGAAATAAAT
1 TCATCAAATAAAT
17028014 TCAT
1 TCAT
17028018 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:17028266 original size:30 final size:29
Alignment explanation
Indices: 17028231--17028287 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
17028221 CATTGACTCT
*
17028231 AACTTTTTCAAAATTACGATTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ATTTTGCCCCTA
* *
17028261 AACTTTTGCATAATTACATTTTTCCCC
1 AACTTTTGCAAAATTACATTTTGCCCC
17028288 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (29 bp):
AACTTTTGCAAAATTACATTTTGCCCCTA
Found at i:17035184 original size:12 final size:12
Alignment explanation
Indices: 17035167--17035191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17035157 AATTTTCCTG
17035167 AACTATATCCAC
1 AACTATATCCAC
17035179 AACTATATCCAC
1 AACTATATCCAC
17035191 A
1 A
17035192 TATTAGTTCT
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:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (12 bp):
AACTATATCCAC
Found at i:17036851 original size:44 final size:44
Alignment explanation
Indices: 17036788--17036893 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
17036778 AAAAAAATTG
*
17036788 CAACGTGAAAGCAACCATCAAATCAATGATGTGACAAGACAATA
1 CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
* * *
17036832 CAACGTGGAAGCAACCATCAAATCAATGATGGGAGAAGACAATG
1 CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
17036876 CAACGTGAAAGCAACCAT
1 CAACGTGAAAGCAACCAT
17036894 GTTCATGATG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (44 bp):
CAACGTGAAAGCAACCATCAAATCAATGATGGGACAAGACAATA
Found at i:17037730 original size:22 final size:22
Alignment explanation
Indices: 17037685--17037730 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17037675 TAATATAGAC
* *
17037685 TTAATAGATGCAGGAAAATCTT
1 TTAATAGATGAAGGAAAATATT
17037707 TTAATAGATGAAGAGAAAA-ATT
1 TTAATAGATGAAG-GAAAATATT
17037729 TT
1 TT
17037731 GAACTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
TTAATAGATGAAGGAAAATATT
Found at i:17039330 original size:7 final size:7
Alignment explanation
Indices: 17039318--17039385 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
17039308 TATACATTTA
17039318 GAAAAAT
1 GAAAAAT
17039325 GAAAAAT
1 GAAAAAT
17039332 GAAAAAT
1 GAAAAAT
17039339 GAAAAAT
1 GAAAAAT
17039346 GAAAAAT
1 GAAAAAT
*
17039353 AAAAAAT
1 GAAAAAT
17039360 GAAAAAT
1 GAAAAAT
*
17039367 GAAAAGT
1 GAAAAAT
17039374 GAAAAAT
1 GAAAAAT
17039381 GAAAA
1 GAAAA
17039386 TAAATATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:17039431 original size:15 final size:17
Alignment explanation
Indices: 17039400--17039433 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
17039390 TATATAAAAA
17039400 AATCATAAAATATATAT
1 AATCATAAAATATATAT
17039417 AATC-TAAAA-ATATAT
1 AATCATAAAATATATAT
17039432 AA
1 AA
17039434 AAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AATCATAAAATATATAT
Found at i:17039692 original size:21 final size:20
Alignment explanation
Indices: 17039668--17039706 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17039658 TTTATAAAAA
*
17039668 ATATACTTTTTTATATATTAT
1 ATATAATTTTTT-TATATTAT
17039689 ATATAATTTTTTTATATT
1 ATATAATTTTTTTATATT
17039707 TTTAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATAATTTTTTTATATTAT
Found at i:17043323 original size:16 final size:15
Alignment explanation
Indices: 17043297--17043342 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
17043287 TTTTGCATGC
17043297 CTTTCTATTATTATTAA
1 CTTT-TATTATTATT-A
17043314 CTTTTATTATTATTA
1 CTTTTATTATTATTA
*
17043329 CTTTTGTTATTATT
1 CTTTTATTATTATT
17043343 TTAACATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 14 0.50
16 10 0.36
17 4 0.14
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:17048906 original size:24 final size:23
Alignment explanation
Indices: 17048873--17048922 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
17048863 CAATATTTAA
*
17048873 ATTATTTAAATAATTTACATATC
1 ATTATTTAAATAATTTAAATATC
*
17048896 ATTATATTAAATTATTTAAATATC
1 ATTAT-TTAAATAATTTAAATATC
17048920 ATT
1 ATT
17048923 TATCATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTATTTAAATAATTTAAATATC
Found at i:17048906 original size:33 final size:32
Alignment explanation
Indices: 17048860--17048947 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 32
17048850 ATATTTAATG
* *
17048860 TATCAATAT-TTAAATTATTTAAATAATTTACA
1 TATCATTATATTAAATTATTTAAATAA-TCACA
**
17048892 TATCATTATATTAAATTATTTAAAT-ATCATT
1 TATCATTATATTAAATTATTTAAATAATCACA
17048923 TATCATTATATTAAATT-TTTAAATA
1 TATCATTATATTAAATTATTTAAATA
17048948 TAATTTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 7 0.14
31 19 0.38
32 9 0.18
33 15 0.30
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (32 bp):
TATCATTATATTAAATTATTTAAATAATCACA
Found at i:17048946 original size:30 final size:31
Alignment explanation
Indices: 17048869--17048964 Score: 124
Period size: 30 Copynumber: 3.1 Consensus size: 31
17048859 GTATCAATAT
*
17048869 TTAAATTATTTAAATA-ATTTACATATCATTATA
1 TTAAATTATTTAAATATAATT---TATCATTATA
*
17048902 TTAAATTATTTAAATATCATTTATCATTATA
1 TTAAATTATTTAAATATAATTTATCATTATA
*
17048933 TTAAATT-TTTAAATATAATTTATTATTATA
1 TTAAATTATTTAAATATAATTTATCATTATA
17048963 TT
1 TT
17048965 TGTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
30 23 0.40
31 17 0.29
33 16 0.28
34 2 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAAATTATTTAAATATAATTTATCATTATA
Found at i:17048977 original size:30 final size:30
Alignment explanation
Indices: 17048892--17049019 Score: 119
Period size: 30 Copynumber: 4.5 Consensus size: 30
17048882 ATAATTTACA
*
17048892 TATCATTATATTAAATTATTTAAATATCATT
1 TATCATTATATTAAATT-TTTAAATATAATT
17048923 TATCATTATATTAAATTTTTAAATATAATT
1 TATCATTATATTAAATTTTTAAATATAATT
* ** *
17048953 TATTATTATATT-TGTTTTTAAA-ATATTT
1 TATCATTATATTAAATTTTTAAATATAATT
* *
17048981 TAT-A-TATCATT-AA-TTTAAAAAATAATT
1 TATCATTAT-ATTAAATTTTTAAATATAATT
17049008 TAT-ATTA-ATTAA
1 TATCATTATATTAA
17049020 TTAATTAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
26 12 0.14
27 14 0.17
28 10 0.12
29 8 0.10
30 23 0.27
31 17 0.20
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
TATCATTATATTAAATTTTTAAATATAATT
Found at i:17049029 original size:27 final size:29
Alignment explanation
Indices: 17048970--17049029 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
17048960 ATATTTGTTT
* *
17048970 TTAAAATATTTTATATATCATTAATTTAA
1 TTAAAATAATTTATATATAATTAATTTAA
17048999 --AAAATAATTTATAT-TAATTAA-TTAA
1 TTAAAATAATTTATATATAATTAATTTAA
17049024 TTAAAA
1 TTAAAA
17049030 GATATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
25 4 0.15
26 6 0.22
27 17 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAAAATAATTTATATATAATTAATTTAA
Found at i:17050515 original size:94 final size:94
Alignment explanation
Indices: 17050354--17050524 Score: 342
Period size: 94 Copynumber: 1.8 Consensus size: 94
17050344 ACCTTTTCTA
17050354 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
1 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
17050419 GCTCGTATATTGTATTTCTCACGATGATG
66 GCTCGTATATTGTATTTCTCACGATGATG
17050448 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
1 GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
17050513 GCTCGTATATTG
66 GCTCGTATATTG
17050525 ATGATGATGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.45
Consensus pattern (94 bp):
GCTTGTATTGTAATAATACTATTACTACTACGTGGCTGATAGTGTTTGTATAACTTTTCTGGTTT
GCTCGTATATTGTATTTCTCACGATGATG
Found at i:17050531 original size:3 final size:3
Alignment explanation
Indices: 17050523--17050551 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17050513 GCTCGTATAT
17050523 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
17050552 TTTCTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:17051252 original size:23 final size:22
Alignment explanation
Indices: 17051226--17051300 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
17051216 TCTTTTAAAG
17051226 AAAAAAATAAAAATATATTCTT-
1 AAAAAAATAAAAATATATT-TTA
* *
17051248 TAAAAAATAAAAA-ATATTTAAA
1 AAAAAAATAAAAATATATTT-TA
*
17051270 ATAAAAAATAAAAATAT-TTTTC
1 A-AAAAAATAAAAATATATTTTA
17051292 AAAAAAATA
1 AAAAAAATA
17051301 TTTTAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 13 0.30
23 15 0.34
24 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAAATATATTTTA
Found at i:17051297 original size:22 final size:22
Alignment explanation
Indices: 17051226--17051298 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
17051216 TCTTTTAAAG
*
17051226 AAAAAAATAAAAATATATTCTTTA
1 AAAAAAATAAAAATAT-TT-TTAA
* *
17051250 AAAAATA-AAAAATA-TTTAAA
1 AAAAAAATAAAAATATTTTTAA
*
17051270 ATAAAAAATAAAAATATTTTTCA
1 A-AAAAAATAAAAATATTTTTAA
17051293 AAAAAA
1 AAAAAA
17051299 TATTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.08
21 7 0.17
22 12 0.30
23 12 0.30
24 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAAATATTTTTAA
Found at i:17051502 original size:21 final size:22
Alignment explanation
Indices: 17051467--17051513 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
17051457 GTTGAACCAA
*
17051467 ATTTTATACTTTTTAATATTTT
1 ATTTTATACTTTTTAATAATTT
*
17051489 ATTTTTTA-TTTTTAATAATTT
1 ATTTTATACTTTTTAATAATTT
17051510 ATTT
1 ATTT
17051514 GCTTTGAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTATACTTTTTAATAATTT
Found at i:17051854 original size:22 final size:21
Alignment explanation
Indices: 17051811--17051856 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
17051801 CACCAAAAAA
*
17051811 TTTAAAAAAATAAAAAAGTAT
1 TTTAAAAAAATAAAAAAATAT
17051832 TTTAAAAATAA-AAAATAAATAT
1 TTTAAAAA-AATAAAA-AAATAT
17051854 TTT
1 TTT
17051857 TATTATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TTTAAAAAAATAAAAAAATAT
Found at i:17052209 original size:11 final size:10
Alignment explanation
Indices: 17052183--17052220 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
17052173 TAATTTGAAG
17052183 TGTTTTTATA
1 TGTTTTTATA
17052193 TGTTTTTATAA
1 TGTTTTTAT-A
17052204 T-TTTTT-TA
1 TGTTTTTATA
17052212 TGTTTTTAT
1 TGTTTTTAT
17052221 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.08
9 6 0.24
10 15 0.60
11 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (10 bp):
TGTTTTTATA
Found at i:17056261 original size:19 final size:20
Alignment explanation
Indices: 17056231--17056277 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17056221 CTCAAGAAAA
17056231 AATTTAAATAATAATATAAAT
1 AATTT-AATAATAATATAAAT
* *
17056252 -ATTTAATAATATTATTAAT
1 AATTTAATAATAATATAAAT
17056271 AATTTAA
1 AATTTAA
17056278 GTTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATAATAATATAAAT
Found at i:17057037 original size:14 final size:14
Alignment explanation
Indices: 17056995--17057042 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
17056985 CTTAAACCTT
17056995 GTTCAGGGTTTAAG
1 GTTCAGGGTTTAAG
17057009 G-TCAGGG-TTACAG
1 GTTCAGGGTTTA-AG
*
17057022 GTTTAGGGTTTAAG
1 GTTCAGGGTTTAAG
17057036 GTTCAGG
1 GTTCAGG
17057043 ATTCTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 14 0.48
15 3 0.10
ACGTcount: A:0.21, C:0.08, G:0.38, T:0.33
Consensus pattern (14 bp):
GTTCAGGGTTTAAG
Found at i:17060015 original size:13 final size:13
Alignment explanation
Indices: 17059975--17060017 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
17059965 TATTACATAG
17059975 GGTTTGAGTTT-A
1 GGTTTGAGTTTGA
* *
17059987 GGGTTGAGGTTCGA
1 GGTTTGA-GTTTGA
17060001 GGTTTGAGTTTGA
1 GGTTTGAGTTTGA
17060014 GGTT
1 GGTT
17060018 CGGAATTCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 6 0.24
13 12 0.48
14 7 0.28
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (13 bp):
GGTTTGAGTTTGA
Found at i:17061902 original size:2 final size:2
Alignment explanation
Indices: 17061895--17061926 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17061885 ACAAAAGATA
17061895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17061927 GAGAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17066128 original size:56 final size:56
Alignment explanation
Indices: 17066065--17066379 Score: 239
Period size: 56 Copynumber: 5.6 Consensus size: 56
17066055 AGACATCCTT
* *
17066065 TTTAACAGAGATAGCCACAAGGCATTCC-TTTAACTGAGATAGTCACCAAGGCATCC
1 TTTAACAGAGATAGCCACAAGGCA-TCCTTTTAACTGAGATAGCCACAAAGGCATCC
* * * * * *
17066121 TTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAGCCATAAAGGC-TTC
1 TTTAACAGAGATAGCC-ACAAGGCATCCTTTTAACTGAGATAGCCACAAAGGCATCC
** * * * *
17066177 TTTTTCAGAGATCGCCACAAAGACTTCCTTTTAA-TAGAGATAGCCACAAAGGCATCAT
1 TTTAACAGAGATAGCCAC-AAGGCATCCTTTTAACT-GAGATAGCCACAAAGGCATC-C
* * *
17066235 TTTAATAGAGATAGCCACAAAGTCATCTTTTTAACT--GATAGCCACAAAGGCATCC
1 TTTAACAGAGATAGCCAC-AAGGCATCCTTTTAACTGAGATAGCCACAAAGGCATCC
* * * ** * * *
17066290 TTTTAACAGAGATAGCCATAAAGACATCCTTTT--TTAGAGATCTCCATAAAGACATCTT
1 -TTTAACAGAGATAGCCA-CAAGGCATCCTTTTAACT-GAGATAGCCACAAAGGCATC-C
* *
17066348 TTTAACAGAGATAGCCATAAAGGTATCCTTTT
1 TTTAACAGAGATAGCCA-CAAGGCATCCTTTT
17066380 CAAGTCACCA
Statistics
Matches: 206, Mismatches: 40, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
54 1 0.00
55 1 0.00
56 104 0.50
57 72 0.35
58 27 0.13
59 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (56 bp):
TTTAACAGAGATAGCCACAAGGCATCCTTTTAACTGAGATAGCCACAAAGGCATCC
Found at i:17066157 original size:85 final size:86
Alignment explanation
Indices: 17066058--17066322 Score: 256
Period size: 85 Copynumber: 3.1 Consensus size: 86
17066048 GCCATGAAGA
* *
17066058 CATCCTTTTTAACAGAGATAGCCACAAGGCATTCCTTTAACTGAGATAGTCACCAAGGCATCC-T
1 CATCC-TTTTAACAGAGATAGCCACAAGGCATTCCTTTAACTGAGATAGCCACAAAGGCATCCTT
17066122 TTAACAGAGAAAACCGA-AAAGG
65 TTAACAGAGAAAACC-ACAAAGG
* ** * * * *
17066144 CATCCTTTTAACAGAGATAGCCATAAAGGC-TT-CTTTTTCAGAGATCGCCACAAAGACTTCCTT
1 CATCCTTTTAACAGAGATAGCCA-CAAGGCATTCCTTTAACTGAGATAGCCACAAAGGCATCCTT
* * *
17066207 TTAATAGAGATAGCCACAAAGG
65 TTAACAGAGAAAACCACAAAGG
* * * *
17066229 CATCATTTTAATAGAGATAGCCACAAAGTCA-TCTTTTTAACT--GATAGCCACAAAGGCATCCT
1 CATCCTTTTAACAGAGATAGCCAC-AAGGCATTC-CTTTAACTGAGATAGCCACAAAGGCATCCT
* * * *
17066291 TTTAACAGAGATAGCCATAAAGA
64 TTTAACAGAGAAAACCACAAAGG
17066314 CATCCTTTT
1 CATCCTTTT
17066323 TTAGAGATCT
Statistics
Matches: 145, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
84 22 0.15
85 109 0.75
86 10 0.07
87 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (86 bp):
CATCCTTTTAACAGAGATAGCCACAAGGCATTCCTTTAACTGAGATAGCCACAAAGGCATCCTTT
TAACAGAGAAAACCACAAAGG
Found at i:17066171 original size:29 final size:29
Alignment explanation
Indices: 17066058--17066379 Score: 302
Period size: 29 Copynumber: 11.3 Consensus size: 29
17066048 GCCATGAAGA
17066058 CATCCTTTTTAACAGAGATAGCCAC-AAGG
1 CATCC-TTTTAACAGAGATAGCCACAAAGG
* * *
17066087 CATTCC-TTTAACTGAGATAGTCACCAAGG
1 CA-TCCTTTTAACAGAGATAGCCACAAAGG
* *
17066116 CATCC-TTTAACAGAGAAAACCGA-AAAGG
1 CATCCTTTTAACAGAGATAGCC-ACAAAGG
*
17066144 CATCCTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * * *
17066173 C-TTCTTTT-TCAGAGATCGCCACAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17066200 CTTCCTTTTAATAGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * *
17066229 CATCATTTTAATAGAGATAGCCACAAAGT
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17066258 CATCTTTTTAAC--TGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17066285 CATCCTTTTAACAGAGATAGCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
** ** * *
17066314 CATCCTTTT-TTAGAGATCTCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17066342 CATCTTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
*
17066371 TATCCTTTT
1 CATCCTTTT
17066380 CAAGTCACCA
Statistics
Matches: 241, Mismatches: 42, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
27 40 0.17
28 76 0.32
29 122 0.51
30 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
CATCCTTTTAACAGAGATAGCCACAAAGG
Found at i:17068029 original size:38 final size:41
Alignment explanation
Indices: 17067942--17068023 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
17067932 AAAATGCCGT
* * *
17067942 AAGGTCATATTCTTTAGCGGCGCTTCAAAAAAACTCCGCTA
1 AAGGTCATGTTCTTTAGCGGCGCTTCAAAAAAACGCCACTA
17067983 AAGGTCATGTTCTTTA-CGGCGCTT-AAAAAAGACGCCACTA
1 AAGGTCATGTTCTTTAGCGGCGCTTCAAAAAA-ACGCCACTA
17068023 A
1 A
17068024 GTCATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 6 0.16
40 16 0.43
41 15 0.41
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
AAGGTCATGTTCTTTAGCGGCGCTTCAAAAAAACGCCACTA
Found at i:17068084 original size:39 final size:40
Alignment explanation
Indices: 17068030--17068143 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 40
17068020 CTAAGTCATG
17068030 AAAAAAGACGCGCTAAAGATCATGTTCTTTAGCAGCGC-T
1 AAAAAAGACGCGCTAAAGATCATGTTCTTTAGCAGCGCTT
* * *
17068069 AAAAAAGATGCGCTAAAGATCAAGATCATGTCTTTAGCGGCGCTT
1 AAAAAAGACGCGCTAAAGATC---AT-GT-TCTTTAGCAGCGCTT
17068114 AAATAAA-ACGTCGCTAAAGATCATGTTCTT
1 AAA-AAAGACG-CGCTAAAGATCATGTTCTT
17068144 GCGGCGCTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
39 20 0.32
41 4 0.06
42 3 0.05
43 3 0.05
44 12 0.19
45 6 0.10
46 14 0.23
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (40 bp):
AAAAAAGACGCGCTAAAGATCATGTTCTTTAGCAGCGCTT
Found at i:17068112 original size:44 final size:47
Alignment explanation
Indices: 17068045--17068136 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 47
17068035 AGACGCGCTA
*
17068045 AAGATCATGTTCTTTAGCAGCGC-TAAA-AAAGATG-CGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAA-ACGTCGCTAAAGATC
*
17068090 AAGATCATG-TCTTTAGCGGCGCTTAAATAAAACGTCGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAAACGTCGCTAAAGATC
17068136 A
1 A
17068137 TGTTCTTGCG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
44 12 0.29
45 15 0.36
46 15 0.36
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (47 bp):
AAGATCATGTTCTTTAGCAGCGCTTAAATAAAACGTCGCTAAAGATC
Found at i:17068616 original size:20 final size:20
Alignment explanation
Indices: 17068591--17068641 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
17068581 TGACCTCTGT
17068591 TTCTCTCGCTGCAGCCTTGC
1 TTCTCTCGCTGCAGCCTTGC
*
17068611 TTCTCTCGCTGTAGCCTTGC
1 TTCTCTCGCTGCAGCCTTGC
*
17068631 TTCCCTCGCTG
1 TTCTCTCGCTG
17068642 TATCCTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.04, C:0.39, G:0.20, T:0.37
Consensus pattern (20 bp):
TTCTCTCGCTGCAGCCTTGC
Found at i:17068642 original size:20 final size:20
Alignment explanation
Indices: 17068595--17068658 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
17068585 CTCTGTTTCT
* *
17068595 CTCGCTGCAGCCTTGCTTCT
1 CTCGCTGTAGCCTTGCTTCC
17068615 CTCGCTGTAGCCTTGCTTCC
1 CTCGCTGTAGCCTTGCTTCC
* *
17068635 CTCGCTGTATCCTTTACTTCC
1 CTCGCTGTAGCC-TTGCTTCC
17068656 CTC
1 CTC
17068659 ACTGCCGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 29 0.74
21 10 0.26
ACGTcount: A:0.06, C:0.41, G:0.16, T:0.38
Consensus pattern (20 bp):
CTCGCTGTAGCCTTGCTTCC
Found at i:17080810 original size:18 final size:19
Alignment explanation
Indices: 17080781--17080818 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
17080771 AAAAATTTAA
17080781 AAAATAAAATATTTTAATT
1 AAAATAAAATATTTTAATT
*
17080800 AAAAT-AAATATTTTTATT
1 AAAATAAAATATTTTAATT
17080818 A
1 A
17080819 TTCGGCCGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATAAAATATTTTAATT
Found at i:17085006 original size:17 final size:20
Alignment explanation
Indices: 17084978--17085022 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
17084968 ACTCAAGAAA
17084978 AATTTAAATAATA-TA-TAAT
1 AATTT-AATAATATTATTAAT
17084997 -ATTTAATAATATTATTAAT
1 AATTTAATAATATTATTAAT
17085016 AATTTAA
1 AATTTAA
17085023 GTTAAGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 4 0.17
20 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTAATAATATTATTAAT
Found at i:17085780 original size:14 final size:14
Alignment explanation
Indices: 17085738--17085785 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
17085728 CTTAAACCTT
17085738 GTTCAGGGTTTAAG
1 GTTCAGGGTTTAAG
17085752 G-TCAGGG-TTACAG
1 GTTCAGGGTTTA-AG
*
17085765 GTTTAGGGTTTAAG
1 GTTCAGGGTTTAAG
17085779 GTTCAGG
1 GTTCAGG
17085786 ATTCTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 14 0.48
15 3 0.10
ACGTcount: A:0.21, C:0.08, G:0.38, T:0.33
Consensus pattern (14 bp):
GTTCAGGGTTTAAG
Found at i:17088728 original size:13 final size:13
Alignment explanation
Indices: 17088710--17088750 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
17088700 GGATATTACA
17088710 TAGGGTTTGAGTT
1 TAGGGTTTGAGTT
*
17088723 TAGGGTTTGAGGT
1 TAGGGTTTGAGTT
*
17088736 TCGAGGTTTGAGTT
1 TAG-GGTTTGAGTT
17088750 T
1 T
17088751 GAGGTTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.44
Consensus pattern (13 bp):
TAGGGTTTGAGTT
Found at i:17088756 original size:13 final size:13
Alignment explanation
Indices: 17088713--17088756 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
17088703 TATTACATAG
17088713 GGTTTGAGTTT-A
1 GGTTTGAGTTTGA
*
17088725 GGGTTTGAGGTTCGA
1 -GGTTTGA-GTTTGA
17088740 GGTTTGAGTTTGA
1 GGTTTGAGTTTGA
17088753 GGTT
1 GGTT
17088757 CGGAATTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.59
14 10 0.37
15 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.41, T:0.43
Consensus pattern (13 bp):
GGTTTGAGTTTGA
Found at i:17090647 original size:2 final size:2
Alignment explanation
Indices: 17090640--17090671 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17090630 ACAAAAGATA
17090640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17090672 GAGAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17094811 original size:163 final size:164
Alignment explanation
Indices: 17094561--17094865 Score: 468
Period size: 163 Copynumber: 1.9 Consensus size: 164
17094551 CCTAAAAATG
* * * * *
17094561 TTGTCTTTAGATGGTCATCATGAGATCCGTTCTTCAGATTCCACCACGAAGGCGTTCCTTTCCAA
1 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
* * *
17094626 AGATAGCTACAAAGGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCC-TTTTAACAGAGTTTGC
66 AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
*
17094690 CACAAGGTATTCATTTGGTGTCCGCCCAAAGGCA
131 CACAAGGCATTCATTTGGTGTCCGCCCAAAGGCA
***
17094724 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTATGTCACGAAGGCATTCATTTCCAA
1 TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
* * *
17094789 AGATAGGTACAAAAGTTTTCCTTTTAGAGTCTCGCCATGAAGACATCCTTTTTAACAGAGATAGC
66 AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
17094854 CACAAGGCATTC
131 CACAAGGCATTC
17094866 CTTTAACTGA
Statistics
Matches: 126, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
163 101 0.80
164 25 0.20
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (164 bp):
TTGTCTTCAGATGGTCATCATGAGAACCGTTCTTCAGATTACACCACGAAGGCATTCATTTCCAA
AGATAGCTACAAAAGCTTTCCTTTTAGAGTCTCGCCACGAAGACATCCTTTTTAACAGAGATAGC
CACAAGGCATTCATTTGGTGTCCGCCCAAAGGCA
Found at i:17094899 original size:29 final size:29
Alignment explanation
Indices: 17094832--17095156 Score: 329
Period size: 29 Copynumber: 11.3 Consensus size: 29
17094822 GCCATGAAGA
17094832 CATCCTTTTTAACAGAGATAGCCAC-AAGG
1 CATCC-TTTTAACAGAGATAGCCACAAAGG
* * *
17094861 CATTCC-TTTAACTGAGATAGTCACCAAGG
1 CA-TCCTTTTAACAGAGATAGCCACAAAGG
* *
17094890 CATCCTTTTAACAGAGAAAACCGA-AAAGG
1 CATCCTTTTAACAGAGATAGCC-ACAAAGG
*
17094919 CATCCTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * * *
17094948 C-TTCTTTT-TCAGAGATCGCCACAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17094975 CTTCCTTTTAATAGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* * *
17095004 CATCATTTTAATAGAGATAGCCACAAAGT
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17095033 CATCTTTTTAACTGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17095062 CATCCTTTTAACAGAGATAGCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
** ** * *
17095091 CATCCTTTT-TTAGAGATCTCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGG
* *
17095119 CATCTTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGG
*
17095148 TATCCTTTT
1 CATCCTTTT
17095157 TCAAAGATCA
Statistics
Matches: 246, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
27 16 0.07
28 55 0.22
29 171 0.70
30 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
CATCCTTTTAACAGAGATAGCCACAAAGG
Found at i:17095042 original size:143 final size:143
Alignment explanation
Indices: 17094828--17095156 Score: 414
Period size: 143 Copynumber: 2.3 Consensus size: 143
17094818 TCTCGCCATG
* * *
17094828 AAGACATCCTTTTTAACAGAGATAGCCAC-AAGGCATTCCTTTAACTGAGATAGTCACCAAGGCA
1 AAGACATCC-TTTTAACAGAGATAGCCACAAAGGCA-TCTTTTAACTGAGATAGCCACAAAGGCA
* *
17094892 TCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAGCCATAAAGGC-TTCTTT
64 TCCTTTTAACAGAGAAAACC-ACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTT
17094955 TTCAGAGATCGCCACA
128 TTCAGAGATCGCCACA
* * *
17094971 AAGACTTCCTTTTAATAGAGATAGCCACAAAGGCATCATTTTAA-TAGAGATAGCCACAAAGTCA
1 AAGACATCCTTTTAACAGAGATAGCCACAAAGGCATC-TTTTAACT-GAGATAGCCACAAAGGCA
* * * *
17095035 TCTTTTTAACTGAGATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTT
64 TCCTTTTAACAGAGAAAACCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTT
* * *
17095100 TTAGAGATCTCCATA
129 TCAGAGATCGCCACA
* * *
17095115 AAGACATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTT
1 AAGACATCCTTTTAACAGAGATAGCCACAAAGGCAT-CTTTT
17095157 TCAAAGATCA
Statistics
Matches: 160, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
142 22 0.14
143 84 0.52
144 53 0.33
145 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (143 bp):
AAGACATCCTTTTAACAGAGATAGCCACAAAGGCATCTTTTAACTGAGATAGCCACAAAGGCATC
CTTTTAACAGAGAAAACCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTTTC
AGAGATCGCCACA
Found at i:17095130 original size:57 final size:57
Alignment explanation
Indices: 17094832--17095176 Score: 281
Period size: 57 Copynumber: 6.0 Consensus size: 57
17094822 GCCATGAAGA
* ** * *
17094832 CATCCTTTTTAACAGAGATAGCCAC-AAGGCATTCCTTTAACT-GAGATAGTCACCAAGG
1 CATCC-TTTTAACAGAGATAGCCACAAAGACA-TCCTTT-TTTAGAGATAGCCACAAAGG
* * * ** *
17094890 CATCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAGCCATAAAGG
1 CATCCTTTTAACAGAGATAGCC-ACAAAGACATCCTTTT-TTAGAGATAGCCACAAAGG
* * * * *
17094948 C-TTCTTTT-TCAGAGATCGCCACAAAGACTTCCTTTTAATAGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTT-TTAGAGATAGCCACAAAGG
* * * *
17095004 CATCATTTTAATAGAGATAGCCACAAAGTCAT-CTTTTTAACTGAGATAGCCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTA--GAGATAGCCACAAAGG
* ** * *
17095062 CATCCTTTTAACAGAGATAGCCATAAAGACATCCTTTTTTAGAGATCTCCATAAAGA
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGATAGCCACAAAGG
* * ** * *
17095119 CATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTTTCAAAGATCA-CCACAAAGG
1 CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGAT-AGCCACAAAGG
17095176 C
1 C
17095177 TTTCTTTTTC
Statistics
Matches: 233, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
55 1 0.00
56 40 0.17
57 98 0.42
58 87 0.37
59 7 0.03
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (57 bp):
CATCCTTTTAACAGAGATAGCCACAAAGACATCCTTTTTTAGAGATAGCCACAAAGG
Found at i:17095171 original size:143 final size:141
Alignment explanation
Indices: 17094810--17095176 Score: 400
Period size: 143 Copynumber: 2.6 Consensus size: 141
17094800 AAAGTTTTCC
* * ** *
17094810 TTTTAGAG-TCTCGCCATGAAGACATCCTTTTTAACAGAGATAGCCACAAGGCATTCCTTTAACT
1 TTTTAGAGATCT--CCATAAAGACAT-CTTTTTAACAGAGATAGCCAAAAGGCA-TCCTTTTTCA
* *
17094874 GAGATAGTCACCAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAG
62 GAGATAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAG
* *
17094939 CCATAAAGGCTTCTT
127 CCATAAAGACTCCTT
* * * * * * *
17094954 TTTCAGAGATCGCCACAAAGACTTCCTTTTAATAGAGATAGCCACAAAGGCATCATTTTAAT-AG
1 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCA-AAAGGCATCCTTTT--TCAG
* * * * *
17095018 AGATAGCCACAAAGTCATCTTTTTAACTGAGATAGCC-ACAAAGGCATCCTTTTAACAGAGATAG
63 AGATAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGA-AAAGGCATCCTTTTAACAGAGATAG
17095082 CCATAAAGACATCCTT
127 CCATAAAGAC-TCCTT
* *
17095098 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCATAAAGGTATCCTTTTTCAAAG
1 TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCA-AAAGGCATCCTTTTTCAGAG
17095163 ATCA-CCACAAAGGC
65 AT-AGCCACAAAGGC
17095177 TTTCTTTTTC
Statistics
Matches: 183, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
142 25 0.14
143 94 0.51
144 62 0.34
145 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (141 bp):
TTTTAGAGATCTCCATAAAGACATCTTTTTAACAGAGATAGCCAAAAGGCATCCTTTTTCAGAGA
TAGCCACAAAGGCATCCTTTTAACAGAGAAAACCGAAAAGGCATCCTTTTAACAGAGATAGCCAT
AAAGACTCCTT
Found at i:17096818 original size:41 final size:41
Alignment explanation
Indices: 17096761--17096849 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
17096751 GCGTTTATAG
17096761 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTCA
1 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTT-A
* *
17096803 AAAAAACT-CCGCTAAAGGTCATGTTCTTTAGCGGCGCTTA
1 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTA
17096843 AAAAAAA
1 AAAAAAA
17096850 GACGCCACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.16
41 30 0.68
42 7 0.16
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (41 bp):
AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTA
Found at i:17096868 original size:43 final size:41
Alignment explanation
Indices: 17096761--17096868 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
17096751 GCGTTTATAG
* * * *
17096761 AAAAAAATGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTC
1 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
* *
17096802 AAAAAAACTCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAA
1 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTT-A
*
17096844 AAAAAAGACGCCACTAAAGATCATG
1 AAAAAA-ACGCCACTAAAGGTCATG
17096869 AAAAAAGACG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 37 0.64
42 6 0.10
43 15 0.26
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
Found at i:17096878 original size:25 final size:25
Alignment explanation
Indices: 17096844--17096893 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17096834 CGGCGCTTAA
17096844 AAAAAAGACGCCACTAAAGATCATG
1 AAAAAAGACGCCACTAAAGATCATG
*
17096869 AAAAAAGACGCCGCTAAAGATCATG
1 AAAAAAGACGCCACTAAAGATCATG
17096894 TTCTTTAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAAAAGACGCCACTAAAGATCATG
Found at i:17096911 original size:68 final size:66
Alignment explanation
Indices: 17096802--17096933 Score: 201
Period size: 68 Copynumber: 2.0 Consensus size: 66
17096792 GCGGCGCTTC
* * *
17096802 AAAAAAACTCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAAAAAAAGACGCCACTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTT-AAAAAAAGACGCCACTAAAGATCA
17096867 TG
65 TG
* *
17096869 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGATGCCGCTAAAGATCA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGACGCCACTAAAGATCA
17096934 AGATCATGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 28 0.47
68 31 0.53
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (66 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAAAAAAGACGCCACTAAAGATCAT
G
Found at i:17096927 original size:42 final size:42
Alignment explanation
Indices: 17096869--17096999 Score: 165
Period size: 42 Copynumber: 3.0 Consensus size: 42
17096859 AAAGATCATG
*
17096869 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTA
1 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
17096911 AAAAAAGATGCCGCTAAAGATCAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAAGACGCCGCT----A--AAGATCATGTTCTTTAGCGGCGCTTA
*
17096959 AATAAAA-ACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AA-AAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
17097000 GATTCACAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
42 39 0.50
44 1 0.01
46 1 0.01
48 33 0.42
49 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:17096941 original size:48 final size:48
Alignment explanation
Indices: 17096885--17096981 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
17096875 GACGCCGCTA
*
17096885 AAGATCATGTTCTTTAGCAGCGCTTAAA-AAAAGATGCCGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAAA-ACGCCGCTAAAGATC
* *
17096933 AAGATCATGTTCTTTAGCGGCGCTTAAATAAAAACGTCGCTAAAGATC
1 AAGATCATGTTCTTTAGCAGCGCTTAAATAAAAACGCCGCTAAAGATC
17096981 A
1 A
17096982 TGTTCTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (48 bp):
AAGATCATGTTCTTTAGCAGCGCTTAAATAAAAACGCCGCTAAAGATC
Found at i:17097029 original size:43 final size:43
Alignment explanation
Indices: 17096933--17097054 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
17096923 GCTAAAGATC
* * * * *
17096933 AAGATCATGTTCTTTAGCGGCGCTTAAAT-AAAAACGTCGCTA
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGCAA
* *
17096975 AAGATCATGTTCTTTAGCGGCGCTTGATTCACAAACGACGCGAA
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGC-AA
**
17097019 AAGA-AATGTTCTTTAGCGGCGCTTTCTTCACAAACG
1 AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACG
17097055 CCGCTATAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 27 0.39
43 38 0.54
44 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (43 bp):
AAGATAATGTTCTTTAGCGGCGCTTAATTCACAAACGACGCAA
Found at i:17097489 original size:21 final size:21
Alignment explanation
Indices: 17097463--17097555 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
17097453 TTCTTTTGAA
*
17097463 CCTCTGTTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
17097484 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
17097505 CCTCTGCTTCCCTCGCTGTAT
1 CCTCTGCTTCTCTCGCTGCAG
* * * * *
17097526 CCTTTACTTCCCTCACTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
17097547 CCTCTGCTT
1 CCTCTGCTT
17097556 TAAGTTGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.05, C:0.42, G:0.15, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:17103067 original size:9 final size:9
Alignment explanation
Indices: 17103055--17103377 Score: 248
Period size: 9 Copynumber: 37.0 Consensus size: 9
17103045 TAAGTAAATA
17103055 ATGTAAGTT
1 ATGTAAGTT
*
17103064 ATGTACGTGT
1 ATGTAAGT-T
17103074 A--TAAGTT
1 ATGTAAGTT
17103081 ATGTAAGTT
1 ATGTAAGTT
17103090 ATGT-A-TT
1 ATGTAAGTT
* *
17103097 AAGTAAGCT
1 ATGTAAGTT
17103106 ATGTAAGTT
1 ATGTAAGTT
* ** *
17103115 GTCAAAGTA
1 ATGTAAGTT
*
17103124 ATGTATGTT
1 ATGTAAGTT
17103133 ATGTAAG-T
1 ATGTAAGTT
17103141 -TGTAAGTT
1 ATGTAAGTT
*
17103149 AT-TATGTATT
1 ATGTAAG--TT
17103159 ATGTAAGTT
1 ATGTAAGTT
17103168 ATGTAAGTT
1 ATGTAAGTT
*
17103177 ATTTAAGTT
1 ATGTAAGTT
17103186 ATGTAAGTT
1 ATGTAAGTT
17103195 AAATGT-A-TT
1 --ATGTAAGTT
*
17103204 ATGTAGGTT
1 ATGTAAGTT
17103213 ATGTAAGTT
1 ATGTAAGTT
* *
17103222 GTGTAAGAT
1 ATGTAAGTT
*
17103231 ATTTAAGTT
1 ATGTAAGTT
17103240 ATGTAAGTT
1 ATGTAAGTT
* *
17103249 TTG-CA-TT
1 ATGTAAGTT
17103256 ATGTAAGTT
1 ATGTAAGTT
17103265 ATGTAAGTT
1 ATGTAAGTT
17103274 ATGTAAGTT
1 ATGTAAGTT
17103283 AAATGT-A-TT
1 --ATGTAAGTT
*
17103292 ATGTAGGTT
1 ATGTAAGTT
17103301 ATGTAAGTT
1 ATGTAAGTT
* *
17103310 GTGTAAGAT
1 ATGTAAGTT
*
17103319 ATTTAAGTT
1 ATGTAAGTT
*
17103328 ATGTGAGTT
1 ATGTAAGTT
*
17103337 TTGT-A-TT
1 ATGTAAGTT
17103344 ATGTAAGTT
1 ATGTAAGTT
* *
17103353 ATGTATGCT
1 ATGTAAGTT
17103362 ATGT-A-TT
1 ATGTAAGTT
17103369 ATGTAAGTT
1 ATGTAAGTT
17103378 GTTATGTTAT
Statistics
Matches: 243, Mismatches: 47, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
7 35 0.14
8 16 0.07
9 173 0.71
10 8 0.03
11 11 0.05
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:17103155 original size:19 final size:19
Alignment explanation
Indices: 17103131--17103169 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17103121 GTAATGTATG
17103131 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
17103150 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
17103169 T
1 T
17103170 GTAAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:17103263 original size:88 final size:88
Alignment explanation
Indices: 17103166--17103366 Score: 357
Period size: 88 Copynumber: 2.3 Consensus size: 88
17103156 ATTATGTAAG
*
17103166 TTATGTAAGTTATTTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
17103231 ATTTAAGTTATGTAAGTTTTGCA
66 ATTTAAGTTATGTAAGTTTTGCA
17103254 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
* *
17103319 ATTTAAGTTATGTGAGTTTTGTA
66 ATTTAAGTTATGTAAGTTTTGCA
* *
17103342 TTATGTAAGTTATGTATGCTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
17103367 TTATGTAAGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (88 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
ATTTAAGTTATGTAAGTTTTGCA
Found at i:17103510 original size:16 final size:16
Alignment explanation
Indices: 17103485--17103522 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
17103475 ATTTTTTTTA
*
17103485 TAAGTGATGTATTATG
1 TAAGTTATGTATTATG
17103501 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
17103517 TAAGTT
1 TAAGTT
17103523 TACATATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:17103744 original size:13 final size:13
Alignment explanation
Indices: 17103726--17103877 Score: 119
Period size: 13 Copynumber: 11.5 Consensus size: 13
17103716 TAAATCTTAG
*
17103726 TAAGTAATGTATT
1 TAAGTAATATATT
*
17103739 TAAGTAACATATT
1 TAAGTAATATATT
*
17103752 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17103765 TAAACAA-ATTTT
1 TAAGTAATATATT
*
17103777 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
17103792 TAAGTAACATATT
1 TAAGTAATATATT
*
17103805 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17103818 TAACCAA-ATTTT
1 TAAGTAATATATT
*
17103830 AGTAAGTAATGTATT
1 --TAAGTAATATATT
17103845 TAAGTAATATATT
1 TAAGTAATATATT
*
17103858 CAAGTAATATATT
1 TAAGTAATATATT
*
17103871 AAAGTAA
1 TAAGTAA
17103878 ATTTTAGTAA
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
12 6 0.06
13 84 0.79
14 10 0.09
15 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:17103785 original size:27 final size:27
Alignment explanation
Indices: 17103752--17103839 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
17103742 GTAACATATT
17103752 TAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATAAATTTAAACAAATTTTAG
** ** *
17103779 TAAGTAATGTATTTAAGTAACATATT--
1 TAAGTAATAAATTTAAACAA-ATTTTAG
*
17103805 TAAGTAATAAATTTAACCAAATTTTAG
1 TAAGTAATAAATTTAAACAAATTTTAG
17103832 TAAGTAAT
1 TAAGTAAT
17103840 GTATTTAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 4 0.08
26 16 0.33
27 24 0.50
28 4 0.08
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (27 bp):
TAAGTAATAAATTTAAACAAATTTTAG
Found at i:17103787 original size:53 final size:53
Alignment explanation
Indices: 17103717--17103887 Score: 272
Period size: 53 Copynumber: 3.2 Consensus size: 53
17103707 ATATATACTT
*
17103717 AAATCTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
*
17103770 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* * * *
17103823 AAATTTTAGTAAGTAATGTATTTAAGTAATATATTCAAGTAATATA-TTAAAGT
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAA-C
17103876 AAATTTTAGTAA
1 AAATTTTAGTAA
17103888 AAAATATGTT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 4 0.04
53 106 0.96
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
Found at i:17104009 original size:18 final size:17
Alignment explanation
Indices: 17103945--17104026 Score: 69
Period size: 18 Copynumber: 4.8 Consensus size: 17
17103935 AATTGTTATT
* *
17103945 TAAGTAATGTAAG-ATA
1 TAAGTTATGTAAGTATG
*
17103961 TAAATTATGTAAGTCATG
1 TAAGTTATGTAAGT-ATG
** *
17103979 TAAAATATTTAAGTAATG
1 TAAGTTATGTAAGT-ATG
17103997 TAAGTTATGTAAGT-TG
1 TAAGTTATGTAAGTATG
*
17104013 TAAGTTTTGTAAGT
1 TAAGTTATGTAAGT
17104027 TGTGTATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 26 0.48
18 28 0.52
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.40
Consensus pattern (17 bp):
TAAGTTATGTAAGTATG
Found at i:17104016 original size:16 final size:16
Alignment explanation
Indices: 17103945--17104029 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
17103935 AATTGTTATT
* * *
17103945 TAAGTAATGTAAGATA
1 TAAGTTATGTAAGTTG
*
17103961 TAAATTATGTAAGTCATG
1 TAAGTTATGTAAGT--TG
** *
17103979 TAAAATATTTAAGTAATG
1 TAAGTTATGTAAGT--TG
17103997 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
*
17104013 TAAGTTTTGTAAGTTG
1 TAAGTTATGTAAGTTG
17104029 T
1 T
17104030 GTATTATGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 29 0.52
18 27 0.48
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:17105227 original size:6 final size:6
Alignment explanation
Indices: 17105216--17105240 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17105206 GCAGAGAGCA
17105216 ACGGTG ACGGTG ACGGTG ACGGTG A
1 ACGGTG ACGGTG ACGGTG ACGGTG A
17105241 TGCAGTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (6 bp):
ACGGTG
Found at i:17107490 original size:114 final size:114
Alignment explanation
Indices: 17107245--17108144 Score: 1047
Period size: 114 Copynumber: 7.9 Consensus size: 114
17107235 CCCAAAACGT
* * * * * * *
17107245 GCCGCTAATAATATGTTTTACCGGCGTTTTCCCGTAAGCGCCACTACTACTAATATACATCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * * * * * *
17107310 CCAAAGCGCTGCGTTTTTGTTAAGATATTTTACGGTGCTTTTCACCAAGC
66 CCAAA-CTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* *
17107360 ACCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17107425 CCAAACTCTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTGACTATTC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* *
17107474 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAAA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
** * * **
17107539 CCAAACTCTGCACTTTGGTTAAGATATTTTGCGGCGCTTCTGACGACGC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* * * * *
17107588 GCCGCTAATACTATGCGTTAGCGACGTTTTCCAATAAGCGCCGCTAATTCTAATATATCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * **
17107653 CCAAACTCTGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGT-
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGAC-AAATC
* *
17107702 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGTCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * **
17107767 CCAAACTCTGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACAACGC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* * *
17107816 GCCGCTAATACTTTCCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17107881 CCAAACTCTGCGTTTTGGTTTATATATTTTGCGGCGCTTTTCACAAATC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* ** * * * *
17107930 GCCGCTAATACT-TGCTTTAGCGGCATTTTTTTCGTATGCGCCACTAATTCTAATATACATAAAG
1 GCCGCTAATACTATGCTTTAGCGGC-GTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAG
*** * * * *
17107994 ACCAAAAAGATGTGTTTTCGTTAAGACT-TTTTGCGGCGCTGTT--CATGATC
65 ACC-AAACTCTGCGTTTTGGTTAAGA-TATTTTGCGGCGCTTTTGACA-AATC
* * * * * * *
17108044 GCCGCTAGTACT-TTCTTTAACGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATCTAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17108108 CCAAAACGCTGCGTTTTGATTAAGAGATTTTGCGGCG
66 CC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCG
17108145 GTTGATTGTA
Statistics
Matches: 685, Mismatches: 93, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
113 75 0.11
114 519 0.76
115 90 0.13
116 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (114 bp):
GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
Found at i:17111827 original size:14 final size:14
Alignment explanation
Indices: 17111808--17111841 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17111798 ATTGAAAATT
*
17111808 AAATTTGGATTTTA
1 AAATTTGAATTTTA
*
17111822 AAATTTTAATTTTA
1 AAATTTGAATTTTA
17111836 AAATTT
1 AAATTT
17111842 ATGATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
AAATTTGAATTTTA
Found at i:17112340 original size:61 final size:59
Alignment explanation
Indices: 17112217--17112340 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
17112207 CCTAAATATA
** * * *
17112217 AAAAAAATCAACAAATTTAGCCCTCAATGTTTACAAAATGTCATTTTAGTTCTAATTTT
1 AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAATGTCAATTTAGTTCTAACTCT
* * * *
17112276 AAAAAAGTCAATAAATTTAGCCCTCAGCATTTGCAAAAGTTGTCAATTTAG-TCTTAACTCT
1 AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAA--TGTCAATTTAGTTC-TAACTCT
17112337 AAAA
1 AAAA
17112341 TAAAAAAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
59 32 0.60
60 2 0.04
61 19 0.36
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (59 bp):
AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAATGTCAATTTAGTTCTAACTCT
Found at i:17114423 original size:27 final size:27
Alignment explanation
Indices: 17114369--17114431 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
17114359 AAACTGTTGC
* *
17114369 TTTTTTTTTTACTGTTCTTGCTTCTTT
1 TTTTTTTTTTACTGTTCTTGCCTATTT
* * *
17114396 TTTTTTTTTTACTTTTTTTTCCTATTT
1 TTTTTTTTTTACTGTTCTTGCCTATTT
*
17114423 TTTTGTTTT
1 TTTTTTTTT
17114432 GTTTTCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.79
Consensus pattern (27 bp):
TTTTTTTTTTACTGTTCTTGCCTATTT
Found at i:17114425 original size:21 final size:22
Alignment explanation
Indices: 17114399--17114445 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17114389 CTTCTTTTTT
17114399 TTTTTTTACTTTT-TTTTC-CTA
1 TTTTTTT-CTTTTGTTTTCACTA
*
17114420 TTTTTTTGTTTTGTTTTCACTA
1 TTTTTTTCTTTTGTTTTCACTA
17114442 TTTT
1 TTTT
17114446 GCTACCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTTTCTTTTGTTTTCACTA
Found at i:17115365 original size:40 final size:39
Alignment explanation
Indices: 17115278--17115367 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
17115268 TAAAAATATA
* *
17115278 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
17115317 TTTAAATATAAT-AAATATTTTATTATATTTA-TAGTAGTGTT
1 TTT-AATATAATAAAATA-TTTATTATATTTATTAGT-GT-TT
17115358 TTTAATATAA
1 TTTAATATAA
17115368 ATACTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
39 11 0.24
40 29 0.64
41 5 0.11
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
Found at i:17120578 original size:3 final size:3
Alignment explanation
Indices: 17120570--17120603 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17120560 TGCATTAATG
17120570 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17120604 ATAACTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17121340 original size:11 final size:10
Alignment explanation
Indices: 17121313--17121708 Score: 129
Period size: 10 Copynumber: 40.6 Consensus size: 10
17121303 TATTTTTCTC
*
17121313 ATAAAAAATG
1 ATAAAAAATT
*
17121323 ATTAAAAATT
1 ATAAAAAATT
17121333 ACT-AAAAATT
1 A-TAAAAAATT
*
17121343 AGTAAAATATT
1 A-TAAAAAATT
*
17121354 ATAAAATA-T
1 ATAAAAAATT
*
17121363 -TAAAATATT
1 ATAAAAAATT
*
17121372 GAT-ATAAATT
1 -ATAAAAAATT
*
17121382 -TATAAAATT
1 ATAAAAAATT
*
17121391 ATAAAAAATA
1 ATAAAAAATT
* *
17121401 ATAATAACTT
1 ATAAAAAATT
*
17121411 AT-AAATATT
1 ATAAAAAATT
17121420 AT--AAAATT
1 ATAAAAAATT
* * *
17121428 CTAATAAGTT
1 ATAAAAAATT
17121438 AT-AAAAATT
1 ATAAAAAATT
* *
17121447 TTATAAAATT
1 ATAAAAAATT
*
17121457 A-ATAAAATTT
1 ATA-AAAAATT
**
17121467 ATTTAAAATT
1 ATAAAAAATT
*
17121477 TTATAAAAATGT
1 ATA-AAAAAT-T
*
17121489 AT-AAGAATT
1 ATAAAAAATT
*
17121498 CTTAAAAAATT
1 -ATAAAAAATT
*
17121509 -TTAAAAA-T
1 ATAAAAAATT
*
17121517 AT-TAAAATT
1 ATAAAAAATT
* *
17121526 GATATAAACTT
1 -ATAAAAAATT
17121537 AT-AAAAATT
1 ATAAAAAATT
17121546 ATAAAAAAATT
1 AT-AAAAAATT
*
17121557 ATAAAAACTTT
1 ATAAAAA-ATT
* *
17121568 TTTAAAAATT
1 ATAAAAAATT
17121578 AT-AAAAA-T
1 ATAAAAAATT
* *
17121586 CT-AATAATT
1 ATAAAAAATT
*
17121595 ATAAAAAACT
1 ATAAAAAATT
17121605 AT--AAAATT
1 ATAAAAAATT
*
17121613 A-ATAAAATAT
1 ATAAAAAAT-T
**
17121623 ATTTAAAATT
1 ATAAAAAATT
*
17121633 CTATAAAAATT
1 ATA-AAAAATT
17121644 AATAAAAAATT
1 -ATAAAAAATT
*
17121655 ATAAATAA-T
1 ATAAAAAATT
*
17121664 AT-AAAATTT
1 ATAAAAAATT
* * *
17121673 TTAATAAACT
1 ATAAAAAATT
17121683 ATAAAAAATT
1 ATAAAAAATT
17121693 ATAAAAATATT
1 ATAAAAA-ATT
17121704 A-AAAA
1 ATAAAA
17121709 TATAAAATTT
Statistics
Matches: 283, Mismatches: 69, Indels: 68
0.67 0.16 0.16
Matches are distributed among these distances:
8 34 0.12
9 53 0.19
10 127 0.45
11 65 0.23
12 4 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:17121341 original size:20 final size:19
Alignment explanation
Indices: 17121316--17121715 Score: 97
Period size: 19 Copynumber: 21.2 Consensus size: 19
17121306 TTTTCTCATA
17121316 AAAAATGATTAAAA-ATTACT
1 AAAAAT-ATTAAAATATTA-T
*
17121336 AAAAATTAGTAAAATATTAT
1 AAAAA-TATTAAAATATTAT
17121356 -AAAATATTAAAATATTGAT
1 AAAAATATTAAAATATT-AT
*
17121375 ATAAAT-TTATAAA-ATTAT
1 AAAAATATTA-AAATATTAT
17121393 AAAAA-A-TAATAATAACTTAT
1 AAAAATATTAA-AAT-A-TTAT
*
17121413 --AAATATTATAAA-ATTCT
1 AAAAATATTA-AAATATTAT
* * *
17121430 AATAAGTTATAAAAATTTTAT
1 AA-AA-ATATTAAAATATTAT
* *
17121451 AAAATTAATAAAAT-TTATT
1 AAAAATATTAAAATATTA-T
* * *
17121470 TAAAATTTTATAAAAATGTAT
1 AAAAATATTA-AAATAT-TAT
* * * *
17121491 AAGAATTCTTAAAAAATTTT
1 AA-AAATATTAAAATATTAT
*
17121511 AAAAATATTAAAAT-TGAT
1 AAAAATATTAAAATATTAT
*
17121529 ATAAACT-TATAAAA-ATTAT
1 A-AAAATAT-TAAAATATTAT
* *
17121548 AAAAAAATTATAAAAACTT-T
1 AAAAATATTA-AAATA-TTAT
17121568 -----T-TTAAAA-ATTAT
1 AAAAATATTAAAATATTAT
* *
17121580 AAAAAT-CTAATA-ATTAT
1 AAAAATATTAAAATATTAT
*
17121597 AAAAA-ACTATAAAAT-TAAT
1 AAAAATA-T-TAAAATATTAT
17121616 AAAATATATTTAAAAT-TCTAT
1 AAAA-ATA-TTAAAATAT-TAT
* *
17121637 AAAAATTAATAAAAAATTAT
1 AAAAA-TATTAAAATATTAT
*
17121657 AAATAATA-TAAAAT-TTTT
1 AAA-AATATTAAAATATTAT
*
17121675 AATAAACTA-TAAAAAATTAT
1 AA-AAA-TATTAAAATATTAT
17121695 AAAAATATTAAAA-A-TAT
1 AAAAATATTAAAATATTAT
17121712 AAAA
1 AAAA
17121716 TTTTAAATTT
Statistics
Matches: 287, Mismatches: 43, Indels: 103
0.66 0.10 0.24
Matches are distributed among these distances:
11 2 0.01
12 2 0.01
13 3 0.01
14 3 0.01
16 1 0.00
17 29 0.10
18 43 0.15
19 87 0.30
20 70 0.24
21 39 0.14
22 8 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAATATTAT
Found at i:17121523 original size:156 final size:156
Alignment explanation
Indices: 17121346--17121642 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 156
17121336 AAAAATTAGT
* *
17121346 AAAATATTATAAAATATTAAAATATTGATATAAATTTAT-AAAATTAT-AAAAAATAATAATAAC
1 AAAATATTATAAAATATT-AAA-ATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAAC
* * ** *
17121409 -TTATAAATATTATAAAATTCTAATAAGTTATAAAAATTTTATAAAATTAATAAAATTTATTTAA
64 TTTATAAAAATTATAAAAATCTAATAA-TTATAAAAA-ACTATAAAATTAATAAAATATATTTAA
*
17121473 AATTTTATAAAAATGTATAAGAATTCTTAA
127 AATTCTATAAAAATGTATAAGAATTCTTAA
* *
17121503 AAAATTTTA-AAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATTATAAAAACTT
1 AAAATATTATAAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAAC-T
*
17121567 TTTTAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAAT
65 TTATAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAAT
17121632 TCTATAAAAAT
130 TCTATAAAAAT
17121643 TAATAAAAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
154 15 0.12
155 11 0.09
156 59 0.47
157 17 0.14
158 23 0.18
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (156 bp):
AAAATATTATAAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAACTT
TATAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAATT
CTATAAAAATGTATAAGAATTCTTAA
Found at i:17121550 original size:28 final size:28
Alignment explanation
Indices: 17121326--17121715 Score: 137
Period size: 29 Copynumber: 13.5 Consensus size: 28
17121316 AAAAATGATT
*
17121326 AAAAATTACTAAAAATTAGTAAAATATTATA
1 AAAAATTA-TAAAAATTA-TAAAAT-TCATA
* *
17121357 AAATATTA-AAATATTGATATAAATT--TA
1 AAAAATTATAAAAATT-ATA-AAATTCATA
* *
17121384 TAAAATTATAAAAAATAATAATAACTT-AT-
1 AAAAATTAT-AAAAATTATAA-AA-TTCATA
* *
17121413 AAATATTAT-AAAATTCTAATAAGTT-AT-
1 AAAAATTATAAAAATTATAA-AA-TTCATA
* *
17121440 AAAAATTTTATAAAATTAATAAAATTTATTTA
1 AAAAATTATA-AAAATT-ATAAAATTCA--TA
** *
17121472 AAATTTTATAAAAATGTATAAGAATTCTTA
1 AAAAATTATAAAAAT-TATAA-AATTCATA
* *
17121502 AAAAATTTTAAAAA-TATTAAAATTGATA
1 AAAAATTATAAAAATTA-TAAAATTCATA
* *
17121530 TAAACTTATAAAAATTATAAAAAAATT-ATA
1 AAAAATTATAAAAATTAT---AAAATTCATA
* * *
17121560 AAAACTTTTTTAAAAATTATAAAAATC-T-
1 AAAA--ATTATAAAAATTATAAAATTCATA
* * *
17121588 AATAATTATAAAAAACTATAAAATTAATA
1 AAAAATTAT-AAAAATTATAAAATTCATA
* *
17121617 AAATATATT-TAAAATTCTATAAAAATTAATA
1 AAA-A-ATTATAAAAAT-TAT-AAAATTCATA
**
17121648 AAAAATTATAAATAA-TATAAAATTTTTA
1 AAAAATTATAAA-AATTATAAAATTCATA
* * * *
17121676 ATAAACTATAAAAAATTATAAAAAT-ATT
1 AAAAATTAT-AAAAATTATAAAATTCATA
17121704 AAAAA-TATAAAA
1 AAAAATTATAAAA
17121716 TTTTAAATTT
Statistics
Matches: 275, Mismatches: 49, Indels: 75
0.69 0.12 0.19
Matches are distributed among these distances:
26 7 0.03
27 47 0.17
28 53 0.19
29 66 0.24
30 38 0.14
31 40 0.15
32 24 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAAATTATAAAAATTATAAAATTCATA
Found at i:17121663 original size:17 final size:18
Alignment explanation
Indices: 17121570--17121714 Score: 77
Period size: 17 Copynumber: 7.7 Consensus size: 18
17121560 AAAACTTTTT
*
17121570 TAAAAATTATAAA-AATC
1 TAAAAATTATAAATAATA
* *
17121587 TAATAATTATAAAAAACTA
1 TAAAAATTATAAATAA-TA
*
17121606 T-AAAATTAATAAAATATATT
1 TAAAAATT-AT-AAATA-ATA
*
17121626 TAAAATTCTATAAA-AATTAA
1 TAAAAAT-TATAAATAA-T-A
17121646 TAAAAAATTATAAATAATA
1 T-AAAAATTATAAATAATA
* *
17121665 T-AAAATTTTTAATAAACTA
1 TAAAAATTATAAAT-AA-TA
17121684 TAAAAAATTATAAA-AATA
1 T-AAAAATTATAAATAATA
17121702 TTAAAAA-TATAAA
1 -TAAAAATTATAAA
17121715 ATTTTAAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 32
0.69 0.08 0.22
Matches are distributed among these distances:
17 28 0.28
18 17 0.17
19 14 0.14
20 17 0.17
21 23 0.23
22 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATTATAAATAATA
Found at i:17121695 original size:156 final size:153
Alignment explanation
Indices: 17121325--17121715 Score: 420
Period size: 156 Copynumber: 2.5 Consensus size: 153
17121315 AAAAAATGAT
* * *
17121325 TAAAAATTACTAAAAATTAGTAAAATATTATAAAATATTAAAATATTGATATAAATTTAT-AAAA
1 TAAAAATTAATAAAAATTA-T-AAATAATATAAAATATTAAAA-ATTGATATAAAATTATAAAAA
* * * * **
17121389 TTATAAAAAATAATAATAACTTATAAATATTATAAAATTCTAATAAGTTATAAAAATTTTATAAA
63 TTATAAAAAATTATAAAAACTTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTATAAA
* *
17121454 ATTAATAAAATTTATTTAAAATTTTA
128 ATTAATAAAATATATTTAAAATTCTA
* * * * *
17121480 TAAAAATGT-ATAAGAATTCTTAAAAAATTTTAAAAATATT-AAAATTGATATAAACTTATAAAA
1 TAAAAAT-TAATAAAAATT-ATAAATAA-TAT-AAAATATTAAAAATTGATATAAAATTATAAAA
*
17121543 ATTATAAAAAAATTATAAAAACTTTTTTAAAAATTATAAAAATCTAATAA-TTATAAAAA-ACTA
62 ATTAT-AAAAAATTATAAAAAC--TTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTA
17121606 TAAAATTAATAAAATATATTTAAAATTCTA
124 TAAAATTAATAAAATATATTTAAAATTCTA
* * *
17121636 TAAAAATTAATAAAAAATTATAAATAATATAAAATTTTTAATAAACT-ATAAAAAATTATAAAAA
1 TAAAAATTAAT-AAAAATTATAAATAATATAAAA-TATTAA-AAATTGATATAAAATTATAAAAA
*
17121700 -TATTAAAAA-TATAAAA
63 TTATAAAAAATTATAAAA
17121716 TTTTAAATTT
Statistics
Matches: 198, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
153 7 0.04
154 28 0.14
155 37 0.19
156 84 0.42
157 19 0.10
158 23 0.12
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (153 bp):
TAAAAATTAATAAAAATTATAAATAATATAAAATATTAAAAATTGATATAAAATTATAAAAATTA
TAAAAAATTATAAAAACTTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTATAAAATT
AATAAAATATATTTAAAATTCTA
Found at i:17128249 original size:134 final size:134
Alignment explanation
Indices: 17127996--17128241 Score: 280
Period size: 134 Copynumber: 1.8 Consensus size: 134
17127986 CAAAACTATC
* ** * * *
17127996 ATTTTTAAAGCTCGCTAATTTATGATCACTACTTCAGTTCATTGATTTACGATCATAAACACGTC
1 ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
* * * * *
17128061 ATTAAGTGTTCATCGAGTTACGATCGCTACTTCACTTAAATAGTTCGCTAATTTATAATCATAAC
66 ATTAAGAGTTCATCGAGTTACGATCGCTACTCCACTTAAACAGGTCACTAATTTATAATCATAAC
17128126 TTTT
131 TTTT
* * * **
17128130 ATTTTTAAAGCTCGTTAAGTTACAATCACAACTCCAATTGATTGATTTACGATCATGAACATTTC
1 ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
* * * *
17128195 ATTAAGAGTTCGTCGATTTATGATCG-TAACTCCA-TTGAAGCAGGTCA
66 ATTAAGAGTTCATCGAGTTACGATCGCT-ACTCCACTT-AAACAGGTCA
17128242 TTGATTTAGG
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
133 3 0.03
134 87 0.97
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (134 bp):
ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
ATTAAGAGTTCATCGAGTTACGATCGCTACTCCACTTAAACAGGTCACTAATTTATAATCATAAC
TTTT
Found at i:17130758 original size:568 final size:570
Alignment explanation
Indices: 17128170--17132646 Score: 4381
Period size: 572 Copynumber: 7.9 Consensus size: 570
17128160 ACTCCAATTG
* * ** * * *
17128170 ATTGATTTACGATCATGAACATTTCATTAAGAGTTCGTCGATTTATGATCGTAACTCCA-TTGAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTT-AA
** * * * * * * *
17128234 GCAGGTCATTGATTTAGGATCACAATTGTCATTTTTAAAGTTCACTGATTTACAATCACGACTTT
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
* * * * * * * * *
17128299 AGTTCAATGATTTATGGTAATGAACACTTCTTGATTTACAAGGAATATAAATTTGCTAAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* ** * *
17128364 TCCAAGCAAGGGTAGAGATGATTTTCAACTA-CTTAATTCTGACCTCTCTGCCTTTCAGAGCAAG
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGC-TAATTCTGACCTCTCTGCCCTTCAAAGCAAG
* * *
17128428 TTAGATGCTAGAGATGATAAATATAGACGTGTCGAGGAAGAACTCTAAACTGACCTTGAAAGAAA
259 TTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAA-AAA
* * *
17128493 -GAGAATAGAGGAACCAATTTTGTTACATTGTCTTTATGATGCTGAAGCTACTTCTCTTCACAAT
323 GGAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCAC-AT
* * * * * * *
17128557 ATGTCTGAAACGAGGCTTAAAATGGATC-AATTTGCTAAAAAA-AAGGAACTTTCTAAAAAGCTT
387 ACGTCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTT
* * * ** **
17128620 TAATTGATTTACGATCACGACTTTCTACTTACAGGATTTTATTAATCTCATGGTCTACTGATTTA
452 TAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTA
* * * * * * * * * * *
17128685 CAATCA-AAATTTTTATTTTTAAAGTTCGTTAATTTATGATCAC-GACTTCAATTA
517 CGATCATAACTGTCT-TTTTTACAGCTCGTTAATTTACGTTTACAG-CTTCAGTTC
** * * * *
17128739 ATTGATTTATGATCGTGAACCCTTCATTAA-ATGTTCACCATTTTACGATCGTAACTCCACTTAA
1 ATTGATTTACAATCATGAACACTTCATTAAGA-GTTCACCAATTTACGATCGCAACTCCACTTAA
** * * *
17128803 ATAGTTCGTTGATTTATTATTATAACTGTCATTTTTAAAGCTCGCTGATTAACAATCAC-AGCTT
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGA-CTT
* * *
17128867 CAATTCATTGATTTATGATCATGAACACTTCTTGGTTCAAAAGGAATATAAATTTGCTGAACTAG
129 CAATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAG
* * * *
17128932 TTCCAAGCATGGTCAGAGATGATTTTCAACTAGCTAATT-TGTCCTCTTTGCCCTTCAGAGCAAG
194 TTCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAG
* * * * * *
17128996 TTAGATGTTAGAGATGATAAATAAAGGCGTGTTAAGGAAGAACTAAAAACTAACCTTGAAAGAAG
259 TTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAG
* * * * * *
17129061 AAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAACTACTTTTC-TAAAATAG
324 GAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACAT--
* * *
17129125 ACGTTTGAAACGAGGCTCGAAATGGA-CTGATTTTTTC-AAAAAACAAGGAACTTTTTGAAAAGC
387 ACGTCTGAAACGAGGCTTGAAATGGATC-GA-TTTTCCAAAAAAACAAGGAACTTTTTGAAAAGC
* * * * *
17129188 TTTAGCTGATTTACGATCACGACCTTGTACTTACAAGATTTTACGAATCTCATGGTCC-ATGGAT
450 TTTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCT-GAT
* * * *
17129252 TTACACGATCAAAACTGTCTTTTTTACTGCTTGCTAATTTACGTTTACAGCTTCAGTTC
514 TT--ACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * * * * * *
17129311 ATTAATTTACAATTAAGAACACTTCATTAAGGGTTCGCCGATTTACGATCGCTACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * *
17129376 TAGTTCGTTGATTTACGATCATAATTGTCAATTTTAAAGCTCACTTATTTACAATCATGACTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * * *
17129441 TTTCATTTATTTACGATCACGAACACTTCTTGGTTCATAAGGAACGTAAATTTGCTGAACTAGTT
131 ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
** ** * * *
17129506 CCAAGTGTGGCCAGAGATGATTTTTTACTAGCTAATTTTGACCTCTCTACCCTTTAAAGCAAGCT
196 CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAG-T
* * * * * * *
17129571 CA-ATGCTAGAGATGATAAATATAGACGTGTTGAGGAAGAACTTAAAACTAACATTGAAAGAGGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * * *
17129635 AGGATAGAGGAATCAATTTTGTTAAATTGTCTTTGTGATGCTGAAGCTACATCTCTTCACCATAT
325 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATAC
* * * * ** * * *
17129700 GTTTCAAATGAGGCTTGCAATGGATCGATCTTTTGAAAAAAACAAGGAACTATTTGAAAAACTTC
389 GTCTGAAACGAGGCTTGAAATGGATCGAT-TTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTT
* ** * **
17129765 AACTGATTTATGATCACAACCTTCTACTTACAGGATTTTACGAATCTCACGGTTTGC-GAGTTTA
453 AACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGA-TTTA
** * * * * *
17129829 CGATCATAA-TAGTCAATTGT-CAAGCTCGTTGATTTACGTATACAACTTTAGTTC
517 CGATCATAACT-GTCTTTTTTAC-AGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* ** * * * * *
17129883 -TCTTATTTATGATAATGAACACTTAATTAAGAGTTCACCGATTTACGATCACAACTCCATTTAA
1 AT-TGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAA
* ** * *
17129947 ATAGTTCTTTGATTTATAATCACAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTC
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
** * * ** * * * * *
17130012 AATTCATCAATTTACGATAATTAACAGGTCCTAGTTTACAAAGAAAGTAAATTTGCTGAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * * *
17130077 TCCAAGCGTGACCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCGTTCAAAACAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * *
17130142 TAGATGCTAGACATGATTAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATTGAAAAAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * *
17130207 AAGATAG-GGTAATAAATTTTGTTACTTTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACAGTC
325 AGGATAGAGG-AATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACA-TA
* * ** * ** * *
17130271 CATCTGAAACAAGGCTTGAAATGGATTAATTTGCCAAAAAAACAAGGAACTTCCT-CAAA-TTTT
388 CGTCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTT
* * * * * * *
17130334 AGCTGATTTACGATCATGACCTTGTACTTATAGGATTATACAAATCT-GTGGATCCACTGATTTA
453 AACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGG-TCCGCTGATTTA
* * * * * *
17130398 CTATCTTAACTGTCTTTTTTACATCTTGTTGATTTACATTTACAGCTTCAGTTC
517 CGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* *
17130452 ATTGATTTACAATCATGAACACTTCATTAGGAGTTCACCAATTTACGATCACAACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* ** * * *
17130517 TAGTTCATTGATTTACGATCACAACTGAGATTTTTAAAGCTCGTTGA-TTACAATCACGGCTCCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * * *
17130581 GTTCATTGATTTACGATCATGAACACTT-TCGGGTTCATAAGAAATTTAAATTTGCTGAACTAGT
131 ATTCATTGATTTACGATCATGAACACTTCT-TGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* ** * *
17130645 TCCAAGCGTGGTTAGAGATGATTTTCAACTAGCTAATTTTGACCTCTCTGTCCTTCAAAGCAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * * * * * *
17130710 GAGATGTTGGAGATGATGAATATAGACGTATTGAGGAAGAACTCAAAACTGACTTTGAAAGAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * * *
17130775 -GCGATAGATGAATCAATTTTGTTACATTGTTTTTGTGATGCTGAAGCTATTTCTCTTCATCATA
325 AG-GATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATA
* * * * * *
17130839 CATCTAAAACGAGGC-TGAAAATGGATCGATCTACTCAAAAAAAAAAGGAAATTTTTGAAAAGCT
388 CGTCTGAAACGAGGCTTG-AAATGGATCGATTTTC-CAAAAAAACAAGGAACTTTTTGAAAAGCT
* ** * * * * * *
17130903 TCAGTTGATTTATGGTCATGACCTTCTACTTACAAGATTTTATGAATCTCACGGTCCGTTGATTT
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTT
* * * * ** * * *
17130968 ACGATCAAAACTGTCATTTTTAAAACTCACTAATTTACGATCAC-GACTTCAATTC
516 ACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAG-CTTCAGTTC
* * * *
17131023 ATTGATTTACAATCATGAATC-TTTCATTAAGAGTTCACCGATTTACAATCGTAACTCCACTTAA
1 ATTGATTTACAATCATGAA-CACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAA
* * * * * * * * *
17131087 ATAGTTTGTTTATTAACTATCACAACTGTTATTTTTAAAGTTTGTTGATTTACAATCACAACTTC
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
* * **
17131152 AATTCATTGATTTACGATCATGAACACTTCTTGGTTTACAAGGAATATAAATTTTTTGAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * * * * *
17131217 T-TAAGCATTGCCGGAGATGATTTTCAACTAGCTAATTCTGGCCTCTCTACCCTTCAGAGTAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * * * *
17131281 TAGATGCTAGAGATAATGAATATAGACGTGCTGTA-AAAGAACTCAAAACTAACCTTG---AAAG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTG-AGGAAGAACTCAAAACTGACCTTGAAAAAAG
* * * * ** * *
17131342 GAGGATAGAGGAATCAATTTTTTTAAATTGTATTTGTGATACTAAAGCTACATCTCTTCACCATA
324 GAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATA
* * * * * * * *
17131407 CGTTTGAAATGAGGTTTGAAATGGATCGATCTTCTCAAAATAGA-AAGGAACTATCTAAAAAGCT
388 CGTCTGAAACGAGGCTTGAAATGGATCGATTTTC-CAAAA-AAACAAGGAACTTTTTGAAAAGCT
* * *
17131471 TCAACTAATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCTGC-GAATT
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTG-ATT
* * * * * ** * * * *
17131535 TACTATCATAATTGTCATTTGTAAAGCTCACTGATTTATGTATACAACTTCAGTTC
515 TACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * * * *
17131591 ATTTATTTATAATTATGAACACTTAATTAAGAG----------T-CG--CG--ACTACACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * **
17131641 CAGTTTGTTGATTTATGATCACAACTATCAGTTTTAAAGCTTACTGATTTACAATCACGACTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * *
17131706 ATTCATTGATTTACGATCATGAACACTTCTTGGTCCACAAGGAATGTAAATTTTCTAAACTGGTT
131 ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
* * * * * * * *
17131771 TCAAGCGTGGTCAGAGATGATTTTCAACTAGCTAGTTCTGTCATCTCTACCCTTCAGAGCAAGTT
196 CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGTT
* * * * *
17131836 AGATGCTAGACATGATAAATAAAGGCATGTTTAGGAAGAACTCAAAACTGACCTTGAAAGAAGGA
261 AGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGGA
* * * *
17131901 GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTTCTTTTCACCGTCCG
326 GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATACG
* * * *
17131966 TCTAAAACGAGGCTTAAAATGAATCGATTTTCTAAAAAAGACAAGGAACTTTTTGAAAAGCTTTA
390 TCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAA-ACAAGGAACTTTTTGAAAAGCTTTA
* * * * * * *
17132031 ACTAATTTACGATCATGACCTTATACTTATAGGATTATACGAATCTAACGGTCCGCAGATTTACG
454 ACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTACG
* * * * *
17132096 ATCATAAGTGTCTTTTTTACAGCTTGTTTATTTACGTTTACAACTTTAGTTC
519 ATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * *
17132148 TTTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACAATTGCAACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * * *
17132213 TAGTTCGTTGAGTTACAATCACAACTATTATTTTTAAAGCTCACTGATTCACAATCACGGCTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* *
17132278 GTTCATTAATTTACGATCATGAACAC-TCTTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
131 ATTCATTGATTTACGATCATGAACACTTC-TTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * *
17132342 TCCAAGCATGGCTAGAGATGATTTTCAGCTAGCTAACTCTGACTTCTCTGCCCTTCAAAGCAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* *
17132407 TAGATGCTAGAGATGATAAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATT---AAAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * *
17132469 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTT-T-TTGGAACCGT
325 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTT--CA-CAT
* ** * * * *
17132532 ACGTCTAAAACGAGGCTCAAAATTGATCGATTTGCTC-AATAAACAAGGAATTTTTTGAAAAGCT
387 ACGTCTGAAACGAGGCTTGAAATGGATCGATTTTC-CAAAAAAACAAGGAACTTTTTGAAAAGCT
* ** * * *
17132596 TCAGTTGATTTACGATCACGACCTTGTACTTACAGGGTTTTACGAATCTCA
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCA
17132647 CTGATTTATG
Statistics
Matches: 3215, Mismatches: 608, Indels: 171
0.80 0.15 0.04
Matches are distributed among these distances:
553 124 0.04
554 99 0.03
555 3 0.00
556 5 0.00
557 228 0.07
558 2 0.00
566 2 0.00
567 12 0.00
568 688 0.21
569 502 0.16
570 92 0.03
571 310 0.10
572 906 0.28
573 159 0.05
574 81 0.03
575 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (570 bp):
ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGTT
AGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGGA
GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACATACGT
CTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTTAAC
TGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTACGAT
CATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
Found at i:17134327 original size:572 final size:566
Alignment explanation
Indices: 17132649--17134547 Score: 2034
Period size: 572 Copynumber: 3.3 Consensus size: 566
17132639 GAATCTCACT
* * *
17132649 GATTTATGATCGCAACTAC-ACTTAAACAGTTT-GTTGATTTATGATCA-AACTGTCATTTTCAA
1 GATTTACGATCGCAACTACTACTTAAACA-TTTCATTGATTTATGATCACAACTGTCATTTTTAA
* * * * *
17132711 AGCTCACTGATTTACAAT-TTGGCTTCAGTTCATTGATTTATGATCATGAACACTTGTTGGTTCA
65 AGCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTTCA
* *
17132775 CT-AGGAATGTAAATTTGCTGAACTAGTTCTAAGCGTGGTCAGAGATGATTTTCAACTAGCTAAT
130 -TAAGGAATGTAAATTTACTGAACTAGTTC-AAGCGTGGCCAGAGATGATTTTCAACTAGCTAAT
* * * *
17132839 TCTGACCTCTTTTCCCTTCATAGCAAGTTAAATTCTAGAGATGATAAATAAAGACGTGTTGAGGA
193 TCTGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGA
* * *
17132904 AGAACTCAAAACTAACCTTGAAAGGCA-GAGGATAGAGGAATCAATTTTGTTAAATTTTTCTTTA
258 AGAACTCAAAACTAACCTTGAAA-GAAGGAGGATAAAGGAATCAATTTTGTTAAA-TTGTCTTTA
* * * *
17132968 TTAGGCTGAAGCTACTTCTCTTCACCTTCCGTCTGAAACAAGGCTTGAAATGGATCGACCTGT-T
321 TTA-GCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCT-TCT
* * * * *
17133032 CAAAAGAAGAAGAAATTGTTCT-AAAAGTTTTAATTGATTTACAATCACAACCTTCTACTTATAG
384 CAAAA-AA-AAG-AACT-TTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAG
* * * * * *
17133096 GATTTTACGAATCTCACGGTCCGCAGATTTACGATCATAAC-AGTCAATTGTAAAGCTCGCTGAT
445 GATTTTATGAATCTCATGGTCTGCAGATTTACGATCATAACTA-TCATTTTTAAAGCTCGTTGAT
* * * * * *
17133160 TTATGTATACAAATTTAGTTCATTTATTTAC-GACCATGAACATTTAATTAAGAGTTCACC
509 TTACGTATAC-ATTTTAGTTCATTGATTTACAG-TCATGAACACTTCATTAAGAGTTC-CC
* * * * * * * *
17133220 GATTTACGATCGCAACTCCT-TTTAAACAGTTCGTTGATTTACGATTATAACTGTTATTTTTAAA
1 GATTTACGATCGCAACTACTACTTAAACATTTCATTGATTTATGATCACAACTGTCATTTTTAAA
* * * * * * * **
17133284 GTTCAATGATTTATAATCACGACTTTAGTTTATTGATTTATAATCATGAACACTCCTT-GTTACA
66 GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTT-CA
* * * * **
17133348 TGAGGAATGTAAATTTACTAAACTAGTTCAAGCGTGGCCAGAAATAATTTTCAACTAATTAATTC
130 TAAGGAATGTAAATTTACTGAACTAGTTCAAGCGTGGCCAGAGATGATTTTCAACTAGCTAATTC
* * *
17133413 TGACCTCTCTGCCCTTCAAAGTAAGTTAGATACTAGAGATAATAAATAAATG-CGTGTTGAGGAA
195 TGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAA-GACGTGTTGAGGAA
* * * * * *
17133477 GAACTTAAAACTCACCTTGAAAGAAGTATGATATAGGAATCAATTTTGTTACATTGTCTTTATTA
259 GAACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATCAATTTTGTTAAATTGTCTTTATTA
* * * ** * * * *
17133542 GCCCGAAGCTATTTTTCTGAATCGTATGTCTGAAATGAGGCTTGAAATGGATCGAT-TTGCT--A
324 G-CTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTT-CTCAA
* * *
17133604 AAAAAAGAACTTTCTGAAAAGCTTCAGTTGATTTACGATCACGACCTTTTACTTACAGGATTTTA
387 AAAAAAGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGGATTTTA
* * * * * * * * *
17133669 TGAATTTCATGGTCTGCAGATTTACAATCAAAATTATCTTTTTTATAGCTCATTAATTTACGTTT
452 TGAATCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTTACGTAT
* * * *
17133734 ACATCTTCAATTCATTGATTTACAGTCATAAACACTTCATTAAGAGTTCTTC
517 ACAT-TTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTC-CC
* * *
17133786 GATTTACAATTGCAACT-CTACTTAAACATTTCATTGATTTATGATCACAACTGTCAGTTTTAAA
1 GATTTACGATCGCAACTACTACTTAAACATTTCATTGATTTATGATCACAACTGTCATTTTTAAA
* * *
17133850 GCTCGCTGAGTTACAATCATGGCTTCAGTTCATTGATTTACAATCATGAACACTTAATT-GTTC-
66 GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTT-ATTGGTTCA
* * ** * *
17133913 TCAAGGAATGCAAATTTACTGAAGTAGTTCCAAGCGTGGATAGAGATGACTTTCAGCTAGCTAAT
130 T-AAGGAATGTAAATTTACTGAACTAGTT-CAAGCGTGGCCAGAGATGATTTTCAACTAGCTAAT
* * * *
17133978 TCTAACCTCTCTTCCCTTTAGAGCAAGTTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGA
193 TCTGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGA
* * * *
17134043 AGAACTCAAAACTGACCTTGACAGAAGGAGGATAAAGAAATCAAAATTTT-TTAAATTGTCTTTG
258 AGAACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATC--AATTTTGTTAAATTGTCTTTA
* * * * * *
17134107 TGATG-TAGAAGTTACATCTATTCACCATACGTCTAAAACGAGGCTTG-AATGGGTCGATCTTCT
321 TTA-GCT-GAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTTCT
* *
17134170 CAAATAAACAATGAACTATCTGAAAAGCTTTAGCTGATTTACAATCACGACCTTTTACTTATAGG
384 CAAA-AAA-AA-GAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGG
* * *
17134235 ATTTTATGAATCTCATGGTTTACAGATTTATGATCATAACTATCATTTTTAAAGCTCGTTGATTT
446 ATTTTATGAATCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTT
* *
17134300 ACGTATACAGTTTTAGTTCATTGATTTACAGTCATGAACCCTTCATTAAGAGTTCGCA
511 ACGTATACA-TTTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTC-CC
* * *
17134358 GATTTACGATCGTAACT-CCACTTAATA-A-TTCATTG-TTTAACT-ATCACAAACTGTTATTTT
1 GATTTACGATCGCAACTACTACTTAA-ACATTTCATTGATTT-A-TGATCAC-AACTGTCATTTT
* * * *
17134418 TAAAGCTCACTTAGTTACAATCATGACTTCAATTCATTGATTTATGATTATGAACACTTATTGGT
62 TAAAGCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGT
* *
17134483 TCATAAGGAATGTAAATTTGCTGAACTAGTTCAACGAGTGGCCAGAGATGATTTTCAACTAGCTA
127 TCATAAGGAATGTAAATTTACTGAACTAGTTCAA-GCGTGGCCAGAGATGATTTTCAACTAGCTA
17134548 CTTTTCTTAT
Statistics
Matches: 1093, Mismatches: 197, Indels: 75
0.80 0.14 0.05
Matches are distributed among these distances:
565 8 0.01
566 250 0.23
567 140 0.13
568 46 0.04
569 13 0.01
570 10 0.01
571 114 0.10
572 449 0.41
573 63 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (566 bp):
GATTTACGATCGCAACTACTACTTAAACATTTCATTGATTTATGATCACAACTGTCATTTTTAAA
GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTTCAT
AAGGAATGTAAATTTACTGAACTAGTTCAAGCGTGGCCAGAGATGATTTTCAACTAGCTAATTCT
GACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGAAGA
ACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATCAATTTTGTTAAATTGTCTTTATTAGC
TGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTTCTCAAAAAA
AAGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGGATTTTATGAA
TCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTTACGTATACAT
TTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTCCC
Found at i:17135166 original size:21 final size:20
Alignment explanation
Indices: 17135150--17135188 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17135140 TCTCACTATC
*
17135150 TGCTAATTTATTATCACAAT
1 TGCTAATTTATGATCACAAT
*
17135170 TGTTAATTTATGATCACAA
1 TGCTAATTTATGATCACAA
17135189 CTTAAGTTCA
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:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TGCTAATTTATGATCACAAT
Found at i:17135760 original size:19 final size:20
Alignment explanation
Indices: 17135718--17135761 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
17135708 TGATCTGCTC
17135718 AAAAAATAAGGAAATTTCTG
1 AAAAAATAAGGAAATTTCTG
*
17135738 AAAAAATAAGGAACTTTCT-
1 AAAAAATAAGGAAATTTCTG
17135757 AAAAA
1 AAAAA
17135762 GATTCACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (20 bp):
AAAAAATAAGGAAATTTCTG
Found at i:17136073 original size:19 final size:20
Alignment explanation
Indices: 17136030--17136073 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
17136020 GATCTGCTCA
17136030 AAAAAATAAGGAAATTTCTG
1 AAAAAATAAGGAAATTTCTG
*
17136050 AAAAAATAAGGAACTTTCTG
1 AAAAAATAAGGAAATTTCTG
17136070 AAAA
1 AAAA
17136074 GATTCACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.23
Consensus pattern (20 bp):
AAAAAATAAGGAAATTTCTG
Found at i:17136177 original size:312 final size:311
Alignment explanation
Indices: 17135549--17136331 Score: 1361
Period size: 312 Copynumber: 2.5 Consensus size: 311
17135539 TCCTTGAGAT
* * * * *
17135549 CAAGTTAGATGCTAGAGATGATGAATATA-GAAGTGTTGAGGAAGAACTCAAAAGTGACCTTGAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCA-TGTTGAGGAAGAACTCAAAACTGACCTTGAA
* *
17135613 AGAAAGAGGCTAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTA
65 AGAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTA
17135678 CCGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAA
130 CCGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAA
17135743 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
195 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
17135808 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
260 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
* *
17135860 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTAAAAATTGACCTTGAAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
17135925 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
66 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
17135990 CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAAATAAGGAAATTTCTGAAAAA
131 CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTC-AAAAAATAAGGAAATTTCTGAAAAA
* *
17136055 ATAAGGAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTATG
195 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
*
17136120 AATCTCATGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
260 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
17136172 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
* * *
17136237 GAAGGAGGATAGAGGAATCAATTTCCTTACATTATTTTTGTTAGGCTGATGATACTTCTCTTTAC
66 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
* * * *
17136302 CATATGTTTGAAACGAGGCTTGAAATGGAT
131 CGTACGTTTGAAACAAGTCTT-AAATGGAT
17136332 CGATTTACCC
Statistics
Matches: 449, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
311 158 0.35
312 283 0.63
313 8 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (311 bp):
CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAAA
TAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATGA
ATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
Found at i:17138286 original size:572 final size:569
Alignment explanation
Indices: 17136135--17138399 Score: 2174
Period size: 571 Copynumber: 4.0 Consensus size: 569
17136125 CATGGTCTGC
* * * *
17136135 TTCAACTAGCAAATTTTGACCTCTCT-TCTCATTAGAGCAAGTTAAATGCTAAAGATGACGAATA
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
* * * **
17136199 TAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAATTTCCT
66 TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* * * * * * * * *
17136264 TACATTATTTTTGTTAGGCTGATGATACTTCTCTTTACCATATGTTTGAAACGAGGCTTGAAATG
131 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
* * * *
17136329 GATCGATTTACCCCAAAAAAAA-AA-GATCTTTTTGAAAAGCTTCAGCTGATTTATAATCATGAC
196 GATCGATTT--GCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGAC
* * * ** * * * *
17136392 TTTCTACTTACAAGATTTTATGAA-CTTTACTTTCCGCTGATTTACTATCCCAAC--TACCATTT
259 CTTCTACTTACAAGATTTTACGAATC-TCACGGTCCACTGATTTACAATCACAACTGTAAC-TTT
* * * * * *
17136454 CTGAAGCTCGTTGAGTTATGAACACA-ACTTAAGTTTATTGATTTATGATCATTAACACTTCATT
322 -TAAAACTCGTTGATTTA-GAAC-CATACTTCAGTTCATTGATTTATGATCATGAACACTTCATT
*** * * * * **
17136518 AAGAGTTCAACGATTTACGATCGTGACTCCATTTAAACAGTTCAATTATTTACAATCACAA-TTG
384 AAGAGTTC-ACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTT-
* * * * **
17136582 TCATTTTTAAAGCTCGCTGAATTACAATCATGACTTCAATTGATTGATTTACGATCATGAACACG
447 TCATTTTTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAAAATT
** * *
17136647 ACTTGGTTCACAAGATATGTTTATTTGCTGAACTAGTTCCAAGCATTGCCAGAGATGATT
512 A-TTGGTTCACAAGA-ATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
* * ** * ** * * *
17136707 TTCAACTAGCTAATTCTAACCTCT-TTACTGACCAGAACAAGCTAGATGCTAGAA-ATGATAAAT
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTA-AAGATGATGAAT
* *
17136770 ATATG-CGTGTTGAGGAAGAACTCAAAACTAACCTTAAAAGAAAGAGGATAGAGGAATCAATTTT
65 ATA-GACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTT
* * * * ** **
17136834 GTTACATTGTCTCTATGAGGCTGAAGCTACTTCTCTTCACTATACATTTGAAATGAGGCTACAAA
129 GTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAA
* * * * * * *
17136899 TGGAACGATTTACTTAAAAACATAAGGAACTTTTTAAAAAGCTTTAGCT--TTTA-ATGAT-ATT
194 TGGATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACA--ATCA-T
* * * ** * * * * *
17136960 GAACTGCTACTTACACGATTTTTTGAATATCACGATCCACTGATTTACGATCACAACTGTTATTT
256 GACCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTT
* * * * *
17137025 TTAAAGCACGCTGATTTAGGATCACA-ACTTCAGTTCATTAATTTATGATCATGAACACTTCATT
321 TTAAAACTCGTTGATTTA-GAAC-CATACTTCAGTTCATTGATTTATGATCATGAACACTTCATT
* * * * *
17137089 AAGAGTTCACAAGTTTAGGATCACAACTCCACTTAAATAGTTCACTGATTTATGATCACAAGTGT
384 AAGAGTTCACGA-TTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACT-T
* * * * * * *
17137154 T-AGTTTTAAAGCTCGTTGTTTTACAATCATGGCTTCAGATAATTGATTTAAGATCATGAATAGT
447 TCATTTTTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAA-AAT
* * * * * * * * * *
17137218 TCTTTGTCCAGAAGTAATGTTAATTTCCTAAATTAGTTCTAAGCATAGCCAAAGATC-ATT
511 TATTGGTTCACAAG-AATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGA-CGATT
* * * * *
17137278 TTCAAATAGTTAATTTTGACCTATCTGCACT--TTGGAGCAAGTTAGATG-TCACAGATGATGAA
1 TTCAACTAGCTAATTTTGACCTCTCTGC-CTCATTAGAGCAAGTTAGATGCT-AAAGATGATGAA
* * * * * * *
17137340 TATATATGTGTTGAGAAAGAGCTCAAAACTAATCTTGAAAGAAGAAGGATAGAGGGATCAATTTT
64 TATAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTT
* * *
17137405 GTTACATTGTCTTTGTGAGGCTAAAGCTACTTCTCTTAACTGCACGTTTGAAATGAGGCTTGAAA
129 GTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAA
* * * * *
17137470 TGGATTGATTTGC-CAAAAAAACAAGGAACTTTCTGAAAAG-TGTCAGCTAATTTACGATCATGA
194 TGGATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCT-TCAGCTGATTTACAATCATGA
* ***
17137533 CCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTATCTTTTTT
258 CCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTT
* *
17137598 AAAACTCGTTGATTTATG-ATCATAGCTTCAGTTCATTGATTTAGGATCATGAACACTTCATTAA
323 AAAACTCGTTGATTTA-GAACCATA-CTTCAGTTCATTGATTTATGATCATGAACACTTCATTAA
* * ***
17137662 GAGTTCATCGATTTACGATCACAACTCCACTTAAACAATTCGCTGGTTTATGATTGGAACTTTCA
386 GAGTTCA-CGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTTTCA
* *
17137727 TTTTTAAAGCTCGTTGATTTATAATCACT-ACTTCAGTTAATTGATTTACGATCATGAAAATTTA
450 TTTTTAAAGCTCGCTGATTTACAATCA-TGACTTCAGTTAATTGATTTACGATCATGAAAA-TTA
* * * *
17137791 TTGGTTCACAAGCAATGTAAATTTGCTGAACTAATTCCAAGCATGGCTAGAGACGACT
513 TTGGTTCACAAG-AATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
** * * *
17137849 TTCAACTAGCTAATTTTTCCCTCTCTGCCT-TTTAGAGCGAGTTAGATGCTAAAGATGATGAATT
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
* * * * * *
17137913 TAGACGTGTTAAGGAAGAACTTAAAATTGACCTTTAAAGAAGGAGGATAGAGGAATCAATTTTGA
66 TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* * *
17137978 TACATTGCCTTTGTAAGGCTGAAGCTACTTCTCTTAACTACATGTTCGAAATGAGGCTTGAAATG
131 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
* * * ** *
17138043 GACCGATCTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAATTGATTTACAATCACGACCT
196 GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGACCT
* * * * * *
17138108 TTTACTTACAGGATTTTACGAATCTCATGGTCCGCTAATTTACAATCACAACTGTAACTTTTCAA
261 TCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTTAAA
* * * * *
17138173 ACTCGTTGCTTTACAACCATATCTTCAGTTCATTGATTTACGATCATGAACCCTTAATTAAGAGT
326 ACTCGTTGATTTAGAACCATA-CTTCAGTTCATTGATTTATGATCATGAACACTTCATTAAGAGT
* * * *
17138238 TCACCGATTTACAATCACTACTTCACTTAAACAATTC-CTTGATTTATGATCACAACTGTCATTT
390 TCA-CGATTTACGATCACAACTCCACTTAAACAATTCAC-TGATTTATGATCACAACTTTCATTT
* * * * * *
17138302 TTAAAGCCCGCTGATTTAAAATGACGACTTCAGTTAATTGATTTACCATTC-TGAAAACTTCTTG
453 TTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGA-TCATGAAAA-TTATTG
* * * *
17138366 TTTCAAAAGGAATGTAAATTTGCAGATCTAGTTC
516 GTTCACAA-GAATGTAAATTTGCTGAACTAGTTC
17138400 TTACCGTGGC
Statistics
Matches: 1378, Mismatches: 272, Indels: 86
0.79 0.16 0.05
Matches are distributed among these distances:
569 4 0.00
570 51 0.04
571 826 0.60
572 486 0.35
573 11 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (569 bp):
TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGACCT
TCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTTAAA
ACTCGTTGATTTAGAACCATACTTCAGTTCATTGATTTATGATCATGAACACTTCATTAAGAGTT
CACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTTTCATTTTTA
AAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAAAATTATTGGTTCA
CAAGAATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
Found at i:17142952 original size:134 final size:135
Alignment explanation
Indices: 17142653--17142959 Score: 304
Period size: 134 Copynumber: 2.3 Consensus size: 135
17142643 TGATTACAAT
* * * * * *
17142653 TATGAGTTC-AGTTCATTGATTTATGATCATGAACACTTCATTAGGAGTTTATCGATTTATGATC
1 TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTTATGATC
* * ** *
17142717 GCAACTCCACATGAATAGTTCACTAAATTACGATCACAACTGTCATTTTTAATGCTCGCTGGTTT
66 GCAACTCCACATGAACAGTTCACTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGATTT
*
17142782 ATAAC
131 AGAAC
* * * ** * * *
17142787 TATGACTTCTA-CTCATTAATATACAAGCATGAAAACTTTATTAAGAGTGTGCCAATTTAAT-AT
1 TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTT-ATGAT
* * * *
17142850 CGCAACTCCAC-TTAAGCAGTT-AGCTGATTTACGATCACAACTATCATTTTTAAAACTCGTTGA
65 CGCAACTCCACATGAA-CAGTTCA-CTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGA
17142913 TTTAGAA-
128 TTTAGAAC
*
17142920 TCATGGCTT-TAGTTCATTGATTTATGATCATGAACACTTT
1 T-ATGACTTCTAGTTCATTGATTTATGATCATGAACACTTT
17142960 TTGGTTCACA
Statistics
Matches: 135, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
133 7 0.05
134 125 0.93
135 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (135 bp):
TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTTATGATC
GCAACTCCACATGAACAGTTCACTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGATTT
AGAAC
Found at i:17145399 original size:29 final size:29
Alignment explanation
Indices: 17145359--17145424 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
17145349 TGATGAATGG
17145359 AAAGGGATAGCTGTGGCTATCG-TATACGA
1 AAAGGGATAGCTGTGGCTATCGAT-TACGA
* * *
17145388 AAAGGGATAGCTTTGGCTATTGATTATGA
1 AAAGGGATAGCTGTGGCTATCGATTACGA
17145417 AAAGGGAT
1 AAAGGGAT
17145425 GGTGACGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAGGGATAGCTGTGGCTATCGATTACGA
Found at i:17145445 original size:29 final size:30
Alignment explanation
Indices: 17145413--17145485 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
17145403 GCTATTGATT
*
17145413 ATGAAAAGGGATGGTGACGACCA-TCAGCA
1 ATGAAAAGGGATGGTGACGACCATTCAACA
* * *
17145442 ATGAAAAGGGATGGTGATGACCATTGAACT
1 ATGAAAAGGGATGGTGACGACCATTCAACA
17145472 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
17145486 CTTCGACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATTCAACA
Found at i:17145478 original size:30 final size:30
Alignment explanation
Indices: 17145412--17145513 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
17145402 GGCTATTGAT
* * *
17145412 TATGAAAAGGGATGGTGACGACCA-TCAGC
1 TATGAAAAGGGATGGTGATGACCATTGAAC
*
17145441 AATGAAAAGGGATGGTGATGACCATTGAAC
1 TATGAAAAGGGATGGTGATGACCATTGAAC
* *
17145471 TATGAAAAGGGATGGCT--TCGACTATTGATC
1 TATGAAAAGGGATGG-TGAT-GACCATTGAAC
17145501 TATGAAAAGGGAT
1 TATGAAAAGGGAT
17145514 AGCTTCAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 23 0.37
30 39 0.62
31 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATTGAAC
Found at i:17145519 original size:30 final size:29
Alignment explanation
Indices: 17145386--17145519 Score: 94
Period size: 30 Copynumber: 4.5 Consensus size: 29
17145376 TATCGTATAC
* * *
17145386 GAAAAGGGATAGCTTTGGCTATTGAT-TAT
1 GAAAAGGGAT-GCTTCGACCATTGATCTAT
* * * * *
17145415 GAAAAGGGATGGTGACGACCA-TCAGCAAT
1 GAAAAGGGATGCT-TCGACCATTGATCTAT
* *
17145444 GAAAAGGGATGGTGAT-GACCATTGAACTAT
1 GAAAAGGGATGCT--TCGACCATTGATCTAT
*
17145474 GAAAAGGGATGGCTTCGACTATTGATCTAT
1 GAAAAGGGAT-GCTTCGACCATTGATCTAT
17145504 GAAAAGGGATAGCTTC
1 GAAAAGGGAT-GCTTC
17145520 AGCTATCAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.05
29 34 0.41
30 42 0.51
31 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATGCTTCGACCATTGATCTAT
Found at i:17145535 original size:30 final size:30
Alignment explanation
Indices: 17145470--17145543 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
17145460 GACCATTGAA
* **
17145470 CTATGAAAAGGGATGGCTTCGACTATTGAT
1 CTATGAAAAGGGATAGCTTCGACTATCAAT
17145500 CTATGAAAAGGGATAGCTTC-AGCTATCAAT
1 CTATGAAAAGGGATAGCTTCGA-CTATCAAT
* *
17145530 TTATGAAAAAGGAT
1 CTATGAAAAGGGAT
17145544 GGTGACAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (30 bp):
CTATGAAAAGGGATAGCTTCGACTATCAAT
Found at i:17145558 original size:30 final size:30
Alignment explanation
Indices: 17145524--17145601 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
17145514 AGCTTCAGCT
*
17145524 ATCAATTTATGAAAAAGGATGGTGACAACC
1 ATCAAATTATGAAAAAGGATGGTGACAACC
** * **
17145554 ATCAAACAATGAAAAGGGATGGTGATGACC
1 ATCAAATTATGAAAAAGGATGGTGACAACC
* *
17145584 CTCAAATTATAAAAAAGG
1 ATCAAATTATGAAAAAGG
17145602 TTAGCTTCGA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (30 bp):
ATCAAATTATGAAAAAGGATGGTGACAACC
Found at i:17145579 original size:120 final size:118
Alignment explanation
Indices: 17145386--17145639 Score: 328
Period size: 120 Copynumber: 2.1 Consensus size: 118
17145376 TATCGTATAC
** ** * * *
17145386 GAAAAGGGATAGCTTTGGCTATTGATTATGAAAAGGGATGGTGACGACCATCAGCAATGAAAAGG
1 GAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACAACCATCAACAATGAAAAGG
** * * * *
17145451 GATGGTGATGACCATTGAACTATGAAAAGGGATGGCTTCGACTATTGATCTAT
66 GATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
17145504 GAAAAGGGATAGCTTCAGCTATCAATTTATGAAAAAGGATGGTGACAACCATCAAACAATGAAAA
1 GAAAAGGGATAGCTTCAGCTATCAA-TTATGAAAAAGGATGGTGACAACCATC-AACAATGAAAA
* * * *
17145569 GGGATGGTGATGACCCTCAAATTATAAAAAAGGTTAGCTTCGACTGTTGAACTAT
64 GGGATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
*
17145624 GAAAAGGGATAACTTC
1 GAAAAGGGATAGCTTC
17145640 GATTATCGAA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 21 0.18
119 25 0.22
120 70 0.60
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (118 bp):
GAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACAACCATCAACAATGAAAAGG
GATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
Found at i:17146656 original size:12 final size:12
Alignment explanation
Indices: 17146639--17146668 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17146629 TCAGGCTGTT
17146639 ACACGGCCTAGC
1 ACACGGCCTAGC
*
17146651 ACACGGCCTGGC
1 ACACGGCCTAGC
17146663 ACACGG
1 ACACGG
17146669 GCGTGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:17154980 original size:27 final size:26
Alignment explanation
Indices: 17154946--17154996 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
17154936 AACTTCACTT
** *
17154946 AATTAGTTTGTTGATTTACTATCACA
1 AATTAGTTCATTGATTTACGATCACA
17154972 AATTCAGTTCATTGATTTACGATCA
1 AATT-AGTTCATTGATTTACGATCA
17154997 TGAACACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (26 bp):
AATTAGTTCATTGATTTACGATCACA
Found at i:17160732 original size:134 final size:134
Alignment explanation
Indices: 17160478--17160780 Score: 326
Period size: 134 Copynumber: 2.3 Consensus size: 134
17160468 TACTCAAAAA
* * * ** *
17160478 AAAGCTCATTGATTTACGATCACGGCTTCAATTCATTGATTTACAATAATGAACACTTCATTAAG
1 AAAGCTCACTGATTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAAG
* * * *
17160543 AATTCACCTATTTACGATCGTAACTCCACTTAAACTATTCGTTGAATTACGATCACAACTGTCAT
66 AATTCACCAATTTACGATCGCAACTCCACTTAAACTATTCGCTGAATTACAATCACAACTGTCAT
17160608 TTTT
131 TTTT
* * * * *
17160612 AAAGCTCA-TTAGTTTACAAACACAACTTCAGTTTATTGATTTACGATCATGAACACTTTATTAA
1 AAAGCTCACTGA-TTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAA
* ** * *
17160676 -AAGTTCGCCAATTTATTATCGCAACTCCACTTAAGC-AGTTCGCTG-ATATACAATCACAATTG
65 GAA-TTCACCAATTTACGATCGCAACTCCACTTAAACTA-TTCGCTGAAT-TACAATCACAACTG
*
17160738 TCTTTTTT
127 TCATTTTT
* * *
17160746 AAAGTTTACTGATTTACAATCACAACTTCAGTTCA
1 AAAGCTCACTGATTTACAAACACAACTTCAGTTCA
17160781 CAAGGATTGT
Statistics
Matches: 139, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
133 7 0.05
134 130 0.94
135 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (134 bp):
AAAGCTCACTGATTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAAG
AATTCACCAATTTACGATCGCAACTCCACTTAAACTATTCGCTGAATTACAATCACAACTGTCAT
TTTT
Found at i:17163173 original size:570 final size:571
Alignment explanation
Indices: 17161954--17165343 Score: 2144
Period size: 570 Copynumber: 6.1 Consensus size: 571
17161944 ATGTTCACAA
* * * * * *
17161954 CTTCAATTTATTGATTTACAATCATGAACACTTATTGATTCACAAGGAATGTAAATTTG-TTGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAA-TTGCTTGAA
* * * * * *
17162018 CTAGTTCCAAGCATGGCCAAAGATAATTTTCAACTAGCTAATTCTGACCTCTCTGCCTTTTAGAG
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAG
* * * * *
17162083 CAAGTTAGATGCTAGAGATGATGAATATAAGCGTGTTGAAGAAGAGCTCAAAATTCACCTTGAAA
130 CAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAA
* * *
17162148 G--GAGGA-AAGAGTAATCAATTTTGTTATATTGTCTTTGTGAGGCTGAAGCTACTTCT-TTTAA
195 GAAGAAGATAA-AGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTT-A
* * * *
17162209 CCGTACGTCT-AAAATGAGGCTTGAAATGGATCAATCTGTTAAAAAAA-AA-GAACCTACTTAAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTTAAA
* * * * ** * * *
17162271 AGCTTTAACTTATTGATGATCACAATCTTCTACTCACAAGATTTTATGAATCTCACGGTCTGCTG
323 AGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCTG
* * * * * *
17162336 ATTTACGATCAAAACTATC-TTTTATAAAGCTC-CTTGATTTATGATCACGACTTCAGTTAATTG
388 ATTTACGATTACAACTGTCATTTT-TAAAGCTCAC-TGATTTAT-ATCACGGCTTCAATTCATTG
* ** *
17162399 ATTTACGATCATGAACACTTCATTAAGAGATT-GCCCATTTATGATCGCAACTCCACTTAAACAA
450 ATTTACGATCATGAACACTTCATTAAGAG-TTCGCCGATTTACAATCGCAACTCCACTTAAACAG
* * *
17162463 TTCA-CTGAATTATGATCATAACTGTCATTTTTAAAGCTCAT-TGATTTACAATCACGG
514 TTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTC-TCTGATTTACAATCACGG
* * **
17162520 CTTCAGTTAATTGATTTACGATCATGAACACTAT-TTGGTTCACATGAAATGTAAATTTTTTGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACT-TCTTGGTTCACAAGAAATGTAAATTGCTTGAA
* * * * * * *
17162584 CTACTTCCAAGCGTGGCTAGAGATTATTTTCAACTAACTAATTCTGAACTTTTTACCTTTAAGAG
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAG
* * * * *
17162649 CAAGTTAGATGCTAGAGATAATTAATATAGGCGTATTGAGGAAGAACTTAAAATTGACCTTGAAA
130 CAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAA
* * *
17162714 GAATGAAGATAAAGGAATAAATTTTGTTACATTGTCTTCGTGAGCCTGAAGCTACTTCTCTTTAC
195 GAA-GAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTAC
* *
17162779 CGTACGTCT-AAATTGAGGCTTGAAATGGATCGATAC-GCTAAAAAAATAAGGAACTTTCCTAAA
259 CGTACGTCTGAAAATGAGGCTTGAAATGGATCGAT-CTGCTAAAAAAATAAGGAACTTTCTTAAA
* * * *
17162842 AG-TATTAGCTGATTTACGTTCATGACCTTTTACTTATAGGATTTTACGAATCTCACGGTCTGCT
323 AGCT-TTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCT
* * * **
17162906 GCTTTACGATTACAGCTGTCACTTTTAAATTTCACTGATTTATGATCACGGCTTCAATTCATTGA
387 GATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTTAT-ATCACGGCTTCAATTCATTGA
* * ** * * **
17162971 GTTACGATCATGAACACTTCATTAAGAGTTTGTTGATTTATAATCGCAACTCCACCTAAGTAGTT
451 TTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAGTT
* * * * *
17163036 -AGCCGA-TTACGATCACAATTGTCATTTTTAAAGCTCTTTCACTTACAATCACGG
516 CAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
* *
17163090 CTTTAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATAGCTTGAAC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
* * * * * * *
17163155 TAGTTCTAAGCATGGCTAGAAATGAATTTGAACTAGA-TAATTTTG-ACATCTCTACCTTTCATA
66 TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTA-ACTAATTCTGAAC-TCTCTACCTTTCAGA
** * * * * *
17163218 GCAAGTTAGATTTTAGAGATGATAAATTTAGGAATGTTGAGGAAGAACCCGAAATTGACC-TGAA
129 GCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * ** * **
17163282 CAGAAGGAGGA-AAAGGAACCAATTTTGTTACATTGCCTTGGTGAGGCTGAAATTAATTCTCTAA
194 -AGAA-GAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTT
* * * * * * * * * *
17163346 ACTGTACGTTTG-AAATAAGGATTCAAATGGTTCGATCTACTCAAAGAAATAAAGAATTTTCTTA
257 ACCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCT-AAAAAAATAAGGAACTTTCTTA
* * * ** * ** *
17163410 AAAGCTTTAGCTAATTTACGATCACGACCTTTTACTCCCAGGATTTTATAAATCTCACGGTTTGC
321 AAAGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGC
* * * * * ** * * * *
17163475 TGATCTACGATCAAAATTGTCATTTTAAAAGCTTTCTGATTTACGATCATGAACACTTCCTTAAG
386 TGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTTA-TATCACG---GCTT-C--AAT
** * * * * * * * * * * * *
17163540 GGATCGCCCATTTATGTTCA-CAA-A-TCCACTTAAACAGTTCACTGATTT-CTGACCACAATTG
444 TCATTG---ATTTACGATCATGAACACTTCA-TT-AAGAGTTCGCCGATTTAC-AATCGCAACT-
** * * * *** * *
17163601 TAATTTTTAAA-GGTT--GCTGATTTACAATCATGGCT-TCA--GTT-AA----T-TGGTTTACA
502 CCA--CTTAAACAGTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACA
* *
17163654 ATTA-TG
565 ATCACGG
** * * * * * * * * * **
17163660 -AACACTTC-TTG-GTT-C-A-CAAGGA-A-TGTATAT--TT-GC-TG-AA-CT-AGTT-C-CAA
1 CTTCAGTTCATTGATTTACGATCATGAACACT-TCT-TGGTTCACAAGAAATGTAAATTGCTTGA
* * * ** * * * *
17163708 AC--GTGGCCAA--A--G--A-TGAT-TTTCAACTA--GA-TAATTCTG-ACATATCTGCTCTTT
64 ACTAGT-TCCAAGCATGGCCAGAGATGATT-TTCAACTAACTAATTCTGAAC-TCTCTAC-CTTT
* * * * * * * *
17163759 -AAAGTAAGTTAGAAGCTAGAGATGATGAAAATAGGCATGTTGAGGAAGAACTAAAAACTCACGT
125 CAGAGCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCT
*
17163823 TGAAAGAAGAAGAATAGAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTC
190 TGAAAGAAGAAG-ATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTC
* * * * * * * *
17163888 TTCACCGTACATCTG-AAACGAGGCTTGTAATGGATCGATATGCT-TAAAAA-AAGGGACTTTTT
254 TTTACCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCT
* * ** * * * * *
17163950 CTAAAAGCATCAATTGATTTACAATCATGACCATCTACTTACAGGATTTTACGAATCTAATGGTC
319 -TAAAAGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTC
* * * * * * * * *
17164015 CGTTGATTTATGATCACAATTGTCATTTTTAAAGCTCACTAATTTAATATTATGGCTTCAACTCA
383 TGCTGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTT-ATATCACGGCTTCAATTCA
* * * * * *
17164080 TTGAGTTACAATCATGAACACTTTATTAAGAGTTCACCGATTTACAATCACAACTCCACTTAATC
447 TTGATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAAC
* * * ** * * *
17164145 AGTT-AGCTTATTTATGATCATAACAATAAATTTTAAAGCT-TCCTGATTTACTATCACGG
512 AGTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCT-CTGATTTACAATCACGG
* * * * * *
17164204 CTTCAATTCATTGATTAACGATCATGAACACTTCATGGTTCACAAGGAATATAAATTTAC-TGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAA-TTGCTTGAA
* * * * * ** * * * *
17164268 CTAGCTCCAAGCATGACCAGAAATGATTTCCAACGAGTTAATT-TTAACTTCTCTACCCTCCTGA
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAAC-TCTCTACCTTTCAGA
* * * * * *
17164332 TCAAGTTATATGTTAGAGATGATAAATATAGGCATGTTGAGGAAAAACTTAAAATTGACCTTGAA
129 GCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * *
17164397 AGAAGAAGGATAGAGGAATCAATTTTGTTACATTAT-TTTTTGAGGCTGGAGCTACTTCTCTTAA
194 AGAAGAA-GATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTA
* * *
17164461 CTGTACTTCT-AAAATGAGGCTTGAAATGGATTGATCTGCT-AAAAAAT--GGAACTTT-TTGAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTT-AA
* * ** ** *
17164521 AAGCTTT-GACTGATTTACGAT-A-GCAACCTTCTATTTACAAGATTTCATAAATCTCATTGTCC
322 AAGCTTTAG-CTGATTTACGATCATG--ACCTTCTACTTACAAGATTTTACGAATCTCACGGTCT
** * * ** * * * *
17164583 GCTTCTTTACGATTAGAACTGTCATTTTAAAAGCTTGCTTAATTAATATCACGGCCTCAGTTCAT
384 GCTGATTTACGATTACAACTGTCATTTTTAAAGCTCAC-TGATTTATATCACGGCTTCAATTCAT
* *** * * *
17164648 TGATTTACGATCATGAACACTTTATTAAGAGTTCATTGATTTACGATCGCAACTCTACGTAAACA
448 TGATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACA
*
17164713 GTTC-GTTGATTTACGATCACAACTGTCATTTTTAAA-------G-----C--TCA---
513 GTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
* * * **
17164754 ---C---T-A---ATTTACAATCATGAGCACTTCTTGGTTCTCAAGAAATGTAAATTTTTTGAAC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
* * ** * * *
17164809 TAGTTCCAAGCATGGCTAGAGATGATTTTCAAATTGCTAATT-TTAACCTCTTTACCCTTCAGAG
66 TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAA-CTCTCTACCTTTCAGAG
* * * * * *
17164873 AAAGTTAGATACTAGAGAT-ACTGAATATAGGCATGTTGAGAAACAACTCAAAATTTATCTTGAA
130 CAAGTTAGATGCTAGAGATGA-TGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * *
17164937 AGAAAAAGGATAGAGGAATCAATTTTGTTATATTGCCTTTGTGAGGCTGAAGCTACTTCACTTTA
194 AGAAGAA-GATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTA
* * * * * ** * *
17165002 CCGTACATCTGAAAAAG-GGTTTGAGAT-GATTCGATTTGCTAAAAAAACGAGGAACTTTATGAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGA-TCGATCTGCTAAAAAAATAAGGAACTTTCTTAA
* * *
17165065 AAG-TGTCAGGTGATTTACGATCATGACCTTTTACTTACAAGATTTTACGAATCCTC-C-GT-T-
322 AAGCT-TTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAAT-CTCACGGTCTG
* * * *
17165125 -T-ATTTACAATTACAACTGTCATTTTTAAAGCTCGCTGATTTAAGATCACGGATTCAATTCATT
385 CTGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTT-ATATCACGGCTTCAATTCATT
* * * * * * **
17165188 GATTTATGATCATGAAAACTTTATTAAGAGTTCGTCGATTTACAATCGAAACTCCACCTAAGGAG
449 GATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAG
* * * ** * * * *
17165253 TTCA-CTGATTTAC-ATTCAGAACAGTCACTTTCCAAGCTCGCTAATTAACAATCACAG
514 TTCAGCTGATTTACGA-TCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
*
17165310 CTTCAGTTCATTGATTTACGATAATGAACACTTC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTC
17165344 ATTAAGTGTT
Statistics
Matches: 2156, Mismatches: 515, Indels: 306
0.72 0.17 0.10
Matches are distributed among these distances:
532 4 0.00
533 3 0.00
534 22 0.01
535 25 0.01
536 4 0.00
537 9 0.00
538 7 0.00
539 131 0.06
540 179 0.08
541 50 0.02
542 19 0.01
543 110 0.05
544 119 0.06
545 93 0.04
546 5 0.00
547 5 0.00
548 2 0.00
549 1 0.00
550 6 0.00
551 3 0.00
552 4 0.00
553 9 0.00
554 4 0.00
555 6 0.00
556 2 0.00
557 3 0.00
558 3 0.00
559 7 0.00
560 6 0.00
561 2 0.00
562 5 0.00
563 4 0.00
564 5 0.00
565 4 0.00
566 186 0.09
567 180 0.08
568 18 0.01
569 240 0.11
570 421 0.20
571 175 0.08
572 5 0.00
573 3 0.00
574 1 0.00
576 10 0.00
577 5 0.00
578 20 0.01
579 16 0.01
580 12 0.01
581 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (571 bp):
CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAGC
AAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAAG
AAGAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTACCG
TACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTTAAAAGC
TTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCTGATT
TACGATTACAACTGTCATTTTTAAAGCTCACTGATTTATATCACGGCTTCAATTCATTGATTTAC
GATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAGTTCAGCT
GATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
Found at i:17165875 original size:27 final size:27
Alignment explanation
Indices: 17165810--17165876 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
17165800 CACGGCCCCC
*
17165810 TGATTTACGATCACGACTTTAATTTAT
1 TGATTTACGATCACGACTTCAATTTAT
* * * * *
17165837 AGATGTATGATCACGACTTCAGTTTGT
1 TGATTTACGATCACGACTTCAATTTAT
*
17165864 TGATTTAGGATCA
1 TGATTTACGATCA
17165877 TAACTGTCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (27 bp):
TGATTTACGATCACGACTTCAATTTAT
Found at i:17166614 original size:34 final size:36
Alignment explanation
Indices: 17166567--17166633 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
17166557 ACCAATCTTG
*
17166567 AACTCAACTTTAAG-AGTTCGCCAATTTATGATTGC
1 AACTCAACTTTAAGTAGTTCACCAATTTATGATTGC
* *
17166602 AACTCCAC-TTAAGTAGTTCACTAATTTATGAT
1 AACTCAACTTTAAGTAGTTCACCAATTTATGAT
17166634 CACAACTGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.18
35 23 0.82
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
AACTCAACTTTAAGTAGTTCACCAATTTATGATTGC
Found at i:17167368 original size:134 final size:134
Alignment explanation
Indices: 17167119--17167368 Score: 335
Period size: 134 Copynumber: 1.9 Consensus size: 134
17167109 GGTCCAGTTC
17167119 ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
1 ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
* * * *
17167184 CAGTTTGTTGATTTAAGATCACAACCGTCATTTTTAAAGCTCACTGATTTAGGATTACAACTTCC
66 CAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTAGGATTACAACTTCC
17167249 GCTT
131 GCTT
* * * * *
17167253 ATTGATTTAGGATCATGAACACTTCA-TTAAGAGTTTGTC-GATTTATGATCGCAACTCTATTTA
1 ATTGATTTACGATAATGAACACTT-AGTTAAGAGTTT-TCTGATTTACGATCGCAACTCCACTTA
** * *
17167316 AACTA-TTTGCTGATTTACTATCACAACTATCATTTTTAAAGCCCATTAATTTA
64 AAC-AGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTA
17167369 CAGCCATGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 96 0.96
135 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (134 bp):
ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
CAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTAGGATTACAACTTCC
GCTT
Found at i:17168208 original size:134 final size:133
Alignment explanation
Indices: 17167927--17168228 Score: 329
Period size: 134 Copynumber: 2.3 Consensus size: 133
17167917 ATAATTATGG
* * * *
17167927 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTTGACGATTTACAATTACAACT
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCACGATTTACAATCACAAAT
** * * * * *
17167992 CTTCTTACACAGTTACCTGATTTACAATCACAATTGTTATTTTTAAAGCTCATTTATTTACTACC
66 CCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAA-CTCATTTATTTACAACC
17168057 ACAA
130 ACAA
* * * * * * *
17168061 CTTTAATTAATTGAATTGCGATCAGGAACACTTCATTAAGA-ATTCATCGATTTACGATCACAAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCA-CGATTTACAATCACAAA
* * * *
17168125 TCCACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAA-TCTTTCTAATTTACAA
65 TCCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAACTCATT-T-ATTTACAA
* *
17168189 TCACGA
128 CCACAA
*
17168195 CTTCAGTTCATTGATTTAAGATCATGAACACTTC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTC
17168229 TTGGTTTACA
Statistics
Matches: 134, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
132 4 0.03
133 4 0.03
134 126 0.94
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (133 bp):
CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCACGATTTACAATCACAAAT
CCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAACTCATTTATTTACAACCA
CAA
Found at i:17168828 original size:134 final size:134
Alignment explanation
Indices: 17168578--17168932 Score: 428
Period size: 134 Copynumber: 2.6 Consensus size: 134
17168568 TCACGGTCTA
* * * * *
17168578 TTGATTTACGATCAAAACTGTCCTTTTTAAAGCTCTTTGATTTACGATCACATG-TTCAGTTCAT
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCAC-GGCTTCAGTTCAT
* * ** *
17168642 TGATTTACA-ATCATGAACACTTCATTAAGAGTTTGTCGACTTACGATTGCAACTCCACTTAAAC
65 TGATTTA-AGATCATGAACACTTCATTAAGAGTTCGTCGAATTACGACCGCAACTACACTTAAAC
17168706 AGTTCG
129 AGTTCG
* * ** *
17168712 TTGATTTACGACCACAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTTTGTTCATC
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* * *
17168777 GATTTAAGATCTTGAACACTTCATTAAGAGTTCGTC-AATTCATGACCGCAACTACACTTAAATA
66 GATTTAAGATCATGAACACTTCATTAAGAGTTCGTCGAATT-ACGACCGCAACTACACTTAAACA
17168841 GTTCG
130 GTTCG
* ** * * *
17168846 CTGATTTACGATCACAACTGTCATTTTTAAAAATCACTAATTTACAATCACGACTTCAGTTCATT
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* *
17168911 AATTCAAGATCATGAACACTTC
66 GATTTAAGATCATGAACACTTC
17168933 TTGGTTCATA
Statistics
Matches: 187, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
133 5 0.03
134 182 0.97
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (134 bp):
TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
GATTTAAGATCATGAACACTTCATTAAGAGTTCGTCGAATTACGACCGCAACTACACTTAAACAG
TTCG
Found at i:17168888 original size:704 final size:702
Alignment explanation
Indices: 17167661--17169001 Score: 1665
Period size: 704 Copynumber: 1.9 Consensus size: 702
17167651 CGTCTAGAGG
* * *
17167661 AAGAACTCAAAACTAATCTTGAAAGAAGGAGGATAGAGGAATCATTTATATTACATTGTCTTTGT
1 AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAGGAATCATTTACATTACATTGTCTTTGT
* * * * *
17167726 AAGGCTTAAGCTGCTTCTATTCACCGTACGTCTAAAATGTGGCTTGAAATGGATCAATCTAATAA
66 AAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAATAA
* *
17167791 AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCATAACCTTCTACTTACAGGATTT
131 AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCACAACCTTCTACTTACAAGATTT
* * * * * *
17167856 TATGAATCTTACGGTCCGCTGATTTACGATTAAAATTGTCATTTTTAAAGCTAGCTTATTTATAA
196 TACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTA-CTTATTTACAA
* * *
17167921 TTATGGCTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTTGACGATTTACAATT
260 TCATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACTTACAATT
** * * * * *
17167986 ACAACTCTTCTTACACAGTTACCTGATTTACAATCACAATTGTTATTTTTAAAGCTCATTTATTT
325 ACAACTCCACTTAAACAGTTACCTGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTT
* * ** * *
17168051 ACTACCACAACTTTAATTAATTGAATTGCGATCAGGAACACTTCATTAAGAATTCATCGATTTAC
390 ACAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCAC
* * ** **
17168116 GATCACAAATCCACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAATCTTTCTA
455 GACCACAAATACACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAAAATCACTA
* * *
17168181 ATTTACAATCACGACTTCAGTTCATTGATTTAAGATCATGAACACTTCTTGGTTTACAAGAATTG
520 ATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCACAAGAA-TG
* *
17168246 TAAATTTTCTGAGCTAGCTCTAAGCATGGCCAGAGATGA-TTTCAACTAGCTAATTATGACCTCT
584 TAAATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCT
17168310 CTAGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
649 CTAGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
* * *
17168364 AAGAACTCAAAACTGACCTTGAAAGAATGAAGATAGAGTG-ATCAATTT-CGTTACATTGTCTTT
1 AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAG-GAATC-ATTTACATTACATTGTCTTT
* * * * * * * **
17168427 GTGAGGCTGAAGCTACTTCCCTTCATCGTACGTTTGAAATGAGGCTTCAAATGGATCGATTTGCT
64 GTAAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAAT
* * * * * * **
17168492 AAAAAAACAAGGAACTTTTTGAAAAGGTTCAGCT-GATTTACAATCACGACCTTTTACTTTGAAG
129 -AAAAAACAAGGAACTTTCTAAAAAGCTTCAG-TGGACTTACAATCACAACCTTCTACTTACAAG
* * *
17168556 ATTTTACGAATCTCACGGTCTATTGATTTACGATCAAAACTGTCCTTTTTAAAGCT-CTTTGATT
192 ATTTTACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTAC-TT-ATT
* *
17168620 TACGATCACAT-G-TTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGTCGACT
255 TACAAT--CATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACT
* * * *
17168683 TACGATTGCAACTCCACTTAAACAGTT-CGTTGATTTACGACCACAACTGTCATTTTTAAAGCTC
318 TACAATTACAACTCCACTTAAACAGTTAC-CTGATTTACAACCACAACTGTCATTTTTAAAGCTC
* * ** ** * * ** * *
17168747 GTTGATTTACAATCACGGCTTTTGTTCATCGATTTAAGATCTTGAACACTTCATTAAGAGTTCGT
382 ATTGATTTACAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCAT
* * * * * * *
17168812 CAATTCATGACCGCAACTACACTTAAA-TAGTTCGCTGATTTACGATCACAACTGTCATTTTTAA
447 CAATTCACGACCACAAATACACTTAAACT-GTTAGCTGATTTACGATCACAAATCTAATTTTTAA
17168876 AAATCACTAATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCA
511 AAATCACTAATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCA
* * *
17168941 TAGGAATGTAAATTTTCTGAACTAGTTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
576 CAAGAATGTAAATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
17169002 TGTAACACCC
Statistics
Matches: 533, Mismatches: 94, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
702 1 0.00
703 143 0.27
704 385 0.72
705 2 0.00
706 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (702 bp):
AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAGGAATCATTTACATTACATTGTCTTTGT
AAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAATAA
AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCACAACCTTCTACTTACAAGATTT
TACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTACTTATTTACAAT
CATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACTTACAATTA
CAACTCCACTTAAACAGTTACCTGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTTA
CAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCACG
ACCACAAATACACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAAAATCACTAA
TTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCACAAGAATGTA
AATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCT
AGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
Found at i:17171336 original size:19 final size:21
Alignment explanation
Indices: 17171304--17171342 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
17171294 TACATTATTT
*
17171304 TTTTAAATTATTATTAATATG
1 TTTTAAATTATTATCAATATG
17171325 TTTT-AATT-TTATCAATAT
1 TTTTAAATTATTATCAATAT
17171343 TACTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:17175782 original size:134 final size:133
Alignment explanation
Indices: 17175461--17175800 Score: 342
Period size: 134 Copynumber: 2.5 Consensus size: 133
17175451 TCAAAAAAAA
* * * * * **
17175461 AACTTTCATTTTTAAAACTCGCTAATTTACGATCTTGGGTTCAATTCATTGATTTATGATCATGA
1 AACTATCATTTTTAAAGCTCGCTAATTTACGATCATAGCTTCAATTCATTGATTTAAAATCATGA
* * * * * *
17175526 ACACTTCATTAAGAGTTCACCAATTTATTATCCCAACTCCACTTCAACAGTTCGTTGATTTATGA
66 ACACTTCATTAAAAGTTCACCAATTTATGATCCCAAATCCACTTAAAAAGTTCG-TGATTTAAGA
17175591 TCAC
130 TCAC
* * * * ** **
17175595 AACTATCACTTTTAAAGCTCGTTAATTTACGATCA-CGACTACTGTTCATTGATTTAAAATGTTG
1 AACTATCATTTTTAAAGCTCGCTAATTTACGATCATAG-CTTCAATTCATTGATTTAAAATCATG
** ** *
17175659 AACACTTCATTAAAAGTTGGCCAATTTATGATCGTAAATCCACTTAAGAAATTTTC-TGATTTAA
65 AACACTTCATTAAAAGTTCACCAATTTATGATCCCAAATCCACTTAA-AAA-GTTCGTGATTTAA
17175723 GATCAC
128 GATCAC
* * * * * *
17175729 AACTATCATTTTTAAAGCTAGCTGATTTACAATCATAGTTTCAATTCAATGATTTAATATCATGA
1 AACTATCATTTTTAAAGCTCGCTAATTTACGATCATAGCTTCAATTCATTGATTTAAAATCATGA
17175794 ACACTTC
66 ACACTTC
17175801 TTAGTTCACA
Statistics
Matches: 163, Mismatches: 39, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
133 1 0.01
134 156 0.96
135 3 0.02
136 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (133 bp):
AACTATCATTTTTAAAGCTCGCTAATTTACGATCATAGCTTCAATTCATTGATTTAAAATCATGA
ACACTTCATTAAAAGTTCACCAATTTATGATCCCAAATCCACTTAAAAAGTTCGTGATTTAAGAT
CAC
Found at i:17176818 original size:35 final size:36
Alignment explanation
Indices: 17176779--17176862 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
17176769 AAGTCCTTCA
*
17176779 ATTTATGATCACAACT-CCA-TTTAAATAGTTCATTG
1 ATTTATGATCACAACTGCCATTTTAAA-AGCTCATTG
* * *
17176814 ATTTACGATCACAACTGTCATTTTTAAAGCTCATTG
1 ATTTATGATCACAACTGCCATTTTAAAAGCTCATTG
*
17176850 ATTTATAATCACA
1 ATTTATGATCACA
17176863 GTTTCTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 15 0.37
36 21 0.51
37 5 0.12
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (36 bp):
ATTTATGATCACAACTGCCATTTTAAAAGCTCATTG
Found at i:17177013 original size:133 final size:134
Alignment explanation
Indices: 17176698--17177030 Score: 361
Period size: 134 Copynumber: 2.5 Consensus size: 134
17176688 TCAAAACTGT
* * * * *
17176698 CATTTTTAAAGTTCTCTAATTTATGATCACGGCTTCAGTTTATTGATTTACA-ATCATGAACACT
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTA-AGATCATGAACACT
** * * *
17176762 TCATTAAAAGTCCTTCAATTTATGATCACAACTCCATTTAAATAGTTCATTGATTTACGATCACA
65 TCATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCACA
**
17176827 ACTGT
130 ACTAA
* * * * *
17176832 CATTTTTAAAGCTCATTGATTTATAATCACAG-TTT-CTGTTCATCGATTTAAGA-CATTGAACA
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGT-TTAAT-GATTTAAGATCA-TGAACA
* ** * * * *
17176894 CTTCATTAAGAGTTGACCAATTTATGATCGCAACTACACTT-AGTAGTTCACTGATTTATGATCC
63 CTTCATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCA
17176958 CAACTAA
128 CAACTAA
* *
17176965 CATTTTTAAAGCTCACTAATTTACAATCATGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
17177030 C
66 C
17177031 TTGGTTCATA
Statistics
Matches: 161, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
132 1 0.01
133 78 0.48
134 81 0.50
135 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (134 bp):
CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
CATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCACAA
CTAA
Found at i:17177632 original size:134 final size:133
Alignment explanation
Indices: 17177402--17177677 Score: 356
Period size: 134 Copynumber: 2.1 Consensus size: 133
17177392 CGATAATGGT
* *
17177402 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACGATCGCAACTC
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
* ** * ** *
17177467 TACTTAACCAGTTTGCTAATTTACGACCACAACTGTCACTTTTAAAACTCGTTGATTTACAATGA
66 CACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACT-ATTTACAATCA
*
17177532 CGGC
130 CGAC
** *
17177536 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAA-ATATTGGTCAATTTATGATCGCAACT
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGA-ATTCATCAATTTACGATCGCAACT
* * * * *
17177600 CCACTTAAGCAGTTCACTGATTTACAATCACAACTGTCATTTTTAAAGCTCACTATTTACAATCA
65 CCACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACTATTTACAATCA
*
17177665 CGAT
130 CGAC
17177669 TTCAGTTCA
1 TTCAGTTCA
17177678 CCGATTTATG
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
133 22 0.18
134 100 0.82
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (133 bp):
TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
CACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACTATTTACAATCAC
GAC
Found at i:17177696 original size:97 final size:98
Alignment explanation
Indices: 17177584--17177764 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 98
17177574 ATATTGGTCA
*
17177584 ATTTATGATCGCAACTCCACTTAAGCAGTTCACT-GATTTACAATCACAACTGTCATTTTTAAAG
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCA-TAGATCTACAATCACAACTGTCATTTTTAAAG
17177648 CTCACT-ATTTACAATCACGATTTCAGTTCACCG
65 CTCACTGATTTACAATCACGATTTCAGTTCACCG
* * * *
17177681 ATTTATGATCGCAACTCCATTTATGCAGTTTATAGATCTACGATCACAACTGTCATTTTTAAAGC
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACAATCACAACTGTCATTTTTAAAGC
*
17177746 TCATTGATTTACAATCACG
66 TCACTGATTTACAATCACG
17177765 GCTTTTGTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.01
97 62 0.82
98 13 0.17
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (98 bp):
ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACAATCACAACTGTCATTTTTAAAGC
TCACTGATTTACAATCACGATTTCAGTTCACCG
Found at i:17177891 original size:231 final size:231
Alignment explanation
Indices: 17177441--17177897 Score: 616
Period size: 231 Copynumber: 2.0 Consensus size: 231
17177431 CTTCATTAAG
* * * *
17177441 AGTTCATCGATTTACGATCGCAACTCTACTTAACCAGTTTGCTAATTTACGACCACAACTGTCAC
1 AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATAATCTACGACCACAACTGTCAC
* * * *
17177506 TTTTAAAACTCGTTGATTTACAATGACGGCTTCAGTTCATTGATTTACGATCATGAACACTTCAT
66 TTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTACGACCATGAACACTTCAT
* * *
17177571 TAAATATTGGTCAATTTATGATCGCAACTCCACTTAAGCAGTTCACTGATTTACAATCACAACTG
131 TAAATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAACTA
17177636 TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
196 TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
* * ** *
17177672 AGTTCACCGATTTATGATCGCAACTCCATTTATGCAGTTT-ATAGATCTACGATCACAACTGTCA
1 AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATA-ATCTACGACCACAACTGTCA
* * ** *
17177736 TTTTTAAAGCTCATTGATTTACAATCACGGCTTTTGTTCATCGATTT-CAGACCTTGAACACTTC
65 CTTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTAC-GACCATGAACACTTC
* * ** *
17177800 ATTAAGA-GTTGGCCAATTTATGATCGCAACTACACTTAA-TAGTTCACTGATTTATGATCCCAA
129 ATTAA-ATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAA
17177863 CTATCATTTTTAAAGCTCACTAATTTACAATCACG
193 CTATCATTTTTAAAGCTCACT-ATTTACAATCACG
17177898 GCTTTAGTTT
Statistics
Matches: 196, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
230 43 0.22
231 152 0.78
232 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (231 bp):
AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATAATCTACGACCACAACTGTCAC
TTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTACGACCATGAACACTTCAT
TAAATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAACTA
TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
Found at i:17180050 original size:8 final size:8
Alignment explanation
Indices: 17180037--17180122 Score: 52
Period size: 8 Copynumber: 10.8 Consensus size: 8
17180027 TTTAGATACA
17180037 TATATTTT
1 TATATTTT
17180045 TATATTTT
1 TATATTTT
*
17180053 ATATTTTATT
1 -TATATT-TT
*
17180063 TAATACTTT
1 T-ATATTTT
* * * *
17180072 AAAAATTA
1 TATATTTT
17180080 TATATTTT
1 TATATTTT
17180088 TATATTTT
1 TATATTTT
17180096 T-TA-TTT
1 TATATTTT
*
17180102 TAAATTTT
1 TATATTTT
*
17180110 TAAATTTT
1 TATATTTT
17180118 T-TATT
1 TATATT
17180123 AAAAGTTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
6 4 0.07
7 6 0.10
8 37 0.62
9 8 0.13
10 5 0.08
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (8 bp):
TATATTTT
Found at i:17181733 original size:16 final size:16
Alignment explanation
Indices: 17181712--17181779 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
17181702 TTTGGTTCGC
17181712 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17181728 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
17181744 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17181760 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17181776 TGTA
1 TGTA
17181780 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Done.