Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 42
Found at i:6886072 original size:196 final size:197
Alignment explanation
Indices: 6885747--6887018 Score: 2351
Period size: 196 Copynumber: 6.5 Consensus size: 197
6885737 TTTAAATTAG
6885747 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6885812 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6885877 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
6885940 TAG
195 AAA
6885943 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
6886008 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6886073 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
6886136 TAG
195 AAA
*
6886139 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGTCATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
6886204 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6886269 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
6886334 AA
196 AA
6886336 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
6886401 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6886466 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
6886531 AA
196 AA
6886533 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886597 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6886662 CGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
6886725 AA
196 AA
*
6886727 TATCGACACAAACTCTATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886792 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6886857 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
6886922 AAA
195 AAA
6886925 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886990 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
6887019 CCTTTTGGCC
Statistics
Matches: 1057, Mismatches: 13, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
194 107 0.10
195 87 0.08
196 462 0.44
197 302 0.29
198 99 0.09
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:6886592 original size:393 final size:394
Alignment explanation
Indices: 6885747--6887018 Score: 2351
Period size: 393 Copynumber: 3.2 Consensus size: 394
6885737 TTTAAATTAG
6885747 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6885812 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6885877 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
6885940 TAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
*
6886005 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
6886070 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGA
* *
6886133 AATTAG
389 AATAAA
*
6886139 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGTCATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
6886204 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6886269 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
6886334 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
*
6886399 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
6886464 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
6886529 TAAA
391 TAAA
6886533 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886597 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6886662 CGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
*
6886725 AATATCGACACAAACTCTATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
6886790 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
6886855 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AA
*
6886920 AAAAA
390 ATAAA
6886925 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886990 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
6887019 CCTTTTGGCC
Statistics
Matches: 858, Mismatches: 16, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
391 244 0.28
392 247 0.29
393 310 0.36
394 57 0.07
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (394 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
TAAA
Found at i:6886928 original size:589 final size:589
Alignment explanation
Indices: 6885747--6887018 Score: 2347
Period size: 589 Copynumber: 2.2 Consensus size: 589
6885737 TTTAAATTAG
6885747 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
6885812 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
* *
6885877 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTA
131 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATAA
*
6885942 GTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
6886007 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGA
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGA
* *
6886072 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATT
326 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATA
* *
6886137 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGTCATATTCTCACATAAAACCGGTA
391 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
6886202 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGG
456 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGG
6886267 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
521 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
*
6886332 TAAA
586 AAAA
6886336 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886401 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
*
6886466 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
131 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-GAAAT
6886530 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGT
194 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
*
6886594 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGG
6886659 GATCGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGA
324 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-GA
*
6886721 AATAAATATCGACACAAACTCTATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC
387 AATAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC
*
6886786 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
452 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTT
6886851 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTG
517 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTG
6886916 GAAAAAAAA
582 G-AAAAAAA
6886925 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
6886990 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
6887019 CCTTTTGGCC
Statistics
Matches: 665, Mismatches: 13, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
586 1 0.00
587 44 0.07
588 197 0.30
589 365 0.55
590 58 0.09
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (589 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
AAAA
Found at i:6887174 original size:19 final size:19
Alignment explanation
Indices: 6887143--6887191 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
6887133 TTATATTCAC
6887143 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
6887162 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
6887181 ATACAAAATTA
1 ATACAAAATTA
6887192 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:6889020 original size:33 final size:33
Alignment explanation
Indices: 6888983--6889048 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
6888973 CATCTTAATA
*
6888983 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
6889016 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
6889049 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:6889122 original size:21 final size:21
Alignment explanation
Indices: 6889082--6889146 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
6889072 CCCCTTATGC
* *
6889082 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
6889103 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
6889124 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
6889145 CT
1 CT
6889147 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:6891431 original size:19 final size:19
Alignment explanation
Indices: 6891376--6891422 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
6891366 ATCCGGTATC
6891376 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
6891395 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
6891415 ATTTTACC
1 ATTTTACC
6891423 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:6892069 original size:229 final size:228
Alignment explanation
Indices: 6891652--6892100 Score: 783
Period size: 229 Copynumber: 2.0 Consensus size: 228
6891642 TTATAACTGC
6891652 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
* **
6891717 TTAATTTAATAGTTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTATAAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTATAAAATATTATT
* *
6891782 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
*
6891847 TATGGACACTTTTATAAAAATGATATATACTTT
196 TATGGACACTTTTATAAAAAGGATATATACTTT
*
6891880 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
6891945 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATATTA
* *
6892010 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
129 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATA
6892074 AGTATGGACACTTTTATAAAAAGGATA
194 AGTATGGACACTTTTATAAAAAGGATA
6892101 GATAATTTAC
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
228 4 0.02
229 142 0.68
230 63 0.30
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTTT
Found at i:6893067 original size:26 final size:29
Alignment explanation
Indices: 6893038--6893101 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
6893028 ATTAATCTTA
*
6893038 AAAAATAAATG-T-AATAAAACACATA-T
1 AAAAATAAAAGTTGAATAAAACACATACT
*
6893064 AAAAATAAAAGTTGAATCAAACACATACGT
1 AAAAATAAAAGTTGAATAAAACACATAC-T
6893094 AAAAATAA
1 AAAAATAA
6893102 TCAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.31
27 1 0.03
28 12 0.38
30 9 0.28
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.20
Consensus pattern (29 bp):
AAAAATAAAAGTTGAATAAAACACATACT
Found at i:6896208 original size:16 final size:16
Alignment explanation
Indices: 6896178--6896215 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6896168 GCATGTGTAG
6896178 TATTTT-TAATTTTAA
1 TATTTTATAATTTTAA
*
6896193 TATTTTATATTTTTAA
1 TATTTTATAATTTTAA
*
6896209 TGTTTTA
1 TATTTTA
6896216 CATATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTATAATTTTAA
Found at i:6899054 original size:12 final size:12
Alignment explanation
Indices: 6899033--6899076 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
6899023 TTTCGTCTTA
6899033 GTCGTCATCATC
1 GTCGTCATCATC
*
6899045 GTCTTCATCATC
1 GTCGTCATCATC
**
6899057 AACGTCATCATC
1 GTCGTCATCATC
6899069 GTCGTCAT
1 GTCGTCAT
6899077 ATTCATCCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (12 bp):
GTCGTCATCATC
Found at i:6899088 original size:24 final size:24
Alignment explanation
Indices: 6899037--6899127 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 24
6899027 GTCTTAGTCG
* * *
6899037 TCATCATCGTCTTCATCA-TCAACG
1 TCATCATCGTCGTCAT-ATTCATCA
*
6899061 TCATCATCGTCGTCATATTCATCC
1 TCATCATCGTCGTCATATTCATCA
6899085 TCATTGCCATCGTCGTCATATTCATCA
1 TCA-T--CATCGTCGTCATATTCATCA
* *
6899112 TCATCTTCGTTGTCAT
1 TCATCATCGTCGTCAT
6899128 CACTTTCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 32 0.56
25 1 0.02
26 1 0.02
27 22 0.39
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (24 bp):
TCATCATCGTCGTCATATTCATCA
Found at i:6903472 original size:21 final size:21
Alignment explanation
Indices: 6903448--6903500 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
6903438 TGTTCATGGC
*
6903448 CGTGTTCATGAAGATGATGAT
1 CGTGGTCATGAAGATGATGAT
6903469 CGTGGTCATGAAGATGATGAT
1 CGTGGTCATGAAGATGATGAT
6903490 CGTGGTCATGA
1 CGTGGTCATGA
6903501 TCATGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.30
Consensus pattern (21 bp):
CGTGGTCATGAAGATGATGAT
Found at i:6903506 original size:21 final size:21
Alignment explanation
Indices: 6903448--6903508 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
6903438 TGTTCATGGC
* *
6903448 CGTGTTCATGAAGATGATGAT
1 CGTGGTCATGAACATGATGAT
*
6903469 CGTGGTCATGAAGATGATGAT
1 CGTGGTCATGAACATGATGAT
*
6903490 CGTGGTCATGATCATGATG
1 CGTGGTCATGAACATGATG
6903509 GTGATGGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.31
Consensus pattern (21 bp):
CGTGGTCATGAACATGATGAT
Found at i:6921186 original size:20 final size:21
Alignment explanation
Indices: 6921139--6921186 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
6921129 TTACTTTGGG
*
6921139 AATCATTGATTTATTTTATATTT
1 AATC-TTG-TTTATTTTATATGT
6921162 AATCTTGTTTATTTT-TATGT
1 AATCTTGTTTATTTTATATGT
6921182 AATCT
1 AATCT
6921187 GTGATGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 3 0.12
23 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (21 bp):
AATCTTGTTTATTTTATATGT
Found at i:6933555 original size:17 final size:18
Alignment explanation
Indices: 6933522--6933557 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6933512 TTTAAATATT
*
6933522 TTTTTTAATTTACTCAAA
1 TTTTTTAATTCACTCAAA
6933540 TTTTTTAATTCA-TCAAA
1 TTTTTTAATTCACTCAAA
6933557 T
1 T
6933558 AGTCTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTAATTCACTCAAA
Found at i:6935619 original size:19 final size:20
Alignment explanation
Indices: 6935595--6935682 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 20
6935585 ATTTTGGATA
6935595 TTTCACTATCGCAACAC-TT
1 TTTCACTATCGCAACACATT
6935614 TTTCACTATCGCAACAACACGTT
1 TTTCACTATCGCAAC-ACA--TT
*
6935637 TTTCAAACTCTCGCAACACA-T
1 TTTC--ACTATCGCAACACATT
*
6935658 TTTAACTATCGCAACACATT
1 TTTCACTATCGCAACACATT
6935678 TTTCA
1 TTTCA
6935683 AAATTGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
19 28 0.48
20 7 0.12
21 4 0.07
23 6 0.10
24 3 0.05
25 10 0.17
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.34
Consensus pattern (20 bp):
TTTCACTATCGCAACACATT
Found at i:6935666 original size:44 final size:41
Alignment explanation
Indices: 6935603--6935684 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
6935593 TATTTCACTA
* *
6935603 TCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
6935647 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
6935685 ATTGCGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 3 0.08
44 24 0.67
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:6936388 original size:59 final size:59
Alignment explanation
Indices: 6936296--6936415 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
6936286 ATCAACTCAC
6936296 ATCACGCGTGTGATTTCTTCTTCTTCTTTTTCTCTCATAAATTGTTATAACACTATGAT
1 ATCACGCGTGTGATTTCTTCTTCTTCTTTTTCTCTCATAAATTGTTATAACACTATGAT
*
6936355 ATCACGCGTGTGATTTTTTCTTCTTCTTTTTCTCTCATAAATTGTTATAACACTATGAT
1 ATCACGCGTGTGATTTCTTCTTCTTCTTTTTCTCTCATAAATTGTTATAACACTATGAT
6936414 AT
1 AT
6936416 TAATAGTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (59 bp):
ATCACGCGTGTGATTTCTTCTTCTTCTTTTTCTCTCATAAATTGTTATAACACTATGAT
Found at i:6938067 original size:20 final size:20
Alignment explanation
Indices: 6938042--6938085 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
6938032 AGAGAATGTC
*
6938042 ATTTTCTCTAAAATATACAG
1 ATTTTCCCTAAAATATACAG
6938062 ATTTTCCCTAAAATATACAG
1 ATTTTCCCTAAAATATACAG
6938082 ATTT
1 ATTT
6938086 GAGTAGTTGC
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:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTTTCCCTAAAATATACAG
Found at i:6940092 original size:44 final size:44
Alignment explanation
Indices: 6940029--6940117 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
6940019 AAAAGATGAT
6940029 ACAATGATTTGAGTGAGTAATCGTACCTCACTCTGAATACGATC
1 ACAATGATTTGAGTGAGTAATCGTACCTCACTCTGAATACGATC
*
6940073 ACAATGATTTTAGTGAGTAATCGTACCTCACTCTGAATACGATC
1 ACAATGATTTGAGTGAGTAATCGTACCTCACTCTGAATACGATC
6940117 A
1 A
6940118 TTAAGCTCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAATGATTTGAGTGAGTAATCGTACCTCACTCTGAATACGATC
Found at i:6944575 original size:7 final size:7
Alignment explanation
Indices: 6944563--6944593 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6944553 CCACCTTCTA
6944563 TTTTTAT
1 TTTTTAT
6944570 TTTTTAT
1 TTTTTAT
6944577 TTTTTAT
1 TTTTTAT
6944584 TTTTTAT
1 TTTTTAT
6944591 TTT
1 TTT
6944594 AAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:6948235 original size:20 final size:20
Alignment explanation
Indices: 6948199--6948241 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6948189 GTGAGTGTAA
* *
6948199 ATGCCATTTGAATGAAGGAC
1 ATGCCATTTGAACGAAGCAC
6948219 ATGCCATGTT-AACGAAGCAC
1 ATGCCAT-TTGAACGAAGCAC
6948239 ATG
1 ATG
6948242 GCGGCAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
ATGCCATTTGAACGAAGCAC
Found at i:6951712 original size:17 final size:17
Alignment explanation
Indices: 6951678--6951729 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6951668 ACAGGACAAA
*
6951678 TTTATTATTTTAGAGAG
1 TTTATTAATTTAGAGAG
**
6951695 TTTATTAATTTATCGAG
1 TTTATTAATTTAGAGAG
*
6951712 --TATTAATTTAAAGAG
1 TTTATTAATTTAGAGAG
6951727 TTT
1 TTT
6951730 CGACTGTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAGAGAG
Found at i:6954996 original size:43 final size:43
Alignment explanation
Indices: 6954935--6955021 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
6954925 GGTGTGGAAG
6954935 GATGGGACCTGCTTGGAACCAATTTAATTCGCAGAAAAAAGAT
1 GATGGGACCTGCTTGGAACCAATTTAATTCGCAGAAAAAAGAT
6954978 GATGGGACCTGCTTGGAACCAATTTAATTCGCAGAAAAAAGAT
1 GATGGGACCTGCTTGGAACCAATTTAATTCGCAGAAAAAAGAT
6955021 G
1 G
6955022 TTTCAGCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (43 bp):
GATGGGACCTGCTTGGAACCAATTTAATTCGCAGAAAAAAGAT
Found at i:6962333 original size:2 final size:2
Alignment explanation
Indices: 6962326--6962377 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
6962316 ATTAGTTGTT
6962326 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6962368 TA TA TA TA TA
1 TA TA TA TA TA
6962378 AGCCATCTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6972182 original size:2 final size:2
Alignment explanation
Indices: 6972175--6972267 Score: 119
Period size: 2 Copynumber: 50.0 Consensus size: 2
6972165 CCGCCCCGAT
6972175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
6972217 TA TA TA TA TA TA TA AA TA T- TA -A TA T- TA TA TA T- TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6972255 T- TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA
6972268 AAATATTTTC
Statistics
Matches: 81, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
1 7 0.09
2 74 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6976499 original size:59 final size:60
Alignment explanation
Indices: 6976403--6976547 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 60
6976393 AATTTGAGGG
**
6976403 TGAAATTAAAA-GATTCAAAAGTTTGGGGAGCAATTTAGAAAGATG-GTC-CAGTTTACGGA
1 TGAAATTAAAATG-TTCAAAAGTTTAAGGAGCAATTTAGAAAGA-GAGTCACAGTTTACGGA
** * * * *
6976462 TGAAATTAAAATGTTCAAAAGTTTAAGGATTATTTTAGAATGAGAGTCATAGTTTAGGGA
1 TGAAATTAAAATGTTCAAAAGTTTAAGGAGCAATTTAGAAAGAGAGTCACAGTTTACGGA
* *
6976522 TGAAATTGAAAT-ATCTAAAAGTTTAA
1 TGAAATTAAAATGTTC-AAAAGTTTAA
6976548 AGACCGGATT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 40 0.56
60 31 0.43
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (60 bp):
TGAAATTAAAATGTTCAAAAGTTTAAGGAGCAATTTAGAAAGAGAGTCACAGTTTACGGA
Found at i:6979819 original size:91 final size:91
Alignment explanation
Indices: 6979696--6979883 Score: 358
Period size: 91 Copynumber: 2.1 Consensus size: 91
6979686 TTAAGATATT
*
6979696 TATGATTGGTCCGTATTCATTTATTTATTTTTAAAGGTGTTTGTATTTGTTTCTTTAACGTTTGC
1 TATGTTTGGTCCGTATTCATTTATTTATTTTTAAAGGTGTTTGTATTTGTTTCTTTAACGTTTGC
6979761 AAAAAAGTTCTTTTAACTTTCGTGAA
66 AAAAAAGTTCTTTTAACTTTCGTGAA
*
6979787 TATGTTTGGTTCGTATTCATTTATTTATTTTTAAAGGTGTTTGTATTTGTTTCTTTAACGTTTGC
1 TATGTTTGGTCCGTATTCATTTATTTATTTTTAAAGGTGTTTGTATTTGTTTCTTTAACGTTTGC
6979852 AAAAAAGTTCTTTTAACTTTCGTGAA
66 AAAAAAGTTCTTTTAACTTTCGTGAA
6979878 TATGTT
1 TATGTT
6979884 CGTTTAAGTT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.52
Consensus pattern (91 bp):
TATGTTTGGTCCGTATTCATTTATTTATTTTTAAAGGTGTTTGTATTTGTTTCTTTAACGTTTGC
AAAAAAGTTCTTTTAACTTTCGTGAA
Found at i:6980189 original size:10 final size:10
Alignment explanation
Indices: 6980171--6980232 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
6980161 AATGAAAAAT
6980171 GAACATAAAC
1 GAACATAAAC
*
6980181 GAACGTAAAC
1 GAACATAAAC
*
6980191 GAACACAAAC
1 GAACATAAAC
*
6980201 GAAC--GAAC
1 GAACATAAAC
*
6980209 -ATA-ATAAAT
1 GA-ACATAAAC
6980218 GAACATAAAC
1 GAACATAAAC
6980228 GAACA
1 GAACA
6980233 ACACAAACAC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
7 1 0.03
8 4 0.10
9 3 0.08
10 32 0.80
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:6980514 original size:14 final size:16
Alignment explanation
Indices: 6980495--6980526 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6980485 TCTCTCTGTT
6980495 CGAACATA-AAT-GAA
1 CGAACATATAATCGAA
6980509 CGAACATATAATCGAA
1 CGAACATATAATCGAA
6980525 CG
1 CG
6980527 TTCACGAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:6980817 original size:24 final size:25
Alignment explanation
Indices: 6980783--6980831 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
6980773 AATAAAATGA
6980783 AAACCGAATAAACT-AAGTTATAAAC
1 AAACCGAATAAA-TAAAGTTATAAAC
*
6980808 AAACC-AATAAATAAATTTATAAAC
1 AAACCGAATAAATAAAGTTATAAAC
6980832 GGGTAGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.73
25 5 0.23
ACGTcount: A:0.59, C:0.14, G:0.04, T:0.22
Consensus pattern (25 bp):
AAACCGAATAAATAAAGTTATAAAC
Found at i:6986716 original size:25 final size:26
Alignment explanation
Indices: 6986669--6986727 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
6986659 AAAAATATTG
6986669 AATA-TATATATAATATAATTTTAAT
1 AATATTATATATAATATAATTTTAAT
*
6986694 AATATTATAT-TAATAT-ATGTTTAGT
1 AATATTATATATAATATAAT-TTTAAT
*
6986719 TATATTATA
1 AATATTATA
6986728 ATGGTATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 23 0.77
26 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
AATATTATATATAATATAATTTTAAT
Found at i:6987037 original size:30 final size:29
Alignment explanation
Indices: 6986996--6987060 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
6986986 CGAAAATTAT
* * *
6986996 TTTTCAATAATCTATTTTATATAAATCAA
1 TTTTCAATAATCCAATTTATATAAATAAA
*
6987025 TTTTCAAGTAATCCAATTTATGTAAATAAA
1 TTTTCAA-TAATCCAATTTATATAAATAAA
6987055 TTTTCA
1 TTTTCA
6987061 CAAAATTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTCAATAATCCAATTTATATAAATAAA
Found at i:6991119 original size:31 final size:31
Alignment explanation
Indices: 6991084--6991145 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6991074 AAGTATCCTT
6991084 ACAATTATCTGCATCATTGGAATAAAACATA
1 ACAATTATCTGCATCATTGGAATAAAACATA
6991115 ACAATTATCTGCATCATTGGAATAAAACATA
1 ACAATTATCTGCATCATTGGAATAAAACATA
6991146 CTGCATTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
ACAATTATCTGCATCATTGGAATAAAACATA
Found at i:7019540 original size:28 final size:30
Alignment explanation
Indices: 7019509--7019582 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
7019499 AAAATTTATT
7019509 AAATATATTTTATTCTTAACTTAA-TTGA-
1 AAATATATTTTATTCTTAACTTAATTTGAG
* * ** *
7019537 AAATTTATTTTATTATTATTTTAATTTTAG
1 AAATATATTTTATTCTTAACTTAATTTGAG
7019567 AAATATATTTTATTCT
1 AAATATATTTTATTCT
7019583 CATATAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 20 0.54
29 3 0.08
30 14 0.38
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (30 bp):
AAATATATTTTATTCTTAACTTAATTTGAG
Found at i:7019678 original size:57 final size:54
Alignment explanation
Indices: 7019597--7019737 Score: 140
Period size: 57 Copynumber: 2.5 Consensus size: 54
7019587 TAAAATTTTA
* *
7019597 AAAATATATTTTATTATTATTTTAACTTTTGAA-AGTATATATTTTATCTTAATTT
1 AAAA-ATATTATATTATTATTTTAACTTTTGAATAGTATAT-TTTTATCTTAAATT
* * * * *
7019652 ATTAAATTGATTATATTATTATTTTAAATTATTTAATATTTTATTTTTATCTTAAATT
1 A--AAAAT-ATTATATTATTATTTTAACTT-TTGAATAGTATATTTTTATCTTAAATT
* *
7019710 AAAAATATTTTATTCTTATTTTAACTTT
1 AAAAATATTATATTATTATTTTAACTTT
7019738 AAAAAATATT
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
54 1 0.01
55 19 0.27
56 5 0.07
57 22 0.31
58 18 0.26
59 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (54 bp):
AAAAATATTATATTATTATTTTAACTTTTGAATAGTATATTTTTATCTTAAATT
Found at i:7019691 original size:17 final size:18
Alignment explanation
Indices: 7019661--7019694 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7019651 TATTAAATTG
*
7019661 ATTATATTATTATTTTAA
1 ATTATATTAATATTTTAA
7019679 ATTAT-TTAATATTTTA
1 ATTATATTAATATTTTA
7019695 TTTTTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTAATATTTTAA
Found at i:7019781 original size:31 final size:29
Alignment explanation
Indices: 7019512--7019838 Score: 151
Period size: 31 Copynumber: 11.2 Consensus size: 29
7019502 ATTTATTAAA
*
7019512 TATATTTTATTCTTAACTTAA-TTGAAAAT
1 TATATTTTATTCTTATCTTAACTT-AAAAT
* * *
7019541 T-TATTTTATTATTATTTTAATTTTAGAAA-
1 TATATTTTATTCTTATCTTAA-CTTA-AAAT
* * * * *
7019570 TATATTTTATTCTCATATAAAATTTTAAAAA
1 TATATTTTATTCTTATCT-TAA-CTTAAAAT
* * *
7019601 TATATTTTATTATTATTTTAACTTTTGAAAGT
1 TATATTTTATTCTTATCTTAAC--TT-AAAAT
7019633 ATATATTTTA-TCTTAAT-TT-A-TT-AAAT
1 -TATATTTTATTCTT-ATCTTAACTTAAAAT
* * * * * *
7019659 T-GATTATATTATTATTTTAAATT--ATT
1 TATATTTTATTCTTATCTTAACTTAAAAT
* *
7019685 TAATATTTTATTTTTATCTTAAATTAAAA-
1 T-ATATTTTATTCTTATCTTAACTTAAAAT
*
7019714 -ATATTTTATTCTTATTTTAACTTTAAAA-
1 TATATTTTATTCTTATCTTAAC-TTAAAAT
* *
7019742 AATATTTTATTCTTATCATAACTTAAAAGT
1 TATATTTTATTCTTATCTTAACTTAAAA-T
* * *
7019772 GTATATTTTATTTTTATTTTAAATTAAAAAT
1 -TATATTTTATTCTTATCTTAACTT-AAAAT
* *
7019803 ATATATTTTATTCTTAACTTAACTTAATAT
1 -TATATTTTATTCTTATCTTAACTTAAAAT
7019833 ATATAT
1 -TATAT
7019839 CTAAAAAATA
Statistics
Matches: 232, Mismatches: 41, Indels: 49
0.72 0.13 0.15
Matches are distributed among these distances:
24 7 0.03
25 6 0.03
26 7 0.03
27 20 0.09
28 48 0.21
29 22 0.09
30 34 0.15
31 65 0.28
32 12 0.05
33 11 0.05
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTTTATTCTTATCTTAACTTAAAAT
Found at i:7023643 original size:3 final size:3
Alignment explanation
Indices: 7023629--7023705 Score: 95
Period size: 3 Copynumber: 25.3 Consensus size: 3
7023619 GAAGAACTAT
**
7023629 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TTACA TGT TACA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TA-A TAA TAA
7023675 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7023706 TCCATGTCAC
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 4 0.06
3 55 0.85
4 5 0.08
5 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7023704 original size:47 final size:47
Alignment explanation
Indices: 7023629--7023730 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
7023619 GAAGAACTAT
*
7023629 TAATAA-AATAATAATAATAATAATAATAATTACATGTTACATAATA
1 TAATAATAATAATAATAATAATAATAATAATTACATGTCACATAATA
*
7023675 TAATAATAATAATAATAATAATAATAATAATTCCATGTCACATAATA
1 TAATAATAATAATAATAATAATAATAATAATTACATGTCACATAATA
*
7023722 TATTAATAA
1 TAATAATAA
7023731 AACAAATTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 6 0.12
47 46 0.88
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (47 bp):
TAATAATAATAATAATAATAATAATAATAATTACATGTCACATAATA
Found at i:7027666 original size:3 final size:3
Alignment explanation
Indices: 7027658--7027685 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7027648 TATTTTTATA
7027658 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7027686 TCATATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7031795 original size:42 final size:42
Alignment explanation
Indices: 7031732--7031861 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 42
7031722 GATGAAAACA
* * *
7031732 TTTTGTCACTTGGCTTAGTTGGTGATTTGTGACGATAATTGT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTAT
* *
7031774 TTTTGTCACTAGTCTTTGTTGGTGAATTGTGACGATAATTAT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTAT
* * * *
7031816 TTTTGTCATTAGTCTTAGTTGATGATTTGTGACGACAATAAT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTAT
7031858 TTTT
1 TTTT
7031862 ATTACTATTG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.48
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTAT
Found at i:7033382 original size:17 final size:17
Alignment explanation
Indices: 7033354--7033387 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
7033344 GTTACTAAAG
7033354 AAAATGAATATA-ACTA
1 AAAATGAATATATACTA
7033370 AAAATGTAATATATACTA
1 AAAATG-AATATATACTA
7033388 TAATTGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATGAATATATACTA
Found at i:7035471 original size:2 final size:2
Alignment explanation
Indices: 7035466--7035496 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7035456 TTTAACAGCC
7035466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7035497 GTAAGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7037668 original size:22 final size:22
Alignment explanation
Indices: 7037646--7037686 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7037636 TCATAATTAT
7037646 TTAAAAA-ATTAAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
*
7037667 TTAAAAATATTTAATAAAAA
1 TTAAAAATATTAAATAAAAA
7037687 AATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATATTAAATAAAAATA
Found at i:7039734 original size:14 final size:14
Alignment explanation
Indices: 7039715--7039748 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
7039705 GCACATGTGT
7039715 CATTTCAACATTGA
1 CATTTCAACATTGA
7039729 CATTTCAACATTGA
1 CATTTCAACATTGA
7039743 CATTTC
1 CATTTC
7039749 TTTAGGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (14 bp):
CATTTCAACATTGA
Found at i:7041235 original size:14 final size:14
Alignment explanation
Indices: 7041216--7041245 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7041206 ATATTTTTGA
7041216 AATAAAGTTATGAT
1 AATAAAGTTATGAT
*
7041230 AATAAATTTATGAT
1 AATAAAGTTATGAT
7041244 AA
1 AA
7041246 CATACTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (14 bp):
AATAAAGTTATGAT
Found at i:7045173 original size:15 final size:15
Alignment explanation
Indices: 7045150--7045200 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
7045140 CGCCCCCCAT
*
7045150 CCGCACCGCATCCAC
1 CCGCCCCGCATCCAC
*
7045165 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCAC
*
7045180 CCGCCCCACATCCAC
1 CCGCCCCGCATCCAC
7045195 CCGCCC
1 CCGCCC
7045201 AACTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.14, C:0.67, G:0.14, T:0.06
Consensus pattern (15 bp):
CCGCCCCGCATCCAC
Found at i:7046782 original size:20 final size:21
Alignment explanation
Indices: 7046752--7046798 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
7046742 TCAATAAAAC
*
7046752 GTTACCTAAAACATT-ATTTT
1 GTTACCGAAAACATTAATTTT
* *
7046772 TTTACCGAAAATATTAATTTT
1 GTTACCGAAAACATTAATTTT
7046793 GTTACC
1 GTTACC
7046799 ACCTTCGCCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (21 bp):
GTTACCGAAAACATTAATTTT
Found at i:7049741 original size:6 final size:6
Alignment explanation
Indices: 7049730--7049756 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7049720 TTAATTACGA
7049730 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
7049757 AATTCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:7050582 original size:20 final size:20
Alignment explanation
Indices: 7050557--7050598 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7050547 CCCCCGTCGG
* *
7050557 GGTCATTTCCTGTTGCTTCA
1 GGTCATTCCCGGTTGCTTCA
*
7050577 GGTCATTCCCGGTTGTTTCA
1 GGTCATTCCCGGTTGCTTCA
7050597 GG
1 GG
7050599 GTTGTTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.24, G:0.26, T:0.40
Consensus pattern (20 bp):
GGTCATTCCCGGTTGCTTCA
Found at i:7051116 original size:20 final size:20
Alignment explanation
Indices: 7051091--7051129 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7051081 AATAAATAAA
7051091 TAAATAAATAAA-ATATAATG
1 TAAATAAA-AAACATATAATG
7051111 TAAATAAAAAACATATAAT
1 TAAATAAAAAACATATAAT
7051130 AAAAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAATAAAAAACATATAATG
Found at i:7051245 original size:37 final size:37
Alignment explanation
Indices: 7051169--7051422 Score: 314
Period size: 37 Copynumber: 6.7 Consensus size: 37
7051159 AATAAATATA
* * * *
7051169 TTTTCGAAACTATGTATTATATATA-TTTCCAAAACG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
7051205 TTTT-AAAACTATATATTATATATATTTTCGAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTC-AAAAATG
*
7051242 TTTTCAAAACTATATATTATATAAATTTTTTTCAAAAAATG
1 TTTTCAAAACTATATATTATAT--A-TATTTTC-AAAAATG
7051283 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
* * **
7051320 TTTTCAACACTATATATTATATATATATTCAAAAAAA
1 TTTTCAAAACTATATATTATATATATTTTCAAAAATG
* * *
7051357 TTCTCAAAACTATATATTTTATATATATTCGAAAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTC---AAAAATG
7051397 TTTTCAAAACTATATATTATATATAT
1 TTTTCAAAACTATATATTATATATAT
7051423 GTTATGTGTA
Statistics
Matches: 191, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
35 18 0.09
36 8 0.04
37 76 0.40
38 23 0.12
39 1 0.01
40 30 0.16
41 35 0.18
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAAATG
Found at i:7051301 original size:114 final size:113
Alignment explanation
Indices: 7051169--7051422 Score: 339
Period size: 114 Copynumber: 2.2 Consensus size: 113
7051159 AATAAATATA
* * * *
7051169 TTTTCGAAACTATGTATTATATATATTTCCAAAACGTTTT-AAAACTATATATTATATATATTTT
1 TTTTCAAAACTATATATTATATATATTTCAAAAACGTTTTCAAAACTATATATTATATATATATT
** * * ***
7051233 CGAAAAATGTTTTCAAAACTATATATTATATAAATTTTTTTCAAAAAATG
66 C-AAAAAAATTCTCAAAACTATATATTATATAAA-TATTCGAAAAAAATG
* *
7051283 TTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAACACTATATATTATATATATAT
1 TTTTCAAAACTATATATTATATATA-TTTCAAAAACGTTTTCAAAACTATATATTATATATATAT
* *
7051348 TCAAAAAAATTCTCAAAACTATATATTTTATATATATTCGAAAAAAATG
65 TCAAAAAAATTCTCAAAACTATATATTATATAAATATTCGAAAAAAATG
7051397 TTTTCAAAACTATATATTATATATAT
1 TTTTCAAAACTATATATTATATATAT
7051423 GTTATGTGTA
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
113 1 0.01
114 59 0.48
115 40 0.33
116 23 0.19
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (113 bp):
TTTTCAAAACTATATATTATATATATTTCAAAAACGTTTTCAAAACTATATATTATATATATATT
CAAAAAAATTCTCAAAACTATATATTATATAAATATTCGAAAAAAATG
Found at i:7057930 original size:18 final size:18
Alignment explanation
Indices: 7057907--7057973 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
7057897 ATAAATTCTC
7057907 CATTACCTACAGATACTA
1 CATTACCTACAGATACTA
* * * *
7057925 CATTACCTTCTGATTCTC
1 CATTACCTACAGATACTA
* * * *
7057943 CATTTCCTATAGATCCTT
1 CATTACCTACAGATACTA
*
7057961 CATTACATACAGA
1 CATTACCTACAGA
7057974 CTCTCTTTTT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (18 bp):
CATTACCTACAGATACTA
Found at i:7071631 original size:19 final size:19
Alignment explanation
Indices: 7071593--7071639 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
7071583 TTTTGAAGAG
* * *
7071593 TAATGAATTAATGATTTTT
1 TAATGATTTAATCATCTTT
7071612 TAATGATTTAATCATCTTT
1 TAATGATTTAATCATCTTT
7071631 T-ATGATTTA
1 TAATGATTTA
7071640 TTTATCGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (19 bp):
TAATGATTTAATCATCTTT
Found at i:7073363 original size:18 final size:18
Alignment explanation
Indices: 7073340--7073375 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7073330 TTCTTTTACC
*
7073340 TTTTTTTTATTTAACTTA
1 TTTTTTTTACTTAACTTA
7073358 TTTTTTTTACTTAACTTA
1 TTTTTTTTACTTAACTTA
7073376 AACTTAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTTACTTAACTTA
Found at i:7073499 original size:21 final size:21
Alignment explanation
Indices: 7073473--7073514 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7073463 TTTGTTTTAT
7073473 TCATGAAAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
*
7073494 TCATGAAAATTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
7073515 ATAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (21 bp):
TCATGAAAACTATCTATAAAA
Found at i:7073972 original size:188 final size:185
Alignment explanation
Indices: 7073721--7074095 Score: 608
Period size: 188 Copynumber: 2.0 Consensus size: 185
7073711 ATTAAATTTT
* * *
7073721 AAATATTAAATATATTATATATAACATATGGGTTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
*
7073786 TTTAAGATCCAACAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAATTCATATAAAATTT
66 TTTAAGATCCAACAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTCATATAAAATTT
* *
7073850 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAAC-ATTTTTTTAAATTAAA
7073906 AAATATTAAATATATTATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACCCAATTAA
1 AAATATT-AA-ATA-TATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACCCAATTAA
* * * *
7073971 TAATTTAAGATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATCTGAAA
63 TAATTTAAGATCCAACAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTCATATAAAA
*
7074036 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACATTTTTTTGAATTAAA
128 TTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACATTTTTTTAAATTAAA
7074094 AA
1 AA
7074096 CTTTTAATTT
Statistics
Matches: 175, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
185 7 0.04
186 2 0.01
187 3 0.02
188 109 0.62
189 54 0.31
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAACAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTCATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACATTTTTTTAAATTAAA
Found at i:7078611 original size:2 final size:2
Alignment explanation
Indices: 7078604--7078633 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7078594 GACACTATTA
*
7078604 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7078634 GATTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7078641 original size:12 final size:12
Alignment explanation
Indices: 7078599--7078633 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7078589 ATTAAGACAC
*
7078599 TATTAATATATA
1 TATTTATATATA
*
7078611 TATATATATATA
1 TATTTATATATA
7078623 TATTTATATAT
1 TATTTATATAT
7078634 GATTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTTATATATA
Found at i:7088847 original size:75 final size:75
Alignment explanation
Indices: 7088760--7088901 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
7088750 CAATATCATG
* * * *
7088760 ACAATCAGAAATATATATATCCTCTAGG-TATC-TCATGATTGCCTCTATACTTTTGGGCTTTGT
1 ACAATCAGAAATAGATACATCCTCTAGGATATCAT-ATGACTGCCTCTATA-TTTTGGGATTTGT
7088823 AGTTCATGTCTA
64 AGTTCATGTCTA
* *
7088835 ACAATCAGAAATAGATCCATCCTCTAGGAATATCATATGACTGCCTCTATATTTTTGGATTTGTA
1 ACAATCAGAAATAGATACATCCTCTAGG-ATATCATATGACTGCCTCTATATTTTGGGATTTGTA
7088900 GT
65 GT
7088902 ACTTAGCTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
75 25 0.43
76 14 0.24
77 18 0.31
78 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (75 bp):
ACAATCAGAAATAGATACATCCTCTAGGATATCATATGACTGCCTCTATATTTTGGGATTTGTAG
TTCATGTCTA
Found at i:7105335 original size:13 final size:13
Alignment explanation
Indices: 7105317--7105342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7105307 ACATATTTGA
7105317 ACAGTCTTCATAT
1 ACAGTCTTCATAT
7105330 ACAGTCTTCATAT
1 ACAGTCTTCATAT
7105343 GCGCGTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ACAGTCTTCATAT
Found at i:7105382 original size:14 final size:15
Alignment explanation
Indices: 7105363--7105402 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
7105353 AATGGGAAGT
7105363 AATCCCTGC-TAATA
1 AATCCCTGCATAATA
7105377 AATCCCTGCATAAT-
1 AATCCCTGCATAATA
*
7105391 AATCTCTGCATA
1 AATCCCTGCATA
7105403 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (15 bp):
AATCCCTGCATAATA
Found at i:7106153 original size:17 final size:17
Alignment explanation
Indices: 7106131--7106168 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
7106121 TTGAGGTTTT
7106131 AATTGTGAAAATTGGTA
1 AATTGTGAAAATTGGTA
7106148 AATTGTGAAAATTGGTA
1 AATTGTGAAAATTGGTA
7106165 AATT
1 AATT
7106169 TTGGGGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTGTGAAAATTGGTA
Found at i:7106957 original size:29 final size:29
Alignment explanation
Indices: 7106908--7107129 Score: 220
Period size: 29 Copynumber: 7.7 Consensus size: 29
7106898 ATCGTTGACC
* * *
7106908 GAGTGACATTTTAGGAATTAATTCGAAAT
1 GAGTGATATTTTGGGAATTAATTCGAAAA
* * *
7106937 GGGTGCTATTTTGTGAATTAATTC-AAAA
1 GAGTGATATTTTGGGAATTAATTCGAAAA
* *
7106965 TGGGTGCTATTTTGGGAATTAATTCGAAAA
1 -GAGTGATATTTTGGGAATTAATTCGAAAA
7106995 GAGTGATATTTTGGGAATTAATTCGAAAA
1 GAGTGATATTTTGGGAATTAATTCGAAAA
7107024 GAGTGATATTTTGGGAATTAATTCGAAAA
1 GAGTGATATTTTGGGAATTAATTCGAAAA
* * *
7107053 -AGTAATATTTTAGGAATTTAGTTC-AAAA
1 GAGTGATATTTTGGGAA-TTAATTCGAAAA
* * * *
7107081 -AGTGCTATTTTAGAAATTTAATT-TAAAA
1 GAGTGATATTTTGGGAA-TTAATTCGAAAA
* *
7107109 AAGGTGCTATTTTGGGAATTA
1 GA-GTGATATTTTGGGAATTA
7107130 TTTTAAAAAT
Statistics
Matches: 169, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
28 44 0.26
29 108 0.64
30 17 0.10
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.37
Consensus pattern (29 bp):
GAGTGATATTTTGGGAATTAATTCGAAAA
Found at i:7108127 original size:42 final size:41
Alignment explanation
Indices: 7108062--7108228 Score: 217
Period size: 42 Copynumber: 4.0 Consensus size: 41
7108052 GAAGTATTAT
* *
7108062 CAGGTCCCTTTTACTGTGTGCGAAGGTAAGCCTTACCGTTTCC
1 CAGGTCCC-TTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
* *
7108105 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAATTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
* *
7108147 CAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCT
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTCC
* *
7108189 CAGGTCCCTTTGCTGTGTACAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTT
7108229 TCCTAGGCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.04
42 99 0.89
43 8 0.07
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTCC
Found at i:7109837 original size:2 final size:2
Alignment explanation
Indices: 7109830--7109878 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
7109820 CTTGGATACA
*
7109830 AT AT AT AT A- AT CT AT A- 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 AT AT AT AT AT
*
7109870 AT AT TT AT A
1 AT AT AT AT A
7109879 AAAAAATACA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7124620 original size:10 final size:10
Alignment explanation
Indices: 7124605--7124655 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
7124595 TTTGTAGGTA
7124605 AATTTATTTT
1 AATTTATTTT
7124615 AATTTATTTT
1 AATTTATTTT
*
7124625 ATATTT-TTAGGTA
1 A-ATTTATT---TT
7124638 AATTTATTTT
1 AATTTATTTT
7124648 AATTTATT
1 AATTTATT
7124656 AAAATTAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 22 0.65
11 4 0.12
12 4 0.12
13 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (10 bp):
AATTTATTTT
Found at i:7124630 original size:33 final size:33
Alignment explanation
Indices: 7124593--7124655 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
7124583 TAACATGGAC
7124593 TATTTGTAGGTAAATTTATTTTAATTTATTTTA
1 TATTTGTAGGTAAATTTATTTTAATTTATTTTA
*
7124626 TATTTTTAGGTAAATTTATTTTAATTTATT
1 TATTTGTAGGTAAATTTATTTTAATTTATT
7124656 AAAATTAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (33 bp):
TATTTGTAGGTAAATTTATTTTAATTTATTTTA
Found at i:7126438 original size:34 final size:32
Alignment explanation
Indices: 7126358--7126446 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
7126348 TTAGTATTTT
* * *
7126358 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTTATATAAATATA
* *
7126390 TTTATGTAAATATTATTTTATTAT-TAAAATAATA
1 TTTATATAATTATTATTTT-TTATAT-AAAT-ATA
7126424 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
7126447 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.35
33 7 0.15
34 22 0.48
35 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTATATAATTATTATTTTTTATATAAATATA
Found at i:7127605 original size:12 final size:12
Alignment explanation
Indices: 7127588--7127626 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
7127578 TACATAAATA
7127588 TATTTAATATAT
1 TATTTAATATAT
*
7127600 TATTTAATATAA
1 TATTTAATATAT
7127612 TATTTAATATTAT
1 TATTTAATA-TAT
7127625 TA
1 TA
7127627 GTTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTAATATAT
Found at i:7127673 original size:23 final size:23
Alignment explanation
Indices: 7127635--7127691 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
7127625 TAGTTATAAT
7127635 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
7127656 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
7127679 TTTTACATAATAT
1 TTTTACATAATAT
7127692 TATTAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.24
23 26 0.76
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:7128216 original size:18 final size:18
Alignment explanation
Indices: 7128179--7128213 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7128169 AATCTTCTTA
7128179 AATTATTAAAAAAATATT
1 AATTATTAAAAAAATATT
*
7128197 AATT-TTAAATAAATATT
1 AATTATTAAAAAAATATT
7128214 TAAATTGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATTAAAAAAATATT
Found at i:7132546 original size:11 final size:11
Alignment explanation
Indices: 7132530--7132562 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7132520 ACCGTCTAAG
7132530 AAACATGTCTC
1 AAACATGTCTC
7132541 AAACATGTCTC
1 AAACATGTCTC
*
7132552 AAACATCTCTC
1 AAACATGTCTC
7132563 TCTCAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.27
Consensus pattern (11 bp):
AAACATGTCTC
Found at i:7138265 original size:14 final size:14
Alignment explanation
Indices: 7138248--7138274 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7138238 GAAAAAATAG
7138248 GAGAGAGAAAAGTA
1 GAGAGAGAAAAGTA
7138262 GAGAGAGAAAAGT
1 GAGAGAGAAAAGT
7138275 TAAAAGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
GAGAGAGAAAAGTA
Found at i:7148581 original size:416 final size:416
Alignment explanation
Indices: 7147808--7148596 Score: 1348
Period size: 416 Copynumber: 1.9 Consensus size: 416
7147798 CTTAATGGAC
*
7147808 ATCTTATCATATGACAGTAAAAGTCACTATGCAATATAAATACATAAAAGCTAACCCTAGTCCCC
1 ATCTTATCATATGACAGTAAAAGTCAATATGCAATATAAATACATAAAAGCTAACCCTAGTCCCC
* **
7147873 ACTGAGGCAATTGAGAAAATATAATTTTATTTTAATCACCTTTTAAAAAGAGCACAATTATCCTG
66 ACTAAGGCAATTGAGAAAATATAATACTATTTTAATCACCTTTTAAAAAGAGCACAATTATCCTG
* *
7147938 GAGTATACTCTAGATGCCAAAATGTACTACTCTCAGAAGATTCACAATGGACTTGCAAGAAAATA
131 GAGTATACTCTAGATGCCAAAAAGTA-TACTCTCAGAAGATTCACAATGGACTTCCAAGAAAATA
* *
7148003 GAATACAAAAAAGTTTTTACATTACAGAGTAAAATAGACAAAAATTGGTTGTGGTCACACATTTC
195 GAATACAAAAAAGTTTTTACATTA-AGAGTAAAATAGACAAAAATTGGTTGCGGTCACACATTCC
* * **
7148068 AATAATACCATGCCAGTATTTCGACAAAGAGATAAATCTCATAGAGAACCCCATACAATTTACCT
259 AATAATACCATGCCAGTATTTCAACAAAGAGAAAAATCTCATAGAGAACCCCATACAATACACCT
7148133 TTTTCAGTGGTACCAGTACTTTAAAAGACCAATCTGGTACATGAGCTACAGTTACATGTGACCAA
324 TTTTCAGTGGTACCAGTACTTTAAAAGACCAATCTGGTACATGAGCTACAGTTACATGTGACCAA
7148198 TCTGGTACATGAGCTACAGTCACGTGCA
389 TCTGGTACATGAGCTACAGTCACGTGCA
7148226 ATCTTATCATATGACAGTAAAAGTCAATATGCAATATAAATACATAAAAGCTAACCCTAGTCCCC
1 ATCTTATCATATGACAGTAAAAGTCAATATGCAATATAAATACATAAAAGCTAACCCTAGTCCCC
* * *
7148291 ATTAAGGCAATTGAGAAAATATAATACTATTTTAATCACCTTTTAAAAAGAGCATAGTTATCCTG
66 ACTAAGGCAATTGAGAAAATATAATACTATTTTAATCACCTTTTAAAAAGAGCACAATTATCCTG
*
7148356 GAGTATACTCTAGATGCCAAAAAGT-TCCTCTCAGAAGATTCACAATGGACTTCCAAGAAAATAG
131 GAGTATACTCTAGATGCCAAAAAGTATACTCTCAGAAGATTCACAATGGACTTCCAAGAAAATAG
7148420 AATACAAAAAAGTTTTTACATT-AGAGTAAAATAGACAAAAAAATTGGTTGCGGTCACACATTCC
196 AATACAAAAAAGTTTTTACATTAAGAGTAAAATAGAC--AAAAATTGGTTGCGGTCACACATTCC
* * * *
7148484 AATAATACCATGTCAGTATTTCAACAAAGAGAAAAATCTCATTGAGAACCCCATACGATACACTT
259 AATAATACCATGCCAGTATTTCAACAAAGAGAAAAATCTCATAGAGAACCCCATACAATACACCT
7148549 TTTTCAGTGGTACCAGTACTTTAAAAGACCAATCTGGTACATGAGCTA
324 TTTTCAGTGGTACCAGTACTTTAAAAGACCAATCTGGTACATGAGCTA
7148597 TCATCACGTG
Statistics
Matches: 349, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
414 14 0.04
416 188 0.54
418 147 0.42
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (416 bp):
ATCTTATCATATGACAGTAAAAGTCAATATGCAATATAAATACATAAAAGCTAACCCTAGTCCCC
ACTAAGGCAATTGAGAAAATATAATACTATTTTAATCACCTTTTAAAAAGAGCACAATTATCCTG
GAGTATACTCTAGATGCCAAAAAGTATACTCTCAGAAGATTCACAATGGACTTCCAAGAAAATAG
AATACAAAAAAGTTTTTACATTAAGAGTAAAATAGACAAAAATTGGTTGCGGTCACACATTCCAA
TAATACCATGCCAGTATTTCAACAAAGAGAAAAATCTCATAGAGAACCCCATACAATACACCTTT
TTCAGTGGTACCAGTACTTTAAAAGACCAATCTGGTACATGAGCTACAGTTACATGTGACCAATC
TGGTACATGAGCTACAGTCACGTGCA
Found at i:7152284 original size:20 final size:21
Alignment explanation
Indices: 7152259--7152314 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
7152249 TCTGGGCAAG
*
7152259 GGGAATCGGTACCCATTCAA-
1 GGGAATCGATACCCATTCAAT
*
7152279 GGGAATCGATACTCATTCAAT
1 GGGAATCGATACCCATTCAAT
7152300 GGGAAATCGATACCC
1 GGG-AATCGATACCC
7152315 CCCTCAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.58
21 3 0.10
22 10 0.32
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCATTCAAT
Found at i:7152854 original size:20 final size:20
Alignment explanation
Indices: 7152829--7152874 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
7152819 ATAAGTCGAG
7152829 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
7152849 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
7152869 AGATGT
1 AGATGT
7152875 TTATAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (20 bp):
AGATGTAGGGAAATAGAAAT
Found at i:7154013 original size:103 final size:103
Alignment explanation
Indices: 7153690--7154005 Score: 578
Period size: 103 Copynumber: 3.1 Consensus size: 103
7153680 GGGTCTACGC
*
7153690 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
7153755 CTTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
7153793 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
7153858 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
7153896 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
7153961 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
7153999 GGTCCTT
1 GGTCCTT
7154006 ATGGACATTA
Statistics
Matches: 206, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:7154055 original size:23 final size:23
Alignment explanation
Indices: 7154023--7154066 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7154013 TTATTATATA
*
7154023 GCACTCCGGTGCAATTCTACGTG
1 GCACTCCGGTGCAATTATACGTG
*
7154046 GCACTTCGGTGCAATTATACG
1 GCACTCCGGTGCAATTATACG
7154067 AGCTATGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GCACTCCGGTGCAATTATACGTG
Found at i:7183982 original size:30 final size:29
Alignment explanation
Indices: 7183948--7184005 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
7183938 AACAAACTCT
*
7183948 AAAGAGTGCTCCAGTATATCCTACAAAACA
1 AAAGAGTGCTCCAGCATATCCTA-AAAACA
*
7183978 AAAGAGTGCTCTAGCATATCCTAAAAAC
1 AAAGAGTGCTCCAGCATATCCTAAAAAC
7184006 CATGCAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (29 bp):
AAAGAGTGCTCCAGCATATCCTAAAAACA
Found at i:7192794 original size:28 final size:28
Alignment explanation
Indices: 7192761--7192817 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
7192751 TCTAGTAATT
7192761 TTAAAATATATATTT-AAAAAT-TAAAAA
1 TTAAAA-ATATATTTAAAAAATGTAAAAA
*
7192788 TTAAAAATATATTTAAAAAATGTATAAA
1 TTAAAAATATATTTAAAAAATGTAAAAA
7192816 TT
1 TT
7192818 TTAAAATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 12 0.44
28 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAAAATATATTTAAAAAATGTAAAAA
Found at i:7195040 original size:31 final size:31
Alignment explanation
Indices: 7195002--7195093 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
7194992 CCCGAAGGAC
* *
7195002 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
7195033 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
7195064 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
7195094 CCCTCGACCC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:7195799 original size:21 final size:21
Alignment explanation
Indices: 7195769--7195813 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7195759 ATTCTGTCGT
* *
7195769 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
7195790 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
7195811 TTG
1 TTG
7195814 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:7199656 original size:31 final size:31
Alignment explanation
Indices: 7199618--7199771 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
7199608 CCCGAAGGAC
* *
7199618 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
7199649 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
7199680 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
7199711 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
7199742 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
7199772 CCCTCGACCC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:7200477 original size:21 final size:21
Alignment explanation
Indices: 7200447--7200491 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7200437 ATTCTGTCGT
*
7200447 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
7200468 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
7200489 TTG
1 TTG
7200492 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:7203020 original size:21 final size:21
Alignment explanation
Indices: 7202989--7203041 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7202979 GTTTCCAGAT
7202989 TCGCAATGCGAACATCGACTA
1 TCGCAATGCGAACATCGACTA
* * * *
7203010 TTGCAACGCGAACTTCGATTA
1 TCGCAATGCGAACATCGACTA
7203031 TCGCAATGCGA
1 TCGCAATGCGA
7203042 TTTTCTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACATCGACTA
Found at i:7211386 original size:41 final size:41
Alignment explanation
Indices: 7211341--7211427 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
7211331 AAAATTCCTT
*
7211341 GTAATTTGGTAAGAAATTTAGTA-TATCTAAAAATGATGTCA
1 GTAATTTGGTAAGAAATTTAGTATTATCT-AAAACGATGTCA
* *
7211382 GTAATTTGGTAAGAAATTTCGTATTATCTAAAACGATGTCT
1 GTAATTTGGTAAGAAATTTAGTATTATCTAAAACGATGTCA
7211423 GTAAT
1 GTAAT
7211428 GATAGCTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (41 bp):
GTAATTTGGTAAGAAATTTAGTATTATCTAAAACGATGTCA
Found at i:7214587 original size:22 final size:22
Alignment explanation
Indices: 7214509--7214589 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 22
7214499 TTTAAATTCA
7214509 AAATATAAATTATTCAAAAACTT
1 AAATATAAATTATTCAAAAA-TT
* * *
7214532 AAATAT-AATAATAC-CAAATAT
1 AAATATAAATTATTCAAAAAT-T
*
7214553 AAAAATTAAATTATTCAAAAATT
1 AAATA-TAAATTATTCAAAAATT
*
7214576 AAATATATATTATT
1 AAATATAAATTATT
7214590 ACTTTTTTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 8 0.18
22 15 0.33
23 17 0.38
24 4 0.09
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATATAAATTATTCAAAAATT
Found at i:7215254 original size:22 final size:22
Alignment explanation
Indices: 7215226--7215275 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
7215216 TATTTTTTAA
7215226 TATTTTGATTCTAAAATACTTT
1 TATTTTGATTCTAAAATACTTT
*
7215248 TATTTTGATTTTAAAATACTTT
1 TATTTTGATTCTAAAATACTTT
7215270 TATTTT
1 TATTTT
7215276 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTGATTCTAAAATACTTT
Found at i:7222006 original size:23 final size:23
Alignment explanation
Indices: 7221976--7222020 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
7221966 AAACGGTAAC
7221976 TTCCGGGAACATTCTCGTCACTA
1 TTCCGGGAACATTCTCGTCACTA
7221999 TTCCGGGAACATTCTCGTCACT
1 TTCCGGGAACATTCTCGTCACT
7222021 GAACGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (23 bp):
TTCCGGGAACATTCTCGTCACTA
Found at i:7222610 original size:24 final size:24
Alignment explanation
Indices: 7222564--7222626 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
7222554 TCGGTTTTAA
*
7222564 AAAAAAACCCGGATTTTTTCGG-TT
1 AAAAAAA-CCGGTTTTTTTCGGTTT
7222588 -AAAAAACCGGTTTTTTATCCGGTTT
1 AAAAAAACCGGTTTTTT-T-CGGTTT
7222613 GAAAAAAACCGGTT
1 -AAAAAAACCGGTT
7222627 GTTCAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 9 0.27
23 7 0.21
24 3 0.09
25 2 0.06
27 12 0.36
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (24 bp):
AAAAAAACCGGTTTTTTTCGGTTT
Found at i:7222801 original size:25 final size:25
Alignment explanation
Indices: 7222767--7222814 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
7222757 TGCACCTCTA
7222767 TCACCAAGTAATCAGTAGAATTTGT
1 TCACCAAGTAATCAGTAGAATTTGT
*
7222792 TCACCAAGTAATCGGTAGAATTT
1 TCACCAAGTAATCAGTAGAATTT
7222815 AAAATATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (25 bp):
TCACCAAGTAATCAGTAGAATTTGT
Found at i:7223041 original size:25 final size:25
Alignment explanation
Indices: 7222995--7223044 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7222985 GTTGTTGTCG
* *
7222995 GTTCACCGAATAATCAGTAGAATTT
1 GTTCACCAAATAATCAGAAGAATTT
* *
7223020 GTTCACCAAATATTCGGAAGAATTT
1 GTTCACCAAATAATCAGAAGAATTT
7223045 AAATAACACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
GTTCACCAAATAATCAGAAGAATTT
Found at i:7223279 original size:64 final size:64
Alignment explanation
Indices: 7223173--7223298 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
7223163 ACGATAACTT
* * *
7223173 TTTACACTTTAATATGAAAAACTATTAAATTTATATCATTTATTATAAATAATTAAATTTTAGC
1 TTTACACTTTAATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTAGC
* *
7223237 TTTATACTTTAATATAAAAAAATATTCAATTTACATCATTTATTATAAATAATTAAATTTTA
1 TTTACACTTTAATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTA
7223299 ACTTAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (64 bp):
TTTACACTTTAATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTAGC
Found at i:7223315 original size:64 final size:64
Alignment explanation
Indices: 7223183--7223315 Score: 178
Period size: 64 Copynumber: 2.1 Consensus size: 64
7223173 TTTACACTTT
* * * * * * *
7223183 AATATGAAAAACTATTAAATTTATATCATTTATTATAAATAATTAAATTTTAGCTTTATACTTT
1 AATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTAACTTTAAAATTG
*
7223247 AATATAAAAAAATATTCAATTTACATCATTTATTATAAATAATTAAATTTTAAC-TTAAAATATG
1 AATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTAACTTTAAAAT-TG
7223311 AATAT
1 AATAT
7223316 TTCTTCTCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 5 0.08
64 55 0.92
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (64 bp):
AATATAAAAAAATATTAAATTTACATCATTTATTATAAATAATTAAATTTTAACTTTAAAATTG
Found at i:7228217 original size:42 final size:41
Alignment explanation
Indices: 7228105--7228217 Score: 93
Period size: 42 Copynumber: 2.7 Consensus size: 41
7228095 TGCCGAAGAT
* * * * * *
7228105 GTACCACCAAAAGTACTACAGGCTGTGCTTGTAGTTGCGGAT
1 GTACCACCAAGA-TACTACTGCCTGTGCTGGTAGTTGCAGAC
* * *
7228147 GTACCGCCAAAGATAAC-ATTGCCCGTGCTGGTAGTTGCAGAC
1 GTACCACC-AAGAT-ACTACTGCCTGTGCTGGTAGTTGCAGAC
*
7228189 GTACCACCGAAGATACTACTGTCTGTGCT
1 GTACCACC-AAGATACTACTGCCTGTGCT
7228218 TGTCACCGTG
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.04
42 47 0.87
43 5 0.09
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
GTACCACCAAGATACTACTGCCTGTGCTGGTAGTTGCAGAC
Found at i:7236374 original size:21 final size:21
Alignment explanation
Indices: 7236332--7236374 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7236322 TTTCTGGGCT
* *
7236332 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
7236353 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
7236374 A
1 A
7236375 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:7236447 original size:23 final size:22
Alignment explanation
Indices: 7236403--7236447 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7236393 AATCTCATAG
* *
7236403 GGGAACCGATTCTCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
7236425 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
7236448 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:7237962 original size:103 final size:103
Alignment explanation
Indices: 7237742--7237954 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
7237732 GGGTCTACGC
7237742 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
7237807 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
7237845 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
7237910 CCCTAGTATATGTATATGATTCTTAAGGAATGATATAT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
7237948 GGTCCTT
1 GGTCCTT
7237955 ATGGACATTA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATAT
Found at i:7238004 original size:23 final size:23
Alignment explanation
Indices: 7237971--7238033 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
7237961 ATTATTATAT
7237971 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
7237994 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
7238017 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
7238034 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:7246762 original size:18 final size:18
Alignment explanation
Indices: 7246739--7246811 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
7246729 AGGGAATATC
7246739 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* **
7246757 AGTGGTTCTTC-ATAGCAAT
1 AGTGGTCCTTCGGGA-C-AT
7246776 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
* *
7246795 AGTAGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
7246812 AATATTCAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
17 1 0.02
18 26 0.60
19 4 0.09
20 11 0.26
21 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:7250003 original size:16 final size:16
Alignment explanation
Indices: 7249982--7250013 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7249972 GATGTTCCTT
7249982 GGACATGTGATTGTTG
1 GGACATGTGATTGTTG
7249998 GGACATGTGATTGTTG
1 GGACATGTGATTGTTG
7250014 CGAAAGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.38, T:0.38
Consensus pattern (16 bp):
GGACATGTGATTGTTG
Found at i:7252696 original size:17 final size:16
Alignment explanation
Indices: 7252665--7252698 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7252655 CACGTGAGGA
7252665 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
7252681 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
7252698 T
1 T
7252699 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:7255325 original size:18 final size:18
Alignment explanation
Indices: 7255304--7255365 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
7255294 CAGTGGCCCG
*
7255304 TCGGGACATAGTGGTTCT
1 TCGGGACATAGTGGTCCT
*
7255322 TCGGAACAATCAGTGGTCCT
1 TCGGGAC-AT-AGTGGTCCT
7255342 TCGGGACATAGTGGTCCT
1 TCGGGACATAGTGGTCCT
7255360 TCGGGA
1 TCGGGA
7255366 TAAATATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 21 0.54
19 4 0.10
20 14 0.36
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (18 bp):
TCGGGACATAGTGGTCCT
Found at i:7257198 original size:41 final size:41
Alignment explanation
Indices: 7257136--7257219 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
7257126 ATAAATGAGG
7257136 ACTTAGGACAAATCAAATATGTTTTCTCTGACAAAACCGGT
1 ACTTAGGACAAATCAAATATGTTTTCTCTGACAAAACCGGT
* *
7257177 ACTTGGGACAAATCAAATATGTTTTCTCTGTCAAAACCGGT
1 ACTTAGGACAAATCAAATATGTTTTCTCTGACAAAACCGGT
7257218 AC
1 AC
7257220 ACTTACTGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
ACTTAGGACAAATCAAATATGTTTTCTCTGACAAAACCGGT
Found at i:7265016 original size:16 final size:16
Alignment explanation
Indices: 7264995--7265028 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7264985 TTACTATTCA
*
7264995 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
7265011 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
7265027 CG
1 CG
7265029 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:7271756 original size:17 final size:17
Alignment explanation
Indices: 7271734--7271791 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
7271724 TGTAAAAGTG
7271734 CACAGATGTAAGAATAA
1 CACAGATGTAAGAATAA
* *
7271751 CACAGAGGTGTAA-AAGAG
1 CACAGA--TGTAAGAATAA
7271769 CACAGATGTAAGAATAA
1 CACAGATGTAAGAATAA
*
7271786 TACAGA
1 CACAGA
7271792 GCGTGGAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
18 9 0.27
19 5 0.15
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (17 bp):
CACAGATGTAAGAATAA
Found at i:7271772 original size:35 final size:35
Alignment explanation
Indices: 7271724--7271792 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
7271714 TTTGGGTAGC
*
7271724 TGTAAAAGTGCACAGATGTAAGAATAACACAGAGG
1 TGTAAAAGAGCACAGATGTAAGAATAACACAGAGG
*
7271759 TGTAAAAGAGCACAGATGTAAGAATAATACAGAG
1 TGTAAAAGAGCACAGATGTAAGAATAACACAGAG
7271793 CGTGGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.25, T:0.17
Consensus pattern (35 bp):
TGTAAAAGAGCACAGATGTAAGAATAACACAGAGG
Found at i:7275158 original size:210 final size:211
Alignment explanation
Indices: 7274795--7275196 Score: 716
Period size: 210 Copynumber: 1.9 Consensus size: 211
7274785 ATAGAATTGG
*
7274795 GGGGGGGGAGAGGAAAGGACAAAAGCACTATTACTTGAATTTCATTTGCAGTCAGTATTGGCTAA
1 GGGGGGGGAGAGGAAAGGACAAAAGCACTAATACTTGAATTTCATTTGCAGTCAGTATTGGCTAA
* * * *
7274860 GTAGTGTGTAAATACACCTGCATACCTTGCATCTCACCTCCTAAAATATATAGGTGATATGTGTG
66 GTAGTGTGTAAATACACCTGCATACCTTGCATCTCACCTCCAAAAATAAATAGGTAATATGTATG
7274925 ATTTTGCACTATGTAAATAATGAGGTTAGTAGGTTTTTCTTTCCTTCCATGGTGATGCAGGACCT
131 ATTTTGCACTATGTAAATAATGAGGTTAGTAGGTTTTTCTTTCCTTCCATGGTGATGCAGGACCT
7274990 TATAGAATTAAGAGAA
196 TATAGAATTAAGAGAA
* *
7275006 GGGGGGGG-GAGGACAGGACACAAGCACTAATACTTGAATTTCATTTGCAGTCAGTATTGGCTAA
1 GGGGGGGGAGAGGAAAGGACAAAAGCACTAATACTTGAATTTCATTTGCAGTCAGTATTGGCTAA
* *
7275070 GTAGTGTGTAAATACACCTGCTTACCTTGCTTCTCACCTCCAAAAATAAATAGGTAATATGTATG
66 GTAGTGTGTAAATACACCTGCATACCTTGCATCTCACCTCCAAAAATAAATAGGTAATATGTATG
7275135 ATTTTGCACTATGTAAATAATGAGGTTAGTAGGTTTTTCTTTCCTTCCATGGTGATGCAGGA
131 ATTTTGCACTATGTAAATAATGAGGTTAGTAGGTTTTTCTTTCCTTCCATGGTGATGCAGGA
7275197 GCATCAAGTT
Statistics
Matches: 182, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
210 174 0.96
211 8 0.04
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (211 bp):
GGGGGGGGAGAGGAAAGGACAAAAGCACTAATACTTGAATTTCATTTGCAGTCAGTATTGGCTAA
GTAGTGTGTAAATACACCTGCATACCTTGCATCTCACCTCCAAAAATAAATAGGTAATATGTATG
ATTTTGCACTATGTAAATAATGAGGTTAGTAGGTTTTTCTTTCCTTCCATGGTGATGCAGGACCT
TATAGAATTAAGAGAA
Found at i:7276046 original size:292 final size:290
Alignment explanation
Indices: 7275479--7276066 Score: 993
Period size: 292 Copynumber: 2.0 Consensus size: 290
7275469 TGGTTGCTGG
*
7275479 AAAATCCACAGAATTTTGAATTCCTTATCCAATTACGTTTGTCCTTTTCTTTAAAAAAAAAATTT
1 AAAATCCACAGAATTTTGAATCCCTTATCCAATTACGTTTGTCCTTTTCTTT--AAAAAAAATTT
*
7275544 CATAGCTTTTCAGATTTTCCTCCCTGCACATGGTGGCTTCTGGAAAATAAAATGTTGCTTGATAA
64 CATAGCTTTTCAGATTTTCCTCCCCGCACATGGTGGCTTCTGGAAAATAAAATGTTGCTTGATAA
* * *
7275609 TACAAATGCTGAGGTTTGAGTGAGGAGTATGCGTCAAATGAGAGTACGTTTTCCATTTATATTTG
129 TACAAATGCTAAGGTTTGAGTGAAGAGTATGCGTCAAATGAGAATACGTTTTCCATTTATATTTG
*
7275674 CTTTTAGCAGAGGCACACTTTTGGAAGTAGTGAGTGAAGTTATAGAGATTTCTGGCACTGCTTTA
194 CTTTTAGCAGAGGCACACTTTTGGAAGTAGTGAGTGAAATTATAGAGATTTCTGGCACTGCTTTA
7275739 TCTTAGTAGGGCAAGAGCTACTTGTATTTGCA
259 TCTTAGTAGGGCAAGAGCTACTTGTATTTGCA
* **
7275771 AAAATCCACAGAACCCTTTTGTATCCCTTATCCAATTACGTTTGTCCTTTT-TTT-TTAAAAATT
1 AAAATCCACAGAA---TTTTGAATCCCTTATCCAATTACGTTTGTCCTTTTCTTTAAAAAAAATT
*
7275834 TCATAGCTTTTCATATTTTCCTCCCCGCCACATGGTGGCTTCTGGAAAATAAAATGTTGCTTGAT
63 TCATAGCTTTTCAGATTTTCCTCCCCG-CACATGGTGGCTTCTGGAAAATAAAATGTTGCTTGAT
7275899 AATACAAATGCTAAGGTTTGAGTGAAGAGTATGCGTCAAATGAGAATACGTTTTTCCATTTATAT
127 AATACAAATGCTAAGGTTTGAGTGAAGAGTATGCGTCAAATGAGAATACG-TTTTCCATTTATAT
7275964 TTGCTTTTAGCAGAGGCACACTTTTGGAAGTAGTGAGTGAAATTATAGAGATTTCTGGCACTGCT
191 TTGCTTTTAGCAGAGGCACACTTTTGGAAGTAGTGAGTGAAATTATAGAGATTTCTGGCACTGCT
*
7276029 TTATCTTATTA-GGCAAGAGCTACTTGTATTTGCA
256 TTATCTTAGTAGGGCAAGAGCTACTTGTATTTGCA
7276063 AAAA
1 AAAA
7276067 AAATGGATTG
Statistics
Matches: 280, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
291 32 0.11
292 124 0.44
293 88 0.31
294 3 0.01
295 33 0.12
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (290 bp):
AAAATCCACAGAATTTTGAATCCCTTATCCAATTACGTTTGTCCTTTTCTTTAAAAAAAATTTCA
TAGCTTTTCAGATTTTCCTCCCCGCACATGGTGGCTTCTGGAAAATAAAATGTTGCTTGATAATA
CAAATGCTAAGGTTTGAGTGAAGAGTATGCGTCAAATGAGAATACGTTTTCCATTTATATTTGCT
TTTAGCAGAGGCACACTTTTGGAAGTAGTGAGTGAAATTATAGAGATTTCTGGCACTGCTTTATC
TTAGTAGGGCAAGAGCTACTTGTATTTGCA
Found at i:7280603 original size:27 final size:27
Alignment explanation
Indices: 7280573--7280660 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
7280563 ATTATTAACC
7280573 TAATTACACAATTTATCTTATAATTGT
1 TAATTACACAATTTATCTTATAATTGT
* * * * * **
7280600 TAA-TAAACTTACTTATTATTATTATTAACC
1 TAATTACAC-AATTTA-TCTTATAATT--GT
7280630 TAATTACACAATTTATCTTATAATTGT
1 TAATTACACAATTTATCTTATAATTGT
7280657 TAAT
1 TAAT
7280661 AAACTTACTA
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 4 0.10
27 11 0.26
28 8 0.19
29 8 0.19
30 7 0.17
31 4 0.10
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (27 bp):
TAATTACACAATTTATCTTATAATTGT
Found at i:7280612 original size:57 final size:57
Alignment explanation
Indices: 7280519--7280669 Score: 284
Period size: 57 Copynumber: 2.6 Consensus size: 57
7280509 GTACATCTGT
* *
7280519 TTACGCAATTTACCTTATAATTGTTAATAAACTTACTTATTATTATTATTAACCTAA
1 TTACACAATTTATCTTATAATTGTTAATAAACTTACTTATTATTATTATTAACCTAA
7280576 TTACACAATTTATCTTATAATTGTTAATAAACTTACTTATTATTATTATTAACCTAA
1 TTACACAATTTATCTTATAATTGTTAATAAACTTACTTATTATTATTATTAACCTAA
7280633 TTACACAATTTATCTTATAATTGTTAATAAACTTACT
1 TTACACAATTTATCTTATAATTGTTAATAAACTTACT
7280670 AGCAATAAAT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 92 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (57 bp):
TTACACAATTTATCTTATAATTGTTAATAAACTTACTTATTATTATTATTAACCTAA
Found at i:7286440 original size:48 final size:49
Alignment explanation
Indices: 7286386--7286481 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 49
7286376 TTCAAACTTG
* *
7286386 TAAACTTCTAG-TTTTCCATAAGATGTGATTCAATTTCA-TCAAAATTTA
1 TAAACTT-TAGATTTACCATAACATGTGATTCAATTTCATTCAAAATTTA
*
7286434 TAAACTTTTGATTTACCATAACATGTGATTCAATTTCATTCAAAATTT
1 TAAACTTTAGATTTACCATAACATGTGATTCAATTTCATTCAAAATTT
7286482 GCAAACTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 2 0.05
48 32 0.74
49 9 0.21
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (49 bp):
TAAACTTTAGATTTACCATAACATGTGATTCAATTTCATTCAAAATTTA
Found at i:7293404 original size:58 final size:58
Alignment explanation
Indices: 7293309--7293425 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
7293299 ATCAAACATT
*
7293309 TTTTGATCCAATCACTTTATGATATTGCACTAGAAAATAATACTTGCCTTGCAAGTTG
1 TTTTGATCCAATCACTTTATGATATTGCACTAAAAAATAATACTTGCCTTGCAAGTTG
* *
7293367 TTTTGATCCAATCACTTTATGATATTGCACTAAAAAATAATACTTGTCTTGCAGGTTG
1 TTTTGATCCAATCACTTTATGATATTGCACTAAAAAATAATACTTGCCTTGCAAGTTG
7293425 T
1 T
7293426 CTGATTGTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (58 bp):
TTTTGATCCAATCACTTTATGATATTGCACTAAAAAATAATACTTGCCTTGCAAGTTG
Found at i:7309026 original size:41 final size:41
Alignment explanation
Indices: 7308964--7309041 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
7308954 ATTGTTTGTC
*
7308964 GAATCAGTAAGTTTTCAATCTGCTACTTATTGAAGCTTGCT
1 GAATCAGTAAGTTTTCAATCTGCTACATATTGAAGCTTGCT
*
7309005 GAATTAGTAAGTTTTCAATCTGCTACATATTGAAGCT
1 GAATCAGTAAGTTTTCAATCTGCTACATATTGAAGCT
7309042 GGTTGAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (41 bp):
GAATCAGTAAGTTTTCAATCTGCTACATATTGAAGCTTGCT
Found at i:7311082 original size:18 final size:18
Alignment explanation
Indices: 7311059--7311127 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
7311049 ACTGAATATT
7311059 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
7311077 TGTCCCGAAAGACCACTGA
1 TGTCCCGAAGGACCACT-A
* * *
7311096 TTGTTCCTAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
7311115 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
7311128 TACTGATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 26 0.63
19 2 0.05
20 13 0.32
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7318089 original size:182 final size:183
Alignment explanation
Indices: 7317758--7318107 Score: 535
Period size: 182 Copynumber: 1.9 Consensus size: 183
7317748 CAGACGTGCA
* *
7317758 TATCCATTTTGTGGTGAAGTACAAAAATGAATTGCATGTAATTTATTTTGCTGCTCATATAATTA
1 TATCCATTTTGTGGT-AAGTACAAAAATGAATTGCATGTAATTTATTTTGCTGCTAATATAATCA
** ** *
7317823 GCCCGGGTCCTGTTGTATACTGTTTTTTGCCATGTGCAGCAAGGTTCTTTTTGCTATCTTGCATT
65 GCCCGGACCCCATTGTATACTGTTTTTTGCCATGTGCAGCAAGGTTCTTTTTGCTATCTTGCATC
*
7317888 AAAGTAGGATTTGTTATTCCAATTTGCATATGAAGAAAGTTATCTTTATTTTGCT
130 AAAGTAGGATTTATTATTCCAATTTGCATATGAA-AAAGTTATCTTTATTTTGCT
*
7317943 TATCCATTTTGT-GT-AGTACAGAAATGAATTGCATGTAATTTATTTTGCTGCTAATATAATCAG
1 TATCCATTTTGTGGTAAGTACAAAAATGAATTGCATGTAATTTATTTTGCTGCTAATATAATCAG
* * *
7318006 TCCGGACCCCATTGTATAC-GCTTTTTTGCCTTGTGCAGCAAGGTTCTTTTTGCTATTTTGCATC
66 CCCGGACCCCATTGTATACTG-TTTTTTGCCATGTGCAGCAAGGTTCTTTTTGCTATCTTGCATC
*
7318070 AAGGTAGGATTTATTATTCCAATTTGCATATGAAAAAG
130 AAAGTAGGATTTATTATTCCAATTTGCATATGAAAAAG
7318108 GTTAACTCTA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
181 5 0.03
182 132 0.87
184 2 0.01
185 12 0.08
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (183 bp):
TATCCATTTTGTGGTAAGTACAAAAATGAATTGCATGTAATTTATTTTGCTGCTAATATAATCAG
CCCGGACCCCATTGTATACTGTTTTTTGCCATGTGCAGCAAGGTTCTTTTTGCTATCTTGCATCA
AAGTAGGATTTATTATTCCAATTTGCATATGAAAAAGTTATCTTTATTTTGCT
Done.