Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_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: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 26
Found at i:4485728 original size:163 final size:163
Alignment explanation
Indices: 4484980--4489236 Score: 4763
Period size: 163 Copynumber: 26.0 Consensus size: 163
4484970 CCTTGAAGAG
* * * * * * *
4484980 AAGAGAAACAAATCAAGTCTGATCTCCCCTAAAAGAATAGTAGAGCAAACCCATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * *
4485045 GATCTGACTACCTGAAAAAGAGGAACATATCAAGTCTAATCTCCCCTGAAAGAATAGTGGAACAG
66 GATCTGACTACC-GAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* **
4485110 ACTCGTCTTCCAAAATTGATCTGACTACCTAAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* ** * * * *
4485144 AAGAGGAACAAATCAAGTCTGATAACCCCTGAAAAAATAGTAGAGCAGACCCGTCTTCCAAATTT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * *
4485209 GATATGACTACCCCAAAAAAAGGAAAAAATCAAGTCTGATCTCCCCTGAAAGAATAATGGAGCAA
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * * * * **
4485274 ACTCATCTTACAAAGTTGATATGAGTACCCTTAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * *
4485308 AAGATGAACAGATCAAGTCTAATCTCCCCTGAAAGAATAGTGGAGCAAACTTGTCTCCCAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * *
4485373 GATCTGACTACCCAAAAAAGAGGAACATATCAAGTATGATCTCCCCTGAAAGAATAGTGGCGCAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
*
4485438 ACCCGTCTTCCAAAATTGATCTGACTACCTGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * *
4485472 AAGAGGAACATATCAAGTCTGATCTCCACTGAAAGAATAGTGGAGAACACCCGTCCTCCAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * *
4485537 GATCTGAATACCCGAAAGAGATGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAATGGAGCAG
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* *
4485602 ACCCGTCTTCCAAAATAGATC-GACTACTCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * *
4485635 AAGAAGAACATATCAACTTTGATCTCTCCTGAAAGAATAGTAGAGCAGACCCATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* *
4485700 GATCTGACTAACCGAAAAAAAGGAACAGATCAAGTTTGATCTCCCAT-AAATGAATAGTGGAGCA
66 GATCTGACT-ACCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAA-GAATAGTGGAGCA
* * *
4485764 AACTCGTCTTCCAACATTGATCTGACTACCC-AAA
129 GACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * * **
4485798 AAAAGGAATAGATCAAGTCTGGTCTCCCCTGAAAGAATATTGGAGCATATTCACCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * *
4485863 GATCTGAATACCCAAAAAAGAGGAACAGATCAAGTTTGATCTCCCCTGAAAGAATAATGGAGTAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
*
4485928 ACCCGTCTTCCAAAATTGATCTGAATACCCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * * * * *
4485962 GA-AGGAATAGATCAAGTCTGATCTCCCCTGAAAGAAAAGTGGATCAAACCCTTCTTACAAAGTT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* *
4486026 GATCTGACTACCCAAAAAAGAGGAACAGATCAAGTCTGATCTGCCCTGAAAGAATAGTGGAGCAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * * *
4486091 ACTCATCTTCTAACATTGATGTGACTACCCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * *
4486125 AAAAAGAACATATCCAGTCTGATCTCCCCTAAAAGAATAGTAGAGCATACTCATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * *
4486190 GATCTGACTACTCGAAAAAGAGGAACAGATCAAGTTTGATCTCCCTTGAAAGAATAGTGGAGTAG
66 GATCTGACTAC-CGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
** * * *
4486255 ACTTGTCTTCTAACATTGATCTGACTACGCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * *
4486289 AAGAGGAACAGATCAAGTCTGGTCTCCCCTGAAAGAATAGTGGAGTAGACTCGTCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
*
4486354 GATATGACTACTCGAAAAAAGAGGAACTA-ATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGC
66 GATCTGACTAC-CGAAAAAA-AGGAAC-AGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGC
*
4486418 AGACCCGTCTTCCAAAATTGATCTAACTACCCGAAA
128 AGACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * *
4486454 AAGAGGAACAGATCAAGTTTGATCTCCCCTGAATGAATAGTGGAGCAAACTCTTCTTCCAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * *
4486519 GATCTGACTACCCAAAAAAAGGAATAGATCAAGTTTAATCTCCCCTAAAAGAATAGTGTAGCAGA
66 GATCTGACTACCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGA
* * * *
4486584 CTCGCCTTTCAAAATTGATCTGAATACCCGAAA
131 CCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * *
4486617 AAGAGGAACATATCAAGTCTGATCACCCCTGAAAGAATAGTGGAGTAGCCCCGTATTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * *
4486682 GATCTGACTACTC-AAAAGAAGGAATAGATCAAGTTTGATCTCCCCTGAAAGAAAAGTGGATCAA
66 GATCTGACTAC-CGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* *
4486746 ACCCTTCTTCCAAAGTTGATCTGACTACCC-AAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * *
4486779 AATGAGGAACAGATCAAGTCTGATCTACCCTGAAAGAATAGTGGAACAGACTCGTCTTCTAACAT
1 AA-GAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAAT
* * * * * ** *
4486844 TAAACTGACTACCCGAAAAAAAAAGAACATATCCAGTCTGATCTCTTCTGAAAGAATAGTGGAGT
65 TGATCTGACTA-CCG-AAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGC
* *
4486909 AGACCCGTTTTCCAACATTGATCTGACTACCCGAAA
128 AGACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * *
4486945 ATGAGGAACAGATCAAGTCTGATCTCCCTTGAAAGAATAGTGGAGCAGACCCGTCTTACAAAATA
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * *
4487010 GATC-AACTACCCAAAAAAGAGGAACATATCAAGTTTGATCTCCCATGAAAGAATAGTAGAGCAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
** *
4487074 ACCTATCTTCCAAAATTGATCTGACTACTCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * *
4487108 AAGAGGAACATATCAAGTTTGATCTCCCCTGAATGAGTAGTGGAGTAAACTCATCTTCCAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * *
4487173 GATCTGACTACCCAAAAAAAGGAATAGATCAAGTCTGGTCTCCCCTAAAAGAATAGTGGAGCAGA
66 GATCTGACTACCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGA
* *
4487238 CTCGCCTTCCAAAATTGATCTGACTACCCGAAA
131 CCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * *
4487271 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGTAGACCCATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * ** * * *
4487336 GATCTGACTACCCG--AAAAATGAATAGATCAAGTCTGATCTTACCTGAAAGAAAAGTGGATCAA
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * *
4487399 ACCCTTCTTACAAAGTTGATCTGACTACCCAAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * *
4487433 AAGAGGAACAGATCAAGTCTGATCTGCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCTAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * *
4487498 GATCTGACTACCCGAAAAAAAAAGAACATATCCAGTCTGATCTCCCCTAAAAGAATAGTAGAGCA
66 GATCTGACTA-CCG-AAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCA
* * *
4487563 TACTCATCTTCCAAAATTGATCTGACTACCCGAAA
129 GACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * * * *
4487598 AAAAGTAACATTTCAAGTATGAACTCCCATGAAAGAATAGTGGAGCAGACCCATCTTCCAACATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * * *
4487663 GATCTGACTACCCAAAAAAGAGAAATAAATCAATTCTGATCTCTCCTAAAAGAATAGTGGAGCAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * *
4487728 ACCCGTCTTCTAAAATAGATC-GACTACTCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* *
4487761 AAGAGGAACATATCAAGTTTGATCTCCCCTGAAAGAATAGTAGAGCAGACTCGTCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * *
4487826 GATCTAACTACCCGAAAAAGAGGAACAGATCAAGTTTGATCTCCCCTGAATGAATAGTGGAGCAA
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * *
4487891 ACTCTTCTTCCACAATTGATCTGACTACCC-AAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * *
4487924 AAAAGGAATAGATCAAGTCT-AGTCTCCCCTAAAAGAATAGTGGAGCAAACTCGCCTTCCAAAAT
1 AAGAGGAACATATCAAGTCTGA-TCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAAT
* * * * * *
4487988 TGATCTGAATACCCGAAAAAGAGGAACATATCAAGTATGATCACCCCTGAAAGAATAGTGGAGTA
65 TGATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCA
* * * *
4488053 GACCCATATTCCAAAATTGATTTGACTACTCGAAA
129 GACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * * * * * * *
4488088 GA-AGGAATAGATCAAGTCTGATCTCCCTTGAAAGAAAAGTGGATCAAACCCTTCTTCCAAAGTT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * *
4488152 GATCTGACTACCCAAAAAAGAGGAACAGATCAAGTCTGATCTGCCCTGAAAGAATAGTGGAACAG
66 GATCTGACTACCGAAAAAA-AGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * * *
4488217 ACTCGTCTTCTAACATTAAACTGACTACCCGAAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCG-AAA
* * * * *
4488252 AAAAGGAACATATCCAGTCTGATCTCTCCTGAAAGAATAGTGGAGCATACTCATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* ** * * *
4488317 GATCTGACTACCTGAAAAAAA-TAACATTTCAAGTATGAACTCCCCTGAAAGAATAGTGGAGTAG
66 GATCTGACTACC-GAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * *
4488381 ACCCATTTTCCAACATTGAACTGACTACCCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * ** *
4488415 ATGAGGAACAGATTAAGTCTGATCTCCCTTGAAAGAATAGTGGATTAGACTCGTCTTCCAAAATA
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * *
4488480 GATC-GACTACCCGAAAAAAAGGAACATATCAAGTTTGATCTCCCCTGAAAGAATAATAGAGCAG
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* *
4488544 ACCCATCTTCCAAAATTGATCTGACTACTCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * *
4488578 AAGAGGAACATATCAAGTTTGATCTCCCCTGAATGAATAGTGGAGCAAACTCGTCTT-CAAACAT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAA-AT
* * * *
4488642 TGATCTGACTACCCAAAAAAAAGTAATAGATCAAGTCTGGTCTCCCCTGAAAGAATAGTGGAGCA
65 TGATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCA
* *
4488707 GACTCGCCTTCCAAAATTGATCTGACTACCCGAAA
129 GACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * *
4488742 AAGAGGAACATATCAAATCTGATCTCCCCTGAAAGAATAGTGGAGTAGACCCGTCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * * * *
4488807 GATCTAACTACCCG-AAAGAAGGAATAGATCAAGTATGATCTCACCTGAAAGAAAAGTGGATCAA
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * * *
4488871 ACCCTTCTTACAAAGTTGATCTGACTACCCAAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * **
4488905 AAGAGGAACATATCAAGTCTGATCTGCCCTAAAAGAATAGTGGAGCAGACTTATCTTCCAAAATT
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * ** * * *
4488970 GATTTGACTACCCAAAAAAAAGTAACATTTCAAGTATAAACTCCCCTGAAAGAATAGTGGAGCAG
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* *
4489035 ACTCGTCTTCCAACATTGATCTGACTACCCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
* * * * *
4489069 AAGAGGAACAAATCAATTCTGATCTCCCCTAAAAGAATAGTGGAGCAGACCCGTCTTCCAAAATA
1 AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
* * * * * * * * *
4489134 GATC-AACAACCCGAAAAAGAGGAAAATATCAAGTTTGATCTCCCCTGAAAGAATAATAGAGCAT
66 GATCTGACTA-CCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAG
* * *
4489198 ACCCATCTTCCAAAACTGATCTAACTACCCGAAA
130 ACCCGTCTTCCAAAATTGATCTGACTACCCGAAA
4489232 AAGAG
1 AAGAG
4489237 CCTGAAAGAA
Statistics
Matches: 3445, Mismatches: 606, Indels: 85
0.83 0.15 0.02
Matches are distributed among these distances:
162 190 0.06
163 1726 0.50
164 1047 0.30
165 471 0.14
166 11 0.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (163 bp):
AAGAGGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATT
GATCTGACTACCGAAAAAAAGGAACAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGA
CCCGTCTTCCAAAATTGATCTGACTACCCGAAA
Found at i:4489359 original size:141 final size:141
Alignment explanation
Indices: 4489100--4489374 Score: 356
Period size: 141 Copynumber: 2.0 Consensus size: 141
4489090 ATCTCCCCTA
*
4489100 AAAGAATAGTGGAGCAGACCCGTCTTCCAAAATAGATCAACAACCCGAAAAAGAGGAAAATATCA
1 AAAGAATAGTGGAGCAGACCCGCCTTCCAAAATAGATCAACAACCCGAAAAAGAGGAAAATATCA
* *
4489165 AGTTTGATCTCCCCTGAAAGAATAATAGAGCATACCCATCTTCCAAAACTGATCTAACTACCCGA
66 AGTCTGATCTCCCCTGAAAGAATAATAGAGCAGACCCATCTTCCAAAACTGATCTAACTACCCGA
4489230 AAAAGAGCCTG
131 AAAAGAGCCTG
** * * *
4489241 AAAGAATAGTGGAGCAGACTGGCCTTCCAAAATTGATCTGAA-TACCCGAAAAAGAGGAACATAT
1 AAAGAATAGTGGAGCAGACCCGCCTTCCAAAATAGATC--AACAACCCGAAAAAGAGGAAAATAT
* * * * * ** * * *
4489305 CAAGTCTGATCT-CCTTGAAAGAATAGTGGAGTAGATCTGTCTTCCAAAATTGATCTGACTACCT
64 CAAGTCTGATCTCCCCTGAAAGAATAATAGAGCAGACCCATCTTCCAAAACTGATCTAACTACCC
4489369 GAAAAA
129 GAAAAA
4489375 ATAAATAGAT
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 81 0.71
142 31 0.27
143 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (141 bp):
AAAGAATAGTGGAGCAGACCCGCCTTCCAAAATAGATCAACAACCCGAAAAAGAGGAAAATATCA
AGTCTGATCTCCCCTGAAAGAATAATAGAGCAGACCCATCTTCCAAAACTGATCTAACTACCCGA
AAAAGAGCCTG
Found at i:4489489 original size:82 final size:82
Alignment explanation
Indices: 4489237--4490728 Score: 1556
Period size: 82 Copynumber: 18.3 Consensus size: 82
4489227 CGAAAAAGAG
** * * * *
4489237 CCTGAAAGAATAGTGGAGCAGACTGGCCTTCCAAAATTGATCTGAATACCCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4489302 TATCAAGTCTGATCT-C
66 GATCAAGTCTGATCTCC
* * * * * * * *
4489318 CTTGAAAGAATAGTGGAGTAGATCTGTCTTCCAAAATTGATCTGACTACCTGAAAAAATA--AAT
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACC-CAAAAAAGAGGAAC
4489381 AGATCAAGTCTGATCTCC
65 AGATCAAGTCTGATCTCC
* * ** * *
4489399 CCTGAAAGAA-AGGTGGATCAAACCCGTCTTATAA-AGTTGATATGACAACCCAAAAAAGAGGAA
1 CCTGAAAGAATA-GTGGAGCAGACCCGTCTTCCAACA-TTGATCTGACTACCCAAAAAAGAGGAA
* *
4489462 CAGATCAAGTCTGATTTGC
64 CAGATCAAGTCTGATCTCC
* * * *
4489481 CCTGAAAGAATAGTGGAGCAGACTCATCTTCTAACATTGATCTGACTACCCGAAAAA-AGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * *
4489545 TATCCAGTTTGATCTCC
66 GATCAAGTCTGATCTCC
* * ** * * * *
4489562 CCTGAAAGAATACTGGAGCAAATTCATCTTCCAAAATTGATTTGACTACCCGAAAAAA-AGTAAC
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCC-AAAAAAGAGGAAC
**
4489626 ATTTCAAGTCTGATCTCC
65 AGATCAAGTCTGATCTCC
* * *
4489644 CCTGAAAGAATAGTGGAGTAGACACGTCTTCCAACATTGATCTGACTACCCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4489709 GATAAAGTCTGATCTCC
66 GATCAAGTCTGATCTCC
* * *
4489726 CCTGAAAGAATAATGGAGCAGACTCGTCTTCCAACATTGATCTGACTACCAAAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4489791 AATCAAGTCTGATCT-C
66 GATCAAGTCTGATCTCC
* ** ** * ***
4489807 CCTGAAAGAATAGTGGATCAGGTCTTTCTTCCAAAATTGATCTGACTACTTGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4489872 GATCAAGTTTGATCTCC
66 GATCAAGTCTGATCTCC
* * * * *
4489889 CTTGAAAGAATAGTGGAGTAGACCCGTCTTCTAACATTGATCTGACTACACGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4489954 GATCAAGTCTGGTCTCC
66 GATCAAGTCTGATCTCC
* * * * *
4489971 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATATGACTACTCAAAAAAAGAGGAAC
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTAC-CCAAAAAAGAGGAAC
4490036 TA-ATCAAGTCTGATCTCC
65 -AGATCAAGTCTGATCTCC
* * * *
4490054 CTTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAAATTGATATGACTACCCAAAAAAAAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4490119 TATCAAGTCTAATCTCC
66 GATCAAGTCTGATCTCC
* * * * *
4490136 CCTGAAAGAATAGTGGAACAGACCCATCTTCCAATATTGATCTGACTACCCGAAAGAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * *
4490201 GATGAAGGT-TGGTCACC
66 GATCAA-GTCTGATCTCC
* * * * * * * *
4490218 CCTAAAAGAATAGTGGAGCAGACCCATCTTTCAACATTAATCTTACCACTCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4490283 TG-TCAAGTTTGATCTCC
66 -GATCAAGTCTGATCTCC
* * * * ** * *
4490300 CCTGAAAGAATAGTGGAACAGACCCATCTTTCAAAATTGATCTGACTACCTGAAAAA-ATGAATA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4490364 GATCAAGTTTTATCTCC
66 GATCAAGTCTGATCTCC
* * * * *
4490381 CCTGAAATAATAGTAGAGCATACCCGTCTTCCAATATTGATCTGACTACCCAAAAAAGTGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
*
4490446 GATCAAGTATGATCTCC
66 GATCAAGTCTGATCTCC
* * * * * *** *
4490463 CCTGAAATAATAGTGGAGCAGACCCATTTTCCAAAATTGATCTGACAACCTGGAAAGGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4490528 TATCAAGTCTGATCTCT
66 GATCAAGTCTGATCTCC
* * * * * * *
4490545 CCTGAATGAATAGTAGAGCAGACACATCTTCCAAAATTGATCTGACTACCCTAAAAA-ATGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4490609 TATCAAGTTTGATCTCC
66 GATCAAGTCTGATCTCC
* * * * * **
4490626 CCTGAAAGAATAGTAGAGCA-AACCGTCTTCCAAAATTTATCTGACTACCCGAAAAAGAATAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4490690 GATCAAGTTTGATCTAC
66 GATCAAGTCTGATCTCC
*
4490707 CCTGAAATAGA-AGTGGAGCAGA
1 CCTGAAAGA-ATAGTGGAGCAGA
4490729 TTTCCCATTA
Statistics
Matches: 1186, Mismatches: 203, Indels: 43
0.83 0.14 0.03
Matches are distributed among these distances:
80 58 0.05
81 363 0.31
82 686 0.58
83 78 0.07
84 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (82 bp):
CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
GATCAAGTCTGATCTCC
Found at i:4489538 original size:163 final size:163
Alignment explanation
Indices: 4489237--4490728 Score: 1633
Period size: 163 Copynumber: 9.1 Consensus size: 163
4489227 CGAAAAAGAG
** * * * *
4489237 CCTGAAAGAATAGTGGAGCAGACTGGCCTTCCAAAATTGATCTGAATACCCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * *
4489302 TATCAAGTCTGATCT-CCTTGAAAGAATAGTGGAGTAGA-TCTGTCTTCCAAAATTGATCTGACT
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACT
* ** *
4489365 ACCTGAAAAAATAAATAGATCAAGTCTGATCTCC
130 ACCCGAAAAAAGGAACAGATCAAGTCTGATCTCC
* * ** * *
4489399 CCTGAAAGAA-AGGTGGATCAAACCCGTCTTATAA-AGTTGATATGACAACCCAAAAAAGAGGAA
1 CCTGAAAGAATA-GTGGAGCAGACCCGTCTTCCAACA-TTGATCTGACTACCCAAAAAAGAGGAA
* * * *
4489462 CAGATCAAGTCTGATTTGCCCTGAAAGAATAGTGGAGCAGACTCATCTTCTAACATTGATCTGAC
64 CAGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGAC
* * *
4489527 TACCCGAAAAAAGGAACATATCCAGTTTGATCTCC
129 TACCCGAAAAAAGGAACAGATCAAGTCTGATCTCC
* * ** * * * *
4489562 CCTGAAAGAATACTGGAGCAAATTCATCTTCCAAAATTGATTTGACTACCCGAAAAAA-AGTAAC
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCC-AAAAAAGAGGAAC
** * * * *
4489626 ATTTCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGTAGACACGTCTTCCAACATTGATCTGACT
65 AGATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACT
*
4489691 ACCCGAAAAAGAGGAACAGATAAAGTCTGATCTCC
130 ACCCGAAAAA-AGGAACAGATCAAGTCTGATCTCC
* * *
4489726 CCTGAAAGAATAATGGAGCAGACTCGTCTTCCAACATTGATCTGACTACCAAAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * *
4489791 AATCAAGTCTGATCT-CCCTGAAAGAATAGTGGATCAG-GTCTTTCTTCCAAAATTGATCTGACT
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACT
** *
4489854 ACTTGAAAAAGAGGAACAGATCAAGTTTGATCTCC
130 ACCCGAAAAA-AGGAACAGATCAAGTCTGATCTCC
* * * * *
4489889 CTTGAAAGAATAGTGGAGTAGACCCGTCTTCTAACATTGATCTGACTACACGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* *
4489954 GATCAAGTCTGGTCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATATGACTA
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
**
4490019 CTCAAAAAAAGAGGAACTA-ATCAAGTCTGATCTCC
131 C-CCGAAAAA-AGGAAC-AGATCAAGTCTGATCTCC
* * * *
4490054 CTTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAAATTGATATGACTACCCAAAAAAAAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * * *
4490119 TATCAAGTCTAATCTCCCCTGAAAGAATAGTGGAACAGACCCATCTTCCAATATTGATCTGACTA
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
* * * *
4490184 CCCGAAAGAGAGGAACAGATGAAGGT-TGGTCACC
131 CCCGAAA-AAAGGAACAGATCAA-GTCTGATCTCC
* * * * * * * *
4490218 CCTAAAAGAATAGTGGAGCAGACCCATCTTTCAACATTAATCTTACCACTCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * *
4490283 TG-TCAAGTTTGATCTCCCCTGAAAGAATAGTGGAACAGACCCATCTTTCAAAATTGATCTGACT
66 -GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACT
* * * * *
4490347 ACCTGAAAAAATGAATAGATCAAGTTTTATCTCC
130 ACCCGAAAAAAGGAACAGATCAAGTCTGATCTCC
* * * * *
4490381 CCTGAAATAATAGTAGAGCATACCCGTCTTCCAATATTGATCTGACTACCCAAAAAAGTGGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * * *
4490446 GATCAAGTATGATCTCCCCTGAAATAATAGTGGAGCAGACCCATTTTCCAAAATTGATCTGACAA
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
* ** * *
4490511 CCTGGAAAGGAGGAACATATCAAGTCTGATCTCT
131 CC-CGAAAAAAGGAACAGATCAAGTCTGATCTCC
* * * * * * *
4490545 CCTGAATGAATAGTAGAGCAGACACATCTTCCAAAATTGATCTGACTACCCTAAAAA-ATGAACA
1 CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
* * * * * *
4490609 TATCAAGTTTGATCTCCCCTGAAAGAATAGTAGAGCAAAC-CGTCTTCCAAAATTTATCTGACTA
66 GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
** * *
4490673 CCCGAAAAAGAATAACAGATCAAGTTTGATCTAC
131 CCCGAAAAA-AGGAACAGATCAAGTCTGATCTCC
*
4490707 CCTGAAATAGA-AGTGGAGCAGA
1 CCTGAAAGA-ATAGTGGAGCAGA
4490729 TTTCCCATTA
Statistics
Matches: 1119, Mismatches: 188, Indels: 46
0.83 0.14 0.03
Matches are distributed among these distances:
161 6 0.01
162 124 0.11
163 493 0.44
164 346 0.31
165 149 0.13
166 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (163 bp):
CCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAACATTGATCTGACTACCCAAAAAAGAGGAACA
GATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
CCCGAAAAAAGGAACAGATCAAGTCTGATCTCC
Found at i:4489731 original size:245 final size:245
Alignment explanation
Indices: 4489237--4490728 Score: 1757
Period size: 245 Copynumber: 6.1 Consensus size: 245
4489227 CGAAAAAGAG
*** *
4489237 CCTGAAAGAATAGTGGAGCAGACTGGCCTTCCAAAATTGATCTGAATACCCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* * *
4489302 TATCAAGTCTGATCT-CCTTGAAAGAATAGTGGAGTAGA-TCTGTCTTCCAAAATTGATCTGACT
66 TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACT
* * * * *
4489365 ACCTGAAAAAATA-AATAGATCAAGTCTGATCTCCCCTGAAAGAA-AGGTGGATCAAACCCGTCT
130 ACCCGAAAAAA-AGAACATATCAAGTCTGATCTCCCCTGAAAGAATA-GTGGAGCAGACCCGTCT
** * * * * *
4489428 TATAA-AGTTGATATGACAACCCAAAAAAGAGGAACAGATCAAGTCTGATTTGC
193 TCCAACA-TTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
* *
4489481 CCTGAAAGAATAGTGGAGCAGACTCATCTTCTAACATTGATCTGACTACCCGAAAAA-AGGAACA
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* * * * * *
4489545 TATCCAGTTTGATCTCCCCTGAAAGAATACTGGAGCAAATTCATCTTCCAAAATTGATTTGACTA
66 TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
* * *
4489610 CCCGAAAAAAAGTAACATTTCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGTAGACACGTCTTC
131 CCCGAAAAAAAG-AACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTC
*
4489675 CAACATTGATCTGACTACCCGAAAAAGAGGAACAGATAAAGTCTGATCTCC
195 CAACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
* * * **
4489726 CCTGAAAGAATAATGGAGCAGACTCGTCTTCCAACATTGATCTGACTACCAAAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* * * *
4489791 AATCAAGTCTGATCT-CCCTGAAAGAATAGTGGATCAG-GTCTTTCTTCCAAAATTGATCTGACT
66 TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACT
** * * * * *
4489854 ACTTGAAAAAGAGGAACAGATCAAGTTTGATCTCCCTTGAAAGAATAGTGGAGTAGACCCGTCTT
130 ACCCGAAAAA-AAGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTT
* * *
4489919 CTAACATTGATCTGACTACACGAAAAAGAGGAACAGATCAAGTCTGGTCTCC
194 CCAACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
* **
4489971 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATATGACTACTCAAAAAAAGAGGAAC
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTAC-CCGAAAAAGAGGAAC
* * * *
4490036 -TAATCAAGTCTGATCTCCCTTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAAATTGATATGAC
65 AT-ATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGAC
* * * *
4490100 TACCCAAAAAAAAGGAACATATCAAGTCTAATCTCCCCTGAAAGAATAGTGGAACAGACCCATCT
129 TACCCGAAAAAAA-GAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCT
* * * * *
4490165 TCCAATATTGATCTGACTACCCGAAAGAGAGGAACAGATGAAGGT-TGGTCACC
193 TCCAACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAA-GTCTGATCTCC
* * * * * * * *
4490218 CCTAAAAGAATAGTGGAGCAGACCCATCTTTCAACATTAATCTTACCACTCGAAAAAGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* * * * *
4490283 TGTCAAGTTTGATCTCCCCTGAAAGAATAGTGGAACAGACCCATCTTTCAAAATTGATCTGACTA
66 TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
* * * * * * * * *
4490348 CCTGAAAAAATGAATAGATCAAGTTTTATCTCCCCTGAAATAATAGTAGAGCATACCCGTCTTCC
131 CCCGAAAAAAAGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCC
* * * *
4490413 AATATTGATCTGACTACCCAAAAAAGTGGAACAGATCAAGTATGATCTCC
196 AACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
* * * * * * *
4490463 CCTGAAATAATAGTGGAGCAGACCCATTTTCCAAAATTGATCTGACAACCTGGAAAGGAGGAACA
1 CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
* * * *
4490528 TATCAAGTCTGATCTCTCCTGAATGAATAGTAGAGCAGACACATCTTCCAAAATTGATCTGACTA
66 TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
* * * * *
4490593 CCCTAAAAAATGAACATATCAAGTTTGATCTCCCCTGAAAGAATAGTAGAGCA-AACCGTCTTCC
131 CCCGAAAAAAAGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCC
* * ** * *
4490657 AAAATTTATCTGACTACCCGAAAAAGAATAACAGATCAAGTTTGATCTAC
196 AACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
*
4490707 CCTGAAATAGA-AGTGGAGCAGA
1 CCTGAAAGA-ATAGTGGAGCAGA
4490729 TTTCCCATTA
Statistics
Matches: 1075, Mismatches: 155, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
243 21 0.02
244 176 0.16
245 568 0.53
246 130 0.12
247 177 0.16
248 3 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (245 bp):
CCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACA
TATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTA
CCCGAAAAAAAGAACATATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCC
AACATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGATCTCC
Found at i:4493993 original size:16 final size:15
Alignment explanation
Indices: 4493972--4494001 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
4493962 AGGGAGAGCA
4493972 TATTTTATATTTTTTT
1 TATTTT-TATTTTTTT
4493988 TATTTTTATTTTTT
1 TATTTTTATTTTTT
4494002 AGCTAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTATTTTTTT
Found at i:4495333 original size:131 final size:131
Alignment explanation
Indices: 4495146--4495497 Score: 478
Period size: 127 Copynumber: 2.7 Consensus size: 131
4495136 TAATATTTTT
* * * * *
4495146 TTTTCATTTCGGTAGGAGTAACAAATGATTGCATTAAGGCATTAGAGGTCATTTATTCTCAATTA
1 TTTTCATTTCGATAGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCATTTATTCTCAATTG
* * *
4495211 AAAATAATTAGATATTATTATTTTCTCTCGAATCAATATTGATTTTTAAGACAAAATGGTAATAT
66 AAAATAATTAGATATTATTATTTTCTCTCGAACCAATATTGAATTTTAAGACAAAATAGTAATAT
4495276 C
131 C
* * *
4495277 TTTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATAAGTGGTCATTTATTCTCAATTG
1 TTTTCATTTCGATAGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCATTTATTCTCAATTG
* * * *
4495342 GAAATAA-T---TATTACTATTTTCTCTCGAACCAATATTGAATTTTAAGACGAAATAGTGATAT
66 AAAATAATTAGATATTATTATTTTCTCTCGAACCAATATTGAATTTTAAGACAAAATAGTAATAT
4495403 C
131 C
* * * * * *
4495404 TCTTCATTTCGATAGTAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTATCGATTG
1 TTTTCATTTCGATAGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCATTTATTCTCAATTG
*
4495469 AAAATAATTAGATATTATTGTTTTCTCTC
66 AAAATAATTAGATATTATTATTTTCTCTC
4495498 TTAGAATTAT
Statistics
Matches: 190, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
127 110 0.58
128 1 0.01
130 1 0.01
131 78 0.41
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (131 bp):
TTTTCATTTCGATAGGAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCATTTATTCTCAATTG
AAAATAATTAGATATTATTATTTTCTCTCGAACCAATATTGAATTTTAAGACAAAATAGTAATAT
C
Found at i:4499174 original size:22 final size:21
Alignment explanation
Indices: 4499129--4499180 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4499119 TTTTTTAGCC
* *
4499129 AAGCTCAGTCGTTAAAGCTTT
1 AAGCTGAGCCGTTAAAGCTTT
*
4499150 AAGCTGAGCCGTTTAAGCTTCT
1 AAGCTGAGCCGTTAAAGCTT-T
4499172 AAGCTGAGC
1 AAGCTGAGC
4499181 TATTGACCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (21 bp):
AAGCTGAGCCGTTAAAGCTTT
Found at i:4500515 original size:16 final size:16
Alignment explanation
Indices: 4500494--4500533 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
4500484 TTCGATATTC
*
4500494 TGATTTATTGATGTAT
1 TGATTTACTGATGTAT
4500510 TGATTTACTGATGTAT
1 TGATTTACTGATGTAT
4500526 TGATTTAC
1 TGATTTAC
4500534 ATTTTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (16 bp):
TGATTTACTGATGTAT
Found at i:4510864 original size:20 final size:21
Alignment explanation
Indices: 4510839--4510879 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4510829 TTGTTTGGCT
4510839 CTGAATG-GAACCATTCAGCG
1 CTGAATGCGAACCATTCAGCG
*
4510859 CTGAATGCTGAACCGTTCAGC
1 CTGAATGC-GAACCATTCAGC
4510880 ATTCAGCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (21 bp):
CTGAATGCGAACCATTCAGCG
Found at i:4510950 original size:23 final size:26
Alignment explanation
Indices: 4510917--4510980 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
4510907 AATGATTCAG
*
4510917 TGCTGACTGATTCA-A-CAAAACA-A
1 TGCTGAATGATTCACATCAAAACACA
*
4510940 TGCTGAATGATTCAGCATCAAAATACA
1 TGCTGAATGATTCA-CATCAAAACACA
*
4510967 TTCTGAATGATTCA
1 TGCTGAATGATTCA
4510981 GCGTCATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.38
25 1 0.03
26 6 0.18
27 14 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (26 bp):
TGCTGAATGATTCACATCAAAACACA
Found at i:4513408 original size:33 final size:36
Alignment explanation
Indices: 4513363--4513478 Score: 139
Period size: 38 Copynumber: 3.2 Consensus size: 36
4513353 AAAACAGACT
* ***
4513363 ATCGCAACGCGAAATGGCTATCGCAA-CG-A-GAAA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
4513396 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
4513434 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
4513472 ATCGCAA
1 ATCGCAA
4513479 CGAGAAAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
33 22 0.30
35 2 0.03
37 1 0.01
38 49 0.66
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:4513414 original size:19 final size:19
Alignment explanation
Indices: 4513392--4513497 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
4513382 ATCGCAACGA
4513392 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4513411 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4513430 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4513449 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4513468 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4513482 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4513498 TTTTCATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
19 68 0.81
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4513573 original size:20 final size:20
Alignment explanation
Indices: 4513516--4513573 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
4513506 TCGCATTGCG
* *
4513516 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
4513536 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4513556 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
4513574 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:4514981 original size:21 final size:20
Alignment explanation
Indices: 4514955--4515090 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
4514945 TGAATTACTT
*
4514955 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACCA
* **
4514976 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACCA
*
4514996 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACCA
* **
4515017 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACCA
*
4515037 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACCA
* **
4515058 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACCA
4515078 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4515091 ATTGGGAAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 48 0.52
21 44 0.48
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCA
Found at i:4515006 original size:41 final size:41
Alignment explanation
Indices: 4514949--4515090 Score: 284
Period size: 41 Copynumber: 3.5 Consensus size: 41
4514939 CGACTGTGAA
4514949 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
1 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
4514990 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
1 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
4515031 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
1 TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
4515072 TTACTTATTCGCATTGCGA
1 TTACTTATTCGCATTGCGA
4515091 ATTGGGAAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (41 bp):
TTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGAT
Found at i:4517051 original size:12 final size:12
Alignment explanation
Indices: 4517034--4517060 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4517024 CTCAGAGCCC
4517034 TAATTCCCTTTG
1 TAATTCCCTTTG
4517046 TAATTCCCTTTG
1 TAATTCCCTTTG
4517058 TAA
1 TAA
4517061 ATTCTTCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (12 bp):
TAATTCCCTTTG
Found at i:4518567 original size:239 final size:240
Alignment explanation
Indices: 4518132--4518572 Score: 647
Period size: 239 Copynumber: 1.8 Consensus size: 240
4518122 TGTTAACATT
* * * *
4518132 GAGTGATCGGTTTATTACAAATTGATAATGTTAGTGATTAATTTATTACTTTTGAAACTTCTTTG
1 GAGTGATCGATTTATTACAAATCGATAACGTTAGTGATCAATTTATTACTTTTGAAACTTCTTTG
* * *
4518197 AGAAAAACAAAAAATTACTTAAATATTAATGATCATTTGTGTAGTTTACCCAAAATTAAATTCGA
66 AGAAAAACAAAAAATTACTTAAATATTAATGATCATTTGTATAATTTACCCAAAATTAAATTCAA
* ** * * * ** **
4518262 AATTAGTTGAAGTGCATGTACATGGGTTCTTCAACGTGGTGGTCAATATCCATGTAAGTGATTAA
131 AATTAATTGAAACGCATGTACATGAGCTCTCCAACGTGACGGTCAATATCCATGTAAGCAATTAA
4518327 CGAGCTAGGTAAGCTTTTCTTCATTTATGAACGGTTGCTAACGTC
196 CGAGCTAGGTAAGCTTTTCTTCATTTATGAACGGTTGCTAACGTC
4518372 GAGTGATCGATTTATTACAAATCGATAACGTTAGTGATCAATTTATTACTTTTGAAACTTCTTTG
1 GAGTGATCGATTTATTACAAATCGATAACGTTAGTGATCAATTTATTACTTTTGAAACTTCTTTG
*
4518437 -GAAAAA-ACAAAATTTAGC-TAAATATTAATGATCATTTGTATAATTTACCCAAAATTAAATTC
66 AGAAAAACA-AAAAATTA-CTTAAATATTAATGATCATTTGTATAATTTACCCAAAATTAAATTC
* *
4518499 AAAATTAATTGAAACG-TTGTTCAATGAGCTCTCCAACGTGACGGTCAATATCCATGTAAGCAAT
129 AAAATTAATTGAAACGCATGTAC-ATGAGCTCTCCAACGTGACGGTCAATATCCATGTAAGCAAT
4518563 TAACGAGCTA
193 TAACGAGCTA
4518573 AAAAAAATTT
Statistics
Matches: 178, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
238 5 0.03
239 111 0.62
240 62 0.35
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (240 bp):
GAGTGATCGATTTATTACAAATCGATAACGTTAGTGATCAATTTATTACTTTTGAAACTTCTTTG
AGAAAAACAAAAAATTACTTAAATATTAATGATCATTTGTATAATTTACCCAAAATTAAATTCAA
AATTAATTGAAACGCATGTACATGAGCTCTCCAACGTGACGGTCAATATCCATGTAAGCAATTAA
CGAGCTAGGTAAGCTTTTCTTCATTTATGAACGGTTGCTAACGTC
Found at i:4520059 original size:13 final size:13
Alignment explanation
Indices: 4520041--4520066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4520031 TCAAATGGAA
4520041 AAAAATTAAAATT
1 AAAAATTAAAATT
4520054 AAAAATTAAAATT
1 AAAAATTAAAATT
4520067 TTAAAAGTAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:4521113 original size:18 final size:17
Alignment explanation
Indices: 4521073--4521111 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4521063 CGAAAAAAAT
4521073 CCCCCGATTCCAAGCTA
1 CCCCCGATTCCAAGCTA
4521090 CCCCCGATTCCAAGCTA
1 CCCCCGATTCCAAGCTA
4521107 CCCCC
1 CCCCC
4521112 CGCTGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.54, G:0.10, T:0.15
Consensus pattern (17 bp):
CCCCCGATTCCAAGCTA
Found at i:4522277 original size:106 final size:106
Alignment explanation
Indices: 4521882--4523304 Score: 2160
Period size: 106 Copynumber: 13.7 Consensus size: 106
4521872 TATTGTTCCA
* * * * * *
4521882 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTTTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
4521947 CAGTC-GTCCCTTCGTTGTGAAGTTG-ACTTGCGTTGTCTGG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
4521987 AGTCCAATATCCTTCGCTGTGAAGTTGAAA-TGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
4522051 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
4522092 AGTCCAATATCC-TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
4522156 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
4522197 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
4522262 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
4522303 AGTCCAATAT-C-TCGTTGTGAAGTT-AAA-TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
4522364 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
4522405 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
4522470 CAACGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
4522511 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC-AC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* * * *
4522575 CGGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
4522616 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
4522681 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
4522722 AGTCC-A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
4522785 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC-TTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* *
4522825 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAA-TGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
4522889 CACGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTAG
66 CA-GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * * **
4522931 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAA-TGTCCGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
4522995 CAGCGGTCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
4523035 AGTCAAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATTGAGAAA-TG-TTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
4523098 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
4523139 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-TGACTCTGAAATCGAGAAA-TGTTCGTT----AC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
4523198 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC---GTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * * * *
4523236 AGTCCAATATCCTTAGTTGTGAAGTTGAAATTGACTCTGAGATTGAGAAGTTGTTTGTTGACAAT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
4523301 CAGC
66 CAGC
4523305 CGCCCCTCAT
Statistics
Matches: 1224, Mismatches: 73, Indels: 44
0.91 0.05 0.03
Matches are distributed among these distances:
97 35 0.03
98 16 0.01
99 7 0.01
100 34 0.03
102 82 0.07
103 78 0.06
104 298 0.24
105 331 0.27
106 343 0.28
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
Found at i:4522678 original size:419 final size:423
Alignment explanation
Indices: 4521882--4523304 Score: 2176
Period size: 419 Copynumber: 3.4 Consensus size: 423
4521872 TATTGTTCCA
* * * * * * *
4521882 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTTTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* *
4521947 CAGTC-GTCCCTTCGTTGTGAAGTTG-ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
4522010 GTTGAAA-TGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGACTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
4522074 TGAACTTGCATTGTCTCGAGTCCAATATCC-TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
195 TGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
4522138 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCA
260 -AATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCA
4522203 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGG
324 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGG
4522268 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
389 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
4522303 AGTCCAATAT-C-TCGTTGTGAAGTT-AAA-TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
4522364 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * * * *
4522429 TTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAACGGTCTCTTCGTCGTGAAGTT
131 TTGAAATTGACTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
4522494 GAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
196 GAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
* * * *
4522559 AGTTGTTTGTTGAC-ACCGGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAA
261 A-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAA
* * *
4522623 TATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGT
325 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGT
4522688 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
390 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
4522722 AGTCC-A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
4522785 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC-TTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
4522849 TTGAAATTGACTCTGAAATCGAGAAA-TGTTTGTTGACAACCACGCGGTCCCTTCGTCGTGAAGT
131 TTGAAATTGACTCTGAAATTGAGAAATTGTTTGTTGACAACCA-GCGGTCCCTTCGTCGTGAAGT
* * * * *
4522913 TGAACTTACGTTGTCTAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
195 TGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* ** *
4522978 AAATGTCCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTAGAGTCAAA
260 AATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAA
* *
4523042 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATTGAGAAA-TG-TTGTTGACAACCAGCGGT
325 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGT
*
4523105 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
390 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * * *
4523139 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-TGACTCTGAAATCGAGAA-ATGTTCGTT----AC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* * * *
4523198 CAGCGGTCCCTTCGTCGTGAAGTTGAACTT--G-CGTCTAGAGTCCAATATCCTTAGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * *
4523260 TTGAAATTGACTCTGAGATTGAGAAGTTGTTTGTTGACAATCAGC
131 TTGAAATTGACTCTGAAATTGAGAAATTGTTTGTTGACAACCAGC
4523305 CGCCCCTCAT
Statistics
Matches: 929, Mismatches: 58, Indels: 40
0.90 0.06 0.04
Matches are distributed among these distances:
411 53 0.06
412 15 0.02
413 32 0.03
416 1 0.00
417 116 0.12
418 68 0.07
419 356 0.38
420 212 0.23
421 76 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (423 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGACTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
ATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAAT
ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTC
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
Found at i:4523696 original size:104 final size:105
Alignment explanation
Indices: 4523383--4523779 Score: 642
Period size: 104 Copynumber: 3.8 Consensus size: 105
4523373 TATTATTCCA
* * ***
4523383 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGGTTTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTATTGACAAC
4523448 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
4523489 AGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
4523554 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT-TCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
4523593 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGAGAAATGTTT-TTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
4523656 ACGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 A-GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
4523697 AGTCCAATATCCTTCGTTGTGAAG-TGAAATTGGCTATGAAATTG-GAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
4523760 CAGCGGTCCCTTCGTCGTGA
65 CAGCGGTCCCTTCGTCGTGA
4523780 TGCTTTATCT
Statistics
Matches: 274, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
102 10 0.04
103 63 0.23
104 99 0.36
105 59 0.22
106 43 0.16
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:4527498 original size:13 final size:13
Alignment explanation
Indices: 4527480--4527505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4527470 CAAATGGAAA
4527480 AAAAATTAAAATT
1 AAAAATTAAAATT
4527493 AAAAATTAAAATT
1 AAAAATTAAAATT
4527506 TTAAAAGTAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:4528549 original size:16 final size:17
Alignment explanation
Indices: 4528512--4528550 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4528502 AAAAAAAATC
4528512 CCCCCGATTCCAAGCTA
1 CCCCCGATTCCAAGCTA
4528529 CCCCCGATTCCAAGCTA
1 CCCCCGATTCCAAGCTA
4528546 CCCCC
1 CCCCC
4528551 CTGCCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.54, G:0.10, T:0.15
Consensus pattern (17 bp):
CCCCCGATTCCAAGCTA
Found at i:4539242 original size:19 final size:19
Alignment explanation
Indices: 4539218--4539268 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
4539208 ACCAACTAAA
*
4539218 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
4539237 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
*
4539256 TCGTAACGCGATC
1 TCGCAACGCGATC
4539269 TTCGGTATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:4539367 original size:21 final size:21
Alignment explanation
Indices: 4539316--4539368 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4539306 ATTCTGACTA
4539316 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
** **
4539337 TCGTGTTGCGATTTTCTTAAT
1 TCGCATTGCGATTTTCCAAAT
*
4539358 TCGCAATGCGA
1 TCGCATTGCGA
4539369 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4539383 original size:20 final size:20
Alignment explanation
Indices: 4539358--4539450 Score: 186
Period size: 20 Copynumber: 4.7 Consensus size: 20
4539348 TTTTCTTAAT
4539358 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4539378 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4539398 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4539418 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4539438 TCGCAATGCGAAT
1 TCGCAATGCGAAT
4539451 CTGACTATCG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4539675 original size:22 final size:21
Alignment explanation
Indices: 4539650--4539712 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
4539640 GACATCCATC
*
4539650 CCCATCTCCGATGAAATCAGTT
1 CCCATCTCCGACGAAATCAG-T
*
4539672 CCCATCTCCGACGATATCAGT
1 CCCATCTCCGACGAAATCAGT
*
4539693 CTCCATCTCCGGCGAAATCA
1 C-CCATCTCCGACGAAATCA
4539713 TTCACGATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.25, C:0.37, G:0.14, T:0.24
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCAGT
Found at i:4540074 original size:19 final size:19
Alignment explanation
Indices: 4540048--4540245 Score: 101
Period size: 20 Copynumber: 10.6 Consensus size: 19
4540038 GCGATTCTGT
4540048 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
4540067 CATTGCGA--TTC--TT-G
1 CGTTGCGATTTTCATTTCG
** *
4540081 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTC-ATTTCG
**
4540101 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
4540121 TGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
4540140 CGTTGCGA--TTC--TT-G
1 CGTTGCGATTTTCATTTCG
** *
4540154 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTC-ATTTCG
* * **
4540174 TGTTACGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
* **
4540194 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
4540214 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
4540234 TGTTGCGATTTT
1 CGTTGCGATTTT
4540246 AAGTTTCAGA
Statistics
Matches: 150, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
14 17 0.11
15 4 0.03
16 4 0.03
17 6 0.04
19 25 0.17
20 94 0.63
ACGTcount: A:0.15, C:0.18, G:0.23, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4540074 original size:33 final size:33
Alignment explanation
Indices: 4540031--4540162 Score: 122
Period size: 33 Copynumber: 3.8 Consensus size: 33
4540021 AGAATGACTA
*
4540031 TCGCAATGCGATTC-TGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTTG-CGTTGCGATTTTCATT
** *
4540064 TCGCATTGCGATTCTTGCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTTGCGTTGCGATTTTC-ATT
* *
4540098 TCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATT
1 TCGCATTGCGAT--TC---TT-GCGTTGCGATTTTCATT
*
4540137 TCGCGTTGCGATTCTTGCGTTGCGAT
1 TCGCATTGCGATTCTTGCGTTGCGAT
4540163 AGTCAAATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
33 33 0.41
34 17 0.21
36 2 0.02
37 2 0.02
39 16 0.20
40 11 0.14
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (33 bp):
TCGCATTGCGATTCTTGCGTTGCGATTTTCATT
Found at i:4540168 original size:73 final size:73
Alignment explanation
Indices: 4540049--4540223 Score: 287
Period size: 73 Copynumber: 2.4 Consensus size: 73
4540039 CGATTCTGTC
* *
4540049 GTTGCGATTTTCATTTCGCATTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTACGATAGTC
4540114 ATTTTCGT
66 ATTTTCGT
*
4540122 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGTGTTACGATAGTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTACGATAGTC
4540187 ATTTTCGT
66 ATTTTCGT
** *
4540195 GTTGCGATAGTCATTTTCGTGTTGCGATT
1 GTTGCGATTTTCA-TTTCGCGTTGCGATT
4540224 TTCATTTTCG
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 81 0.85
74 14 0.15
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (73 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTACGATAGTC
ATTTTCGT
Found at i:4540245 original size:20 final size:20
Alignment explanation
Indices: 4540082--4540242 Score: 165
Period size: 20 Copynumber: 8.4 Consensus size: 20
4540072 CGATTCTTGC
** *
4540082 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGT
4540102 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
** *
4540122 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATAGTCATTTTCGT
*
4540141 GTTGCGAT--TC---TT-GC
1 GTTGCGATAGTCATTTTCGT
**
4540155 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCATTTTCGT
*
4540175 GTTACGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
4540195 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
4540215 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
4540235 GTTGCGAT
1 GTTGCGAT
4540243 TTTAAGTTTC
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
14 10 0.08
15 2 0.02
16 2 0.02
17 2 0.02
19 15 0.12
20 91 0.75
ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:4542145 original size:20 final size:20
Alignment explanation
Indices: 4542120--4542297 Score: 194
Period size: 20 Copynumber: 8.5 Consensus size: 20
4542110 AGAATAGTTT
4542120 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4542140 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4542160 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
4542180 ACTATCGCAACGCTAAAATG
1 ACTATCGCAATGCGAAAATG
* *
4542200 ACTATCGCAACGAGAAAATCG
1 ACTATCGCAATGCGAAAAT-G
* *
4542221 CAACAACAAAATCGCAACGCGAAAATG
1 -----AC--TATCGCAATGCGAAAATG
* *
4542248 ACTATCGCAATACAAAAATG
1 ACTATCGCAATGCGAAAATG
**
4542268 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4542288 ACTATCGCAA
1 ACTATCGCAA
4542298 CGAGAGAATC
Statistics
Matches: 136, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
20 115 0.85
21 1 0.01
22 2 0.01
26 2 0.01
27 1 0.01
28 15 0.11
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4542222 original size:14 final size:14
Alignment explanation
Indices: 4542203--4542246 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
4542193 TAAAATGACT
4542203 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
* *
4542217 ATCGCAACAACAAA
1 ATCGCAACGAGAAA
*
4542231 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
4542245 AT
1 AT
4542247 GACTATCGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:4542247 original size:88 final size:88
Alignment explanation
Indices: 4542143--4542308 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
4542133 GAAAATGACT
* * * *
4542143 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGCTAAAATGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAATACAAAAATGACTATCGCAACGCGAAAATGACTATCGC
4542208 AACGAGAAAATCGCAACAACAAA
66 AACGAGAAAATCGCAACAACAAA
* **
4542231 ATCGCAACGCGAAAATGACTATCGCAATACAAAAATGACTATCGCAATGCGAATTTGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAATACAAAAATGACTATCGCAACGCGAAAATGACTATCGC
*
4542296 AACGAGAGAATCG
66 AACGAGAAAATCG
4542309 AAATGCGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.17
Consensus pattern (88 bp):
ATCGCAACGCGAAAATGACTATCGCAATACAAAAATGACTATCGCAACGCGAAAATGACTATCGC
AACGAGAAAATCGCAACAACAAA
Found at i:4542369 original size:20 final size:20
Alignment explanation
Indices: 4542344--4542587 Score: 266
Period size: 20 Copynumber: 12.3 Consensus size: 20
4542334 GATTCTCTCG
** *
4542344 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
4542364 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4542384 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
4542404 TTGCGATAGTCATTTTTGCGCA
1 TTGCGATAGTCA-TTTT-CGCA
*
4542426 TTGCGAT--T-A-TCTCG--
1 TTGCGATAGTCATTTTCGCA
** *
4542440 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGCA
**
4542460 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* **
4542480 TTGTGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4542500 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4542520 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
4542540 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
4542560 TTGCGATAGTCATTTTTCGCG
1 TTGCGATAGTCA-TTTTCGCA
4542581 TTGCGAT
1 TTGCGAT
4542588 TTTAAGTTTC
Statistics
Matches: 201, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
14 7 0.03
16 3 0.01
17 3 0.01
18 3 0.01
19 1 0.00
20 155 0.77
21 19 0.09
22 10 0.05
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:4544604 original size:13 final size:13
Alignment explanation
Indices: 4544557--4544609 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
4544547 TTGATTGTTT
4544557 AATTGATTTGTAA
1 AATTGATTTGTAA
*
4544570 AAGATGATTTGTAA
1 AA-TTGATTTGTAA
**
4544584 ATATTGATTTGTTT
1 A-ATTGATTTGTAA
*
4544598 AATTGATGTGTA
1 AATTGATTTGTA
4544610 CATAATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 11 0.34
14 20 0.62
15 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:4544811 original size:20 final size:20
Alignment explanation
Indices: 4544786--4544879 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
4544776 GCGATTCTCT
4544786 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
4544806 CGTTGCGATGGTCATTTCCA
1 CGTTGCGATAGTCATTTCCG
4544826 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4544846 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
4544866 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
4544880 AATGAATGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 65 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4547327 original size:24 final size:24
Alignment explanation
Indices: 4547293--4547346 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4547283 CTGAAAAATC
4547293 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4547317 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4547341 ATCAAA
1 ATCAAA
4547347 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4547360 original size:24 final size:24
Alignment explanation
Indices: 4547293--4547360 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
4547283 CTGAAAAATC
* * *
4547293 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
4547317 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
4547341 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
4547361 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:4548213 original size:20 final size:20
Alignment explanation
Indices: 4548188--4548274 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
4548178 AAATTCAGTA
4548188 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
**
4548208 TTGCGATAGTTTGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
4548228 TTGCGGTAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* *
4548248 TTGTGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
4548268 TTGCGAT
1 TTGCGAT
4548275 TTACGTATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4548284 original size:20 final size:20
Alignment explanation
Indices: 4548261--4548370 Score: 211
Period size: 20 Copynumber: 5.5 Consensus size: 20
4548251 TGATAGTCAG
*
4548261 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4548281 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4548301 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4548321 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4548341 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4548361 ATTCGCATTG
1 ATTCGCATTG
4548371 TGAATTAGGA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4548396 original size:21 final size:21
Alignment explanation
Indices: 4548372--4548415 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4548362 TTCGCATTGT
4548372 GAATTAGGAAAATCGCAACGC
1 GAATTAGGAAAATCGCAACGC
* *
4548393 GAATTTGGAAAATCGCAATGC
1 GAATTAGGAAAATCGCAACGC
4548414 GA
1 GA
4548416 TAGTCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (21 bp):
GAATTAGGAAAATCGCAACGC
Found at i:4548487 original size:19 final size:19
Alignment explanation
Indices: 4548463--4548513 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
4548453 CGATACCGGA
4548463 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
4548482 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
*
4548501 GATCGCATTGCGA
1 GATCGCGTTGCGA
4548514 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GATCGCGTTGCGAATTATC
Found at i:4549320 original size:23 final size:23
Alignment explanation
Indices: 4549294--4549345 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
4549284 ATGTTCGCTT
4549294 ATTTATTGTTCGCGAACATGTTC
1 ATTTATTGTTCGCGAACATGTTC
* * *
4549317 ATTTAATGTTTGCGAACGTGTTC
1 ATTTATTGTTCGCGAACATGTTC
*
4549340 GTTTAT
1 ATTTAT
4549346 CATTCGTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (23 bp):
ATTTATTGTTCGCGAACATGTTC
Found at i:4553021 original size:19 final size:19
Alignment explanation
Indices: 4552997--4553035 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4552987 TGACATATCA
4552997 TTCAGAGGTATTGATCCCT
1 TTCAGAGGTATTGATCCCT
4553016 TTCAGAGGTATTGATCCCT
1 TTCAGAGGTATTGATCCCT
4553035 T
1 T
4553036 AAATAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (19 bp):
TTCAGAGGTATTGATCCCT
Found at i:4553491 original size:20 final size:18
Alignment explanation
Indices: 4553437--4553502 Score: 51
Period size: 20 Copynumber: 3.4 Consensus size: 18
4553427 AATTCATTGC
*
4553437 TGCATTTGCATCTTTGATTT
1 TGCATATGCAT-TTTGA-TT
* *
4553457 TGCACATCCATTTTGTATT
1 TGCATATGCATTTTG-ATT
4553476 TGCATATGCATATTTGCATT
1 TGCATATGCAT-TTTG-ATT
*
4553496 AGCATAT
1 TGCATAT
4553503 ATACATTGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.47
Consensus pattern (18 bp):
TGCATATGCATTTTGATT
Found at i:4554941 original size:14 final size:14
Alignment explanation
Indices: 4554924--4554967 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
4554914 AAGAAAAGAA
4554924 AAAATGAAAAAATG
1 AAAATGAAAAAATG
*
4554938 AAAATGAAAGAATG
1 AAAATGAAAAAATG
4554952 AGAAA-GAAAAAA-G
1 A-AAATGAAAAAATG
4554965 AAA
1 AAA
4554968 GAAAACAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 2 0.07
13 2 0.07
14 20 0.74
15 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATGAAAAAATG
Found at i:4556964 original size:54 final size:54
Alignment explanation
Indices: 4556897--4557023 Score: 159
Period size: 54 Copynumber: 2.3 Consensus size: 54
4556887 AATATGATGT
4556897 TTTTAAGGGGTTTCTTGATGTCTTCAAATG-AATTTGGAAATG-AGCTAAGCCTAA
1 TTTT-AGGGGTTTCTTGATGTCTTCAAATGAAATTTGGAAA-GAAGCTAAGCCTAA
* * * *
4556951 TTTTCAGGGGTTTCTTGATGTTTTTAAATGAAATTTTGAAAGAAGCTAAGCTTAA
1 TTTT-AGGGGTTTCTTGATGTCTTCAAATGAAATTTGGAAAGAAGCTAAGCCTAA
**
4557006 TTTTAAAGGTTTCTTGAT
1 TTTTAGGGGTTTCTTGAT
4557024 AACTGTAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
54 40 0.62
55 24 0.38
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
TTTTAGGGGTTTCTTGATGTCTTCAAATGAAATTTGGAAAGAAGCTAAGCCTAA
Found at i:4557033 original size:54 final size:54
Alignment explanation
Indices: 4556905--4557054 Score: 146
Period size: 54 Copynumber: 2.7 Consensus size: 54
4556895 GTTTTTAAGG
* **
4556905 GGTTTCTTGATGTCTTCAAATG-AATTTGGAAATG-AGCTAAGCCTAATTTTCAGG
1 GGTTTCTTGATGTCTT-AAATGAAATTTTGAAA-GAAGCTAAGCCTAATTTTCAAA
* *
4556959 GGTTTCTTGATGTTTTTAAATGAAATTTTGAAAGAAGCTAAGCTTAATTTT-AAA
1 GGTTTCTTGATG-TCTTAAATGAAATTTTGAAAGAAGCTAAGCCTAATTTTCAAA
** *
4557013 GGTTTCTTGATAACTGTAAATGAATCTTTTTG-AAGAAGCTAA
1 GGTTTCTTGATGTCT-TAAATGAA--ATTTTGAAAGAAGCTAA
4557055 ATTTATCAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 37 0.46
56 5 0.06
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GGTTTCTTGATGTCTTAAATGAAATTTTGAAAGAAGCTAAGCCTAATTTTCAAA
Found at i:4557896 original size:136 final size:136
Alignment explanation
Indices: 4557634--4558401 Score: 1039
Period size: 136 Copynumber: 5.6 Consensus size: 136
4557624 TGAACTGATC
4557634 AACATTTCAAATGGAGAG--CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
4557697 TGAGAAGAGCTTGTTCAACCTATCACTTGATTCACAACATTTCGAATCAGTGA-AGCCTCGCTTG
66 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCATAATATTTCGAATCAGTGACA-CCTCGCTTG
4557761 AGGGATT
130 AGGGATT
* * *
4557768 AACATTTCAAATGGAGAGATCATAATGAGAAGAACTCATCCGACAGATGGAGAATAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* **
4557833 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGTATTTCGAATCAGTGACACCTCGCTTGA
66 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCATAATATTTCGAATCAGTGACACCTCGCTTGA
4557898 GGGATT
131 GGGATT
4557904 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
4557969 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATAGTATTTCGAATCAGTGACGCCTCGCTTGA
66 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCATAATATTTCGAATCAGTGACACCTCGCTTGA
*
4558034 GGGAAT
131 GGGATT
* * * *
4558040 AACATTTTAAATTGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAATTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * ** * * **
4558105 TGAGAAGAGCTTATTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGATGCCTCGCTTGA
66 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCATAATATTTCGAATCAGTGACACCTCGCTTGA
4558170 GGGATT
131 GGGATT
* * **
4558176 AATATTTCAAATGGAGAGTTCATAATGAAAAGAACTCATCAAACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
4558241 TGAGAAGAGCTTGTTCAATCT-TAAGCTCGATTCATCACATATGGAGTT-GAATCA-TCAACACC
66 TGAGAAGAGCTTGTTCAACCTATCA-CTCGATTCAT-A-ATAT----TTCGAATCAGT-GACACC
* * *
4558303 TCACTCGAGGGATC
123 TCGCTTGAGGGATT
***
4558317 AACATTTTTTATGGAGAGTTCATAATGAGAAGAACTCATCC-A-ATGAGGGAGAAGAAGTTCATA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACA-GAGGGAGAAGAAGTTCATA
*
4558380 ATGAGAAGAACTTGTTCAACCT
65 ATGAGAAGAGCTTGTTCAACCT
4558402 TAGCTAGTTT
Statistics
Matches: 567, Mismatches: 55, Indels: 18
0.89 0.09 0.03
Matches are distributed among these distances:
134 18 0.03
135 2 0.00
136 444 0.78
137 1 0.00
138 3 0.01
139 1 0.00
140 41 0.07
141 55 0.10
142 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (136 bp):
AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCAACCTATCACTCGATTCATAATATTTCGAATCAGTGACACCTCGCTTGA
GGGATT
Found at i:4560024 original size:20 final size:21
Alignment explanation
Indices: 4559969--4560033 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 21
4559959 TAGGTTCTTA
4559969 TTTTATGTT-TATG-TTTA-TT
1 TTTTATGTTAT-TGTTTTATTT
* *
4559988 TTTTATGTTGTT-TTTTTTCTT
1 TTTTATGTTATTGTTTTAT-TT
4560009 TTTTAT-TTATTGTTTTATTT
1 TTTTATGTTATTGTTTTATTT
4560029 TTTTA
1 TTTTA
4560034 AAGTTAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.34
20 12 0.32
21 13 0.34
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (21 bp):
TTTTATGTTATTGTTTTATTT
Found at i:4561599 original size:2 final size:2
Alignment explanation
Indices: 4561592--4561623 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4561582 AATAATTATT
4561592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4561624 TAATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4561721 original size:12 final size:12
Alignment explanation
Indices: 4561677--4561742 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
4561667 ATATATATAT
*
4561677 ATACCCGACCCG
1 ATACCCGACCCA
*
4561689 ATTCCC-AGCCCA
1 ATACCCGA-CCCA
4561701 ATA-CCGACCCA
1 ATACCCGACCCA
4561712 ATACCCGACCCA
1 ATACCCGACCCA
* *
4561724 ATACCTGGCCCA
1 ATACCCGACCCA
4561736 ATACCCG
1 ATACCCG
4561743 TTTAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
11 10 0.22
12 35 0.78
ACGTcount: A:0.29, C:0.47, G:0.12, T:0.12
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:4564399 original size:46 final size:45
Alignment explanation
Indices: 4564262--4564407 Score: 247
Period size: 45 Copynumber: 3.2 Consensus size: 45
4564252 CACCTGTCTC
4564262 TATTGTTTGCATTTACAAATGTTCGTCTCTGGTGTGAATTTATGT
1 TATTGTTTGCATTTACAAATGTTCGTCTCTGGTGTGAATTTATGT
*
4564307 TATTGTTTGCATTTACAAATGTTCGTCTCTGGTGTAAATTTATGT
1 TATTGTTTGCATTTACAAATGTTCGTCTCTGGTGTGAATTTATGT
* *
4564352 TATTTTTTGCATTTACAAATGTTTCATCTCTGGTGTGAATTTATGT
1 TATTGTTTGCATTTACAAATG-TTCGTCTCTGGTGTGAATTTATGT
*
4564398 TATTATTTGC
1 TATTGTTTGC
4564408 TCAAGTTGAA
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 64 0.67
46 31 0.33
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (45 bp):
TATTGTTTGCATTTACAAATGTTCGTCTCTGGTGTGAATTTATGT
Found at i:4570184 original size:24 final size:24
Alignment explanation
Indices: 4570148--4570193 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4570138 AATTACATTT
*
4570148 AAAAAAAACTAAAATATTGAAATG
1 AAAAAAAACTAAAATAATGAAATG
4570172 AAAATAAAA-TAAAATAATGAAA
1 AAAA-AAAACTAAAATAATGAAA
4570194 AGATGGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (24 bp):
AAAAAAAACTAAAATAATGAAATG
Found at i:4579211 original size:23 final size:24
Alignment explanation
Indices: 4579167--4579213 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4579157 CGCATCGATA
4579167 CACTGTTCACGGGATACTGTTCAT
1 CACTGTTCACGGGATACTGTTCAT
4579191 CACTGTTCACGGG-TACTGTTCAT
1 CACTGTTCACGGGATACTGTTCAT
4579214 AAAAATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
CACTGTTCACGGGATACTGTTCAT
Found at i:4582055 original size:5 final size:5
Alignment explanation
Indices: 4582045--4582078 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
4582035 TTGAATTCCG
4582045 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
4582079 GCATTTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
ATTTT
Found at i:4586095 original size:22 final size:23
Alignment explanation
Indices: 4586065--4586119 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
4586055 ATTTTTTTTA
* *
4586065 TGAATAGTGATGAACAGTA-CTG
1 TGAACAGTGATGAACAGTACCCG
*
4586087 TGAACAGTGATGAGCAGTACCCG
1 TGAACAGTGATGAACAGTACCCG
4586110 TGAACAGTGA
1 TGAACAGTGA
4586120 CTTTACCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (23 bp):
TGAACAGTGATGAACAGTACCCG
Found at i:4586649 original size:47 final size:44
Alignment explanation
Indices: 4586583--4586706 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 44
4586573 ATAAAATCTC
*
4586583 TTACCATTCATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAA
1 TTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAA
* * *
4586628 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCA-TT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAA
* *
4586675 TTGCCATTGTT-CATAAGCTCGTAAGCTTATTT
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTT
4586707 GCATACTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
43 21 0.30
44 2 0.03
45 6 0.09
46 4 0.06
47 37 0.53
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (44 bp):
TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAA
Found at i:4586714 original size:38 final size:41
Alignment explanation
Indices: 4586596--4586720 Score: 112
Period size: 47 Copynumber: 2.9 Consensus size: 41
4586586 CCATTCATCC
* * *
4586596 CATAAGCTCGTAAGCTTATTTTACCAAAATAATTACCATTTAAATT
1 CATAAGCTCGTAAGCTTATTTTAGC--AATACTTACCA-TT--GTT
* *
4586642 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCATTGTT
1 -CATAAGCTCGTAAGCTTATTTTAGC-A-ATACTTACCATTGTT
4586686 CATAAGCTCGTAAGCTTA-TTT-GC-ATACTTACCATT
1 CATAAGCTCGTAAGCTTATTTTAGCAATACTTACCATT
4586721 TATTAACCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
38 11 0.15
41 1 0.01
42 3 0.04
43 18 0.25
44 2 0.03
46 4 0.06
47 32 0.45
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (41 bp):
CATAAGCTCGTAAGCTTATTTTAGCAATACTTACCATTGTT
Found at i:4587080 original size:17 final size:19
Alignment explanation
Indices: 4587058--4587094 Score: 51
Period size: 17 Copynumber: 2.0 Consensus size: 19
4587048 GTTCATACCC
4587058 AAAATA-ACATTT-ATGAT
1 AAAATACACATTTCATGAT
4587075 AAAATATCACATTTCATGAT
1 AAAATA-CACATTTCATGAT
4587095 CAATGCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATACACATTTCATGAT
Found at i:4588751 original size:30 final size:30
Alignment explanation
Indices: 4588717--4588776 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4588707 ATTCCAACTC
4588717 GATCCGAATTACCGATTCCTTATCGACTTT
1 GATCCGAATTACCGATTCCTTATCGACTTT
4588747 GATCCGAATTACCGATTCCTTATCGACTTT
1 GATCCGAATTACCGATTCCTTATCGACTTT
4588777 AACCCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (30 bp):
GATCCGAATTACCGATTCCTTATCGACTTT
Found at i:4589578 original size:14 final size:14
Alignment explanation
Indices: 4589556--4589585 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4589546 TTATTTATAA
4589556 TTTTAATTATAATT
1 TTTTAATTATAATT
*
4589570 TTTTCATTATAATT
1 TTTTAATTATAATT
4589584 TT
1 TT
4589586 AAATATTTTT
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTAATTATAATT
Found at i:4590474 original size:7 final size:7
Alignment explanation
Indices: 4590462--4590486 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4590452 TAAAGTAAAT
4590462 TTCATCA
1 TTCATCA
4590469 TTCATCA
1 TTCATCA
4590476 TTCATCA
1 TTCATCA
4590483 TTCA
1 TTCA
4590487 ACTATCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCATCA
Found at i:4591227 original size:25 final size:25
Alignment explanation
Indices: 4591199--4591249 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4591189 GACCGGCTCC
*
4591199 GATTCTCAAATTTCACGATTCAATG
1 GATTCCCAAATTTCACGATTCAATG
4591224 GATTCCCAAATTTCACGATTCAATG
1 GATTCCCAAATTTCACGATTCAATG
4591249 G
1 G
4591250 CTTATAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (25 bp):
GATTCCCAAATTTCACGATTCAATG
Found at i:4594957 original size:2 final size:2
Alignment explanation
Indices: 4594950--4594977 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4594940 TTTATTTGTT
4594950 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
4594978 GCCATGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4597911 original size:20 final size:20
Alignment explanation
Indices: 4597864--4597912 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4597854 AATCACTATG
4597864 TATTATTTTGTTTTATTTGT
1 TATTATTTTGTTTTATTTGT
*
4597884 TATGATTTTGTCCTTT-TTTGT
1 TATTATTTTGT--TTTATTTGT
4597905 T-TTATTTT
1 TATTATTTT
4597913 AATCTAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 16 0.64
21 6 0.24
22 3 0.12
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.73
Consensus pattern (20 bp):
TATTATTTTGTTTTATTTGT
Found at i:4598408 original size:12 final size:12
Alignment explanation
Indices: 4598391--4598420 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4598381 GGTCCTTATG
4598391 CTATTTATAATT
1 CTATTTATAATT
*
4598403 CTATTTATGATT
1 CTATTTATAATT
4598415 CTATTT
1 CTATTT
4598421 CATATAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (12 bp):
CTATTTATAATT
Found at i:4601431 original size:6 final size:6
Alignment explanation
Indices: 4601418--4601468 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
4601408 TTTTTTACAT
* * *
4601418 TTTGCA TTTACA TTTGCA TTTGCA TTTGCA TTTTCA TTTTCA TTTTGCA
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA -TTTGCA
4601467 TT
1 TT
4601469 CACACATTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57
Consensus pattern (6 bp):
TTTGCA
Found at i:4601435 original size:12 final size:12
Alignment explanation
Indices: 4601411--4601462 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
4601401 ATTTTTCTTT
4601411 TTTACATTTTGCA
1 TTTACA-TTTGCA
4601424 TTTACATTTGCA
1 TTTACATTTGCA
*
4601436 TTTGCATTTGCA
1 TTTACATTTGCA
* *
4601448 TTTTCATTTTCA
1 TTTACATTTGCA
4601460 TTT
1 TTT
4601463 TGCATTCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
12 30 0.83
13 6 0.17
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (12 bp):
TTTACATTTGCA
Found at i:4601503 original size:34 final size:33
Alignment explanation
Indices: 4601440--4601506 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
4601430 TTTGCATTTG
*
4601440 CATTTGCATTTTCATTTTCATTTTGCATTCACA
1 CATTTGCATTTTCATTTGCATTTTGCATTCACA
*
4601473 CATTTGCATATTTACGTTTGCA-TTTGCATTCACA
1 CATTTGCAT-TTT-CATTTGCATTTTGCATTCACA
4601507 TTTTGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 9 0.30
34 15 0.50
35 6 0.20
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (33 bp):
CATTTGCATTTTCATTTGCATTTTGCATTCACA
Found at i:4604592 original size:9 final size:8
Alignment explanation
Indices: 4604578--4604724 Score: 68
Period size: 9 Copynumber: 16.2 Consensus size: 8
4604568 AATAATAAGG
4604578 AAAAAGAA
1 AAAAAGAA
4604586 TAAAAAG-A
1 -AAAAAGAA
4604594 AAAAAGAA
1 AAAAAGAA
4604602 AGAAAGGTAGAA
1 A-AAA---AGAA
*
4604614 AAGAGAGAGA
1 AA-AAAGA-A
4604624 AAAAAGAA
1 AAAAAGAA
4604632 CGAATAAAGAA
1 --AA-AAAGAA
4604643 AGAAAA-AGA
1 A-AAAAGA-A
4604652 AAAAAGAA
1 AAAAAGAA
4604660 GAAAAAGAAGA
1 -AAAAAG-A-A
4604671 AAAAAGAA
1 AAAAAGAA
4604679 GAAAAAGGGAAA
1 -AAAAA--G-AA
4604691 AAAAAGAA
1 AAAAAGAA
4604699 AACAAA-AA
1 AA-AAAGAA
4604707 GAAAAAG-A
1 -AAAAAGAA
4604715 AAAAAGAA
1 AAAAAGAA
4604723 AA
1 AA
4604725 CTGAAAGGAG
Statistics
Matches: 112, Mismatches: 2, Indels: 49
0.69 0.01 0.30
Matches are distributed among these distances:
7 12 0.11
8 24 0.21
9 41 0.37
10 13 0.12
11 14 0.12
12 8 0.07
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:4604605 original size:11 final size:11
Alignment explanation
Indices: 4604578--4604723 Score: 77
Period size: 11 Copynumber: 12.8 Consensus size: 11
4604568 AATAATAAGG
4604578 AAAAAGAATA-A
1 AAAAAGAA-AGA
*
4604589 AAAGAAAAAAGA
1 AAA-AAGAAAGA
**
4604601 AAGAAAGGTAGA
1 AA-AAAGAAAGA
* *
4604613 AAAGAGAGAGA
1 AAAAAGAAAGA
*
4604624 AAAAAGAACGA
1 AAAAAGAAAGA
*
4604635 ATAAAGAAAGAA
1 AAAAAGAAAG-A
*
4604647 AAAGAAAAAAGA
1 AAA-AAGAAAGA
4604659 AGAAAA-AGAAGA
1 A-AAAAGA-AAGA
4604671 AAAAAG-AAGA
1 AAAAAGAAAGA
* *
4604681 AAAAGGGAA-A
1 AAAAAGAAAGA
4604691 AAAAAGAAA-A
1 AAAAAGAAAGA
4604701 CAAAAAGAAAAAGA
1 -AAAAAG--AAAGA
4604715 AAAAAGAAA
1 AAAAAGAAA
4604724 ACTGAAAGGA
Statistics
Matches: 105, Mismatches: 17, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
10 18 0.17
11 42 0.40
12 26 0.25
13 18 0.17
14 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:4604615 original size:19 final size:19
Alignment explanation
Indices: 4604580--4604724 Score: 94
Period size: 17 Copynumber: 7.8 Consensus size: 19
4604570 TAATAAGGAA
*
4604580 AAAGAATAAAAAGAAAAAAG
1 AAAGAA-AAGAAGAAAAAAG
* *
4604600 AAAGAAAGGTAGAAAAGAGAG
1 AAAGAAAAGAAGAAAA-A-AG
*
4604621 AGAA-AAAAGAACGAATAAAG
1 A-AAGAAAAGAA-GAAAAAAG
4604641 AAAG-AAA-AAGAAAAAAG
1 AAAGAAAAGAAGAAAAAAG
4604658 -AAGAAAAAGAAGAAAAAAG
1 AAAG-AAAAGAAGAAAAAAG
* *
4604677 -AAGAAAA-AGGGAAAAA-
1 AAAGAAAAGAAGAAAAAAG
* *
4604693 AAAGAAAACAA-AAAGAA-
1 AAAGAAAAGAAGAAAAAAG
4604710 AAAGAAAA-AAGAAAA
1 AAAGAAAAGAAGAAAA
4604725 CTGAAAGGAG
Statistics
Matches: 101, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
16 5 0.05
17 36 0.36
18 10 0.10
19 25 0.25
20 10 0.10
21 9 0.09
22 6 0.06
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAGAAAAGAAGAAAAAAG
Found at i:4604629 original size:37 final size:35
Alignment explanation
Indices: 4604581--4604724 Score: 116
Period size: 35 Copynumber: 3.9 Consensus size: 35
4604571 AATAAGGAAA
* *
4604581 AAGAATAAAAAGAAAAAAGAAAGAAAGGTAGAAAAGAG
1 AAGAA-AAAAAGAAAAAAGAAAGAAA--AAGAAAAAAG
*
4604619 AGAGAAAAAAGAACGAATAAAGAAAGAAAAAGAAAAAAG
1 A-AG-AAAAA-AA-GAAAAAAGAAAGAAAAAGAAAAAAG
4604658 AAGAAAAAGAAGAAAAAAG-AAGAAAAAGGGAAAAAA-
1 AAGAAAAA-AAGAAAAAAGAAAGAAAAA--GAAAAAAG
* *
4604694 AAGAAAACAA-AAAGAA-AAAGAAAAAAGAAAA
1 AAGAAAAAAAGAAAAAAGAAAG-AAAAAGAAAA
4604725 CTGAAAGGAG
Statistics
Matches: 92, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
33 5 0.05
34 8 0.09
35 15 0.16
36 14 0.15
37 15 0.16
38 3 0.03
39 14 0.15
40 4 0.04
41 14 0.15
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.02
Consensus pattern (35 bp):
AAGAAAAAAAGAAAAAAGAAAGAAAAAGAAAAAAG
Found at i:4604645 original size:28 final size:26
Alignment explanation
Indices: 4604577--4604723 Score: 97
Period size: 26 Copynumber: 5.4 Consensus size: 26
4604567 AAATAATAAG
*
4604577 GAAAAAG-AATAAAAAGAAAAAAGAAA
1 GAAAAAGAAAGAAAAAGAAAAAAG-AA
* * *
4604603 GAAAGGTAGAAAAGAGAGAGAAAAAAGAA
1 GAAA--AAG-AAAGAAAAAGAAAAAAGAA
4604632 CGAATAAAGAAAGAAAAAGAAAAAAGAA
1 -GAA-AAAGAAAGAAAAAGAAAAAAGAA
*
4604660 GAAAAAG-AAGAAAAAAGAAGAAAA-AGG
1 GAAAAAGAAAG-AAAAAGAA-AAAAGA-A
*
4604687 GAAAAA-AAAGAAAACA-AAAAGAAAAA
1 GAAAAAGAAAGAAAA-AGAAAA-AAGAA
4604713 GAAAAAAGAAA
1 G-AAAAAGAAA
4604724 ACTGAAAGGA
Statistics
Matches: 97, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
25 5 0.05
26 26 0.27
27 23 0.24
28 22 0.23
29 4 0.04
30 16 0.16
31 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.02
Consensus pattern (26 bp):
GAAAAAGAAAGAAAAAGAAAAAAGAA
Found at i:4604652 original size:6 final size:6
Alignment explanation
Indices: 4604641--4604724 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
4604631 ACGAATAAAG
* **
4604641 AAAGAA AAAG-A AAA-AA GAAGAA AAAGAA GAAA-AA AGAAGAA AAAGGG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA A-AAGAA AAAGAA
*
4604688 AAA-AA AAAG-A AAACAA AAAGAA AAAGAAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AA
4604725 CTGAAAGGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
5 15 0.24
6 35 0.56
7 12 0.19
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:4604665 original size:67 final size:64
Alignment explanation
Indices: 4604577--4604722 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 64
4604567 AAATAATAAG
* * * *
4604577 GAAAAAGAATAAA-AAGAAAAAAGAA-AGAAAGGTAGAAAAGAGAGAGAAAAAAGAACGAATAA-
1 GAAAAAGAAAAAAGAAGAAAAAAGAAGAAAAAAGAAGAAAA-AG-G-GAAAAAA-AA-GAA-AAC
*
4604639 AGAAA
60 AAAAA
4604644 GAAAAAGAAAAAAGAAG-AAAAAGAAGAAAAAAGAAGAAAAAGGGAAAAAAAAGAAAACAAAAA
1 GAAAAAGAAAAAAGAAGAAAAAAGAAGAAAAAAGAAGAAAAAGGGAAAAAAAAGAAAACAAAAA
4604707 GAAAAAGAAAAAAGAA
1 GAAAAAGAAAAAAGAA
4604723 AACTGAAAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
62 2 0.03
63 23 0.32
64 2 0.03
65 7 0.10
66 1 0.01
67 22 0.31
68 14 0.20
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.02
Consensus pattern (64 bp):
GAAAAAGAAAAAAGAAGAAAAAAGAAGAAAAAAGAAGAAAAAGGGAAAAAAAAGAAAACAAAAA
Found at i:4604673 original size:47 final size:46
Alignment explanation
Indices: 4604589--4604719 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 46
4604579 AAAAGAATAA
*
4604589 AAAGAAAAAAGAAAGAAAGGTAGAAAAGAGAGAGAAAAAAGAACGAATAAA-G
1 AAAG-AAAAAGAAA-AAA-GAAGAAAA-AGA-AGAAAAAAGAA-GAA-AAAGG
4604641 AAAGAAAAAGAAAAAAGAAGAAAAAGAAGAAAAAAGAAGAAAAAGGG
1 AAAGAAAAAGAAAAAAGAAGAAAAAGAAGAAAAAAGAAGAAAAA-GG
*
4604688 AAA-AAAAAGAAAACAAAAAGAAAAAGAA-AAAA
1 AAAGAAAAAGAAAA-AAGAAGAAAAAGAAGAAAA
4604720 GAAAACTGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
45 3 0.04
46 17 0.23
47 28 0.38
48 3 0.04
49 7 0.09
50 3 0.04
51 9 0.12
52 4 0.05
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.02
Consensus pattern (46 bp):
AAAGAAAAAGAAAAAAGAAGAAAAAGAAGAAAAAAGAAGAAAAAGG
Found at i:4607286 original size:20 final size:20
Alignment explanation
Indices: 4607224--4607286 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
4607214 CAATGGAAGA
4607224 GTTCGTAATGAGAAGAACTT
1 GTTCGTAATGAGAAGAACTT
* * ***
4607244 ATCCG-AA-GACGAAGAAAAA
1 GTTCGTAATGA-GAAGAACTT
4607263 GTTCGTAATGAGAAGAACTT
1 GTTCGTAATGAGAAGAACTT
4607283 GTTC
1 GTTC
4607287 ATCATTTTGC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
20 15 0.50
21 2 0.07
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (20 bp):
GTTCGTAATGAGAAGAACTT
Found at i:4607591 original size:120 final size:118
Alignment explanation
Indices: 4607349--4607600 Score: 344
Period size: 120 Copynumber: 2.1 Consensus size: 118
4607339 GATTGAATCC
* *
4607349 ATCACAGAAGGAGGTGGATCATCATTTCCAATGGAAGGGTTCATAATAAGAAGAATTCATCCAAA
1 ATCACAGAAGGAGGTGGATAATCATTTCCAATGGAAGGGTTCATAATAAGAAGAACTCATCCAAA
* * * *
4607414 GAAGGAGAATAAGTTCATAATGAGAAGAACATGTTCACCATTTTGCTCGATTCT
66 GAA-GAGAAGAAGTTCATAATGAGAAGAACATGTTCAACATTTTGCTCGACTAT
* * *
4607468 ATCACAAAAGGAGGTAGGATAATCATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCGA
1 ATCACAGAAGGAGGT-GGATAATCATTTCCAATGGAAGGGTTCATAATAAGAAGAACTCATCC-A
* ** *
4607533 AGAGAA-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATTTTTTGCTCTACTAT
64 A-AGAAGAGAAGAAGTTCATAATGAGAAGAACATGTTCAACATTTTGCTCGACTAT
4607588 ATCACAGAAGGAG
1 ATCACAGAAGGAG
4607601 ATAGATCATC
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
119 14 0.12
120 96 0.83
121 2 0.02
122 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (118 bp):
ATCACAGAAGGAGGTGGATAATCATTTCCAATGGAAGGGTTCATAATAAGAAGAACTCATCCAAA
GAAGAGAAGAAGTTCATAATGAGAAGAACATGTTCAACATTTTGCTCGACTAT
Found at i:4611884 original size:65 final size:64
Alignment explanation
Indices: 4611772--4611927 Score: 188
Period size: 65 Copynumber: 2.4 Consensus size: 64
4611762 TAAGACTTAA
* * * * * *
4611772 TGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGGTTTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGACAAGAGTGCATCGATGCATGG-CTG
* * *
4611837 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAA-ATACAAGAGTGCATCGTTTCATGGCTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAA-AAGAGACAAGAGTGCATCGATGCATGGCTG
* *
4611901 TGCATCGGTACATAAACTGCATTCGAT
1 TGCATCGGTACACAAAATGCATTCGAT
4611928 ATAGGGTGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 27 0.34
65 50 0.63
66 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGACAAGAGTGCATCGATGCATGGCTG
Found at i:4614042 original size:13 final size:13
Alignment explanation
Indices: 4614024--4614062 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
4614014 AATGGGAAAT
*
4614024 TTTGAAAACTATG
1 TTTGAAAACAATG
4614037 TTTGAAAACAATG
1 TTTGAAAACAATG
4614050 TTTGAAAATCAAT
1 TTTGAAAA-CAAT
4614063 ATTTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:4620471 original size:65 final size:64
Alignment explanation
Indices: 4620378--4620529 Score: 189
Period size: 65 Copynumber: 2.4 Consensus size: 64
4620368 ACACTTTGGG
* * * * *
4620378 TGCATCAGTACACTAATTACATTAGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGTTT
1 TGCATCAGTACACAAAATGCATTAGATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGG-CT
*
4620442 G
64 A
* * **
4620443 TGTATCAGTACACAAAATGCATTTGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGCTA
1 TGCATCAGTACACAAAATGCATTAGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGCTA
4620507 TGCATCAGTACACAAAATGCATT
1 TGCATCAGTACACAAAATGCATT
4620530 CAAAATAGCG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 23 0.31
65 50 0.67
66 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (64 bp):
TGCATCAGTACACAAAATGCATTAGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGCTA
Found at i:4621300 original size:36 final size:36
Alignment explanation
Indices: 4621254--4621363 Score: 211
Period size: 36 Copynumber: 3.1 Consensus size: 36
4621244 ATTTATCCAT
*
4621254 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
4621290 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
4621326 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
4621362 TA
1 TA
4621364 CCATGTTGTG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (36 bp):
TATCAACTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4629380 original size:65 final size:63
Alignment explanation
Indices: 4629289--4629423 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 63
4629279 ACACTAATTA
* * * * *
4629289 CATTCGATGTTTTAAAAGAGTCAGGAGTGTATTGATACATGGTCTGTACATCGGTACATAAAATG
1 CATTCGATGTTTCAAAAGAATCAGGAGTGCATCGATACATGG-CTGTAC-TCGGTACACAAAATG
* * *
4629354 CATTCGATGTTTCAATAA-AATCAGGAGTGCATCGATGCATGGGTGTGCTCGGTACACAAAATG
1 CATTCGATGTTTCAA-AAGAATCAGGAGTGCATCGATACATGGCTGTACTCGGTACACAAAATG
4629417 CATTCGA
1 CATTCGA
4629424 ATTAGGGTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 21 0.34
64 4 0.07
65 34 0.56
66 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (63 bp):
CATTCGATGTTTCAAAAGAATCAGGAGTGCATCGATACATGGCTGTACTCGGTACACAAAATG
Found at i:4629647 original size:12 final size:12
Alignment explanation
Indices: 4629630--4629655 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4629620 AATTTAATCG
4629630 AATATACTTTTA
1 AATATACTTTTA
4629642 AATATACTTTTA
1 AATATACTTTTA
4629654 AA
1 AA
4629656 ATGATTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATACTTTTA
Found at i:4629794 original size:13 final size:13
Alignment explanation
Indices: 4629776--4629809 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
4629766 TAAGATTTTC
*
4629776 TTTGAAAATCATT
1 TTTGAAAATCAGT
4629789 TTTG-AAATCAGT
1 TTTGAAAATCAGT
4629801 TTTGAAAAT
1 TTTGAAAAT
4629810 TATCCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAGT
Found at i:4631572 original size:17 final size:19
Alignment explanation
Indices: 4631529--4631569 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
4631519 AGTTTTCACG
4631529 AAAACAACATAATTAAATCA
1 AAAACAACA-AATTAAATCA
4631549 AAAACAAC-AATTAAATCA
1 AAAACAACAAATTAAATCA
4631567 AAA
1 AAA
4631570 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAACAACAAATTAAATCA
Found at i:4632022 original size:23 final size:23
Alignment explanation
Indices: 4631988--4632061 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
4631978 CACTGCATAG
4631988 TGTATCGATGCACATTCAAGGAA
1 TGTATCGATGCACATTCAAGGAA
* ** *
4632011 TGTATCGGTGCACCGTC-A-TAA
1 TGTATCGATGCACATTCAAGGAA
* *
4632032 TGTTTCGATGCATATTCAAGGAA
1 TGTATCGATGCACATTCAAGGAA
*
4632055 TGCATCG
1 TGTATCG
4632062 GTAAACTTTC
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 21 0.57
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (23 bp):
TGTATCGATGCACATTCAAGGAA
Found at i:4632074 original size:44 final size:44
Alignment explanation
Indices: 4631983--4632088 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
4631973 CGATACACTG
* **
4631983 CATAGTGTATCGATGCACATTCAAGGAATGTATCGGTGCACCGT
1 CATAGTGTATCGATGCACATTCAAGGAATGCATCGGTAAACCGT
* * * **
4632027 CATAATGTTTCGATGCATATTCAAGGAATGCATCGGTAAACTTT
1 CATAGTGTATCGATGCACATTCAAGGAATGCATCGGTAAACCGT
4632071 CATAGTGTATCGATGCAC
1 CATAGTGTATCGATGCAC
4632089 TTAGCACAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
CATAGTGTATCGATGCACATTCAAGGAATGCATCGGTAAACCGT
Found at i:4637613 original size:18 final size:18
Alignment explanation
Indices: 4637590--4637633 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
4637580 AAAATCAGGA
*
4637590 GTGCATCTATGCATGGGT
1 GTGCATCGATGCATGGGT
4637608 GTGCATCGATGCATGGGT
1 GTGCATCGATGCATGGGT
4637626 GTGCATCG
1 GTGCATCG
4637634 TTACACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (18 bp):
GTGCATCGATGCATGGGT
Found at i:4638680 original size:36 final size:38
Alignment explanation
Indices: 4638631--4638705 Score: 127
Period size: 36 Copynumber: 2.0 Consensus size: 38
4638621 AGTTGAGTAT
4638631 TTATCCATGATCAGATTTGGTACATTCGTGTATCAATG
1 TTATCCATGATCAGATTTGGTACATTCGTGTATCAATG
*
4638669 TTAT-CAT-ATCAGCTTTGGTACATTCGTGTATCAATG
1 TTATCCATGATCAGATTTGGTACATTCGTGTATCAATG
4638705 T
1 T
4638706 CCAGCACCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 29 0.81
37 3 0.08
38 4 0.11
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (38 bp):
TTATCCATGATCAGATTTGGTACATTCGTGTATCAATG
Found at i:4639606 original size:10 final size:10
Alignment explanation
Indices: 4639591--4639623 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
4639581 TTGATTCGTA
4639591 TATCGAGACG
1 TATCGAGACG
4639601 TATCGAGACG
1 TATCGAGACG
4639611 TATCGAGACG
1 TATCGAGACG
4639621 TAT
1 TAT
4639624 ACGGATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (10 bp):
TATCGAGACG
Found at i:4639836 original size:15 final size:15
Alignment explanation
Indices: 4639816--4639853 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
4639806 ACACTAACAT
4639816 TTTATTTTTTTACTC
1 TTTATTTTTTTACTC
4639831 TTTA-TTTTTTACTC
1 TTTATTTTTTTACTC
4639845 TTTAATTTT
1 TTT-ATTTT
4639854 ATGCACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.62
15 5 0.24
16 3 0.14
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTTACTC
Found at i:4639865 original size:16 final size:15
Alignment explanation
Indices: 4639844--4639884 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
4639834 ATTTTTTACT
4639844 CTTTAATTTTATGCAC
1 CTTTAATTTTATGC-C
*
4639860 CTTTAAATTTATGCC
1 CTTTAATTTTATGCC
*
4639875 TTTTAATTTT
1 CTTTAATTTT
4639885 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (15 bp):
CTTTAATTTTATGCC
Found at i:4639888 original size:25 final size:25
Alignment explanation
Indices: 4639860--4639914 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
4639850 TTTTATGCAC
4639860 CTTTAAATTTATGCCTTTTAATTTT
1 CTTTAAATTTATGCCTTTTAATTTT
** *
4639885 CTTTATTTTTATGCCTTTTATTTTT
1 CTTTAAATTTATGCCTTTTAATTTT
4639910 CTTTA
1 CTTTA
4639915 TTTTTAGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.13, G:0.04, T:0.65
Consensus pattern (25 bp):
CTTTAAATTTATGCCTTTTAATTTT
Found at i:4639926 original size:25 final size:25
Alignment explanation
Indices: 4639867--4639920 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
4639857 CACCTTTAAA
4639867 TTTATGCCTTTTAATTTTCTTTATT
1 TTTATGCCTTTTAATTTTCTTTATT
*
4639892 TTTATGCCTTTTATTTTTCTTTATT
1 TTTATGCCTTTTAATTTTCTTTATT
4639917 TTTA
1 TTTA
4639921 GTCCTTGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTATGCCTTTTAATTTTCTTTATT
Found at i:4640052 original size:2 final size:2
Alignment explanation
Indices: 4640045--4640076 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4640035 AGTCACATGA
4640045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4640077 GCACGTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4641728 original size:23 final size:23
Alignment explanation
Indices: 4641702--4641748 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4641692 ACTCAAAAAA
4641702 CATTCAAGAGCTCAATTGAAGCT
1 CATTCAAGAGCTCAATTGAAGCT
*** *
4641725 CATTTTTGAGCTCGATTGAAGCT
1 CATTCAAGAGCTCAATTGAAGCT
4641748 C
1 C
4641749 GTTTTTTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
CATTCAAGAGCTCAATTGAAGCT
Found at i:4641753 original size:23 final size:23
Alignment explanation
Indices: 4641709--4641842 Score: 160
Period size: 23 Copynumber: 5.8 Consensus size: 23
4641699 AAACATTCAA
*
4641709 GAGCTCAATTGAAGCTCATTTTT
1 GAGCTCAATTGAAGCTCGTTTTT
*
4641732 GAGCTCGATTGAAGCTCGTTTTTT
1 GAGCTCAATTGAAGCTCG-TTTTT
*
4641756 GAGCTCGATTGAAGCTCGTTTTT
1 GAGCTCAATTGAAGCTCGTTTTT
* *
4641779 TAGCTCAATTCAAGCTCGTTTTT
1 GAGCTCAATTGAAGCTCGTTTTT
* * * *
4641802 TAGCTCGATTCAAGCTCATTTTT
1 GAGCTCAATTGAAGCTCGTTTTT
* *
4641825 TAGCTCAATTTAAGCTCG
1 GAGCTCAATTGAAGCTCG
4641843 AAGGGTTTTG
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
23 77 0.77
24 23 0.23
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (23 bp):
GAGCTCAATTGAAGCTCGTTTTT
Found at i:4641818 original size:46 final size:47
Alignment explanation
Indices: 4641709--4641842 Score: 198
Period size: 47 Copynumber: 2.9 Consensus size: 47
4641699 AAACATTCAA
* * * *
4641709 GAGCTCAATTGAAGCTCATTTTTGAGCTCGATTGAAGCTCGTTTTTT
1 GAGCTCGATTGAAGCTCATTTTTTAGCTCAATTCAAGCTCGTTTTTT
*
4641756 GAGCTCGATTGAAGCTCGTTTTTTAGCTCAATTCAAGCTCGTTTTTT
1 GAGCTCGATTGAAGCTCATTTTTTAGCTCAATTCAAGCTCGTTTTTT
* *
4641803 -AGCTCGATTCAAGCTCATTTTTTAGCTCAATTTAAGCTCG
1 GAGCTCGATTGAAGCTCATTTTTTAGCTCAATTCAAGCTCG
4641843 AAGGGTTTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 37 0.47
47 42 0.53
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (47 bp):
GAGCTCGATTGAAGCTCATTTTTTAGCTCAATTCAAGCTCGTTTTTT
Found at i:4643786 original size:14 final size:14
Alignment explanation
Indices: 4643767--4643818 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
4643757 ACATAAACCT
* *
4643767 TAAACCTTGATCTC
1 TAAACCTTAAACTC
4643781 TAAACCTTAAACTC
1 TAAACCTTAAACTC
* *
4643795 TAAACCCTAAACCC
1 TAAACCTTAAACTC
*
4643809 TAAATCTTAA
1 TAAACCTTAA
4643819 CACATAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACTC
Found at i:4644164 original size:19 final size:19
Alignment explanation
Indices: 4644140--4644176 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4644130 ATGACCAACA
*
4644140 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
4644159 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4644177 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4644337 original size:20 final size:20
Alignment explanation
Indices: 4644283--4644338 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
4644273 GAACATGTAA
*
4644283 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTTTGACT
4644303 ATCGCAACGCGATTTTGACT
1 ATCGCAACGCGATTTTGACT
*
4644323 ATCGCAATGCGATTTT
1 ATCGCAACGCGATTTT
4644339 CAAAGCGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGATTTTGACT
Found at i:4644507 original size:22 final size:22
Alignment explanation
Indices: 4644481--4644531 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
4644471 CTACAGCGAC
4644481 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
*
4644503 ATCCGTCCCCATCTCCGGCAAA
1 ATCCGTCCCCATCTCCGACAAA
4644525 ATCCGTC
1 ATCCGTC
4644532 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.45, G:0.12, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACAAA
Found at i:4646894 original size:20 final size:20
Alignment explanation
Indices: 4646865--4646914 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4646855 AAGAATAGTT
* * *
4646865 GCAACACGAAACTTAAAATC
1 GCAACGCGAAAATGAAAATC
**
4646885 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGAAAATC
4646905 GCAACGCGAA
1 GCAACGCGAA
4646915 TTTGACTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.12
Consensus pattern (20 bp):
GCAACGCGAAAATGAAAATC
Found at i:4646920 original size:20 final size:20
Alignment explanation
Indices: 4646882--4646930 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4646872 GAAACTTAAA
4646882 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
4646902 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
4646922 ATCGTAACG
1 ATCGCAACG
4646931 GGATAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4646987 original size:20 final size:20
Alignment explanation
Indices: 4646964--4647001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4646954 AATCGCAACG
* *
4646964 TGAAAATCGCAATGCGAAAA
1 TGAAAATAGCAACGCGAAAA
4646984 TGAAAATAGCAACGCGAA
1 TGAAAATAGCAACGCGAA
4647002 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATAGCAACGCGAAAA
Found at i:4647029 original size:19 final size:20
Alignment explanation
Indices: 4647002--4647040 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4646992 GCAACGCGAA
*
4647002 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
4647022 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
4647041 ATCTTGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:4647083 original size:20 final size:20
Alignment explanation
Indices: 4647060--4647103 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4647050 CGATAGTCAT
*
4647060 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAA
*
4647080 TTTCGTGTTGCGATTTTAAA
1 TTTCGCGTTGCGATTTTAAA
4647100 TTTC
1 TTTC
4647104 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAA
Found at i:4647674 original size:21 final size:20
Alignment explanation
Indices: 4647582--4647681 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
4647572 CGACTCACAT
* * *
4647582 TTCATCATTCAAGAAGCCTC
1 TTCATCGTTCAAGAGGCCCC
* *
4647602 TCCTATCGTTCAAGAGGCCCA
1 TTC-ATCGTTCAAGAGGCCCC
** *
4647623 TATCATCCCTCAAGAGTCCCC
1 T-TCATCGTTCAAGAGGCCCC
*
4647644 TTCCACCGTTCAAGAGGCCCC
1 TT-CATCGTTCAAGAGGCCCC
*
4647665 TGTCATCGTTAAAGAGG
1 T-TCATCGTTCAAGAGG
4647682 TCTCTCCCAC
Statistics
Matches: 60, Mismatches: 16, Indels: 7
0.72 0.19 0.08
Matches are distributed among these distances:
20 3 0.05
21 55 0.92
22 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (20 bp):
TTCATCGTTCAAGAGGCCCC
Found at i:4649101 original size:14 final size:14
Alignment explanation
Indices: 4649082--4649118 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
4649072 GCTTGTTTAA
4649082 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
4649096 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
4649110 TTGATTTGT
1 TTGATTTGT
4649119 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4649275 original size:20 final size:20
Alignment explanation
Indices: 4649252--4649315 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
4649242 AACACTAAAC
4649252 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
*
4649272 TCAAAATCGTAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
* **
4649292 CCAAAATCGCAACACGAAAG
1 TCAAAATCGCAATGCGAAAG
4649312 TCAA
1 TCAA
4649316 TTCGCGTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:4649380 original size:34 final size:35
Alignment explanation
Indices: 4649319--4649489 Score: 152
Period size: 34 Copynumber: 4.8 Consensus size: 35
4649309 AAGTCAATTC
* * * *
4649319 GCGTTACGATAGTCTAATACGCTTTGCGAATTTCT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAATTTCT
* * *
4649354 -CATTACGATAGTCAAATTCCCGTTGCGATAATCAAATTC-
1 GCGTTGCGATAGTCAAATTCGCGTTGCG--AAT----TTCT
* * *
4649393 ACGTTGCGATAGTCAAATTCGTGTTGCG-ATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAATTTCT
* *
4649427 GCGTTGCGATAGTAAAATTCGCGTTGCG-ATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAATTTCT
4649461 GCGTTGCGATAGTCAAATTCGCGTTGCGA
1 GCGTTGCGATAGTCAAATTCGCGTTGCGA
4649490 TATTCAAATG
Statistics
Matches: 113, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.02
34 80 0.71
36 3 0.03
37 2 0.02
40 26 0.23
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (35 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGAATTTCT
Found at i:4649388 original size:20 final size:20
Alignment explanation
Indices: 4649359--4649422 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
4649349 TTTCTCATTA
*
4649359 CGATAGTCAAATTCCCGTTG
1 CGATAGTCAAATTCACGTTG
*
4649379 CGATAATCAAATTCACGTTG
1 CGATAGTCAAATTCACGTTG
**
4649399 CGATAGTCAAATTCGTGTTG
1 CGATAGTCAAATTCACGTTG
4649419 CGAT
1 CGAT
4649423 TTTTGCGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (20 bp):
CGATAGTCAAATTCACGTTG
Found at i:4649452 original size:20 final size:20
Alignment explanation
Indices: 4649427--4649498 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
4649417 TGCGATTTTT
*
4649427 GCGTTGCGATAGTAAAATTC
1 GCGTTGCGATAGTCAAATTC
*
4649447 GCGTTGCGAT--T----TTT
1 GCGTTGCGATAGTCAAATTC
4649461 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
*
4649481 GCGTTGCGATATTCAAAT
1 GCGTTGCGATAGTCAAAT
4649499 GAATGTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.28
16 1 0.02
18 1 0.02
20 29 0.67
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:4649490 original size:34 final size:34
Alignment explanation
Indices: 4649394--4649490 Score: 176
Period size: 34 Copynumber: 2.9 Consensus size: 34
4649384 ATCAAATTCA
*
4649394 CGTTGCGATAGTCAAATTCGTGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
*
4649428 CGTTGCGATAGTAAAATTCGCGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
4649462 CGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
4649491 ATTCAAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Done.