Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 18 of 172
Found at i:4612744 original size:50 final size:50
Alignment explanation
Indices: 4612672--4613434 Score: 324
Period size: 50 Copynumber: 15.3 Consensus size: 50
4612662 CATATTTAAA
** * ** *
4612672 AGATTGAAGCCGCAACGACAAATCTTACTTCTTTGGCAGTGCACTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* * * * * ** **
4612722 AGATTGAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
** * **
4612772 AGATTGAAGC-AGCAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAGC
1 AGATTGAAGCTA-CAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* * ** * ** **
4612822 AGATTGAAGCTACGACGGTAAATCTTACTTCCCTAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
** ** * **
4612872 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAATGCGGTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * * * ** **
4612922 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * **
4612972 AGATTAAAGCCGCAACGGCGAATCTTACTTCCCTGGC-GATGCGGTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAG-TGCAATGGAGC
* * * ** * * * * ** **
4613022 ATATTGAAGCTACGATGGTGAATCTTGCTTCCCCGGCATTACAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * * * **
4613072 AGATTAAAGCCGCAACGGCGAATCTTACTTCTCTGGCGGTGCGGTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * * * * ** **
4613122 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
** ** * * **
4613172 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGCGGTGCGGTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* * *** * ** **
4613222 TGATTGAAGCTACAACGGTAAATCTTACTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
** ** * ** *
4613272 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAGT
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * * * * ** **
4613322 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
* ** * * * **
4613372 ATATTGAAGCCGCAACGGCGAATCTTAATTCCCTGGCGGTGCGGTGGAGC
1 AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
*
4613422 ATATTGAAGCTAC
1 AGATTGAAGCTAC
4613435 GATGGTGAAT
Statistics
Matches: 499, Mismatches: 210, Indels: 8
0.70 0.29 0.01
Matches are distributed among these distances:
49 1 0.00
50 497 1.00
51 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCAAATCTTACTTCCCTGGCAGTGCAATGGAGC
Found at i:4612838 original size:100 final size:100
Alignment explanation
Indices: 4612659--4613597 Score: 1403
Period size: 100 Copynumber: 9.4 Consensus size: 100
4612649 ACCCTTGAGG
* * ** * **
4612659 TTGCATATTTAAAAGATTGAAGCCGCAACGACAAATCTTACTTCTTTGGCAGTGCACTGGAGCAG
1 TTGCA-ATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAG
**
4612724 ATTGAAGCTACGACGGCAAATCTTGCTTCCCCGACA
65 ATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* *
4612760 TTGCAATTTAAAAGATTGAAGCAGCAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
* * **
4612825 TTGAAGCTACGACGGTAAATCTTACTTCCCTAACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* **
4612860 TTGCAATTTAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCAATGCGGTGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
*
4612925 TTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4612960 TTGCAATTTAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCGGTGGAGCATA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
* *
4613025 TTGAAGCTACGATGGTGAATCTTGCTTCCCCGGCA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4613060 TTACAATTTAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCTCTGGCGGTGCGGTGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
4613125 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4613160 TTGCAATTTAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGCGGTGCGGTGGAGCTGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
* * * *
4613225 TTGAAGCTACAACGGTAAATCTTACTTCCCCAACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* *
4613260 TTGCAATTTAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAGTAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
4613325 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4613360 TTGCAATTTAAAATATTGAAGCCGCAACGGCGAATCTTAATTCCCTGGCGGTGCGGTGGAGCATA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
* *
4613425 TTGAAGCTACGATGGTGAATCTTGCTTCCCCAACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * * *
4613460 TTAG-AATTTAAAAGATTAAAGTCGTAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAG
1 TT-GCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAG
* * *
4613524 ATTGAAGCTACGACGGCGAATCTTTCTTCCCCGATA
65 ATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
**
4613560 TTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTT
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTT
4613598 GTTCCCCGAC
Statistics
Matches: 762, Mismatches: 74, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 755 0.99
101 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAGCAGA
TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
Found at i:4613702 original size:43 final size:43
Alignment explanation
Indices: 4613653--4613873 Score: 163
Period size: 40 Copynumber: 5.3 Consensus size: 43
4613643 CTGAAGTTGC
* * *
4613653 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCTTAGGCAGT
1 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
** *
4613696 AGTGGAGCAGATT-GCATC-CAG-TCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
* * * * ** *
4613736 AGTGGAGCAGA-CAGAAGA-AATCA-AGCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTA-AA-ACCA-CAGATCTTATCTCCCT-AAGCAGT
* *
4613780 AGTGGAGCGGATTAAAACCATAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
*** * *
4613823 AGTGGAGCAGA-TCGCATC-TAG-TCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
4613863 AGTGGAGCAGA
1 AGTGGAGCAGA
4613874 CAAAAGAAAT
Statistics
Matches: 139, Mismatches: 29, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
40 58 0.42
41 6 0.04
42 6 0.04
43 40 0.29
44 28 0.20
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (43 bp):
AGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
Found at i:4613811 original size:44 final size:44
Alignment explanation
Indices: 4613636--4614053 Score: 178
Period size: 44 Copynumber: 9.8 Consensus size: 44
4613626 AAATCAATCC
* *
4613636 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
* * ** * ** *
4613680 TATCT-CCTTAGGCAGTAGTGGAGCAGATTGCATCC--AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
** * * * * *
4613720 TATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGA-AATCA-AGCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACCAT-AGATCT
*
4613763 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
** * *** *
4613807 TATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGCATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
** * * ** *
4613847 TATCTCCCT-AAGCAGTAGTGGAGCAGA-CAAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCAT-AGATCT
** * * *
4613890 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACCACAAAACT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCATAGATCT
** * * * *
4613935 TATCTCTATGAAGTTGCAGTAGAGCAGATCACATCC--AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
** *
4613976 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACC--A-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA--TTA-AAACCATAGATCT
4614020 TATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAA
4614054 TCACAAATCT
Statistics
Matches: 279, Mismatches: 71, Indels: 51
0.70 0.18 0.13
Matches are distributed among these distances:
40 57 0.20
41 38 0.14
42 6 0.02
43 62 0.22
44 84 0.30
45 28 0.10
46 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
Found at i:4613848 original size:40 final size:40
Alignment explanation
Indices: 4613677--4613873 Score: 164
Period size: 40 Copynumber: 4.8 Consensus size: 40
4613667 AAACCACAGA
* * * * *
4613677 TCTTATCTCCTTAGGCAGTAGTGGAGCAGATTGCATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCTAG
*
4613717 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCTAG
* ** * * ** *
4613761 -CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATC-TAG
*
4613803 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCTAG
4613844 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
4613874 CAAAAGAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
40 58 0.47
41 6 0.05
42 5 0.04
43 25 0.20
44 29 0.24
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCTAG
Found at i:4613852 original size:127 final size:127
Alignment explanation
Indices: 4613626--4614063 Score: 617
Period size: 127 Copynumber: 3.4 Consensus size: 127
4613616 TAATTTGACA
* *
4613626 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCTTAG
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCATAA
*
4613691 GCAGTAGTGGAGCAGATTGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
66 GCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
* * *
4613753 AAATCAAGCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCCCTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCATAA
* *
4613818 GCAGTAGTGGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAG
66 GCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
* * * *
4613880 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACCACAAAACTTATCTCTATG
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACCACAGATCTTATCTCCAT-
** * * * ** *
4613945 AAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-GAAA
64 AAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAG-AA
4614009 G
127 G
* * * *
4614010 AAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAAATCT
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
4614064 CGTCCCCATA
Statistics
Matches: 278, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
127 158 0.57
128 18 0.06
129 46 0.17
130 56 0.20
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (127 bp):
AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCATAA
GCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
Found at i:4614126 original size:130 final size:130
Alignment explanation
Indices: 4613736--4614128 Score: 318
Period size: 129 Copynumber: 3.0 Consensus size: 130
4613726 CCTAAGCAGT
* * * *
4613736 AGTGGAGCAGACAGAAGAAATCAAGCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACCA
1 AGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAAACCA
* * * * ** ** * * *
4613800 TAGATCTTATCTCCC-TAAGCAG-T--AGTGGAGCAGATCGCATCTAGTCTTATCTCCCT-AAG-
66 CAAAACTCATC-CCCATAA--AGTTACAGCAGAGCAGATCAAAGCCAGTCATATCTCCCTGAAGT
* *
4613859 CAGT
128 TA-C
* * *
4613863 AGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACCA
1 AGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAAACCA
* * * * * * * * * *
4613928 CAAAACTTATCTCTATGAAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGC
66 CAAAACTCATCCCCATAAAGTTACAGCAGAGCAGATCAAAGCCAGTCATATCTCCCTGAAGTTAC
* *
4613993 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATT-AAAATCA
1 AGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAAACCA
* * * * ***
4614057 CAAATCTCGTCCCCATAAAGTTACAGCAGAGTAGATTAAAGCACAAGTCATATCTTTTTGAAG-T
66 CAAAACTCATCCCCATAAAGTTACAGCAGAGCAGATCAAAGC-C-AGTCATATCTCCCTGAAGTT
4614121 AC
129 AC
4614123 AGTGGA
1 AGTGGA
4614129 AAAGATCGAA
Statistics
Matches: 220, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
126 2 0.01
127 56 0.25
128 17 0.08
129 66 0.30
130 65 0.30
131 14 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (130 bp):
AGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAAACCA
CAAAACTCATCCCCATAAAGTTACAGCAGAGCAGATCAAAGCCAGTCATATCTCCCTGAAGTTAC
Found at i:4614501 original size:20 final size:20
Alignment explanation
Indices: 4614468--4614508 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4614458 TCGTCTGCCA
**
4614468 CACCTAGCTGCACGCCTCTG
1 CACCTAGCCACACGCCTCTG
*
4614488 CACCTAGCCACACGTCTCTG
1 CACCTAGCCACACGCCTCTG
4614508 C
1 C
4614509 TCCTGGCCGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.46, G:0.17, T:0.20
Consensus pattern (20 bp):
CACCTAGCCACACGCCTCTG
Found at i:4614795 original size:21 final size:22
Alignment explanation
Indices: 4614745--4614795 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
4614735 TCTTCTTTTA
4614745 TTTTATTTATTATTTGTTTCATC
1 TTTT-TTTATTATTTGTTTCATC
*
4614768 TTATTTTATTATTT-TTTC-TCC
1 TTTTTTTATTATTTGTTTCAT-C
4614789 TTTTTTT
1 TTTTTTT
4614796 GCAAATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 11 0.44
22 10 0.40
23 3 0.12
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTTATTATTTGTTTCATC
Found at i:4615560 original size:3 final size:3
Alignment explanation
Indices: 4615540--4615618 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
4615530 TTGCTATTTT
* * *
4615540 TTA TTAA TTA ATA ATA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4615586 TTA TTA TTA TTA TTA TTA CTG TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4615619 CATTTCCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4616994 original size:19 final size:20
Alignment explanation
Indices: 4616963--4617009 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
4616953 TTATATATTT
4616963 TTTAAAAATATTGAT-A-AA
1 TTTAAAAATATTGATAATAA
4616981 TTTAAAACATATTGATAATAA
1 TTTAAAA-ATATTGATAATAA
4617002 TTTAAAAA
1 TTTAAAAA
4617010 ATGTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 2 0.08
21 9 0.35
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTAAAAATATTGATAATAA
Found at i:4617016 original size:23 final size:19
Alignment explanation
Indices: 4616966--4617011 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
4616956 TATATTTTTT
4616966 AAAAATATTGATAAATTTA
1 AAAAATATTGATAAATTTA
*
4616985 AAACATATTGATAATAATTTA
1 AAAAATATTGAT-A-AATTTA
4617006 AAAAAT
1 AAAAAT
4617012 GTATTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 1 0.04
21 11 0.48
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATTGATAAATTTA
Found at i:4618680 original size:20 final size:19
Alignment explanation
Indices: 4618657--4618700 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4618647 TTTCATAATT
4618657 TTTTTATACACATATATATA
1 TTTTTATA-ACATATATATA
* *
4618677 -TTTTATAACTTATTTATA
1 TTTTTATAACATATATATA
4618695 TTTTTA
1 TTTTTA
4618701 CGTGTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATAACATATATATA
Found at i:4618696 original size:18 final size:19
Alignment explanation
Indices: 4618658--4618698 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4618648 TTCATAATTT
4618658 TTTTATACACATATATATA
1 TTTTATACACATATATATA
* *
4618677 TTTTATA-ACTTATTTATA
1 TTTTATACACATATATATA
4618695 TTTT
1 TTTT
4618699 TACGTGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTATACACATATATATA
Found at i:4620380 original size:17 final size:16
Alignment explanation
Indices: 4620358--4620397 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4620348 ACAGGTTCAA
4620358 TTATTAACTTATTTATT
1 TTATTAA-TTATTTATT
*
4620375 TTATTAATTGTTTATT
1 TTATTAATTATTTATT
4620391 TT-TTAAT
1 TTATTAAT
4620398 AATTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:4620997 original size:10 final size:9
Alignment explanation
Indices: 4620967--4621071 Score: 52
Period size: 10 Copynumber: 11.0 Consensus size: 9
4620957 TATAACAAAT
4620967 AAAATTAATA
1 AAAATT-ATA
*
4620977 AAAGTTATA
1 AAAATTATA
4620986 AAAATTATTA
1 AAAATTA-TA
**
4620996 AATTTTATTA
1 AAAATTA-TA
4621006 AAAA-TATAA
1 AAAATTAT-A
*
4621015 AAAATATTTA
1 AAAAT-TATA
**
4621025 AATTTTAGTA
1 AAAATTA-TA
*
4621035 AAAATTAGAA
1 AAAATTA-TA
4621045 AAAATTATA
1 AAAATTATA
*
4621054 AAATCTTA-A
1 AAA-ATTATA
4621063 AAAATTATA
1 AAAATTATA
4621072 GAACATATTG
Statistics
Matches: 72, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
8 4 0.06
9 26 0.36
10 40 0.56
11 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:4621003 original size:19 final size:20
Alignment explanation
Indices: 4620967--4621010 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4620957 TATAACAAAT
4620967 AAAATTAATAAAAGTTA-TA
1 AAAATTAATAAAAGTTATTA
* **
4620986 AAAATTATTAAATTTTATTA
1 AAAATTAATAAAAGTTATTA
4621006 AAAAT
1 AAAAT
4621011 ATAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTAATAAAAGTTATTA
Found at i:4621013 original size:28 final size:29
Alignment explanation
Indices: 4620975--4621071 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
4620965 ATAAAATTAA
* *
4620975 TAAAAGTTATAAAAATTATTAAATTTTAT
1 TAAAAATTATAAAAATTATTAAATTTTAG
*
4621004 TAAAAA-TATAAAAAATATTTAAATTTTAG
1 TAAAAATTATAAAAATTA-TTAAATTTTAG
* * *
4621033 TAAAAATTAGAAAAAATTATAAAATCTTA-
1 TAAAAATTA-TAAAAATTATTAAATTTTAG
4621062 -AAAAATTATA
1 TAAAAATTATA
4621072 GAACATATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 18 0.32
29 21 0.37
30 10 0.18
31 7 0.12
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAAATTATAAAAATTATTAAATTTTAG
Found at i:4621047 original size:58 final size:58
Alignment explanation
Indices: 4620985--4621099 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 58
4620975 TAAAAGTTAT
* * * *
4620985 AAAAATTATTAAATTTTATTAAAAA-TATAAAAAATATTTAAAT-TTTAGTAAAAATTAGA
1 AAAAATTATAAAATCTTA--AAAAATTATAAAAAATATTGAAATATATA-TAAAAATTAGA
* *
4621044 AAAAATTATAAAATCTTAAAAAATTATAGAACATATTGAAATATATATAAAAATTA
1 AAAAATTATAAAATCTTAAAAAATTATAAAAAATATTGAAATATATATAAAAATTA
4621100 TCAGAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
57 5 0.10
58 24 0.50
59 19 0.40
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAAATTATAAAATCTTAAAAAATTATAAAAAATATTGAAATATATATAAAAATTAGA
Found at i:4629039 original size:21 final size:22
Alignment explanation
Indices: 4629008--4629051 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
4628998 TTAGAGCATT
*
4629008 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4629030 AGTCC-ATGAACAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4629051 A
1 A
4629052 ATCATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATGGAGTCA
Found at i:4631780 original size:30 final size:30
Alignment explanation
Indices: 4631727--4631796 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
4631717 ATAGTTAGTT
* *
4631727 TTTTATAATTTTTAAAAGATCAAATTA-AA
1 TTTTATCATTTTTAAAAGATCAAAGTACAA
* *
4631756 TTTTATCATTTTTGAGAGGATCAAAGTACAA
1 TTTTATCATTTTT-AAAAGATCAAAGTACAA
*
4631787 TTTTACCATT
1 TTTTATCATT
4631797 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 12 0.35
30 11 0.32
31 11 0.32
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTTATCATTTTTAAAAGATCAAAGTACAA
Found at i:4638378 original size:105 final size:105
Alignment explanation
Indices: 4638130--4638916 Score: 771
Period size: 108 Copynumber: 7.3 Consensus size: 105
4638120 TATACAGGGA
* * * ****
4638130 AAAAAAATTTTGGTGGTGGCCTGGC-ATAGCCGGCACCACCTTTATGTAAAAAAACAAAAATTTA
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT----AAATATTTTTTTA
* * *
4638194 CTTTTTGGGTTGTCATTGGCCAGCACCAGTGTACGAAAAAATTTT
62 CATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAA-TTT
* * *
4638239 AAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTACATT
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATATTTTTTTACATT
* * * *
4638304 TTGAGTTGTCATTGGCCGGCATCAGTATACGAAAAAATTT
66 TTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
*
4638344 AAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTTTTT
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT----AAAT-ATTTTTTT
** * *
4638409 ACATTTTGGGCTGTCATTGGCTTGCACCAGTATATG-AAAACTTT
61 ACATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
* *** ** * * * * ****
4638453 -TAATTTTTTTTTTGGTGACCTGGCAATGGTCGGCACCACCTTTATATAAA-AAAAATTTACATT
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATATTTTTTTACATT
* * *
4638516 TTGGGCTGTCATTAGCCGGCACCAATATACGAAAAAATTT
66 TTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
4638556 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATAGTTTTTTT
1 -AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT---AAATA---TTTTT
*
4638621 TTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTTT
59 TTACATTTTGGGCTGTCATTGGCCAGCACCAGTATACG-AAAAAA-TTT
* * ****
4638670 AAAAAAAATTTCGGTGGTGGCCTGCAAATGGCCGGCACCACCTTTATGTAAA-AAAAATTTACAT
1 -AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATATTTTTTTACAT
** * *
4638734 TTTGAACTGTCATTGGCCGGCACCAGTATACGAAAAAA-TA
65 TTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
* * * *
4638774 AAAAAAAATTTGGTGGTGGCCTGCCAATGGTCGGCACCAACTTTATGTAAATTTTTTTTATTTTA
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAA---TATTT-TTTTA
*
4638839 CATTTTGGGCTGTCATTGGCCAGCACTAGTATACGAAAAAA-TT
62 CATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
* ** *
4638882 AAAAAAA-ATTGGTGGTGGTTTGCCAATTGCCGGCA
1 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCA
4638917 TCAAGTTTAT
Statistics
Matches: 561, Mismatches: 94, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
102 35 0.06
103 53 0.09
104 4 0.01
105 87 0.16
106 49 0.09
107 58 0.10
108 88 0.16
109 34 0.06
110 59 0.11
111 3 0.01
112 35 0.06
113 6 0.01
114 50 0.09
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (105 bp):
AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATATTTTTTTACATT
TTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTT
Found at i:4638589 original size:213 final size:214
Alignment explanation
Indices: 4638129--4638899 Score: 925
Period size: 213 Copynumber: 3.6 Consensus size: 214
4638119 GTATACAGGG
* * ****
4638129 AAAAAAAATTTTGGTGGTGGCCTGGC-ATAGCCGGCACCACCTTTATGTAAAAAA-ACAAAAATT
1 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATA-ATTTTTT
* * * *
4638192 TACTTTTTGGGTTGTCATTGGCCAGCACCAGTGTACGAAAAAATTTTAAAAAAAATTTGGTGGTG
65 TACATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTTT-AAAAAATTTTGGTGGTG
* * ***** *
4638257 GCTTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTACATTTTGAGTTGTCATTGGCCG
129 GCCTGGCAATGGCCGGCACCACCTTTATGTAAA-AAAAATTTACATTTTGAGCTGTCATTGGCCG
*
4638322 GCATCAGTATACGAAAAAATTT
193 GCACCAGTATACGAAAAAATTT
*
4638344 -AAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTTTT
1 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT-AAAAAATAATTTTTT
** * * *** ** *
4638408 TACATTTTGGGCTGTCATTGGCTTGCACCAGTATATG-AAAACTTTT-AATTTTTTTTTTGGTGA
65 TACATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTTTAAAAAATTTTGGTGGTGG
* * * *
4638471 CCTGGCAATGGTCGGCACCACCTTTATATAAAAAAAATTTACATTTTGGGCTGTCATTAGCCGGC
130 CCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATTTTGAGCTGTCATTGGCCGGC
*
4638536 ACCAATATACGAAAAAATTT
195 ACCAGTATACGAAAAAATTT
*
4638556 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATAGTTTTTTT
1 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATA--ATTTTT
* *
4638621 TTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTTTAAAAAAAATTTCGGTG
64 TTACATTTTGGGCTGTCATTGGCCAGCACCAGTATACG-AAAAAATTTT--AAAAAATTTTGGTG
*
4638686 GTGGCCT-GCAAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATTTTGAACTGTCATTGG
126 GTGGCCTGGC-AATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATTTTGAGCTGTCATTGG
4638750 CCGGCACCAGTATACGAAAAAA--T
190 CCGGCACCAGTATACGAAAAAATTT
* * * ** **
4638773 AAAAAAAAATTTGGTGGTGGCCTGCCAATGGTCGGCACCAACTTTATGT-AAATTTTTTTTATTT
1 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATAATTT-TTT
* **
4638837 TACATTTTGGGCTGTCATTGGCCAGCACTAGTATACGAAAAAA--TTAAAAAAAATTGGTGGTGG
65 TACATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTTTAAAAAATTTTGGTGGTGG
4638900 TTTGCCAATT
Statistics
Matches: 477, Mismatches: 66, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
210 15 0.03
212 53 0.11
213 85 0.18
214 72 0.15
215 67 0.14
216 52 0.11
217 48 0.10
218 2 0.00
219 83 0.17
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (214 bp):
AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATAATTTTTTT
ACATTTTGGGCTGTCATTGGCCAGCACCAGTATACGAAAAAATTTTAAAAAATTTTGGTGGTGGC
CTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATTTTGAGCTGTCATTGGCCGGCA
CCAGTATACGAAAAAATTT
Found at i:4639912 original size:52 final size:53
Alignment explanation
Indices: 4639843--4639944 Score: 163
Period size: 52 Copynumber: 1.9 Consensus size: 53
4639833 TTTTTTCTAT
*
4639843 TAATTTTTACTTAATTTAAAATTATTCTATAAATATTTC-TTTTATTTTTAAA
1 TAATTTTTAATTAATTTAAAATTATTCTATAAATATTTCTTTTTATTTTTAAA
*
4639895 TAATTATTTAATT-ATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTT
1 TAATT-TTTAATTAATTTAAAATTATTCTATAAATATTTCTTTTTATTTTT
4639945 TCCTGTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 30 0.65
53 16 0.35
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (53 bp):
TAATTTTTAATTAATTTAAAATTATTCTATAAATATTTCTTTTTATTTTTAAA
Found at i:4641109 original size:107 final size:102
Alignment explanation
Indices: 4640966--4641325 Score: 275
Period size: 105 Copynumber: 3.4 Consensus size: 102
4640956 GATGATAGCC
* *
4640966 CAAAATG-TAAAA-AAAAATTACATAAAGGTGGCGCCGGCCATTGGCAACCCACCATAAATTTTT
1 CAAAATGTTAAAATAAAATTTACATAAAGGTGGTGCCGGCCATTGGCAACCCACCA-AAATTTTT
*
4641029 TTTATTTTTT-GTTTACTGGAACCGACCAATGACAATT
65 TTTATTTTTTCGTATACTGGAACCGACCAATGACAATT
*
4641066 CAAAATGTAAAAATAAAATAAAATTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAA
1 CAAAATGT-----TAAAATAAAATTTACATAAAGGTGGTGCCGGCCATTGGCA--AC-CCACC--
** * *
4641131 AAAACAATTTTTTTTATTTTTTCGTATACTGGTGCCGGCCAATGACATTT
56 --AA-AATTTTTTTTATTTTTTCGTATACTGGAACCGACCAATGACAATT
**** * *
4641181 CAAAATGTT--AATTTTTTTTACATAAAGGTGGTGCCGGCCATTGGCAAGCCACCACAATTTTTT
1 CAAAATGTTAAAATAAAATTTACATAAAGGTGGTGCCGGCCATTGGCAACCCACCAAAATTTTTT
* * * ** * ***
4641244 TAAAAAAATTTCTTCCTATACTGGTGCCGACCAATAACAGCC
66 T-----TATTTTTTCGTATACTGGAACCGACCAATGACAATT
* *
4641286 CAAAATG-TAAAA-AAAATTTACAAAAAGGTGGTGTCGGCCA
1 CAAAATGTTAAAATAAAATTTACATAAAGGTGGTGCCGGCCA
4641326 ATGACAGCCC
Statistics
Matches: 208, Mismatches: 29, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
100 16 0.08
101 1 0.00
104 1 0.00
105 62 0.30
106 7 0.03
107 32 0.15
108 33 0.16
109 1 0.00
110 6 0.03
113 1 0.00
114 18 0.09
115 30 0.14
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (102 bp):
CAAAATGTTAAAATAAAATTTACATAAAGGTGGTGCCGGCCATTGGCAACCCACCAAAATTTTTT
TTATTTTTTCGTATACTGGAACCGACCAATGACAATT
Found at i:4641318 original size:49 final size:50
Alignment explanation
Indices: 4641265--4641372 Score: 155
Period size: 49 Copynumber: 2.2 Consensus size: 50
4641255 CTTCCTATAC
4641265 TGGTGCCGACCAATAACAGCCCAAAATGT-AAAAAAAATTTACAAAAAGG
1 TGGTGCCGACCAATAACAGCCCAAAATGTAAAAAAAAATTTACAAAAAGG
* * * * *
4641314 TGGTGTCGGCCAATGACAGCCCAAAATGTAAAAAAAAAATTTACATAATGG
1 TGGTGCCGACCAATAACAGCCCAAAATGT-AAAAAAAAATTTACAAAAAGG
4641365 TGGTGCCG
1 TGGTGCCG
4641373 GCCATTGTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
49 26 0.51
51 25 0.49
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (50 bp):
TGGTGCCGACCAATAACAGCCCAAAATGTAAAAAAAAATTTACAAAAAGG
Found at i:4641375 original size:51 final size:49
Alignment explanation
Indices: 4641265--4641376 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 49
4641255 CTTCCTATAC
*
4641265 TGGTGCCGACCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGG
1 TGGTGCCGGCCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGG
* * * *
4641314 TGGTGTCGGCCAATGACAGCCCAAAATGTAAAAAAAAAATTTACATAATGG
1 TGGTGCCGGCCAATAACAGCCCAAAATGT--AAAAAAAATTTACAAAAAGG
4641365 TGGTGCCGGCCA
1 TGGTGCCGGCCA
4641377 TTGTCTGGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 26 0.47
51 29 0.53
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (49 bp):
TGGTGCCGGCCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGG
Found at i:4644323 original size:23 final size:23
Alignment explanation
Indices: 4644297--4644424 Score: 156
Period size: 23 Copynumber: 5.7 Consensus size: 23
4644287 TCACCCACTG
*
4644297 AACACAACCAAACATAGCCTCCA
1 AACACAACCAAATATAGCCTCCA
*
4644320 AACACAACCAAATATACCCTCCA
1 AACACAACCAAATATAGCCTCCA
*
4644343 AAAACAACC-AA-ATAGCCTCC-
1 AACACAACCAAATATAGCCTCCA
*
4644363 AATACAACCAAATATA-CCTTCCA
1 AACACAACCAAATATAGCC-TCCA
* *
4644386 AACACAACCAAATATAGCTTCCC
1 AACACAACCAAATATAGCCTCCA
*
4644409 AACATAACCAAATATA
1 AACACAACCAAATATA
4644425 CAACCAAATA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
20 8 0.09
21 12 0.13
22 8 0.09
23 62 0.68
24 1 0.01
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (23 bp):
AACACAACCAAATATAGCCTCCA
Found at i:4644376 original size:43 final size:44
Alignment explanation
Indices: 4644300--4644425 Score: 155
Period size: 43 Copynumber: 2.8 Consensus size: 44
4644290 CCCACTGAAC
4644300 ACAACCAAACATAGCCTCCAAACACAACCAAATATACCCTCCAAAA
1 ACAACC-AA-ATAGCCTCCAAACACAACCAAATATACCCTCCAAAA
* * *
4644346 ACAACCAAATAGCCTCC-AATACAACCAAATATACCTTCCAAAC
1 ACAACCAAATAGCCTCCAAACACAACCAAATATACCCTCCAAAA
* * *
4644389 ACAACCAAATATAGCTTCCCAACATAACCAAATATAC
1 ACAACC-AA-ATAGCCTCCAAACACAACCAAATATAC
4644426 AACCAAATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 29 0.41
44 11 0.15
45 10 0.14
46 21 0.30
ACGTcount: A:0.48, C:0.34, G:0.02, T:0.15
Consensus pattern (44 bp):
ACAACCAAATAGCCTCCAAACACAACCAAATATACCCTCCAAAA
Found at i:4644569 original size:13 final size:13
Alignment explanation
Indices: 4644551--4644579 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4644541 TCAACCATAA
4644551 CATATAACATTTT
1 CATATAACATTTT
4644564 CATATAACATTTT
1 CATATAACATTTT
4644577 CAT
1 CAT
4644580 TGTCATCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (13 bp):
CATATAACATTTT
Found at i:4649266 original size:44 final size:44
Alignment explanation
Indices: 4649175--4649348 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 44
4649165 TCACCCACTG
* * *
4649175 AACAGAACCAAACATAGCCTCCAAACACAAC-AATTTACACTCAA
1 AACACAACCAAACATAGCCTCCCAACACAACAAATATACACTC-A
* *
4649219 AACACAACCAAACATA-CCTTCCAACACAACCAAATATACCCTCA
1 AACACAACCAAACATAGCCTCCCAACACAA-CAAATATACACTCA
* * *
4649263 AACACAACCAAATATAGTCTCCCAACACAACCAAAAATATCAAC-CA
1 AACACAACCAAACATAGCCTCCCAACACAA-CAAATATA-C-ACTCA
*
4649309 AACACAACCAAATATAGCCTCCCAACACAACAAATATACA
1 AACACAACCAAACATAGCCTCCCAACACAACAAATATACA
4649349 ACCAAATATA
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
43 12 0.11
44 33 0.29
45 35 0.31
46 32 0.28
47 1 0.01
ACGTcount: A:0.51, C:0.34, G:0.02, T:0.13
Consensus pattern (44 bp):
AACACAACCAAACATAGCCTCCCAACACAACAAATATACACTCA
Found at i:4649293 original size:23 final size:22
Alignment explanation
Indices: 4649175--4649347 Score: 138
Period size: 23 Copynumber: 7.8 Consensus size: 22
4649165 TCACCCACTG
* * *
4649175 AACAGAACCAAACATAGCCTCCA
1 AACACAACCAAATATA-CCTCCC
* **
4649198 AACACAA-C-AATTTACACTCAA
1 AACACAACCAAATATAC-CTCCC
* *
4649219 AACACAACCAAACATACCTTCC
1 AACACAACCAAATATACCTCCC
*
4649241 AACACAACCAAATATACC-CTCA
1 AACACAACCAAATATACCTC-CC
*
4649263 AACACAACCAAATATAGTCTCCC
1 AACACAACCAAATATA-CCTCCC
* ** *
4649286 AACACAACCAAAAATATCAACCA
1 AACACAACCAAATATA-CCTCCC
4649309 AACACAACCAAATATAGCCTCCC
1 AACACAACCAAATATA-CCTCCC
4649332 AACACAA-CAAATATAC
1 AACACAACCAAATATAC
4649348 AACCAAATAT
Statistics
Matches: 119, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.01
21 16 0.13
22 46 0.39
23 55 0.46
24 1 0.01
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.13
Consensus pattern (22 bp):
AACACAACCAAATATACCTCCC
Found at i:4649320 original size:46 final size:45
Alignment explanation
Indices: 4649175--4649354 Score: 201
Period size: 44 Copynumber: 4.0 Consensus size: 45
4649165 TCACCCACTG
* * * *
4649175 AACAGAACCAAACATAGCCTCCAAACACAA-C-AATTTAC-ACTCAA
1 AACACAACCAAATATAGCCTCCCAACACAACCAAATATACAAC-C-A
* * *
4649219 AACACAACCAAACATA-CCTTCCAACACAACCAAATATAC-CCTCA
1 AACACAACCAAATATAGCCTCCCAACACAACCAAATATACAAC-CA
* *
4649263 AACACAACCAAATATAGTCTCCCAACACAACCAAAAATATCAACCA
1 AACACAACCAAATATAGCCTCCCAACACAACCAAATATA-CAACCA
4649309 AACACAACCAAATATAGCCTCCCAACACAA-CAAATATACAACCA
1 AACACAACCAAATATAGCCTCCCAACACAACCAAATATACAACCA
4649353 AA
1 AA
4649355 TATATCCTCC
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
43 11 0.09
44 40 0.34
45 35 0.29
46 32 0.27
47 1 0.01
ACGTcount: A:0.51, C:0.34, G:0.02, T:0.13
Consensus pattern (45 bp):
AACACAACCAAATATAGCCTCCCAACACAACCAAATATACAACCA
Found at i:4656483 original size:186 final size:186
Alignment explanation
Indices: 4656162--4656536 Score: 624
Period size: 186 Copynumber: 2.0 Consensus size: 186
4656152 TGTCCGCGGA
* * *
4656162 TACCTCGTGCACTCATCGTAGAATTCATAGCTTATCTATGTTATCAATTTTATGAATTAGTTACA
1 TACCTCATGCACTCATCGTAAAATTCATAGCTTATCTATGTTATCAATTTTATGAATCAGTTACA
* * *
4656227 ATTTCGATATCTATTAGTAGATATTTTATGCAAAAGAGTATCAGATGTTTAAAGTTTGTTATAAC
66 ATTTCGATATCTATTAATAGATATTTTATGCAAAACAGTATAAGATGTTTAAAGTTTGTTATAAC
4656292 GAATCGCAGTCTTACTACAGTTTTTAGTTACTCTACTATTTTCAGTATACACTATC
131 GAATCGCAGTCTTACTACAGTTTTTAGTTACTCTACTATTTTCAGTATACACTATC
* * *
4656348 TACCTCATGCACTCATCGTAAAATTCGTAGCTTATCTGTGTTATCAGTTTTATGAATCAGTTACA
1 TACCTCATGCACTCATCGTAAAATTCATAGCTTATCTATGTTATCAATTTTATGAATCAGTTACA
* * * *
4656413 GTTTCGATATCTATTAATAGATATTTTATGCCAAACAGTATAAGATGTTTAGAGTTTGTTATCAC
66 ATTTCGATATCTATTAATAGATATTTTATGCAAAACAGTATAAGATGTTTAAAGTTTGTTATAAC
*
4656478 GAATCGCAGTCTTACTACAGTTTTTAGTTTCTCTACTATTTTCAGTATACACTATC
131 GAATCGCAGTCTTACTACAGTTTTTAGTTACTCTACTATTTTCAGTATACACTATC
4656534 TAC
1 TAC
4656537 AGTGTTCTCA
Statistics
Matches: 175, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
186 175 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (186 bp):
TACCTCATGCACTCATCGTAAAATTCATAGCTTATCTATGTTATCAATTTTATGAATCAGTTACA
ATTTCGATATCTATTAATAGATATTTTATGCAAAACAGTATAAGATGTTTAAAGTTTGTTATAAC
GAATCGCAGTCTTACTACAGTTTTTAGTTACTCTACTATTTTCAGTATACACTATC
Found at i:4660317 original size:21 final size:22
Alignment explanation
Indices: 4660266--4660317 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
4660256 TTTTAACCAA
*
4660266 ATTAGTTCTTGAACACTAAATT
1 ATTAATTCTTGAACACTAAATT
4660288 -TTAATTTCTT-AAC-CTAAAATT
1 ATTAA-TTCTTGAACACT-AAATT
4660309 ATTAATTCT
1 ATTAATTCT
4660318 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 15 0.58
22 9 0.35
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAATTCTTGAACACTAAATT
Found at i:4661474 original size:20 final size:20
Alignment explanation
Indices: 4661449--4661488 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4661439 CGGAAAATGA
4661449 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
4661469 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
4661489 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:4661610 original size:20 final size:20
Alignment explanation
Indices: 4661585--4661624 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4661575 TGTTTTTACC
4661585 CATATTAATAAATTTATATA
1 CATATTAATAAATTTATATA
*
4661605 CATATTAATAAATTTTTATA
1 CATATTAATAAATTTATATA
4661625 TTTAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
CATATTAATAAATTTATATA
Found at i:4666990 original size:22 final size:23
Alignment explanation
Indices: 4666915--4667066 Score: 132
Period size: 23 Copynumber: 6.7 Consensus size: 23
4666905 TCACCTACCG
* * *
4666915 AACAGAACCAAACATAACCTCCA
1 AACACAACCAAATATACCCTCCA
* * *
4666938 AACACATCC-AATTTACCCTCAA
1 AACACAACCAAATATACCCTCCA
* * *
4666960 AATATAACCAAACATACCCTCC-
1 AACACAACCAAATATACCCTCCA
*
4666982 AACACAACCAAATATAACCTCCA
1 AACACAACCAAATATACCCTCCA
* * *
4667005 AATACAACCAAATATTCCATCCA
1 AACACAACCAAATATACCCTCCA
* *
4667028 AACACAACCAGATATAGCCTCTC-
1 AACACAACCAAATATACCCTC-CA
4667051 AACAC-ACCAAATATAC
1 AACACAACCAAATATAC
4667067 AACATAATAT
Statistics
Matches: 99, Mismatches: 27, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
22 42 0.42
23 56 0.57
24 1 0.01
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.16
Consensus pattern (23 bp):
AACACAACCAAATATACCCTCCA
Found at i:4667008 original size:45 final size:46
Alignment explanation
Indices: 4666920--4667048 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 46
4666910 TACCGAACAG
* * * * *
4666920 AACCAAACATAACCTCCAAACACATCC-AATTTACCCTCAAAATAT
1 AACCAAACATACCCTCCAAACACAACCAAATATAACCTCAAAATAC
*
4666965 AACCAAACATACCCTCC-AACACAACCAAATATAACCTCCAAATAC
1 AACCAAACATACCCTCCAAACACAACCAAATATAACCTCAAAATAC
* * * * *
4667010 AACCAAATATTCCATCCAAACACAACCAGATATAGCCTC
1 AACCAAACATACCCTCCAAACACAACCAAATATAACCTC
4667049 TCAACACACC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
44 8 0.11
45 44 0.62
46 19 0.27
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (46 bp):
AACCAAACATACCCTCCAAACACAACCAAATATAACCTCAAAATAC
Found at i:4668589 original size:29 final size:30
Alignment explanation
Indices: 4668556--4668626 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
4668546 ATCGATTGTT
* *
4668556 AAAAGGGATGGTGATGATTATCAACT-ATG
1 AAAAGGGATGGTGACGACTATCAACTAATG
* * *
4668585 AAAAGGGATGGTGACGGCTATCGATTAATG
1 AAAAGGGATGGTGACGACTATCAACTAATG
4668615 AAAAGGGATGGT
1 AAAAGGGATGGT
4668627 TTTGACCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAAGGGATGGTGACGACTATCAACTAATG
Found at i:4668662 original size:29 final size:29
Alignment explanation
Indices: 4668581--4668664 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 29
4668571 GATTATCAAC
* * * *
4668581 TATGAAAAGGGATGGTGACGGCTATCGAT
1 TATGAAAAGGGATGGTTACGACCATCGAG
**
4668610 TAATGAAAAGGGATGGTTTTGACCATCGAG
1 T-ATGAAAAGGGATGGTTACGACCATCGAG
*
4668640 TATGAAAAGGGATAGTTACGACCAT
1 TATGAAAAGGGATGGTTACGACCAT
4668665 TTTTTAGCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.49
30 23 0.51
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.25
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTACGACCATCGAG
Found at i:4680642 original size:12 final size:12
Alignment explanation
Indices: 4680625--4680649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4680615 CACATTGCTA
4680625 TTTTCTTTTCTC
1 TTTTCTTTTCTC
4680637 TTTTCTTTTCTC
1 TTTTCTTTTCTC
4680649 T
1 T
4680650 CTGCTTGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:4683502 original size:20 final size:20
Alignment explanation
Indices: 4683454--4683503 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4683444 GCTTATGTTG
* *
4683454 AGTAAATGAAATGGAAAGTA
1 AGTAAATGGAATGGAAAGAA
4683474 AGTAAATGGAAT-GATAAGAA
1 AGTAAATGGAATGGA-AAGAA
4683494 AGTAAATGGA
1 AGTAAATGGA
4683504 GTGGTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (20 bp):
AGTAAATGGAATGGAAAGAA
Found at i:4689166 original size:28 final size:28
Alignment explanation
Indices: 4689111--4689167 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4689101 GTGCTTAATC
* * **
4689111 ACATAAGTTAACAATATAATCATTTGAT
1 ACATAACTTAACAATATAACCACATGAT
*
4689139 ACATAACTTAACAATATCACCACATGAT
1 ACATAACTTAACAATATAACCACATGAT
4689167 A
1 A
4689168 AGATAGATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (28 bp):
ACATAACTTAACAATATAACCACATGAT
Found at i:4689349 original size:29 final size:29
Alignment explanation
Indices: 4689315--4689479 Score: 197
Period size: 29 Copynumber: 5.7 Consensus size: 29
4689305 GGTGGTCAAA
4689315 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
4689344 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* ****
4689373 ACCATCCCTTTTCATATTTGATGGTTAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
4689402 ACCATCCATTTTCATAGTT-GATGGTCGTC
1 ACCATCCCTTTTCATA-TTCGATGGTCGTC
* * * **
4689431 ACCATCCCTTTTCATAGTCAATAGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
4689460 ACTATCCTTTTTCATATTCG
1 ACCATCCCTTTTCATATTCG
4689480 TTGGGCATTG
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 1 0.01
29 111 0.97
30 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:4689472 original size:87 final size:87
Alignment explanation
Indices: 4689307--4689477 Score: 245
Period size: 87 Copynumber: 2.0 Consensus size: 87
4689297 TGCTACAAGG
* * * * *
4689307 TGGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGT
1 TGGTCAAAACCATCCATTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTCAATAGTCGA
*
4689372 CACCATCCCTTTTCATATTTGA
66 AACCATCCCTTTTCATATTTGA
*
4689394 TGGTTAAAACCATCCATTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAGTCAATAGTCG
1 TGGTCAAAACCATCCATTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAGTCAATAGTCG
* *
4689458 AAACTATCCTTTTTCATATT
65 AAACCATCCCTTTTCATATT
4689478 CGTTGGGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 72 0.97
88 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (87 bp):
TGGTCAAAACCATCCATTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTCAATAGTCGA
AACCATCCCTTTTCATATTTGA
Found at i:4696497 original size:29 final size:29
Alignment explanation
Indices: 4696455--4696511 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
4696445 TGTGCTAAAT
4696455 GATGGTTGAAACCATCCCTTTTCATATTC
1 GATGGTTGAAACCATCCCTTTTCATATTC
**
4696484 GATGGTTGTCACCATCCCTTTTCATATT
1 GATGGTTGAAACCATCCCTTTTCATATT
4696512 GTCGTAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (29 bp):
GATGGTTGAAACCATCCCTTTTCATATTC
Found at i:4696522 original size:24 final size:24
Alignment explanation
Indices: 4696493--4696557 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
4696483 CGATGGTTGT
*
4696493 CACCATCCCTTTTCATATTGTCGTA
1 CACCATCCATTTTCATATTGTCG-A
*
4696518 -ACCATCCATTTTCATA--GTTGA
1 CACCATCCATTTTCATATTGTCGA
*
4696539 CACCATCCTTTTTCATATT
1 CACCATCCATTTTCATATT
4696558 CATTGGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.53
24 15 0.44
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (24 bp):
CACCATCCATTTTCATATTGTCGA
Found at i:4699201 original size:30 final size:30
Alignment explanation
Indices: 4699167--4699228 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
4699157 CCGTGTGTCT
* *
4699167 AGGCTATGTGCAGCACACAACCATGTCACC
1 AGGCTATGTACACCACACAACCATGTCACC
*
4699197 AGGCTATGTACACCACACAACCATGTCGCC
1 AGGCTATGTACACCACACAACCATGTCACC
4699227 AG
1 AG
4699229 CCGTGTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (30 bp):
AGGCTATGTACACCACACAACCATGTCACC
Found at i:4700330 original size:18 final size:18
Alignment explanation
Indices: 4700303--4700344 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4700293 CTAATTGAAC
*
4700303 ATTT-TATAAGATATTAG
1 ATTTATATAAGACATTAG
4700320 ATTTATATAAGACATTAG
1 ATTTATATAAGACATTAG
4700338 ATTTATA
1 ATTTATA
4700345 CTAGGACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (18 bp):
ATTTATATAAGACATTAG
Found at i:4701750 original size:27 final size:28
Alignment explanation
Indices: 4701720--4701777 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
4701710 ATTGTTGCAA
4701720 TCTTTGATTTA-TTATTT-TATTTATATG
1 TCTTT-ATTTATTTATTTATATTTATATG
* *
4701747 TC-TTATTTATTTATTTATTTTTATTTG
1 TCTTTATTTATTTATTTATATTTATATG
4701774 TCTT
1 TCTT
4701778 GTTTGACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.19
26 8 0.31
27 12 0.46
28 1 0.04
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (28 bp):
TCTTTATTTATTTATTTATATTTATATG
Found at i:4701757 original size:25 final size:27
Alignment explanation
Indices: 4701726--4701777 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4701716 GCAATCTTTG
4701726 ATTTA-TTATTT-TATTTATATGTCTT
1 ATTTATTTATTTATATTTATATGTCTT
* *
4701751 ATTTATTTATTTATTTTTATTTGTCTT
1 ATTTATTTATTTATATTTATATGTCTT
4701778 GTTTGACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (27 bp):
ATTTATTTATTTATATTTATATGTCTT
Found at i:4703457 original size:17 final size:16
Alignment explanation
Indices: 4703429--4703467 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
4703419 ATTACACAAG
4703429 GCAATTAGATTGAGCA
1 GCAATTAGATTGAGCA
4703445 GCAATTGAGATTGAGCA
1 GCAATT-AGATTGAGCA
4703462 GCAATT
1 GCAATT
4703468 TCAACAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (16 bp):
GCAATTAGATTGAGCA
Found at i:4704456 original size:20 final size:20
Alignment explanation
Indices: 4704431--4704483 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4704421 TTTTATAGGT
*
4704431 TTATTTCCTCTTGCAACAAA
1 TTATTTCATCTTGCAACAAA
*
4704451 TTATTTTATCTTGCAACAAA
1 TTATTTCATCTTGCAACAAA
*
4704471 AT-TTTCTATCTTG
1 TTATTTC-ATCTTG
4704484 ACCTTTAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (20 bp):
TTATTTCATCTTGCAACAAA
Found at i:4714135 original size:20 final size:21
Alignment explanation
Indices: 4714110--4714159 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4714100 TCAATTTGGC
4714110 ATCGATACCAATT-TAAAAAT
1 ATCGATACCAATTATAAAAAT
**
4714130 ATCGATA-CTTTTATAAAAAT
1 ATCGATACCAATTATAAAAAT
4714150 ATCGATACCA
1 ATCGATACCA
4714160 CTGGGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 21 0.84
21 1 0.04
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (21 bp):
ATCGATACCAATTATAAAAAT
Found at i:4719660 original size:27 final size:27
Alignment explanation
Indices: 4719622--4719834 Score: 306
Period size: 27 Copynumber: 8.0 Consensus size: 27
4719612 CCATAATAGT
* * * *
4719622 TAATTTTGCCCATTGGGGGCATTTCGA
1 TAATTTTACCCATCGAGGGTATTTCGA
4719649 TAATTTTACCCATCGAGGGTATTTCGA
1 TAATTTTACCCATCGAGGGTATTTCGA
* *
4719676 TAATTTTACCCATCG-GGGTATTTTGG
1 TAATTTTACCCATCGAGGGTATTTCGA
* *
4719702 TAATTTTACCCATCGAAGGTATTTCGG
1 TAATTTTACCCATCGAGGGTATTTCGA
4719729 TAATTTTACCCATCGAGGGTATTTCGA
1 TAATTTTACCCATCGAGGGTATTTCGA
*
4719756 TAATTTTACCCATCGA-GGTATTTAGA
1 TAATTTTACCCATCGAGGGTATTTCGA
4719782 TAATTTTACCCATCGAGGGTATTTC-A
1 TAATTTTACCCATCGAGGGTATTTCGA
*
4719808 GTAATTTTACCCATCGAGGATATTTCG
1 -TAATTTTACCCATCGAGGGTATTTCG
4719835 GTACAGTTAA
Statistics
Matches: 169, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
26 50 0.30
27 119 0.70
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTTTACCCATCGAGGGTATTTCGA
Found at i:4719713 original size:53 final size:54
Alignment explanation
Indices: 4719622--4719834 Score: 306
Period size: 53 Copynumber: 4.0 Consensus size: 54
4719612 CCATAATAGT
* * * *
4719622 TAATTTTGCCCATTGGGGGCATTTCGATAATTTTACCCATCGAGGGTATTTCGA
1 TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGA
* * * *
4719676 TAATTTTACCCATCG-GGGTATTTTGGTAATTTTACCCATCGAAGGTATTTCGG
1 TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGA
*
4719729 TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGA-GGTATTTAGA
1 TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGA
*
4719782 TAATTTTACCCATCGAGGGTATTTC-AGTAATTTTACCCATCGAGGATATTTCG
1 TAATTTTACCCATCGAGGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTCG
4719835 GTACAGTTAA
Statistics
Matches: 143, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 97 0.68
54 45 0.31
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (54 bp):
TAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGA
Found at i:4719755 original size:80 final size:80
Alignment explanation
Indices: 4719642--4719834 Score: 323
Period size: 80 Copynumber: 2.4 Consensus size: 80
4719632 CATTGGGGGC
* * * *
4719642 ATTTCGATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGGGGTATTTTGGTAATT
1 ATTTCGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGTATTTAGATAATT
4719707 TTACCCATCGAAGGT
66 TTACCCATCGAAGGT
4719722 ATTTCGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGTATTTAGATAATT
1 ATTTCGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGTATTTAGATAATT
*
4719787 TTACCCATCGAGGGT
66 TTACCCATCGAAGGT
* *
4719802 ATTTCAGTAATTTTACCCATCGAGGATATTTCG
1 ATTTCGGTAATTTTACCCATCGAGGGTATTTCG
4719835 GTACAGTTAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (80 bp):
ATTTCGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCGAGGTATTTAGATAATT
TTACCCATCGAAGGT
Found at i:4722192 original size:35 final size:35
Alignment explanation
Indices: 4722145--4722483 Score: 262
Period size: 35 Copynumber: 9.8 Consensus size: 35
4722135 GAAAAAATTA
*
4722145 CCTTAGACGTGTCTATCCCAATATTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
* * * *
4722180 GCTTAGATGTGTCTATCCCAACCTTTTTAACGTTG
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
*
4722215 CCTTAGACGTATCTATCCCAACATTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
* * * **
4722250 CCTCTA-ACGAGTCCAT-CCAACCTTTTTAAAATTG
1 CCT-TAGACGTGTCTATCCCAACATTTTTAAGGTTG
* *
4722284 CCTTAGATAG-GTCTATCCCAACCTTTTTAAGGTTG
1 CCTTAGA-CGTGTCTATCCCAACATTTTTAAGGTTG
* * *
4722319 CCTTACACGGGTCTATACCAACATTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
* * * * * * *
4722354 CCTTAGACGGGTCCATCTCAACGTTTTAAAGTTTT
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
* * * * *
4722389 CCTTAGATAG-GTCAAT--CAATCCTTTTTAA-TTTT
1 CCTTAGA-CGTGTCTATCCCAA-CATTTTTAAGGTTG
* * *
4722422 CCTTAAAAG-GTCTATCCCAACCTTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
* * * * *
4722456 TCTTAAATGGGTCTATCCCAACCTTTTT
1 CCTTAGACGTGTCTATCCCAACATTTTT
4722484 TAACAGTCGA
Statistics
Matches: 251, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
32 7 0.03
33 24 0.10
34 44 0.18
35 173 0.69
36 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (35 bp):
CCTTAGACGTGTCTATCCCAACATTTTTAAGGTTG
Found at i:4722348 original size:104 final size:103
Alignment explanation
Indices: 4722145--4722460 Score: 320
Period size: 104 Copynumber: 3.0 Consensus size: 103
4722135 GAAAAAATTA
* * * ** * * *
4722145 CCTTAGACGTGTCTATCCCAATATTTTTAAGGTTGGCTTAGAT-GTGTCTATCCCAACCTTTTTA
1 CCTTAGACGAGTCCATCTCAACGTTTTAAAGATTGCCTTAGATAG-GTCTATCCCAACCTTTTTA
**
4722209 ACGTTGCCTTAGACGTATCTATCCCAACATTTTTAAGGTTG
65 A-GTTGCCTTA-ACGGGTCTATCCCAACATTTTTAAGGTTG
*
4722250 CCTCTA-ACGAGTCCATC-CAACCTTTTTAAA-ATTGCCTTAGATAGGTCTATCCCAACCTTTTT
1 CCT-TAGACGAGTCCATCTCAA-CGTTTTAAAGATTGCCTTAGATAGGTCTATCCCAACCTTTTT
*
4722312 AAGGTTGCCTTACACGGGTCTATACCAACATTTTTAAGGTTG
64 AA-GTTGCCTTA-ACGGGTCTATCCCAACATTTTTAAGGTTG
* * * *
4722354 CCTTAGACGGGTCCATCTCAACGTTTTAAAGTTTTCCTTAGATAGGTCAAT--CAATCCTTTTTA
1 CCTTAGACGAGTCCATCTCAACGTTTTAAAGATTGCCTTAGATAGGTCTATCCCAA-CCTTTTTA
* * ** *
4722417 ATTTTCCTTAAAAGGTCTATCCCAACCTTTTTAAGGTTG
65 AGTTGCCTTAACGGGTCTATCCCAACATTTTTAAGGTTG
*
4722456 TCTTA
1 CCTTA
4722461 AATGGGTCTA
Statistics
Matches: 180, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
102 29 0.16
103 12 0.07
104 98 0.54
105 39 0.22
106 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (103 bp):
CCTTAGACGAGTCCATCTCAACGTTTTAAAGATTGCCTTAGATAGGTCTATCCCAACCTTTTTAA
GTTGCCTTAACGGGTCTATCCCAACATTTTTAAGGTTG
Found at i:4722413 original size:139 final size:138
Alignment explanation
Indices: 4722138--4722483 Score: 385
Period size: 139 Copynumber: 2.5 Consensus size: 138
4722128 AAAAATAGAA
* ** * * *
4722138 AAAATTACCTTAGACGTGTCTATCCCAATATTTTTAAGGTTGGCTTAGATGTGTCTATCCCAACC
1 AAAATTACCTTAGAAG-GTCTATCCCAACCTTTTTAAGGTTGCCTTAAATGGGTCTATCCCAACC
* * * * *
4722203 TTTTTAACGTTGCCTTAGACGTATCTATCCCAACATTTTTAAGGTTGCCTCTAACGAGTCCATCC
65 TTTTTAACGTTGCCTTAGACGGATCCATCCCAACATTTTAAAGGTTGCCTCTAAAGAGTCAATCC
4722268 AACCTTTTT
130 AACCTTTTT
* * * * *
4722277 AAAATTGCCTTAGATAGGTCTATCCCAACCTTTTTAAGGTTGCCTTACACGGGTCTATACCAACA
1 AAAATTACCTTAGA-AGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAATGGGTCTATCCCAACC
* * * * * *
4722342 TTTTTAAGGTTGCCTTAGACGGGTCCATCTCAACGTTTTAAAGTTTTCCT-TAGATAG-GTCAAT
65 TTTTTAACGTTGCCTTAGACGGATCCATCCCAACATTTTAAAGGTTGCCTCTA-A-AGAGTCAAT
4722405 -CAATCCTTTTT
128 CCAA-CCTTTTT
* * * *
4722416 -AATTTTCCTTAAAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAAATGGGTCTATCCCAACCT
1 AAAATTACCTTAGAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAATGGGTCTATCCCAACCT
4722480 TTTT
66 TTTT
4722484 TAACAGTCGA
Statistics
Matches: 174, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
137 50 0.29
138 15 0.09
139 107 0.61
140 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (138 bp):
AAAATTACCTTAGAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAATGGGTCTATCCCAACCT
TTTTAACGTTGCCTTAGACGGATCCATCCCAACATTTTAAAGGTTGCCTCTAAAGAGTCAATCCA
ACCTTTTT
Found at i:4723043 original size:23 final size:24
Alignment explanation
Indices: 4723017--4723067 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
4723007 TTTCTAGAAG
*
4723017 ATTTAG-TATTTATTAGTAT-AAAT
1 ATTTAGCT-TTTATTAGCATAAAAT
4723040 ATTTAGCTTTTATTAGCATAAAAT
1 ATTTAGCTTTTATTAGCATAAAAT
4723064 ATTT
1 ATTT
4723068 GAAATTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTTAGCTTTTATTAGCATAAAAT
Found at i:4741387 original size:756 final size:754
Alignment explanation
Indices: 4740113--4745167 Score: 8464
Period size: 754 Copynumber: 6.7 Consensus size: 754
4740103 ATTTCATATA
* * *
4740113 GATGATAATAAAAAATACAACGATTCTAAAAC----A-TATATTATATTCTATTATTTCAATTAT
1 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
4740173 AACTTATA-TTTTTGAAAGTAATAATATATATATTTTTAATTTAAT-AATTTTTTAAGAATTTCT
66 AACTTATATTTTTTGAAAGTAAT--TATATATATTTTTAATTTAATAAATTTTTTAAGAATTTCT
*
4740236 TAATAAATAAATAAAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAA
129 TAATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAA
4740301 ATACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTA
194 ATACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTA
* *
4740366 GCTGGTATGATTGCATTCAACACAAAATTGCACTTCTCATTTGAAAAAAAGTTCAAGGATTAGCA
259 GCTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGCA
4740431 GTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCAT
324 GTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCAT
*
4740496 GTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTTGTTT
389 GTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTT
* *
4740561 TTCACTTCTATTGCTCTCAAGCGTTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGTA
454 TTCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGTA
* * *
4740626 TATAATTCACATTTAATGTCACATAATCACTGGAAATGCATTAAAAAAAAGGTAAAATATTTTGA
519 TATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTTTGA
* * *
4740691 CAATTATAACTAATGAACACTTTTATAATTTGAATTTACATTTAGTTATAATCACGTTTTAATAT
584 CAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATAT
4740756 ATATTAAAAATCACCTTTGAAACACTTTATATATATATATTTTTAAAAAAACATTCTCTTCTCAG
649 ATATTAAAAATCACCTTTGAAACAC-TTATATATATAT-TTTTTAAAAAAA-ATTCTCTTCTCAG
4740821 AGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
711 AGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
*
4740865 GATGATAATATAAAATATAACGATTTTAAAACATATATTATATTATATTATATTATTTCAATTAT
1 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
4740930 AACTTATATTTTTTGAAAGTAATTATATATA-TTTTAATTTAATAAATTTTTTAAGAATTTCTTA
66 AACTTATATTTTTTGAAAGTAATTATATATATTTTTAATTTAATAAATTTTTTAAGAATTTCTTA
4740994 ATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAAT
131 ATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAAT
* *
4741059 ACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTTGTTAGTTACTGTCATCTCCTAGC
196 ACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAGC
4741124 TGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTA-CGAG
261 TGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGC-AG
* *
4741188 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGTCTA-CCTAGCCATGTGGATTGCAT
325 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCC-AGCCATGTGGATTGCAT
4741252 GTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTT
389 GTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTT
*
4741317 TTCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGGA
454 TTCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGTA
*
4741382 TATAATTCACAATTAATGTCACATAATCACTAAAAATGCATTAAAAAAAAGCTAAAATATTTTGA
519 TATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTTTGA
* * * * *
4741447 AAATTATAACTAATAAACTCCTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCCATAT
584 CAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATAT
*
4741512 ATATTAAAAATCACTTTTGAAACACTTATATATAT-TTTTTT---AAAAATTCTCTT-TCAGAGT
649 ATATTAAAAATCACCTTTGAAACACTTATATATATATTTTTTAAAAAAAATTCTCTTCTCAGAGT
* *
4741572 TGACAAAATA-TTTTCAATTAAATTAAAACCAGTTCACATG
714 TGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
4741612 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATATTATTTCA
1 GATGATAATATAAAATATAACGATTCTAAAAC----A-TATATTATATTATATTATATTATTTCA
* *
4741677 ATTATAACTTAAATTATTTT-AAAGTAATTATATATATTTTTTAATTTAATAAATGTTTTAAGAA
61 ATTATAACTTATATT-TTTTGAAAGTAATTATATATA-TTTTTAATTTAATAAATTTTTTAAGAA
4741741 TTTCTTAATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAG
124 TTTCTTAATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAG
*
4741806 ATAAAATACTAGAAGAGTTGATATTTGAATTGTTAATATATAAACATTCGTTAGTTACTGTCATC
189 ATAAAATACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATC
* *
4741871 TCGTAGCTGGTATGATTGCATTCAACACAAAATTGCACTTCTCATTTGAAAAAAAGTTCAAGGAT
254 TCGTAGCTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTAT
4741936 TAGCAGTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGAT
319 TAGCAGTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGAT
4742001 TGCATGTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACT
384 TGCATGTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACT
* *
4742066 TGTTTTTCACTCCTATTGCTCTCAAGCGTTCTATTAAGCATCAAAACATGAATATAAATTATTAG
449 AGTTTTTCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAG
* * *
4742131 AAGTATATAATTCACATTTAATGTCACATAATCACTGGAAATGCATTAAAAAAAAGGTAAAATAT
514 AAGTATATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATAT
* * *
4742196 TTTGACAATTATAACTAATGAACACTTTTATAATTTGAATTTACATTTAGTTATAATCACGTTTT
579 TTTGACAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTC
*
4742261 AATATATATT-AAAATCACCTTTGAAACACTTTATATATATATATTTTAAAAAAACATTCTCTTC
644 AATATATATTAAAAATCACCTTTGAAACAC-TTATATATATATTTTTTAAAAAAA-ATTCTCTTC
4742325 TCAGAGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
707 TCAGAGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
*
4742373 GATGATAATATAAAATATAACGATTTTAAAAC---------A-TATATTATATTATTTCAATTAT
1 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
4742428 AACTTATATTTTTTGAAAGTAATTATAT-T-TTTTTAATTTAAT-AATTTTTTAAGAATTTCTTA
66 AACTTATATTTTTTGAAAGTAATTATATATATTTTTAATTTAATAAATTTTTTAAGAATTTCTTA
*
4742490 ATAAATAAATATAATATATTTTATTTACACATACAACCAAATTTATGTATTGCAGTAGATAAAAT
131 ATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAAT
*
4742555 ACTAGAAGAGCTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAGC
196 ACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAGC
* *
4742620 TGGTATGATTGCATTCAACACAAAATTGCACATCTCAGTTGAAAAAAATTTCAAGTATTA-CGAG
261 TGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGC-AG
* * *
4742684 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACTACCCAGCCATGTGGGTTGCATG
325 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCATG
* * *
4742749 TGTGAAAATTTGTTGTATGTGCACAACTTTCAACATGCTCCAAAGTTTTAGTTTCTACAAGTTTT
390 TGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTTT
*
4742814 TCACTCCTATTGCTCTCAAGCGCTTTATTAAGCATCAAAACATGAATATAAATTATTAGAA-TGA
455 TCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGT-A
*
4742878 TATAATTCACAATTAATGTCACATAATCACTGAAAATGCATCAAAAAAAAGCTAAAATA--TTGA
519 TATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTTTGA
*
4742941 CAATTATAACTAATGAACTCTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATAT
584 CAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATAT
4743006 ATATTAAAAATCA-CTTTCGAAACAC-T-T-TATATATTTTTTAAAAAAAATTCTCTTCTCAGAG
649 ATATTAAAAATCACCTTT-GAAACACTTATATATATATTTTTTAAAAAAAATTCTCTTCTCAGAG
4743067 TTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
713 TTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
4743109 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
1 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
* * *
4743174 AGCTTAAATTTTTTTAAAGTAATTATATATATTTTTTAATTTAATAAATTTTTTAAGAATTTCTT
66 AACTTATATTTTTTGAAAGTAATTATATATA-TTTTTAATTTAATAAATTTTTTAAGAATTTCTT
* *
4743239 AATAAATAAATAAAATATATTTTATTTATACATACAACCAAATTTATGCATTGCAGTAGATAAAA
130 AATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAA
*
4743304 TACTAGAAGAGTTGATATTTGAATTGTTAATATATAAACATTCGTTAGTTACTGTCATCTCGTAG
195 TACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAG
* * *
4743369 CTGGTGTGATTGCATTCAACACAAAATTACACATATCATTTGAAAAAAAGTTCAAGTATTAGCAG
260 CTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGCAG
4743434 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCATG
325 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCATG
4743499 TGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTTT
390 TGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTTT
* * *
4743564 TCACTCCTATTACTCTCAAGCGCTCTATTAAGCATCGAAACATGAATATAAATTATTAGAAGGAT
455 TCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGTAT
* *
4743629 ATAATTCACAATTAATGTCACATAATCATTGAAAATGCACTAAAAAAAAGCTAAAATATTTTGAC
520 ATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTTTGAC
* * *
4743694 AATTATATCTAATGAACTCTTTTATAATTTGAATTTATATTAAGTTATAATCACGTTTCAATATA
585 AATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATATA
*
4743759 TATTAAAAATCACTTTTGAAACACTTATATATATA-TTTTT---AAAAATTCTCTTCTCAGAGTT
650 TATTAAAAATCACCTTTGAAACACTTATATATATATTTTTTAAAAAAAATTCTCTTCTCAGAGTT
*
4743820 GACAAAATATTTTTAAATTAAATTAAAAACAGTTCACGTG
715 GACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
4743860 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATATTATTTCA
1 GATGATAATATAAAATATAACGATTCTAAAAC----A-TATATTATATTATATTATATTATTTCA
* * *
4743925 ATTATAACTTAAATTTTTTTAAAGCAATTATATATA-TTTTAATTTAATAAATTTTTTAAGAATT
61 ATTATAACTTATATTTTTTGAAAGTAATTATATATATTTTTAATTTAATAAATTTTTTAAGAATT
*
4743989 TCTTAATAAATAAATAAAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGAT
126 TCTTAATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGAT
*
4744054 AAAATACTAGAAGAGTTGATATTTGAATTGTTAATATATAAACATTCGTTAGTTACTGTCATCTC
191 AAAATACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTC
4744119 GTAGCTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTA
256 GTAGCTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTA
4744184 GCAGTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTG
321 GCAGTTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTG
4744249 CATGTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAG
386 CATGTGTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAG
* *
4744314 TTTTTCACTCCTATTGCTCTCAAGCGTTCTATTAAGCATCAACACATGAATATAAATTATTAGAA
451 TTTTTCACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAA
* * *
4744379 GTATATAATTGACATTTAATGTCACATAATCACTGGAAATGCATTAAAAAAAAGCTAAAATATTT
516 GTATATAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTT
*
4744444 TGACAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTTAGTTATAATCACGTTTCAA
581 TGACAATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAA
* *
4744509 TATATATTAAAAATCACTTTTGAAACACTTTATATATATATTTTTAAAAAAAAACATTCTCTTCT
646 TATATATTAAAAATCACCTTTGAAACAC-TTATATATATATTTTT-TAAAAAAA-ATTCTCTTCT
4744574 CAGAGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
708 CAGAGTTGACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
4744621 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
1 GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
4744686 AACTTATATTTTTTGAAAGTAATTATATATATTTTTTAATTTAAT-AATTTTTTAAGAATTTCTT
66 AACTTATATTTTTTGAAAGTAATTATATATA-TTTTTAATTTAATAAATTTTTTAAGAATTTCTT
4744750 AATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAA
130 AATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAA
4744815 TACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAG
195 TACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAG
* * *
4744880 CTGGTATGATTGCATTCAACACAAAATCGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGGAC
260 CTGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGCAG
* **** *
4744945 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTATTGAGTTCCCAGCCAGGTGGATTGCATG
325 TTTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCATG
* * ** * *
4745010 TGTGAATATTTGTTGCT-TGTGCACAACTTCCGGAACGCTCCAAAGTTTTAATTTCTACTAATTT
390 TGTGAAAATTTGTTG-TATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTT
* * * * *
4745074 TTCACTCCTATT-ATTTCCAAGCGC-CTTATTAAGCATCAAAACATGGATATAAAGTACTAGGAA
454 TTCACTCCTATTGCTCT-CAAGCGCTC-TATTAAGCATCAAAACATGAATATAAATTATTA-GAA
*
4745137 -TATATAATTCACAATTAATG-CACAGAATCAC
516 GTATATAATTCACAATTAATGTCACATAATCAC
4745168 CCAAAAAAAA
Statistics
Matches: 4061, Mismatches: 170, Indels: 140
0.93 0.04 0.03
Matches are distributed among these distances:
736 88 0.02
737 18 0.00
738 1 0.00
739 1 0.00
740 74 0.02
741 16 0.00
742 442 0.11
743 13 0.00
745 6 0.00
746 91 0.02
747 61 0.02
748 17 0.00
749 21 0.01
750 445 0.11
751 94 0.02
752 173 0.04
753 31 0.01
754 1103 0.27
755 51 0.01
756 681 0.17
757 424 0.10
758 34 0.01
759 8 0.00
760 21 0.01
761 147 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (754 bp):
GATGATAATATAAAATATAACGATTCTAAAACATATATTATATTATATTATATTATTTCAATTAT
AACTTATATTTTTTGAAAGTAATTATATATATTTTTAATTTAATAAATTTTTTAAGAATTTCTTA
ATAAATAAATATAATATATTTTATTTATACATACAACCAAATTTATGTATTGCAGTAGATAAAAT
ACTAGAAGAGTTGATATTTGAATTGTTGATATATAAACATTCGTTAGTTACTGTCATCTCGTAGC
TGGTATGATTGCATTCAACACAAAATTGCACATCTCATTTGAAAAAAAGTTCAAGTATTAGCAGT
TTCATTATTGAAGTTAAAAGTTACTTATTCTATGTTTTGACAAGCCAGCCATGTGGATTGCATGT
GTGAAAATTTGTTGTATGTGCACAACTTTCAAAATGCTCCAAAGTTTTAATTTCTACTAGTTTTT
CACTCCTATTGCTCTCAAGCGCTCTATTAAGCATCAAAACATGAATATAAATTATTAGAAGTATA
TAATTCACAATTAATGTCACATAATCACTGAAAATGCATTAAAAAAAAGCTAAAATATTTTGACA
ATTATAACTAATGAACACTTTTATAATTTGAATTTAAATTAAGTTATAATCACGTTTCAATATAT
ATTAAAAATCACCTTTGAAACACTTATATATATATTTTTTAAAAAAAATTCTCTTCTCAGAGTTG
ACAAAATATTTTTAAATTAAATTAAAAACAGTTCACATG
Found at i:4741655 original size:5 final size:5
Alignment explanation
Indices: 4741645--4741672 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4741635 TTCTAAAACA
4741645 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
4741673 TTCAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:4742469 original size:19 final size:19
Alignment explanation
Indices: 4742409--4742477 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
4742399 TAAAACATAT
*
4742409 ATTATATTATTTCAATTATA
1 ATTATATTTTTTCAATT-TA
* **
4742429 ACTTATATTTTTTGAAAGTA
1 A-TTATATTTTTTCAATTTA
*
4742449 ATTATATTTTTTTAATTTA
1 ATTATATTTTTTCAATTTA
4742468 A-TA-ATTTTTT
1 ATTATATTTTTT
4742478 AAGAATTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
17 7 0.17
18 2 0.05
19 16 0.39
20 4 0.10
21 12 0.29
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTATATTTTTTCAATTTA
Found at i:4743903 original size:5 final size:5
Alignment explanation
Indices: 4743893--4743920 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4743883 TTCTAAAACA
4743893 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
4743921 TTCAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:4754687 original size:22 final size:22
Alignment explanation
Indices: 4754659--4754700 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4754649 GCTCAATATG
4754659 GTAAAACCACTGAATAACAACA
1 GTAAAACCACTGAATAACAACA
*
4754681 GTAAAACTACTGAATAACAA
1 GTAAAACCACTGAATAACAA
4754701 ATAATGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.17
Consensus pattern (22 bp):
GTAAAACCACTGAATAACAACA
Found at i:4767382 original size:5 final size:5
Alignment explanation
Indices: 4767372--4767401 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4767362 TTTATAATTG
4767372 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
4767402 TGTTTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:4768665 original size:745 final size:740
Alignment explanation
Indices: 4767258--4768930 Score: 2909
Period size: 745 Copynumber: 2.3 Consensus size: 740
4767248 TTTTTAATGC
*
4767258 TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAAATTATT
1 TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAATTTATT
*
4767323 AAATTAAAAAATATATATAATTACTTTCAAAAAATATAATTTATAATTGATATAATATAATATAA
66 AAATT-AAAAATATATATAATTACTTTC-AAAAATATAAGTTATAATTG----AA-ATAATATAA
4767388 TATAATATAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAA
124 TATAATATAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAA
*
4767453 TTTAATTTAAAAATATTTTGTCAACTCTTAGAAGAGAATTTTTTTTTAAAAAAATATAAAGTGTT
189 TTTAATTTAAAAATATTTTGTCAACTCTGAGAAGAGAATTTTTTTTTAAAAAAATATAAAGTGTT
4767518 TCAAAAGTGATTTTTAATATATATTGAAACGTGATTATAACTTAATTTAAATTCAAATTATAAAA
254 TCAAAAGTGATTTTTAATATATATTGAAACGTGATTATAACTTAATTTAAATTCAAATTATAAAA
4767583 GTGTTCATTAGTTATAATTGTCAAAATATTTAGGTTTTTTTTAATGCATTTTCAATGATTATGTG
319 GTGTTCATTAGTTATAATTGTCAAAATATTTAGGTTTTTTTTAATGCATTTTCAATGATTATGTG
*
4767648 ACATTAATTGTGAATTATATACTTCTAATAATTTATATTCATGTTTTGATGCTTCATAAGAGCAA
384 ACATTAATTGTGAATTATATACTTCTAATAATTTATATTCATGTTTTGATGCTTAATAAGAGCAA
4767713 TAGGAGTGAAAAACTAGTAGAAATTAAAACTTTGGAGCATTTTGAAAGTTGTGCACATACAACAA
449 TAGGAGTGAAAAACTAGTAGAAATTAAAACTTTGGAGCATTTTGAAAGTTGTGCACATACAACAA
*
4767778 ATTTTCACACATGCAATCCACATGGCTGGGTAGTCAAAACGTAGAATAAGTAACTTTTAACTTCA
514 ATTTTCACACATGCAATCCACATGGCTGGGTAGTCAAAACATAGAATAAGTAACTTTTAACTTCA
* *
4767843 ATAATGAAAGTCCTAATACTTGAACTTTTTTTCAAATGAGATGTGCGATTTTGTGTTGAATGCAA
579 ATAATGAAACTCCTAATACTTGAACTTTTTTTCAAATGAGATGTGCAATTTTGTGTTGAATGCAA
**
4767908 TCATACCAGCTACGAGATGATGGTAACTAACGAATGTTTATATATCAACAATTCAAATATCAACT
644 TCATACCAGCTACGAGATGACAGTAACTAACGAATGTTTATATATCAACAATTCAAATATCAACT
4767973 CTTCTAGTATTTTATCTACTGCAATACATAAA
709 CTTCTAGTATTTTATCTACTGCAATACATAAA
4768005 TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAATTTATT
1 TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAATTTATT
4768070 AAATTAAAAATATATATAATTACTTTCAAAAATATAAGTTATAATTGAAATAATATAATATAATA
66 AAATTAAAAATATATATAATTACTTTCAAAAATATAAGTTATAATTGAAATAATATAATATAATA
4768135 TAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAATTTAATT
131 TAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAATTTAATT
4768200 TAAAAATATTTTGTCAACTCTGAGAAGAGAA-TTTTTTTT-AAAAAATATAAAGTGTTTCAAAAG
196 TAAAAATATTTTGTCAACTCTGAGAAGAGAATTTTTTTTTAAAAAAATATAAAGTGTTTCAAAAG
4768263 TGATTTTTAATATATATTGAAACGTGATTATAACTTAATTTAAATTCAAATTATAAAAGTGTTCA
261 TGATTTTTAATATATATTGAAACGTGATTATAACTTAATTTAAATTCAAATTATAAAAGTGTTCA
* *
4768328 TTAGTTATAATTGTCAAAATATTTAGG-TTTTTTTAATTCA-TTTCAGTGATTATGTGACATTAA
326 TTAGTTATAATTGTCAAAATATTTAGGTTTTTTTTAATGCATTTTCAATGATTATGTGACATTAA
4768391 TTGTGAATTATATACTTCTAATAATTTATATTCATGTTTTGATGCTTAATAGAGCGCTTGAGAGC
391 TTGTGAATTATATACTTCTAATAATTTATATTCATGTTTTGATGCTTAAT--A-------AGAGC
4768456 AATAGGAGTGAAAAACTAGTAGAAATTAAAACTTTGGAGCATTTTGAAAGTTGTGCACATACAAC
447 AATAGGAGTGAAAAACTAGTAGAAATTAAAACTTTGGAGCATTTTGAAAGTTGTGCACATACAAC
4768521 AAATTTTCACACATGCAATCCACATGGCTGGGTAGTCAAAACATAGAATAAGTAACTTTTAACTT
512 AAATTTTCACACATGCAATCCACATGGCTGGGTAGTCAAAACATAGAATAAGTAACTTTTAACTT
*
4768586 CAATAATGAAACTCGTAATACTTGAACTTTTTTTCAAATGAGATGTGCAATTTTGTGTTGAATGC
577 CAATAATGAAACTCCTAATACTTGAACTTTTTTTCAAATGAGATGTGCAATTTTGTGTTGAATGC
*
4768651 AATCATTCCAGCTACGAGATGACAGTAACTAACGAATGTTTATATATCAACAATTCAAATATCAA
642 AATCATACCAGCTACGAGATGACAGTAACTAACGAATGTTTATATATCAACAATTCAAATATCAA
* *
4768716 CTCTTCTAGTATTTTATCTAGTGCGATACATAAA
707 CTCTTCTAGTATTTTATCTACTGCAATACATAAA
* * *
4768750 TTTGGTTGTATATATAAATAAAATATATTATATTTATTTGTTAAGAAATTCTTATAAAATTTATT
1 TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAATTTATT
*
4768815 AAATTAAAAATAT-TATAATTACTTTAAAAAATATAAGTTATAATTG----AA-ATAATATAATA
66 AAATTAAAAATATATATAATTACTTTCAAAAATATAAGTTATAATTGAAATAATATAATATAATA
* * * * *
4768874 TAATATATGTTTTAGAATCGTTGTATTTTTTATTATCATCTATATGAA-TTTTTTTAA
131 TAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAA
4768931 ATAAAGTGTT
Statistics
Matches: 893, Mismatches: 24, Indels: 27
0.95 0.03 0.03
Matches are distributed among these distances:
736 71 0.08
737 12 0.01
738 125 0.14
739 63 0.07
740 113 0.13
741 2 0.00
744 32 0.04
745 384 0.43
746 22 0.02
747 69 0.08
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (740 bp):
TTTGGTTGTATGTATAAATAAAATATATTATATTTATTTATTAAGAAATTCTTAAAAAATTTATT
AAATTAAAAATATATATAATTACTTTCAAAAATATAAGTTATAATTGAAATAATATAATATAATA
TAATATATGTTTTAGAATCGTTATATTTTATATTATCATCCATGTGAACTGTTTTTAATTTAATT
TAAAAATATTTTGTCAACTCTGAGAAGAGAATTTTTTTTTAAAAAAATATAAAGTGTTTCAAAAG
TGATTTTTAATATATATTGAAACGTGATTATAACTTAATTTAAATTCAAATTATAAAAGTGTTCA
TTAGTTATAATTGTCAAAATATTTAGGTTTTTTTTAATGCATTTTCAATGATTATGTGACATTAA
TTGTGAATTATATACTTCTAATAATTTATATTCATGTTTTGATGCTTAATAAGAGCAATAGGAGT
GAAAAACTAGTAGAAATTAAAACTTTGGAGCATTTTGAAAGTTGTGCACATACAACAAATTTTCA
CACATGCAATCCACATGGCTGGGTAGTCAAAACATAGAATAAGTAACTTTTAACTTCAATAATGA
AACTCCTAATACTTGAACTTTTTTTCAAATGAGATGTGCAATTTTGTGTTGAATGCAATCATACC
AGCTACGAGATGACAGTAACTAACGAATGTTTATATATCAACAATTCAAATATCAACTCTTCTAG
TATTTTATCTACTGCAATACATAAA
Found at i:4768877 original size:19 final size:19
Alignment explanation
Indices: 4768822--4768877 Score: 51
Period size: 21 Copynumber: 2.9 Consensus size: 19
4768812 ATTAAATTAA
* * *
4768822 AAATATTATAAT-TACTTT
1 AAATAATATAATATAATTG
*
4768840 AAAAAATATAAGTTATAATTG
1 AAATAATATAA--TATAATTG
4768861 AAATAATATAATATAAT
1 AAATAATATAATATAAT
4768878 ATATGTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 9 0.30
19 6 0.20
20 1 0.03
21 14 0.47
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
AAATAATATAATATAATTG
Found at i:4769684 original size:12 final size:13
Alignment explanation
Indices: 4769657--4769681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4769647 TATTATAACA
4769657 ATTTTTAGTCTTT
1 ATTTTTAGTCTTT
4769670 ATTTTTAGTCTT
1 ATTTTTAGTCTT
4769682 ATTATTGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (13 bp):
ATTTTTAGTCTTT
Found at i:4772690 original size:21 final size:20
Alignment explanation
Indices: 4772635--4772690 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
4772625 GGCTAATTTA
*
4772635 AAAATGATTTAAAGATCCATT
1 AAAAT-ATTTAAAAATCCATT
*
4772656 AAAA-ATTTTGAAAAATACCTTT
1 AAAATA-TTT-AAAAAT-CCATT
4772678 AAAATATTTAAAA
1 AAAATATTTAAAA
4772691 TTCCCATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.03
20 3 0.10
21 13 0.45
22 11 0.38
23 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAATATTTAAAAATCCATT
Found at i:4778792 original size:24 final size:24
Alignment explanation
Indices: 4778765--4778816 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4778755 AATCAATTTC
* *
4778765 AAATATTTTATGCTAATAAA-AGCT
1 AAATATATTATACTAATAAATA-CT
4778789 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
4778813 AAAT
1 AAAT
4778817 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:4779390 original size:35 final size:35
Alignment explanation
Indices: 4779343--4779725 Score: 270
Period size: 35 Copynumber: 10.9 Consensus size: 35
4779333 GGTTCGACTG
* * *
4779343 TTAAAAAAGTTGGGATAGACCCATTTAAGACAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * * **
4779378 TTAAAAAGGTTGGGATAGA-CCTTTTAAGGAAAAT
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* ** * * *
4779412 TTAAAAAGGTT-TGATTTACCTATCTAAGGAAAAC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * * * *
4779446 TTTAAAATGTTGAGATGGACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * * *
4779481 TTAAAAATGTTGGTATAGACCCGTGTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
**
4779516 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAATT
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * *
4779551 TTAAAAAGGTT-GGATGGACTCGT-TAGAGGCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTA-AGGCAACC
* ** * *
4779585 TTAAAAATGTTGGGATAGATACGTCTAAGGCAACG
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
** * **
4779620 TTAAAAAGGTTGGGATAGGGATTGATACGTCTAAGGCAATG
1 TTAAAAAGGTTGGGAT----A--GACCCATCTAAGGCAACC
* * *
4779661 TTAAAAAGGTTGGGATAGACACGTCTAAGCCAACC
1 TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
** * *
4779696 TTAAAAATATTGGGATAGACACGTCTAAGG
1 TTAAAAAGGTTGGGATAGACCCATCTAAGG
4779726 TAATTTTTTC
Statistics
Matches: 285, Mismatches: 52, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
33 6 0.02
34 66 0.23
35 176 0.62
36 2 0.01
37 1 0.00
39 1 0.00
41 33 0.12
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
Found at i:4779520 original size:69 final size:69
Alignment explanation
Indices: 4779343--4779637 Score: 247
Period size: 69 Copynumber: 4.2 Consensus size: 69
4779333 GGTTCGACTG
* * * * * *
4779343 TTAAAAAAGTTGGGATAGACCCATTTA-AGACAACCTTAAAAAGGTTGGGATAGA-CCTTTTAAG
1 TTAAAAAGGTT-GGATAGACCC-GTTAGAGGCAACCTTAAAAATGTTGGGATAGACCCGTCTAAG
* **
4779406 GAAAAT
64 GCAACC
* ** ** * * * * *
4779412 TTAAAAAGGTTTGATTTACCTATCTA-AGGAAAACTTTAAAATGTTGAGATGGACCCGTCTAAGG
1 TTAAAAAGGTTGGATAGACCCGT-TAGAGGCAACCTTAAAAATGTTGGGATAGACCCGTCTAAGG
4779476 CAACC
65 CAACC
* * *
4779481 TTAAAAATGTTGGTATAGACCCGTGTA-AGGCAACCTTAAAAAGGTTGGGATAGACCCATCTAAG
1 TTAAAAAGGTTGG-ATAGACCCGT-TAGAGGCAACCTTAAAAATGTTGGGATAGACCCGTCTAAG
**
4779545 GCAATT
64 GCAACC
* * **
4779551 TTAAAAAGGTTGGATGGACTCGTTAGAGGCAACCTTAAAAATGTTGGGATAGATACGTCTAAGGC
1 TTAAAAAGGTTGGATAGACCCGTTAGAGGCAACCTTAAAAATGTTGGGATAGACCCGTCTAAGGC
*
4779616 AACG
66 AACC
4779620 TTAAAAAGGTTGGGATAG
1 TTAAAAAGGTT-GGATAG
4779638 GGATTGATAC
Statistics
Matches: 177, Mismatches: 44, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
67 1 0.01
68 30 0.17
69 87 0.49
70 59 0.33
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (69 bp):
TTAAAAAGGTTGGATAGACCCGTTAGAGGCAACCTTAAAAATGTTGGGATAGACCCGTCTAAGGC
AACC
Found at i:4779568 original size:104 final size:105
Alignment explanation
Indices: 4779343--4779725 Score: 362
Period size: 104 Copynumber: 3.6 Consensus size: 105
4779333 GGTTCGACTG
* * * * * * *
4779343 TTAAAAAAGTTGGGATAGACCCATTTAAGACAACCTTAAAAAGGTTGGGATAGAC-CTTTTAAGG
1 TTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAATGTTGGGATAGACACGTCTAAGG
* ** * ** * * *
4779407 AAAATTTAAAAAGGTT-TGATTTACCTATCTAAGGAAAACT
66 CAACCTTAAAAAGGTTGGGATAGACCCATCTAAGG-CAATT
* * * * * *
4779447 TT-AAAATGTTGAGATGGACCCGTCTAAGGCAACCTTAAAAATGTTGGTATAGACCCGTGTAAGG
1 TTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAATGTTGGGATAGACACGTCTAAGG
4779511 CAACCTTAAAAAGGTTGGGATAGACCCATCTAAGGCAATT
66 CAACCTTAAAAAGGTTGGGATAGACCCATCTAAGGCAATT
* * *
4779551 TTAAAAAGGTT-GGATGGACTCGT-TAGAGGCAACCTTAAAAATGTTGGGATAGATACGTCTAAG
1 TTAAAAAGGTTGGGATAGACCCGTCTA-AGGCAACCTTAAAAATGTTGGGATAGACACGTCTAAG
* ** * *
4779614 GCAACGTTAAAAAGGTTGGGATAGGGATTGATACGTCTAAGGCAATG
65 GCAACCTTAAAAAGGTTGGGAT----A--GACCCATCTAAGGCAATT
* * *
4779661 TTAAAAAGGTTGGGATAGACACGTCTAAGCCAACCTTAAAAATATTGGGATAGACACGTCTAAGG
1 TTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAATGTTGGGATAGACACGTCTAAGG
4779726 TAATTTTTTC
Statistics
Matches: 231, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
103 46 0.20
104 91 0.39
105 21 0.09
108 1 0.00
110 25 0.11
111 45 0.19
112 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (105 bp):
TTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTTAAAAATGTTGGGATAGACACGTCTAAGG
CAACCTTAAAAAGGTTGGGATAGACCCATCTAAGGCAATT
Found at i:4779653 original size:41 final size:41
Alignment explanation
Indices: 4779596--4779678 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
4779586 TAAAAATGTT
4779596 GGGATAGATACGTCTAAGGCAACGTTAAAAAGGTTGGGATA
1 GGGATAGATACGTCTAAGGCAACGTTAAAAAGGTTGGGATA
* *
4779637 GGGATTGATACGTCTAAGGCAATGTTAAAAAGGTTGGGATA
1 GGGATAGATACGTCTAAGGCAACGTTAAAAAGGTTGGGATA
4779678 G
1 G
4779679 ACACGTCTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.24
Consensus pattern (41 bp):
GGGATAGATACGTCTAAGGCAACGTTAAAAAGGTTGGGATA
Found at i:4781823 original size:17 final size:18
Alignment explanation
Indices: 4781791--4781824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4781781 GTTGGGTCGA
*
4781791 AATGGGCTGTATGGGCCC
1 AATGGGCTGCATGGGCCC
4781809 AATGGGCT-CATGGGCC
1 AATGGGCTGCATGGGCC
4781825 TCCACGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.21
Consensus pattern (18 bp):
AATGGGCTGCATGGGCCC
Found at i:4782081 original size:27 final size:27
Alignment explanation
Indices: 4782038--4782208 Score: 258
Period size: 27 Copynumber: 6.4 Consensus size: 27
4782028 TTAACTGTAC
*
4782038 CGAAATATCCT-GATGGGTAAAATTA-
1 CGAAATACCCTCGATGGGTAAAATTAT
4782063 CTGAAATACCCTCGATGGGTAAAATTAT
1 C-GAAATACCCTCGATGGGTAAAATTAT
*
4782091 CGAAATACCCTCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAT
* *
4782118 CGAAATACCTTCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAT
*
4782145 CAAAATACCC-CTGATGGGTAAAATTAT
1 CGAAATACCCTC-GATGGGTAAAATTAT
4782172 CGAAATACCCTCGATGGGTAAAATTAT
1 CGAAATACCCTCGATGGGTAAAATTAT
4782199 CGAAATACCC
1 CGAAATACCC
4782209 CAATGGCAAA
Statistics
Matches: 134, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.01
26 10 0.07
27 121 0.90
28 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTCGATGGGTAAAATTAT
Found at i:4795436 original size:20 final size:20
Alignment explanation
Indices: 4795411--4795455 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4795401 CGTTAAAGGT
*
4795411 CAAGATAGAAA-ATTTTGTTG
1 CAAGATA-AAATAATTTGTTG
4795431 CAAGATAAAATAATTTGTTG
1 CAAGATAAAATAATTTGTTG
4795451 CAAGA
1 CAAGA
4795456 GGAAATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (20 bp):
CAAGATAAAATAATTTGTTG
Found at i:4795461 original size:20 final size:20
Alignment explanation
Indices: 4795424--4795463 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4795414 GATAGAAAAT
*
4795424 TTTGTTGCAAGATAAAATAA
1 TTTGTTGCAAGAGAAAATAA
*
4795444 TTTGTTGCAAGAGGAAATAA
1 TTTGTTGCAAGAGAAAATAA
4795464 ACCTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (20 bp):
TTTGTTGCAAGAGAAAATAA
Found at i:4796457 original size:17 final size:17
Alignment explanation
Indices: 4796431--4796463 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4796421 ATGTTGTTGA
4796431 AATTGATGCTCAATCTC
1 AATTGATGCTCAATCTC
*
4796448 AATTGCTGCTCAATCT
1 AATTGATGCTCAATCT
4796464 TAACTGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (17 bp):
AATTGATGCTCAATCTC
Found at i:4798447 original size:143 final size:142
Alignment explanation
Indices: 4798265--4798532 Score: 484
Period size: 143 Copynumber: 1.9 Consensus size: 142
4798255 AAACGCGAAG
* *
4798265 AATCCACAACCCCCTCAAGTGGTTTTAATTTCCCCTCCAAGATAGAAA-CTTTGGCAAGAAAATT
1 AATCCACAACCCCCTCAAGTGGTTCTAATTTCCCCTCCAAGATAGAAACCTTT-GCAAGAAAATG
*
4798329 TTTGAAGATGACCCCATAATCTAAAAGATTGTTAAAACTCTTCTAAAAGAAACTCAAGAACTGGA
65 TTTGAAGATGACCCCATAATATAAAAGATTGTTAAAACTCTTCTAAAAGAAACTCAAGAACTGGA
4798394 ACGAAACATGAAA
130 ACGAAACATGAAA
4798407 AATCCACAACCCCCTTCAAGTGGTTCTAATTTCCCCTCCAAGATAGAAACCTTTGCAAGAAAATG
1 AATCCACAACCCCC-TCAAGTGGTTCTAATTTCCCCTCCAAGATAGAAACCTTTGCAAGAAAATG
4798472 TTTGAAGATGACCCCATAATATAAAAGATTGTTAAAACTCTTCTAAAAGAAACTCAAGAAC
65 TTTGAAGATGACCCCATAATATAAAAGATTGTTAAAACTCTTCTAAAAGAAACTCAAGAAC
4798533 AATTCTGGAA
Statistics
Matches: 121, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
142 14 0.12
143 103 0.85
144 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (142 bp):
AATCCACAACCCCCTCAAGTGGTTCTAATTTCCCCTCCAAGATAGAAACCTTTGCAAGAAAATGT
TTGAAGATGACCCCATAATATAAAAGATTGTTAAAACTCTTCTAAAAGAAACTCAAGAACTGGAA
CGAAACATGAAA
Found at i:4799716 original size:16 final size:18
Alignment explanation
Indices: 4799679--4799720 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4799669 TGTGTCCTAG
*
4799679 TATAAATCTAATGTCTTA
1 TATAAATCTAATATCTTA
4799697 TATAAATCTAATATCTTA
1 TATAAATCTAATATCTTA
4799715 TA-AAAT
1 TATAAAT
4799721 GTTCAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (18 bp):
TATAAATCTAATATCTTA
Found at i:4800832 original size:30 final size:29
Alignment explanation
Indices: 4800791--4800853 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
4800781 GATTCACACG
* *
4800791 GCCTGGGACATGGTTGTGTGGTGTACATA
1 GCCTGGGACATGGTTGTGTGCTGCACATA
4800820 GCCTGGTGACATGGTTGTGTGCTGCACATA
1 GCCTGG-GACATGGTTGTGTGCTGCACATA
4800850 GCCT
1 GCCT
4800854 AGACACACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.16, C:0.19, G:0.35, T:0.30
Consensus pattern (29 bp):
GCCTGGGACATGGTTGTGTGCTGCACATA
Found at i:4803544 original size:28 final size:29
Alignment explanation
Indices: 4803466--4803548 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
4803456 TGGTGTCAAC
* *
4803466 TATGAAAATGGATGGTTTCGACCATCGAA
1 TATGAAAAGGGATGGTTTCAACCATCGAA
**
4803495 TATGAAAAGGGATGGTGACAACCATCGAA
1 TATGAAAAGGGATGGTTTCAACCATCGAA
4803524 TATGAAAA-GGATGGTTTCAACCATC
1 TATGAAAAGGGATGGTTTCAACCATC
4803549 ATTTAGCACA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 15 0.31
29 33 0.69
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCAACCATCGAA
Found at i:4810803 original size:29 final size:29
Alignment explanation
Indices: 4810765--4810869 Score: 140
Period size: 29 Copynumber: 3.6 Consensus size: 29
4810755 TTCGATATTG
4810765 ACTATGAAAAGGGATGGTGACGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* ****
4810794 ACTATGAAAATGGATGGTTTTAACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
*
4810823 AATATGAAAAGGGATGGTGACGACCATCGA
1 ACTATGAAAAGGGATGGTGACGACCATC-A
4810853 A-TATGAAAAGGGATGGT
1 ACTATGAAAAGGGATGGT
4810870 TTTGACCACC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 62 0.97
30 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGACGACCATCA
Found at i:4810834 original size:58 final size:58
Alignment explanation
Indices: 4810767--4810877 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
4810757 CGATATTGAC
*
4810767 TATGAAAAGGGATGGTGACGACCATC-AACTATGAAAATGGATGGTTTTAACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTTTTAACCATCAAA
*
4810825 TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTTGACCA
1 TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTTAACCA
4810878 CCTTGTAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 48 0.96
59 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTTAACCATCAAA
Found at i:4810876 original size:29 final size:29
Alignment explanation
Indices: 4810736--4810877 Score: 137
Period size: 29 Copynumber: 5.0 Consensus size: 29
4810726 CAATGCCCAA
* *
4810736 CGAATATGAAAA-GGATAGTTTCGA-TAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* * **
4810763 TGACTATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* **
4810792 C-AACTATGAAAATGGATGGTTTTAACCAT
1 CGAA-TATGAAAAGGGATGGTTTCGACCAT
* **
4810821 CAAATATGAAAAGGGATGGTGACGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
*
4810850 CGAATATGAAAAGGGATGGTTTTGACCA
1 CGAATATGAAAAGGGATGGTTTCGACCA
4810878 CCTTGTAGCA
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
27 10 0.11
28 10 0.11
29 67 0.75
30 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (29 bp):
CGAATATGAAAAGGGATGGTTTCGACCAT
Found at i:4823414 original size:30 final size:31
Alignment explanation
Indices: 4823380--4823438 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
4823370 TCATTACAGT
4823380 GTGGGCCTTAGCCCAATACAGTAA-CAGTCA
1 GTGGGCCTTAGCCCAATACAGTAATCAGTCA
4823410 GTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGGGCCTTAGCCCAATACAGTAATCAGT
4823439 ACAATGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (31 bp):
GTGGGCCTTAGCCCAATACAGTAATCAGTCA
Found at i:4823827 original size:27 final size:27
Alignment explanation
Indices: 4823782--4824005 Score: 294
Period size: 27 Copynumber: 8.4 Consensus size: 27
4823772 TTATTTTATA
*
4823782 CTTCG-GGGTATTTTAGTCATTTTACC
1 CTTCGAGGGTATTTCAGTCATTTTACC
*
4823808 CTTCGAGGGTATTTCGGTCATTTTACC
1 CTTCGAGGGTATTTCAGTCATTTTACC
4823835 CTTCGAGGGTATTTC-GATCATTTTACC
1 CTTCGAGGGTATTTCAG-TCATTTTACC
* **
4823862 ATTTTAGGGTATTTCAGTCATTTTACC
1 CTTCGAGGGTATTTCAGTCATTTTACC
*
4823889 CTTCGAGGGTATTTTAGTCATTTTACC
1 CTTCGAGGGTATTTCAGTCATTTTACC
* *
4823916 CTTTGGGGGTATTTC-GATCATTTTACC
1 CTTCGAGGGTATTTCAG-TCATTTTACC
*
4823943 CTTCAAGGGTATTTCAGTCATTTTACC
1 CTTCGAGGGTATTTCAGTCATTTTACC
* *
4823970 CTTCG-GGGTATTTTAGTCATTTTAGC
1 CTTCGAGGGTATTTCAGTCATTTTACC
*
4823996 CTTTGAGGGT
1 CTTCGAGGGT
4824006 GTTTTACCCT
Statistics
Matches: 173, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
26 30 0.17
27 141 0.82
28 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
CTTCGAGGGTATTTCAGTCATTTTACC
Found at i:4823895 original size:81 final size:81
Alignment explanation
Indices: 4823787--4824005 Score: 350
Period size: 81 Copynumber: 2.7 Consensus size: 81
4823777 TTATACTTCG
* ** *
4823787 GGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGAGGGTATTTCGA
**
4823852 TCATTTTACCATTTTA
66 TCATTTTACCATTCAA
*
4823868 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGGGGGTATTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGAGGGTATTTCGA
*
4823933 TCATTTTACCCTTCAA
66 TCATTTTACCATTCAA
*
4823949 GGGTATTTCAGTCATTTTACCCTTCG-GGGTATTTTAGTCATTTTAGCCTTTGAGGGT
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGAGGGT
4824006 GTTTTACCCT
Statistics
Matches: 128, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 29 0.23
81 99 0.77
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTTGAGGGTATTTCGA
TCATTTTACCATTCAA
Found at i:4824956 original size:12 final size:12
Alignment explanation
Indices: 4824939--4824963 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4824929 CGGCAAGCAG
4824939 AGAGAAAAGAAA
1 AGAGAAAAGAAA
4824951 AGAGAAAAGAAA
1 AGAGAAAAGAAA
4824963 A
1 A
4824964 TAGCAATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAGAAAAGAAA
Found at i:4829863 original size:24 final size:24
Alignment explanation
Indices: 4829835--4829893 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
4829825 CAATAACAAT
4829835 ATGCAAAAAATTCTACCAGTAAAA
1 ATGCAAAAAATTCTACCAGTAAAA
* * * *
4829859 GTGCACACAA-GCTACCAGTAAAA
1 ATGCAAAAAATTCTACCAGTAAAA
*
4829882 ATGCAACAAATT
1 ATGCAAAAAATT
4829894 GCCTTTCCCC
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.19
Consensus pattern (24 bp):
ATGCAAAAAATTCTACCAGTAAAA
Found at i:4829873 original size:23 final size:22
Alignment explanation
Indices: 4829847--4829890 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
4829837 GCAAAAAATT
*
4829847 CTACCAGTAAAAGTGCACACAAG
1 CTACCAGTAAAAATGCA-ACAAG
4829870 CTACCAGTAAAAATGCAACAA
1 CTACCAGTAAAAATGCAACAA
4829891 ATTGCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.25, G:0.14, T:0.14
Consensus pattern (22 bp):
CTACCAGTAAAAATGCAACAAG
Found at i:4836205 original size:29 final size:29
Alignment explanation
Indices: 4836124--4836211 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
4836114 GCTCACATAA
** *
4836124 ACCATCCCTTTTCATTAATCGATGGCCGTC
1 ACCATCCCTTTTCA-TAATCGATAACCATC
* * **
4836154 ACCATCCCTTTTCATAGTTGATAATTATC
1 ACCATCCCTTTTCATAATCGATAACCATC
4836183 ACCATCCCTTTTCATAATCGATACACCAT
1 ACCATCCCTTTTCATAATCGATA-ACCAT
4836212 TGGATTTACG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 29 0.63
30 17 0.37
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATAACCATC
Found at i:4836428 original size:37 final size:38
Alignment explanation
Indices: 4836358--4836432 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
4836348 AAATTGCAGA
*
4836358 AATGACAAAGTATAGGGGCATTTTAGTAATTTTTCATT
1 AATGACAAAGCATAGGGGCATTTTAGTAATTTTTCATT
* *
4836396 AATGACAAAGCATA-GGGCATTTTGGTAGTTTTTCATT
1 AATGACAAAGCATAGGGGCATTTTAGTAATTTTTCATT
4836433 CTCCTCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 21 0.62
38 13 0.38
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (38 bp):
AATGACAAAGCATAGGGGCATTTTAGTAATTTTTCATT
Found at i:4837752 original size:45 final size:46
Alignment explanation
Indices: 4837667--4837799 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 46
4837657 ATTATGTTGT
* *
4837667 ATATTTGG-TGT-GTTGAGAGGCTATATCTGGTTGTGTTTGGATGGA
1 ATATTTGGTTGTATTTG-GAGGCTATATCTGGTTGTGTTTGGAGGGA
* *
4837712 ATATTTGGTTGTATTTGGAGGCTATATTTGGTTGTG-TTGGAGGGT
1 ATATTTGGTTGTATTTGGAGGCTATATCTGGTTGTGTTTGGAGGGA
* * * * * *
4837757 ATGTTTGGTTATATTTTGAGGGTAAAT-TGGATGTGTTTGGAGG
1 ATATTTGGTTGTATTTGGAGGCTATATCTGGTTGTGTTTGGAGG
4837800 TTATGTTTGG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.09
45 44 0.59
46 21 0.28
47 3 0.04
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.44
Consensus pattern (46 bp):
ATATTTGGTTGTATTTGGAGGCTATATCTGGTTGTGTTTGGAGGGA
Found at i:4837780 original size:23 final size:23
Alignment explanation
Indices: 4837665--4837811 Score: 113
Period size: 23 Copynumber: 6.5 Consensus size: 23
4837655 ATATTATGTT
*
4837665 GTATATTTGG-TGT-GTTGAGAGG
1 GTATATTTGGTTGTATTTG-GAGG
* * * *
4837687 CTATATCTGGTTGTGTTTGGATG
1 GTATATTTGGTTGTATTTGGAGG
*
4837710 GAATATTTGGTTGTATTTGGAGG
1 GTATATTTGGTTGTATTTGGAGG
* *
4837733 CTATATTTGGTTGT-GTTGGAGG
1 GTATATTTGGTTGTATTTGGAGG
* * *
4837755 GTATGTTTGGTTATATTTTGAGG
1 GTATATTTGGTTGTATTTGGAGG
* * *
4837778 GTA-AATTGGATGTGTTTGGAGG
1 GTATATTTGGTTGTATTTGGAGG
* *
4837800 TTATGTTTGGTT
1 GTATATTTGGTT
4837812 CTGTTCGGTG
Statistics
Matches: 94, Mismatches: 27, Indels: 7
0.73 0.21 0.05
Matches are distributed among these distances:
22 41 0.44
23 50 0.53
24 3 0.03
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (23 bp):
GTATATTTGGTTGTATTTGGAGG
Found at i:4843113 original size:20 final size:20
Alignment explanation
Indices: 4843085--4843123 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4843075 CAATTTAAAA
4843085 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
4843105 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
4843124 AGGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:4843185 original size:32 final size:32
Alignment explanation
Indices: 4843145--4843230 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
4843135 ACTTTTCCGA
*
4843145 AAAATATTTTCAGGAAATC-TGCCAAACAAC-AG
1 AAAATATTTTCAGCAAATCAT-CCAAAC-ACTAG
*
4843177 AAAATATTTTACA-CAGATTCATCCAAACACTAG
1 AAAATATTTT-CAGCA-AATCATCCAAACACTAG
*
4843210 AAAATATTTTCAGTAAATCAT
1 AAAATATTTTCAGCAAATCAT
4843231 TTTCAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
32 20 0.44
33 24 0.53
34 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (32 bp):
AAAATATTTTCAGCAAATCATCCAAACACTAG
Found at i:4843234 original size:14 final size:13
Alignment explanation
Indices: 4843211--4843279 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 13
4843201 AAACACTAGA
4843211 AAAT-ATTTTCAG
1 AAATCATTTTCAG
4843223 TAAATCATTTTCAG
1 -AAATCATTTTCAG
4843237 AAAAGTAAATCATTTTCCAG
1 -AAA-T----CATTTT-CAG
4843257 AAATCATTTTCAG
1 AAATCATTTTCAG
*
4843270 AAAACATTTT
1 AAATCATTTT
4843280 ACTGACAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 16 0.34
14 17 0.36
15 1 0.02
18 1 0.02
19 9 0.19
20 3 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:4843245 original size:19 final size:20
Alignment explanation
Indices: 4843221--4843259 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4843211 AAATATTTTC
4843221 AGTAAATCATTTT-CAGAAA
1 AGTAAATCATTTTCCAGAAA
4843240 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
4843260 TCATTTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:4843261 original size:33 final size:32
Alignment explanation
Indices: 4843211--4843273 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 32
4843201 AAACACTAGA
4843211 AAATATTTTCAGTAAATCATTTTCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCAGAAAAGT
4843243 AAATCATTTTCCAG-AAATCATTTTCAGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCAGAAAA
4843274 CATTTTACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 4 0.14
33 22 0.76
34 3 0.10
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (32 bp):
AAATATTTTCAGTAAATCATTTTCAGAAAAGT
Found at i:4843272 original size:13 final size:14
Alignment explanation
Indices: 4843243--4843279 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
4843233 TCAGAAAAGT
4843243 AAATCATTTTCCAG
1 AAATCATTTTCCAG
4843257 AAATCATTTT-CAG
1 AAATCATTTTCCAG
*
4843270 AAAACATTTT
1 AAATCATTTT
4843280 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:4843859 original size:20 final size:20
Alignment explanation
Indices: 4843831--4843870 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4843821 ATATTCAAAT
*
4843831 TAATGTTAAAGATTTGTTACG
1 TAATGTTAAAAATTT-TTACG
4843852 TAAT-TTAAAAATTTTTACG
1 TAATGTTAAAAATTTTTACG
4843871 CTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
TAATGTTAAAAATTTTTACG
Found at i:4844388 original size:21 final size:22
Alignment explanation
Indices: 4844364--4844415 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
4844354 TAAAATAAAT
4844364 AGAATTAATAATTCTAG-GTT-A
1 AGAATTAATAATT-TAGTGTTCA
4844385 AGAAATTAA-AATTTAGTGTTCA
1 AG-AATTAATAATTTAGTGTTCA
*
4844407 AGAACTAAT
1 AGAATTAAT
4844416 TTGGTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 3 0.12
21 14 0.54
22 9 0.35
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (22 bp):
AGAATTAATAATTTAGTGTTCA
Found at i:4844409 original size:22 final size:22
Alignment explanation
Indices: 4844366--4844410 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
4844356 AAATAAATAG
4844366 AATTAATAATTCTAGGTTAAGA
1 AATTAATAATTCTAGGTTAAGA
4844388 AATTAA-AATT-TAGTGTTCAAGA
1 AATTAATAATTCTAG-GTT-AAGA
4844410 A
1 A
4844411 CTAATTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 7 0.33
22 11 0.52
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (22 bp):
AATTAATAATTCTAGGTTAAGA
Found at i:4851840 original size:23 final size:23
Alignment explanation
Indices: 4851803--4851931 Score: 145
Period size: 23 Copynumber: 5.7 Consensus size: 23
4851793 TATTTGGTTG
4851803 TATATTT-GTTGTGTTGGGAGGC
1 TATATTTGGTTGTGTTGGGAGGC
* ** *
4851825 TATATTTGGTTGTGTTTGGTTGA
1 TATATTTGGTTGTGTTGGGAGGC
* *
4851848 TATTTTTGGTTGTGTTGGGAGAC
1 TATATTTGGTTGTGTTGGGAGGC
* * *
4851871 TATATTTGGTTGTGTTTGAAGGG
1 TATATTTGGTTGTGTTGGGAGGC
*
4851894 TATATTTGGTTGTGTTGGAAGG-
1 TATATTTGGTTGTGTTGGGAGGC
*
4851916 TATGTTTGGTTGTGTT
1 TATATTTGGTTGTGTT
4851932 TTGAGTGTAA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
22 22 0.25
23 67 0.75
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (23 bp):
TATATTTGGTTGTGTTGGGAGGC
Found at i:4851863 original size:46 final size:45
Alignment explanation
Indices: 4851795--4851976 Score: 185
Period size: 46 Copynumber: 4.0 Consensus size: 45
4851785 GGAGGATATA
4851795 TTTGGTTGTATATTT-GTTGTGTTGGGAGGCTATATTTGGTTGTG
1 TTTGGTTGTATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTG
* *
4851839 TTTGGTTGATATTTTTGGTTGTGTTGGGAGACTATATTTGGTTGTG
1 TTTGGTTG-TATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTG
* * *
4851885 TTTGAAG-GGTATATTTGGTTGTGTTGGAAGG-TATGTTTGGTTGTG
1 TTTG--GTTGTATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTG
* * * * * *
4851930 TTTTGAG-TGTA-AATTAGTTATGTTTGGAGGCTATGTTTGGTTCTG
1 -TTTG-GTTGTATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTG
4851975 TT
1 TT
4851977 CAGTGGGTGA
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
44 24 0.20
45 37 0.31
46 55 0.47
47 1 0.01
48 1 0.01
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (45 bp):
TTTGGTTGTATATTTGGTTGTGTTGGGAGGCTATATTTGGTTGTG
Found at i:4851886 original size:69 final size:67
Alignment explanation
Indices: 4851803--4851931 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 67
4851793 TATTTGGTTG
* ** *
4851803 TATATTTGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGTTGATATTTTTGGTTGTGTTGGGA
1 TATATTTGTTGTGTTGGAAGGCTATATTTGGTTGTG-TTGGAAGATATGTTTGGTTGTGTTGGGA
4851868 GAC
65 GAC
* * *
4851871 TATATTTGGTTGTGTTTGAAGGGTATATTTGGTTGTGTTGGAAGGTATGTTTGGTTGTGTT
1 TATATTT-GTTGTGTTGGAAGGCTATATTTGGTTGTGTTGGAAGATATGTTTGGTTGTGTT
4851932 TTGAGTGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
68 27 0.51
69 26 0.49
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (67 bp):
TATATTTGTTGTGTTGGAAGGCTATATTTGGTTGTGTTGGAAGATATGTTTGGTTGTGTTGGGAG
AC
Found at i:4855491 original size:30 final size:28
Alignment explanation
Indices: 4855445--4855507 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
4855435 AATTTGGTTA
* *
4855445 AAAAGAATTTTAAAAATGAGATTGTATTTG
1 AAAATAATTTTAAAAATG-GATT-TAATTG
*
4855475 AAAATAATTTTGAAAATGGATTTAATTG
1 AAAATAATTTTAAAAATGGATTTAATTG
4855503 AAAAT
1 AAAAT
4855508 TAAGAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 10 0.33
29 4 0.13
30 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (28 bp):
AAAATAATTTTAAAAATGGATTTAATTG
Found at i:4856791 original size:23 final size:23
Alignment explanation
Indices: 4856765--4856894 Score: 176
Period size: 23 Copynumber: 5.7 Consensus size: 23
4856755 TATTTGGTTG
* * *
4856765 TATATTTGGTTATGTTGGGAAGC
1 TATATTTGGTTGTGTTTGGAGGC
4856788 TATATTTGGTTGTGTTTGGAAGG-
1 TATATTTGGTTGTGTTTGG-AGGC
4856811 TATATTTGGTTGTAG--TGGAGGC
1 TATATTTGGTTGT-GTTTGGAGGC
*
4856833 TATATTTGGTTGTGTTTGGAGGG
1 TATATTTGGTTGTGTTTGGAGGC
4856856 TATATTTGGTTGTGTTTGGAGGC
1 TATATTTGGTTGTGTTTGGAGGC
*
4856879 TATGTTTGGTTGTGTT
1 TATATTTGGTTGTGTT
4856895 CAGTGGGTGA
Statistics
Matches: 96, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.04
22 16 0.17
23 73 0.76
24 3 0.03
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (23 bp):
TATATTTGGTTGTGTTTGGAGGC
Found at i:4856837 original size:45 final size:45
Alignment explanation
Indices: 4856764--4856894 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
4856754 ATATTTGGTT
* *
4856764 GTATATTTGGTTATGTTGGGAAGCTATATTTGGTTGTGTTTGGAAG
1 GTATATTTGGTTGTGTT-GGAGGCTATATTTGGTTGTGTTTGGAAG
*
4856810 GTATATTTGGTTGTAG-TGGAGGCTATATTTGGTTGTGTTTGGAGG
1 GTATATTTGGTTGT-GTTGGAGGCTATATTTGGTTGTGTTTGGAAG
*
4856855 GTATATTTGGTTGTGTTTGGAGGCTATGTTTGGTTGTGTT
1 GTATATTTGGTTGTG-TTGGAGGCTATATTTGGTTGTGTT
4856895 CAGTGGGTGA
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
44 1 0.01
45 40 0.51
46 36 0.46
47 1 0.01
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.47
Consensus pattern (45 bp):
GTATATTTGGTTGTGTTGGAGGCTATATTTGGTTGTGTTTGGAAG
Found at i:4856874 original size:68 final size:68
Alignment explanation
Indices: 4856765--4856891 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
4856755 TATTTGGTTG
4856765 TATATTTGGTTATGTTGGGAAGCTATATTTGGTTGTGTTTGGAAGG-TATATTTGGTTGTAGTGG
1 TATATTTGGTTATGTTGGGAAGCTATATTTGGTTGTGTTTGG-AGGCTATATTTGGTTGTAGTGG
4856829 AGGC
65 AGGC
* * * * *
4856833 TATATTTGGTTGTGTTTGGAGGGTATATTTGGTTGTGTTTGGAGGCTATGTTTGGTTGT
1 TATATTTGGTTATGTTGGGAAGCTATATTTGGTTGTGTTTGGAGGCTATATTTGGTTGT
4856892 GTTCAGTGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
67 3 0.06
68 50 0.94
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.47
Consensus pattern (68 bp):
TATATTTGGTTATGTTGGGAAGCTATATTTGGTTGTGTTTGGAGGCTATATTTGGTTGTAGTGGA
GGC
Found at i:4862610 original size:35 final size:35
Alignment explanation
Indices: 4862564--4862633 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4862554 CTAACCTTAA
4862564 ACATACATCTCACATACTATTTGACCATTTCTTTC
1 ACATACATCTCACATACTATTTGACCATTTCTTTC
*
4862599 ACATACATCTCATATACTATTTGACCATTTCTTTC
1 ACATACATCTCACATACTATTTGACCATTTCTTTC
4862634 TACCATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (35 bp):
ACATACATCTCACATACTATTTGACCATTTCTTTC
Found at i:4868352 original size:86 final size:86
Alignment explanation
Indices: 4868239--4868426 Score: 234
Period size: 86 Copynumber: 2.2 Consensus size: 86
4868229 TTATTTTAAA
** * *
4868239 AAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGC-TTTCTCCACAACCGCCGCTAAAAACCATGT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCAGCGCTTTTC-CCACAAACGCCGCTAAAAACCATGA
* * *
4868303 TCTTTAGCGGCGTTTTTTTCAC
65 CCTTTAGCGGCGATTTTATCAC
* * ** * *
4868325 AAATGCCTCTAAAGAACATGTTCTTTAGTGGTGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAAACCATGAC
*
4868390 CTTTAGCGGTGATTTTATCAC
66 CTTTAGCGGCGATTTTATCAC
4868411 AAACGCCGCTAAAGAA
1 AAACGCCGCTAAAGAA
4868427 TAAACCTTTA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
86 81 0.95
87 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAAACCATGAC
CTTTAGCGGCGATTTTATCAC
Found at i:4868424 original size:43 final size:43
Alignment explanation
Indices: 4868239--4868425 Score: 178
Period size: 43 Copynumber: 4.3 Consensus size: 43
4868229 TTATTTTAAA
** * * * *
4868239 AAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTCT-CCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGTGATTT-TATCAC
* * * * *
4868282 AACCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGTGATTTTATCAC
* * * * * **
4868325 AAATGCCTCTAAAGAACATGTTCTTTAGTGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGTGATTTTATCAC
**
4868368 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGATTTTATCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGTGATTTTATCAC
4868411 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
4868426 ATAAACCTTT
Statistics
Matches: 117, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
42 1 0.01
43 116 0.99
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGTGATTTTATCAC
Found at i:4868461 original size:42 final size:42
Alignment explanation
Indices: 4868368--4868478 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
4868358 CTTTTCCCAC
* * * *
4868368 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGATTTTATCAC
1 AAACGCCGCTAAA-AACATAACCTTTAGCGGCGATTTTATCAA
* *
4868411 AAACGCCGCTAAAGA-ATAAACCTTTAGCGGCGCTTATT-TCAA
1 AAACGCCGCTAAAAACAT-AACCTTTAGCGGCGATT-TTATCAA
*
4868453 AAATGCCGCTAAAAACATAACCTTTA
1 AAACGCCGCTAAAAACATAACCTTTA
4868479 AAAATATATA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.04
42 38 0.67
43 17 0.30
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAAACATAACCTTTAGCGGCGATTTTATCAA
Found at i:4872906 original size:141 final size:142
Alignment explanation
Indices: 4872573--4873097 Score: 715
Period size: 141 Copynumber: 3.6 Consensus size: 142
4872563 CGGCTTTTTC
* *
4872573 CATAAAAACGCTGCAAAAAAAATTCATTTTGAACAAAACTACACCGATTTGCTA---T-T-CTAA
1 CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
* * * *
4872633 AAGGGGGCTATTTTTTAAAAGTGAAATTATTTTGTGGCGTTTTTTGTAAAAAAACGCCGCTATTT
66 AAGAGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG-TTTTT-TATAAAAACGCCGCTATTA
4872698 CTTACCTTTAGAGTCGTTTTT
129 CTTACCTTT--AG-C----TT
* *
4872719 CATAAAAACGCCG-TAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
1 CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
* * *
4872783 AACAAGGCTATTTTTTAAAAGTAAAATTATTTTGTGCCGTTTTTTATAAAAACGCCGCTATTACT
66 AAGAGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTACT
*
4872848 TATCTTTAGC-T
131 TACCTTTAGCTT
4872859 CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
1 CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
* *
4872924 AAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCT
66 AAGAGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTACT
4872989 TACCTTTAGCGGCGTTTTT
131 TACCTTTA---GC----TT
*
4873008 CATAAAAACGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
1 CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
4873072 AAGAGGGCTATTTTTTAAAAGTAAAA
66 AAGAGGGCTATTTTTTAAAAGTAAAA
4873098 AAAACGCCGC
Statistics
Matches: 343, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
140 14 0.04
141 116 0.34
144 2 0.01
145 38 0.11
146 14 0.04
148 100 0.29
149 21 0.06
150 38 0.11
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (142 bp):
CATAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTATGCTAA
AAGAGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTACT
TACCTTTAGCTT
Done.