Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 143 of 202
Found at i:44569651 original size:12 final size:12
Alignment explanation
Indices: 44569634--44569662 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44569624 ATACTTACAT
44569634 AACTTATATATA
1 AACTTATATATA
44569646 AACTTATATATA
1 AACTTATATATA
44569658 AACTT
1 AACTT
44569663 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:44569676 original size:9 final size:9
Alignment explanation
Indices: 44569658--44570014 Score: 147
Period size: 9 Copynumber: 41.4 Consensus size: 9
44569648 CTTATATATA
*
44569658 AACTTGCAT
1 AACTTACAT
44569667 AACTTACAT
1 AACTTACAT
*
44569676 AA-TAACATAAT
1 AACTTAC---AT
44569687 AACTTACAT
1 AACTTACAT
*
44569696 AA--TACAC
1 AACTTACAT
44569703 AACTTACAT
1 AACTTACAT
*
44569712 AACTTAAAT
1 AACTTACAT
44569721 AACTTACAT
1 AACTTACAT
*
44569730 -A-GTACAT
1 AACTTACAT
**
44569737 AACTTTGAT
1 AACTTACAT
*
44569746 AACTAACAT
1 AACTTACAT
* *
44569755 TA--TACAC
1 AACTTACAT
44569762 AACTTACAT
1 AACTTACAT
*
44569771 AACATACACTT
1 AACTTACA--T
*
44569782 AA-ATACAT
1 AACTTACAT
*
44569790 AACATACAT
1 AACTTACAT
44569799 AA--TACAT
1 AACTTACAT
*
44569806 AA--TACAC
1 AACTTACAT
44569813 AACTTA-ATT
1 AACTTACA-T
*
44569822 AATATTATACAT
1 -A-ACT-TACAT
*
44569834 AACATACAT
1 AACTTACAT
44569843 AA--TACAT
1 AACTTACAT
*
44569850 AA-TACACAT
1 AACT-TACAT
44569859 AACTTACAT
1 AACTTACAT
*
44569868 -A-GTACAT
1 AACTTACAT
*
44569875 AACTAACAT
1 AACTTACAT
*
44569884 AA--TACAC
1 AACTTACAT
*
44569891 AACTTACGT
1 AACTTACAT
* *
44569900 AACTGAAAT
1 AACTTACAT
44569909 AACTTACAT
1 AACTTACAT
*
44569918 AGCTTACAT
1 AACTTACAT
44569927 AA--TACAT
1 AACTTACAT
44569934 AACTTACAT
1 AACTTACAT
*
44569943 AACTTATAT
1 AACTTACAT
44569952 AA--TACAT
1 AACTTACAT
44569959 AACTTACAT
1 AACTTACAT
* *
44569968 AATTTACCT
1 AACTTACAT
44569977 AA--TACAT
1 AACTTACAT
* *
44569984 AA-ATATAT
1 AACTTACAT
* *
44569992 ATCATATCAT
1 AACTTA-CAT
44570002 AACTTACAT
1 AACTTACAT
44570011 AACT
1 AACT
44570015 CATTTATAGT
Statistics
Matches: 263, Mismatches: 51, Indels: 68
0.69 0.13 0.18
Matches are distributed among these distances:
7 64 0.24
8 16 0.06
9 152 0.58
10 14 0.05
11 10 0.04
12 6 0.02
13 1 0.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:44569804 original size:16 final size:16
Alignment explanation
Indices: 44569766--44569970 Score: 71
Period size: 16 Copynumber: 12.1 Consensus size: 16
44569756 ATACACAACT
44569766 TACATAACATACACTTAAA
1 TACATAACATACA--T-AA
44569785 TACATAACATACATAA
1 TACATAACATACATAA
* *
44569801 TACATAATACACAACTTAA
1 TACAT-A-ACA-TACATAA
**
44569820 TTA-ATATTATACATAACA
1 -TACATAACATACAT-A-A
44569838 TACAT-A-ATACATAA
1 TACATAACATACATAA
* *
44569852 TACACATAACTTACATAG
1 T--ACATAACATACATAA
44569870 TACATAAC-TAACATAA
1 TACATAACAT-ACATAA
* * *
44569886 TACACAACTTACGTAA
1 TACATAACATACATAA
* * *
44569902 CTGAAATAACTTACATAGCT
1 -T-ACATAACATACATA--A
44569922 TACAT-A-ATACATAA
1 TACATAACATACATAA
* *
44569936 CTTACATAACTTATATAA
1 --TACATAACATACATAA
*
44569954 TACATAACTTACATAA
1 TACATAACATACATAA
44569970 T
1 T
44569971 TTACCTAATA
Statistics
Matches: 143, Mismatches: 22, Indels: 45
0.68 0.10 0.21
Matches are distributed among these distances:
14 2 0.01
15 2 0.01
16 71 0.50
17 11 0.08
18 34 0.24
19 21 0.15
20 2 0.01
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.30
Consensus pattern (16 bp):
TACATAACATACATAA
Found at i:44569940 original size:25 final size:25
Alignment explanation
Indices: 44569658--44569985 Score: 209
Period size: 25 Copynumber: 13.1 Consensus size: 25
44569648 CTTATATATA
*
44569658 AACTTGCATAACTTACATAATAACATAAT
1 AACTTACATAACTTACATAAT-AC---AT
*
44569687 AACTTACATAA--TACACAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
* *
44569712 AACTTAAATAACTTACATAGTACAT
1 AACTTACATAACTTACATAATACAT
** * * *
44569737 AACTTTGATAACTAACATTATACAC
1 AACTTACATAACTTACATAATACAT
*
44569762 AACTTACATAACATACACTTAAATACAT
1 AACTTACATAACTTACA--T-AATACAT
* *
44569790 AACATACATAA--TACATAATACAC
1 AACTTACATAACTTACATAATACAT
*
44569813 AACTTA-ATTAA--T--ATTATACAT
1 AACTTACA-TAACTTACATAATACAT
*
44569834 AACATACATAA--TACATAATACACAT
1 AACTTACATAACTTACATAAT--ACAT
*
44569859 AACTTACAT-A-GTACATAACTAACAT
1 AACTTACATAACTTACATAA-T-ACAT
* * *
44569884 AA--TACACAACTTACGTAACTGAAAT
1 AACTTACATAACTTACATAA-T-ACAT
*
44569909 AACTTACATAGCTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
44569934 AACTTACATAACTTATATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
44569959 AACTTACATAATTTACCTAATACAT
1 AACTTACATAACTTACATAATACAT
44569984 AA
1 AA
44569986 ATATATATCA
Statistics
Matches: 240, Mismatches: 40, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
21 16 0.07
22 2 0.01
23 23 0.10
24 3 0.01
25 137 0.57
26 6 0.03
27 25 0.10
28 17 0.07
29 11 0.05
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:44572334 original size:43 final size:43
Alignment explanation
Indices: 44572263--44572487 Score: 283
Period size: 43 Copynumber: 5.3 Consensus size: 43
44572253 CATCAAACAA
* *
44572263 TAGCCGCGTTTGTGAGGAAA-GCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGA-TAAAGGCGCCGCTAAAGAACATGACCTT
* * * *
44572306 TAGCGGCGTTTGTTATAGAGGCGTCGCTAAAGAACGTGACCTT
1 TAGCGGCGTTTGTGATAAAGGCGCCGCTAAAGAACATGACCTT
* *
44572349 TAGCGGCGTTTGTTATAGAGGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGATAAAGGCGCCGCTAAAGAACATGACCTT
* * *
44572392 TAGCGGCGTTTGTGACAAAGGCGCCGCTAAAGAACATGATCAT
1 TAGCGGCGTTTGTGATAAAGGCGCCGCTAAAGAACATGACCTT
** * **
44572435 TAGCGGCGTTTGTGGGAAATGC-CCGCTAAAGAACATGGTCTT
1 TAGCGGCGTTTGTGATAAAGGCGCCGCTAAAGAACATGACCTT
44572477 TAGCGGCGTTT
1 TAGCGGCGTTT
44572488 ATAAAAATAA
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
42 31 0.19
43 132 0.81
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAGGCGCCGCTAAAGAACATGACCTT
Found at i:44572857 original size:10 final size:10
Alignment explanation
Indices: 44572816--44572911 Score: 51
Period size: 10 Copynumber: 9.9 Consensus size: 10
44572806 TACAAATCAT
44572816 AAAAATTATA
1 AAAAATTATA
*
44572826 AAATATT-T-
1 AAAAATTATA
* *
44572834 AGAAATATAGA
1 AAAAAT-TATA
44572845 AAAAATTAT-
1 AAAAATTATA
*
44572854 -AAAATTGTA
1 AAAAATTATA
* * *
44572863 TAAAGTCATA
1 AAAAATTATA
44572873 AGAAAATTATA
1 A-AAAATTATA
*
44572884 AAAAAATATA
1 AAAAATTATA
44572894 AAGAAA-TAT-
1 AA-AAATTATA
44572903 AAAAATTAT
1 AAAAATTAT
44572912 TGTGCCAAAA
Statistics
Matches: 64, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
8 14 0.22
9 7 0.11
10 27 0.42
11 16 0.25
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:44573102 original size:18 final size:17
Alignment explanation
Indices: 44573079--44573122 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
44573069 GTTAAAGGGC
44573079 ATTTTTATACATTTTATA
1 ATTTTTATA-ATTTTATA
* *
44573097 ATTTTTTCTAATTTTTTA
1 A-TTTTTATAATTTTATA
44573115 ATTTTTAT
1 ATTTTTAT
44573123 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTATAATTTTATA
Found at i:44573137 original size:19 final size:20
Alignment explanation
Indices: 44573115--44573161 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
44573105 TAATTTTTTA
44573115 ATTTTTATTAAAATTTAAT-
1 ATTTTTATTAAAATTTAATG
* *
44573134 ATTTTTA-TAACATTTATTG
1 ATTTTTATTAAAATTTAATG
44573153 ATTTTTATT
1 ATTTTTATT
44573162 TTTATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTATTAAAATTTAATG
Found at i:44573475 original size:92 final size:92
Alignment explanation
Indices: 44573284--44573509 Score: 262
Period size: 92 Copynumber: 2.5 Consensus size: 92
44573274 GGCTTTTTTT
* * ** *
44573284 ATGCATTTTGATAGTTCAAGTATCCAATTGAGCGC---AAAAAAAAAGTAGGGGCTAATTGCTTA
1 ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAAACAAGGGGCTAATGGCTTA
* * *
44573346 TTTTGAAAAATTTTGAGGGCATTTTTT
66 TTTTGAAAAAGTTTGAGGGCATTTCTG
* * * *
44573373 ATTCAATTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAAACAACGGG-TCAATGGTTT
1 ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAAACAAGGGGCT-AATGGCTT
* *
44573437 TTTTTGAAAAAGTTTGAGGGCCTTTCTG
65 ATTTTGAAAAAGTTTGAGGGCATTTCTG
* * *
44573465 ATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGCAAAAACAAAA
1 ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAA
44573510 GGGCTAATTG
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
89 31 0.27
91 1 0.01
92 82 0.72
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (92 bp):
ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAAACAAGGGGCTAATGGCTTA
TTTTGAAAAAGTTTGAGGGCATTTCTG
Found at i:44579083 original size:14 final size:16
Alignment explanation
Indices: 44579053--44579084 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
44579043 CTACTCTTGG
44579053 TTTAACATTCATTTGT
1 TTTAACATTCATTTGT
44579069 TTTAA-ATTC-TTTGT
1 TTTAACATTCATTTGT
44579083 TT
1 TT
44579085 CAATTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAACATTCATTTGT
Found at i:44579605 original size:25 final size:27
Alignment explanation
Indices: 44579571--44579621 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
44579561 ATATTATTAA
44579571 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
44579596 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
44579622 ACATTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:44580548 original size:43 final size:42
Alignment explanation
Indices: 44580487--44580609 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
44580477 TCGATATGTG
44580487 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTA
1 TTTTCGTGTAAGA-CACGTCTGGGACGTTGGCATCGACTTGTA
* * *
44580530 TTTTCGTGTAAGATCACGTCTAGGATGTTGGCATCGACTTGTG
1 TTTTCGTGTAAGA-CACGTCTGGGACGTTGGCATCGACTTGTA
* *
44580573 TTTACGTGTAAGACCCTGTCTGGGACAG-TGGCATCGA
1 TTTTCGTGTAAGACAC-GTCTGGGAC-GTTGGCATCGA
44580610 TCTGTAAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 67 0.96
44 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (42 bp):
TTTTCGTGTAAGACACGTCTGGGACGTTGGCATCGACTTGTA
Found at i:44587622 original size:2 final size:2
Alignment explanation
Indices: 44587615--44587643 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44587605 ATTCTTTCAA
44587615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44587644 GTTAATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44587958 original size:16 final size:17
Alignment explanation
Indices: 44587928--44587960 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
44587918 ATTTGTGATA
44587928 ATTATTACTAATTTAAT
1 ATTATTACTAATTTAAT
44587945 ATTATTAC-AATTTAAT
1 ATTATTACTAATTTAAT
44587961 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTACTAATTTAAT
Found at i:44589587 original size:26 final size:27
Alignment explanation
Indices: 44589558--44589610 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
44589548 TTTCTTTTTC
44589558 TATTTCTAA-AAATAAAT-TTCTCAACA
1 TATTTCTAATAAAT-AATCTTCTCAACA
44589584 TATTTCTAATTAAATAATCTTCTCAAC
1 TATTTCTAA-TAAATAATCTTCTCAAC
44589611 CAAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 3 0.12
28 12 0.50
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTTCTAATAAATAATCTTCTCAACA
Found at i:44589893 original size:41 final size:43
Alignment explanation
Indices: 44589848--44589928 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
44589838 TCATTTTGGA
* *
44589848 GAAAACCATAATTATTTCCAAGTG-TTT-CCATTTCTCCAATT
1 GAAAACCATAATCATTTCCAAATGATTTGCCATTTCTCCAATT
* *
44589889 GAAAACCATAATCATTTTCAAATGATTTGTCATTTCTCCA
1 GAAAACCATAATCATTTCCAAATGATTTGCCATTTCTCCA
44589929 TTTTTACCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 21 0.62
42 3 0.09
43 10 0.29
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.38
Consensus pattern (43 bp):
GAAAACCATAATCATTTCCAAATGATTTGCCATTTCTCCAATT
Found at i:44597586 original size:3 final size:3
Alignment explanation
Indices: 44597578--44597603 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44597568 ACAAACTTCT
44597578 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
44597604 TCCGCCGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:44607058 original size:20 final size:20
Alignment explanation
Indices: 44607022--44607059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44607012 TCATAAAATT
**
44607022 TTATAAAATTATTAAAATAA
1 TTATAAAATTAAGAAAATAA
44607042 TTATAAAATTAAGAAAAT
1 TTATAAAATTAAGAAAAT
44607060 TACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATAAAATTAAGAAAATAA
Found at i:44609304 original size:17 final size:16
Alignment explanation
Indices: 44609252--44609304 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
44609242 ATATTTTTTT
*
44609252 TAAAAATAATTAAATA
1 TAAAAATAATTAAAAA
* *
44609268 TGAAAAAGAA-TAATAA
1 T-AAAAATAATTAAAAA
44609284 TAAAAACTAATTAAAAA
1 TAAAAA-TAATTAAAAA
44609301 TAAA
1 TAAA
44609305 GAAAATGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
17 16 0.55
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (16 bp):
TAAAAATAATTAAAAA
Found at i:44610814 original size:44 final size:44
Alignment explanation
Indices: 44610711--44611263 Score: 281
Period size: 44 Copynumber: 12.7 Consensus size: 44
44610701 GCTTCAACCC
* * ** **
44610711 GCTCCTCTGCCACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTT-AGTCT
*
44610756 GC-CTCACTACAACTTCA-GGAGGATAAGACTTGCTTTCTTAGTCT
1 GCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTTCTTAGTCT
* * * *
44610800 GCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTAGTCT
* * * ** * * *
44610841 GCT-CTCTACAACTTCAGAGAGATAAGATCCAAG-GTT-TTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTTCTTAGTCT
* **
44610884 GCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC--T-TTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTTCTTAGTCT
* * **
44610928 GCTCCACTGTAACTT-ATGGGAGATAAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCA-GGGAGATAAGACTTGCTTTCTT-AGTCT
*
44610973 GC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCT
1 GCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTTCTTAGTCT
* * * * * *
44611017 GCTCCATTGCAACTTCAGGGAGATAAGGCTAG-ATGC-GA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTAGTCT
* * ** * * * *
44611058 ACT-CTCTGCAACTTCAAAGAGATAAGATCTAAG-GTT-TTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTTCTTAGTCT
* * * **
44611101 GCTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCATTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-TC-TTAGTCT
* * * ** *
44611145 GCTCTACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCATTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTT-AGTCT
*
44611190 GC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCT
1 GCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTTCTTAGTCT
*
44611234 GCTTCACTGCAACTTCAGGGAGATAAGACT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT
44611264 AGATGTGATC
Statistics
Matches: 390, Mismatches: 79, Indels: 79
0.71 0.14 0.14
Matches are distributed among these distances:
40 40 0.10
41 16 0.04
42 12 0.03
43 16 0.04
44 205 0.53
45 100 0.26
46 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTAGTCT
Found at i:44610991 original size:217 final size:217
Alignment explanation
Indices: 44610587--44611349 Score: 1194
Period size: 217 Copynumber: 3.5 Consensus size: 217
44610577 CTTCAATCTA
* * * * *
44610587 CTCCTCTGCAACCTCAGAGAGATAAGACT---TGCGATCTGCTCTTTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * *
44610649 GATCCTAA-GTTTTAATCCGCTCCACTGAAACTTCAGAGAGATAGGATTATCGGCTTCAACCCGC
66 GATCC-AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGC
* ** * *
44610713 TCCTCTGCCACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGG
130 TCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
*
44610778 ATAAGACTTGCTTTCTTAGTCTG
195 ATAAGACTTGCTTACTTAGTCTG
*
44610801 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
*
44610866 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAACCTGCT
66 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCT
44610931 CCACTGTAACTT-ATGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
131 CCACTGTAACTTCA-GGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
44610995 ATAAGACTTGCTTACTTAGTCTG
195 ATAAGACTTGCTTACTTAGTCTG
* * * *
44611018 CTCCATTGCAACTTCAGGGAGATAAGGCTAGATGCGATCTACTCTCTGCAACTTCAAAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
44611083 GATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCATTAACCTGCT
66 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCT
* *
44611148 CTACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCATTCTGCCTCACTGCAACTTCAGGAGGA
131 CCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
44611213 TAAGACTTGCTTACTTAGTCTG
196 TAAGACTTGCTTACTTAGTCTG
* * *
44611235 CTTCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
44611300 GATCCAAGGTTTTAATCCGCTCCACTGTAACTTCATGGAGATAGGATTAT
66 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
44611350 TGGCCACTGA
Statistics
Matches: 505, Mismatches: 38, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
214 26 0.05
216 3 0.01
217 475 0.94
218 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCT
CCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
TAAGACTTGCTTACTTAGTCTG
Found at i:44624908 original size:36 final size:34
Alignment explanation
Indices: 44624868--44624987 Score: 97
Period size: 36 Copynumber: 3.6 Consensus size: 34
44624858 TATATTTTTT
*
44624868 ATATATAAAATATTTACAAATAACATAATTTAGTGC
1 ATATATAAAA-ATTTA-AAATAATATAATTTAGTGC
** **
44624904 ATATATAAAAATTTAATTTTTTAT-ATTT--T--
1 ATATATAAAAATTTAAAATAATATAATTTAGTGC
* * *
44624933 TTATTTAAAATATTTACACATAATATAATTTAGTGC
1 ATATATAAAA-ATTTA-AAATAATATAATTTAGTGC
44624969 ATATATAAAAATTTAAAAT
1 ATATATAAAAATTTAAAAT
44624988 TATCAGTATG
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
29 8 0.13
30 5 0.08
31 6 0.10
32 4 0.06
33 4 0.06
34 8 0.13
35 10 0.16
36 18 0.29
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATATAAAAATTTAAAATAATATAATTTAGTGC
Found at i:44624961 original size:65 final size:67
Alignment explanation
Indices: 44624857--44624984 Score: 224
Period size: 65 Copynumber: 1.9 Consensus size: 67
44624847 TTTAATAAAG
44624857 TTATATTTTTTATATATAAAATATTTACAAATAACATAATTTAGTGCATATATAAAAATTTAATT
1 TTATATTTTTTATATATAAAATATTTACAAATAACATAATTTAGTGCATATATAAAAATTTAATT
44624922 TT
66 TT
* *
44624924 TTATATTTTTTAT-T-TAAAATATTTACACATAATATAATTTAGTGCATATATAAAAATTTAA
1 TTATATTTTTTATATATAAAATATTTACAAATAACATAATTTAGTGCATATATAAAAATTTAA
44624985 AATTATCAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 45 0.76
66 1 0.02
67 13 0.22
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (67 bp):
TTATATTTTTTATATATAAAATATTTACAAATAACATAATTTAGTGCATATATAAAAATTTAATT
TT
Found at i:44626266 original size:15 final size:15
Alignment explanation
Indices: 44626246--44626277 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44626236 TATTAGACTG
44626246 AAATGCTTTACTATT
1 AAATGCTTTACTATT
44626261 AAATGCTTTACTATT
1 AAATGCTTTACTATT
44626276 AA
1 AA
44626278 GTTGTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATGCTTTACTATT
Found at i:44632140 original size:63 final size:63
Alignment explanation
Indices: 44632057--44632181 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
44632047 CTGCCCGCAA
*
44632057 AGACATTCTTACACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTGG
1 AGACATTCTTACACCCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTGG
*
44632120 AGACATTCTTGCACCCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTG
1 AGACATTCTTACACCCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTG
44632182 TTACCGTCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (63 bp):
AGACATTCTTACACCCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTGG
Found at i:44632746 original size:62 final size:63
Alignment explanation
Indices: 44632649--44632773 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 63
44632639 TTATGTTATG
*
44632649 ATTTTTATTAATTCATATGTTAATAAAAATTATATTAAGA-ATGTTATTAAATTATATA-TATTT
1 ATTTTTATTAATTCATATGTTAATAAAAATTATATTAAAACATG--ATTAAATTATATATTATTT
* * *
44632712 ATTTTTATTTAATT-ATAT-TTAGTAATAATTATATTAAAACATGATTAAATTATTTATTATTT
1 ATTTTTA-TTAATTCATATGTTAATAAAAATTATATTAAAACATGATTAAATTATATATTATTT
44632774 TAAGAATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
61 12 0.22
62 23 0.42
63 14 0.25
64 6 0.11
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (63 bp):
ATTTTTATTAATTCATATGTTAATAAAAATTATATTAAAACATGATTAAATTATATATTATTT
Found at i:44632977 original size:16 final size:16
Alignment explanation
Indices: 44632956--44632995 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
44632946 TGAATTGCTT
*
44632956 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
44632972 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
44632988 ATTACAGC
1 ATTACAGC
44632996 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:44634311 original size:46 final size:47
Alignment explanation
Indices: 44634261--44634351 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 47
44634251 GAATGCAGCA
**
44634261 AACTGTATCTACAGAAATGTCG-AGAATTGTATTGTAGAA-TATTGTG
1 AACTGTATCTACAGAAACATCGCA-AATTGTATTGTAGAATTATTGTG
* *
44634307 AACTGTATTTACAGAAACATTGCAAATTGTATTGTAGAATTATTG
1 AACTGTATCTACAGAAACATCGCAAATTGTATTGTAGAATTATTG
44634352 CAATCTGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
46 33 0.85
47 6 0.15
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (47 bp):
AACTGTATCTACAGAAACATCGCAAATTGTATTGTAGAATTATTGTG
Found at i:44634351 original size:23 final size:21
Alignment explanation
Indices: 44634285--44634364 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 21
44634275 AAATGTCGAG
*
44634285 AATTGTATTGTAGAATATTGTG
1 AATTGTATTGTAGAATATTG-C
* *
44634307 AACTGTATT-TACAGAAACATTGC
1 AATTGTATTGT--AG-AATATTGC
44634330 AAATTGTATTGTAGAATTATTGC
1 -AATTGTATTGTAGAA-TATTGC
44634353 AATCTGTATTGT
1 AAT-TGTATTGT
44634365 TTGTATTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
21 1 0.02
22 13 0.28
23 17 0.37
24 14 0.30
25 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (21 bp):
AATTGTATTGTAGAATATTGC
Found at i:44634392 original size:32 final size:32
Alignment explanation
Indices: 44634333--44634394 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
44634323 ACATTGCAAA
***
44634333 TTGTATTGTAGAATTATTGCAATCTGTATTGT
1 TTGTATTGTAGAATTACCACAATCTGTATTGT
44634365 TTGTATTGTAGAATTACCACGAA-CTGTATT
1 TTGTATTGTAGAATTACCAC-AATCTGTATT
44634395 TACAGAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (32 bp):
TTGTATTGTAGAATTACCACAATCTGTATTGT
Found at i:44635007 original size:54 final size:54
Alignment explanation
Indices: 44634599--44635003 Score: 452
Period size: 54 Copynumber: 7.5 Consensus size: 54
44634589 ATTAGCGAAT
* * * * *
44634599 TGTGAGATTTGTAAAATCCTGTAAGTAGAAGGTCATGATTGTAAGTCAGAGGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
* * * *
44634653 TTTGAGATTCGTAAAATCTCGTAAGTAGAAA-GTCATGATCGTAAATCAGCAGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTA-AAAGGTCATGATTGTAAATCAGCGGAC
* * *
44634707 TGTGATATTCGTAAAATCCAGTAAGTAAAAGGTCATGATTGTAAATCAGCAGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
* ** *
44634761 TGTGAGATTCATAAAATCCCGTAAGTAAAAGGTCATGAAGGTAAATCAGCAGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
* * * * *
44634815 TGTGAGATTCATAAAATCCCGAAAGTAAAAAGTCGTGATTGTAAATCAGTGGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
** * ** * * * *
44634869 CATGAGATTCATAAAATCCCAAAATTAAAAGGTCGTGGTTGTAAATCAGTGGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
* * * * * *
44634923 TGTGAGATTTGTAAAATCTCGAAAATAGAAGGTCATGATTGTAAATCAGTGGAC
1 TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
* *
44634977 CGTGAGATTCGTAAAATCACGTAAGTA
1 TGTGAGATTCGTAAAATCCCGTAAGTA
44635004 GAAGCCACTT
Statistics
Matches: 302, Mismatches: 47, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.01
54 297 0.98
55 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (54 bp):
TGTGAGATTCGTAAAATCCCGTAAGTAAAAGGTCATGATTGTAAATCAGCGGAC
Found at i:44637465 original size:46 final size:46
Alignment explanation
Indices: 44637365--44637659 Score: 510
Period size: 46 Copynumber: 6.5 Consensus size: 46
44637355 GTATGATCAA
* *
44637365 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
44637408 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
44637454 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
44637499 TTATCACTTTGTCACTTGATCAGATAAGTGTAG-TTAGGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
44637544 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
44637590 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
44637636 TTATCACTTTGTCACTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
44637660 AGTACTCAAA
Statistics
Matches: 242, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
43 7 0.03
44 6 0.02
45 105 0.43
46 124 0.51
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:44637483 original size:91 final size:91
Alignment explanation
Indices: 44637365--44637659 Score: 524
Period size: 91 Copynumber: 3.3 Consensus size: 91
44637355 GTATGATCAA
*
44637365 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
44637428 CAGATAAGTGTAGCTAAAGCTACCAC
66 CAGATAAGTGTAGCTAAAGCTACCAC
44637454 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
* *
44637519 CAGATAAGTGTAG-TTAGGCTACCAC
66 CAGATAAGTGTAGCTAAAGCTACCAC
*
44637544 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTGA
44637609 TCAGATAAGTGTAGCTAAAGCTACCAC
65 TCAGATAAGTGTAGCTAAAGCTACCAC
44637636 TTATCACTTTGTCACTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
44637660 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
89 7 0.04
90 50 0.26
91 105 0.54
92 34 0.17
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (91 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
CAGATAAGTGTAGCTAAAGCTACCAC
Found at i:44637623 original size:136 final size:137
Alignment explanation
Indices: 44637365--44637659 Score: 542
Period size: 136 Copynumber: 2.2 Consensus size: 137
44637355 GTATGATCAA
*
44637365 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
*
44637428 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGG
66 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
44637492 CTACCAC
131 CTACCAC
*
44637499 TTATCACTTTGTCACTTGATCAGATAAGTGTAGTTAGGCTACCACTTATCACTTTGTCACTTGAT
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
44637564 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
66 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
44637629 CTACCAC
131 CTACCAC
44637636 TTATCACTTTGTCACTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
44637660 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 7 0.05
135 5 0.03
136 110 0.71
137 33 0.21
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (137 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAT
CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
CTACCAC
Found at i:44640026 original size:41 final size:41
Alignment explanation
Indices: 44639976--44640337 Score: 392
Period size: 41 Copynumber: 8.9 Consensus size: 41
44639966 TTCTAATCTT
**
44639976 TCGGGGCTTTAGCGGTATTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
44640017 TTGGGGCTTTAGTGGTGTTTTTGAAAAAGCGCCGGTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
44640058 TCGGGGCTTTCGCAGCGTTTTTGGAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
44640099 TCGAGGCTTTCGCGGCGTTTTT-GAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * * * * * *
44640139 TCGAAGATTTAGCGACATTTTTGAAAAAGGGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
44640180 TCGGGGCTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
**
44640221 TCGGGGCTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
* * * *
44640262 TCGGGACTTTAGCGGCGTTTTCCAGG--AAGCACCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTT--TGGAAAAGCGCCGCTAATGC
*
44640303 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
44640338 AAAAAAAATT
Statistics
Matches: 270, Mismatches: 44, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.00
40 40 0.15
41 226 0.84
42 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:44640217 original size:122 final size:120
Alignment explanation
Indices: 44639980--44640337 Score: 401
Period size: 122 Copynumber: 2.9 Consensus size: 120
44639970 AATCTTTCGG
** * * * *
44639980 GGCTTTAGCGGTATTTTTGGAAAAGCGCCGCTAATGCTTGGGGCTTTAGTGGTGTTTTTGAAAAA
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGC-TCGGGATTTAGCGGCGTTTTTGAAAAA
** * * * *
44640045 GCGCCGGTAATGCTCGGGGCTTTCGCAGCGTTTTTGGAAAAGCGCTGCTAATGCTCGA
64 GCGCCACTAATGCTCGGGGCTTTAGCGGCG-TTTTCGAAAAGCGCCGCTAATGCTCGA
* * * *
44640103 GGCTTTCGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGAAGATTTAGCGACATTTTTGAAAAAG
1 GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCG-GGATTTAGCGGCGTTTTTGAAAAAG
* * *
44640168 GGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTCGG
65 CGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCGAA-AAGCGCCGCTAATGCTCGA
** ** **
44640225 GGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTCGGGACTTTAGCGGCGTTTTCCAGGAA
1 GGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGGGA-TTTAGCGGCGTTTTTGAAAAA
* *
44640290 GCACCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
64 GCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCG-AAAAGCGCCGC
44640338 AAAAAAAATT
Statistics
Matches: 197, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
121 8 0.04
122 98 0.50
123 89 0.45
124 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (120 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGGGATTTAGCGGCGTTTTTGAAAAAGC
GCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCGAAAAGCGCCGCTAATGCTCGA
Found at i:44640260 original size:163 final size:163
Alignment explanation
Indices: 44639983--44640335 Score: 413
Period size: 163 Copynumber: 2.2 Consensus size: 163
44639973 CTTTCGGGGC
** * * * * * **
44639983 TTTAGCGGTATTTTTGGAAAAGCGCCGCTAATGCTTGGGGCTTTAGTGGTGTTTTTGAAAAAGCG
1 TTTAGCGACATTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAAAAGCG
* * ** * *
44640048 CCGGTAATGCTCGGGGCTTTCGCAGCGTTTTTGGAAAAGCGCTGCTAATGCTCGAGG-CTTTCGC
66 CCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTCCAAAAGCGCCGCTAATGCTCG-GGACTTTAGC
44640112 GGCGTTTTTGAAAAGCGCCGCTAATGCTCGAAGA
130 GGCGTTTTTGAAAAGCGCCGCTAATGCTCGAAGA
* *
44640146 TTTAGCGACATTTTTGAAAAAGGGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAGAAGCG
1 TTTAGCGACATTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAAAAGCG
*
44640211 CCGCTAATGCTCGGGGCTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGCTCGGGACTTTAGC
66 CCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTCCAA-AAGCGCCGCTAATGCTCGGGACTTTAGC
** * * * ** *
44640275 GGCGTTTTCCAGGAAGCACCACTAATGCTCGGGGC
130 GGCGTTTTTGA-AAAGCGCCGCTAATGCTCGAAGA
* *
44640310 TTTAGCGGCGTTTTTGAAAAAGCGCC
1 TTTAGCGACATTTTTGAAAAAGCGCC
44640336 GCAAAAAAAA
Statistics
Matches: 158, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
162 8 0.05
163 110 0.70
164 40 0.25
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (163 bp):
TTTAGCGACATTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAAAAGCG
CCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTCCAAAAGCGCCGCTAATGCTCGGGACTTTAGCG
GCGTTTTTGAAAAGCGCCGCTAATGCTCGAAGA
Found at i:44640975 original size:21 final size:21
Alignment explanation
Indices: 44640935--44640979 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44640925 TAAGTAAGAT
* *
44640935 TTAGGGGTTTGTAGTTAAAGG
1 TTAGGGGTTTGGAGTGAAAGG
*
44640956 TTAGGGGTTTGGGGTGAAAGG
1 TTAGGGGTTTGGAGTGAAAGG
44640977 TTA
1 TTA
44640980 AGAGTTAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (21 bp):
TTAGGGGTTTGGAGTGAAAGG
Found at i:44641728 original size:18 final size:17
Alignment explanation
Indices: 44641705--44641738 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44641695 TTCTACAAAA
*
44641705 TAATTTCTAATAAAAATT
1 TAATTTATAA-AAAAATT
44641723 TAATTTATAAAAAAAT
1 TAATTTATAAAAAAAT
44641739 AATAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTTATAAAAAAATT
Found at i:44642750 original size:56 final size:57
Alignment explanation
Indices: 44642628--44642767 Score: 237
Period size: 56 Copynumber: 2.4 Consensus size: 57
44642618 TTCTGCATCC
44642628 TTTTGTTCAATTGCATATTGGATTGTCATATATGTGTGTGTGTGTGTGTGTTGTCATATA
1 TTTTGTTCAATTGCATATTGGATTGTCATATA---GTGTGTGTGTGTGTGTTGTCATATA
44642688 TTTTGTTCAATTGCATATTGGATTGTCATATA-TGTGTGTGTGTGTGTTGTCATATA
1 TTTTGTTCAATTGCATATTGGATTGTCATATAGTGTGTGTGTGTGTGTTGTCATATA
*
44642744 TTTTGTTCAATTGCATATTTGATT
1 TTTTGTTCAATTGCATATTGGATT
44642768 TTGAGGTTTT
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
56 47 0.59
60 32 0.41
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.51
Consensus pattern (57 bp):
TTTTGTTCAATTGCATATTGGATTGTCATATAGTGTGTGTGTGTGTGTTGTCATATA
Found at i:44645948 original size:44 final size:43
Alignment explanation
Indices: 44645867--44646023 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
44645857 TTTTTGTGAG
* * * *
44645867 AAGCGTCGCTAAAGGT-TTGTTCTTTAGCGGCGATTGTGATAAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGAT-AA
*
44645910 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAA
* *
44645953 AAGCGCCGATAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAA
44645996 AAGCGCCGCTAAAGGTCATGATCTTTAG
1 AAGCGCCGCTAAAGGTCATGATCTTTAG
44646024 TGGTGTTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
43 83 0.81
44 20 0.19
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAA
Found at i:44646905 original size:18 final size:20
Alignment explanation
Indices: 44646871--44646910 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
44646861 TAAATTATTA
44646871 TTGTTAATAGTAATTTA-AT
1 TTGTTAATAGTAATTTATAT
*
44646890 TTGTTAA-AGTATTTTATAT
1 TTGTTAATAGTAATTTATAT
44646909 TT
1 TT
44646911 TCTACTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
TTGTTAATAGTAATTTATAT
Found at i:44652861 original size:48 final size:48
Alignment explanation
Indices: 44652790--44652885 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
44652780 CACCATTCAT
* *
44652790 TTGCAAAATTTTAGTATTGTATTGGAATCACCATGGTAACTATATTGG
1 TTGCAAAATCTTAGTATTGTATTGGAATCACCATGGTAAATATATTGG
* * *
44652838 TTGCAAAATCTTAGTATTTTATTGGAATCGCCATGGTAAATGTATTGG
1 TTGCAAAATCTTAGTATTGTATTGGAATCACCATGGTAAATATATTGG
44652886 AATCACCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (48 bp):
TTGCAAAATCTTAGTATTGTATTGGAATCACCATGGTAAATATATTGG
Found at i:44653050 original size:74 final size:75
Alignment explanation
Indices: 44652878--44653116 Score: 383
Period size: 75 Copynumber: 3.2 Consensus size: 75
44652868 CCATGGTAAA
* * * *
44652878 TGTATTGGAATCACCATTCATTTACATTTGCAAAATCTTAGTACTGTATCTGCAAAATCTTCGTT
1 TGTATTGGAATCACCATTCATTTGCATTTGCAAAATCTTAGTACTATATCTGCAAAATCTTTGTA
44652943 ATCTTAGTAT
66 ATCTTAGTAT
44652953 TGTATTGGAATCACCATTCATTTGCATTTGCAAAATCTTAGTACTATATCT-CAAAATCTTTGTA
1 TGTATTGGAATCACCATTCATTTGCATTTGCAAAATCTTAGTACTATATCTGCAAAATCTTTGTA
44653017 ATCTTAGTAT
66 ATCTTAGTAT
* * *
44653027 TGTATTGGAATCGCCATTAATTTGCATTTGCGAAATCTTAGTACTATAAT-TGCAAAATCTTTGT
1 TGTATTGGAATCACCATTCATTTGCATTTGCAAAATCTTAGTACTAT-ATCTGCAAAATCTTTGT
*
44653091 AATCCTAGTAT
65 AATCTTAGTAT
44653102 TGTATTGGAATCACC
1 TGTATTGGAATCACC
44653117 GTGGTAGTAC
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
74 66 0.43
75 87 0.57
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (75 bp):
TGTATTGGAATCACCATTCATTTGCATTTGCAAAATCTTAGTACTATATCTGCAAAATCTTTGTA
ATCTTAGTAT
Found at i:44653124 original size:25 final size:25
Alignment explanation
Indices: 44653096--44653147 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
44653086 TTTGTAATCC
* * *
44653096 TAGTATTGTATTGGAATCACCGTGG
1 TAGTACTGTATTGGAATAACCATGG
44653121 TAGTACTGTATTGGAATAACCATGG
1 TAGTACTGTATTGGAATAACCATGG
44653146 TA
1 TA
44653148 ACTTCTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
TAGTACTGTATTGGAATAACCATGG
Found at i:44654943 original size:21 final size:22
Alignment explanation
Indices: 44654919--44654967 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
44654909 AGACTAATTT
44654919 GAAACAAAACA-GAAAAATATG
1 GAAACAAAACATGAAAAATATG
* * *
44654940 GAAAAAAAACATGAAAATTTTG
1 GAAACAAAACATGAAAAATATG
44654962 GAAACA
1 GAAACA
44654968 TGGGTCACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.63, C:0.08, G:0.14, T:0.14
Consensus pattern (22 bp):
GAAACAAAACATGAAAAATATG
Found at i:44658120 original size:28 final size:29
Alignment explanation
Indices: 44658079--44658137 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
44658069 CTCTTTAGAG
44658079 GTGTCACCCCATAAAGCCTATTAACCACC
1 GTGTCACCCCATAAAGCCTATTAACCACC
44658108 GTGTC-CCCCATAAAGCCTATTAACCACC
1 GTGTCACCCCATAAAGCCTATTAACCACC
44658136 GT
1 GT
44658138 CGCGGTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (29 bp):
GTGTCACCCCATAAAGCCTATTAACCACC
Found at i:44659268 original size:11 final size:11
Alignment explanation
Indices: 44659251--44659292 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
44659241 TATTTTTTTC
44659251 ACTATTTTGCT
1 ACTATTTTGCT
* *
44659262 ACCATTTTTCT
1 ACTATTTTGCT
*
44659273 ATTATTTTGCT
1 ACTATTTTGCT
44659284 ACTATTTTG
1 ACTATTTTG
44659293 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:44659299 original size:22 final size:22
Alignment explanation
Indices: 44659219--44659300 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
44659209 TTATTTTTTT
* *
44659219 TACTGTTTTGTTGTTATTTT-C
1 TACTATTTTGTTATTATTTTGC
* *
44659240 T--TATTTTTTTCACTATTTTGC
1 TACTATTTTGTT-ATTATTTTGC
*
44659261 TACCATTTT-TCTATTATTTTGC
1 TACTATTTTGT-TATTATTTTGC
*
44659283 TACTATTTTGTTGTTATT
1 TACTATTTTGTTATTATT
44659301 GTTTGGGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.15
20 6 0.13
21 3 0.06
22 24 0.51
23 7 0.15
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (22 bp):
TACTATTTTGTTATTATTTTGC
Found at i:44659424 original size:11 final size:11
Alignment explanation
Indices: 44659404--44659434 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
44659394 AAGTATACAT
44659404 ATTT-TTTTAA
1 ATTTGTTTTAA
44659414 ATTTGTTTTAA
1 ATTTGTTTTAA
44659425 ATTTGTTTTA
1 ATTTGTTTTA
44659435 GTGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (11 bp):
ATTTGTTTTAA
Found at i:44659993 original size:8 final size:8
Alignment explanation
Indices: 44659976--44660021 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 8
44659966 TTAATGAGAT
44659976 AAAAAT-A
1 AAAAATAA
44659983 AAAAATAA
1 AAAAATAA
44659991 AAAAATAAA
1 AAAAAT-AA
*
44660000 AAAAATATG
1 AAAAATA-A
44660009 AAAAATAA
1 AAAAATAA
44660017 AAAAA
1 AAAAA
44660022 CCAACTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 6 0.18
8 13 0.38
9 15 0.44
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:44662851 original size:27 final size:27
Alignment explanation
Indices: 44662821--44662876 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
44662811 ATAGCAATCC
* * *
44662821 ACCCTGTATTTGTTGTCCTGGGGGACT
1 ACCCTGTATTTATTGTCCCGGCGGACT
*
44662848 ACCCTGTCTTTATTGTCCCGGCGGACT
1 ACCCTGTATTTATTGTCCCGGCGGACT
44662875 AC
1 AC
44662877 ATATGCTGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.34
Consensus pattern (27 bp):
ACCCTGTATTTATTGTCCCGGCGGACT
Found at i:44663303 original size:45 final size:45
Alignment explanation
Indices: 44663239--44663329 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
44663229 ATACACAATC
44663239 CAAATACATTATCCATTCATCTAATAGTGATAAAGAATGCCAAAT
1 CAAATACATTATCCATTCATCTAATAGTGATAAAGAATGCCAAAT
44663284 CAAATACATTATCCATTCATCTAATAGTGATAAAGAATGCCAAAT
1 CAAATACATTATCCATTCATCTAATAGTGATAAAGAATGCCAAAT
44663329 C
1 C
44663330 CATAACTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.29
Consensus pattern (45 bp):
CAAATACATTATCCATTCATCTAATAGTGATAAAGAATGCCAAAT
Found at i:44674693 original size:83 final size:87
Alignment explanation
Indices: 44674562--44674752 Score: 230
Period size: 83 Copynumber: 2.2 Consensus size: 87
44674552 TTGAACCATA
* *
44674562 AGTG-TTGCAGGTTAATACACTGCTAGTAGTTGTGAATACACAACGGG-T-T-TAATAGCTACCA
1 AGTGTTTGCAGGTTAATACACCGCCAGTAGTTGTGAATACACAACGGGTTGTATAATAGCTACCA
44674623 GT-AAAAAATGGATAAACCACT
66 GTAAAAAAATGGATAAACCACT
** * * * *
44674644 AGTGTTTGCAGGTTAATATGCCGCCAGTGGTTGTGAATACAGAATGGGTTTGTAGATAATAGCTG
1 AGTGTTTGCAGGTTAATACACCGCCAGTAGTTGTGAATACACAACGGG-TTGT--ATAATAGCTA
* *
44674709 TCAGTAAAAAAATGGATAAACCTCT
63 CCAGTAAAAAAATGGATAAACCACT
44674734 AGTGTTTGCAGGTTAATAC
1 AGTGTTTGCAGGTTAATAC
44674753 GTTGTCAGTG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
82 4 0.04
83 36 0.40
85 1 0.01
86 1 0.01
89 12 0.13
90 36 0.40
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (87 bp):
AGTGTTTGCAGGTTAATACACCGCCAGTAGTTGTGAATACACAACGGGTTGTATAATAGCTACCA
GTAAAAAAATGGATAAACCACT
Found at i:44681376 original size:36 final size:36
Alignment explanation
Indices: 44681328--44681398 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
44681318 ATCAAAGGTT
*
44681328 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
44681364 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
44681399 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:44685699 original size:36 final size:36
Alignment explanation
Indices: 44685651--44685721 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
44685641 ATCAAAGGCT
*
44685651 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
44685687 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
44685722 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:44689653 original size:102 final size:102
Alignment explanation
Indices: 44689521--44689724 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
44689511 GGTTCGCGGA
*
44689521 GTAGATCGCAATTGGAGGTTCGTAAGATTTATATACATAAAGTTATTCATGTTATGTCTGTCTGC
1 GTAGATCACAATTGGAGGTTCGTAAGATTTATATACATAAAGTTATTCATGTTATGTCTGTCTGC
44689586 AAGATCTATTGTATTTCATTTGATTACTTTTTGTTCG
66 AAGATCTATTGTATTTCATTTGATTACTTTTTGTTCG
44689623 GTAGATCACAATTGGAGGTTCGTAAGATTTATATACATAAAGTTATTCATGTTATGTCTGTCTGC
1 GTAGATCACAATTGGAGGTTCGTAAGATTTATATACATAAAGTTATTCATGTTATGTCTGTCTGC
44689688 AAGATCTATTGTATTTCATTTGATTACTTTTTGTTCG
66 AAGATCTATTGTATTTCATTTGATTACTTTTTGTTCG
44689725 AGCCAACTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (102 bp):
GTAGATCACAATTGGAGGTTCGTAAGATTTATATACATAAAGTTATTCATGTTATGTCTGTCTGC
AAGATCTATTGTATTTCATTTGATTACTTTTTGTTCG
Found at i:44700225 original size:27 final size:28
Alignment explanation
Indices: 44700157--44700226 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
44700147 ATGAGGAAAT
44700157 AATAGCCTTTGTGGTGAAGTTATGAAGG
1 AATAGCCTTTGTGGTGAAGTTATGAAGG
** *
44700185 AATAGCCTCAGTGGTGAA-TTTTGTAAGG
1 AATAGCCTTTGTGGTGAAGTTATG-AAGG
44700213 -ATAGCCTTTGTGGT
1 AATAGCCTTTGTGGT
44700227 ACACTTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 16 0.44
28 20 0.56
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (28 bp):
AATAGCCTTTGTGGTGAAGTTATGAAGG
Found at i:44707004 original size:20 final size:21
Alignment explanation
Indices: 44706979--44707032 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
44706969 TTAGAAATTG
*
44706979 GTATTGATACTTGTAA-GAGA
1 GTATTGATACTTGTAATGAAA
* * *
44706999 GTATTGACACCT-TAATTAAA
1 GTATTGATACTTGTAATGAAA
44707019 GTATTGATACTTGT
1 GTATTGATACTTGT
44707033 TGATTCAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.12
20 22 0.85
21 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (21 bp):
GTATTGATACTTGTAATGAAA
Found at i:44716608 original size:20 final size:20
Alignment explanation
Indices: 44716583--44716631 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44716573 CTATTGCCTC
*
44716583 TGTCCCTTCCACCATGG-TGT
1 TGTCCCTTCCACCA-GGCTAT
*
44716603 TGTCCCTTCCAGCAGGCTAT
1 TGTCCCTTCCACCAGGCTAT
44716623 TGTCCCTTC
1 TGTCCCTTC
44716632 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.10, C:0.37, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTCCCTTCCACCAGGCTAT
Found at i:44716743 original size:17 final size:16
Alignment explanation
Indices: 44716706--44716755 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
44716696 GGAAAAGAGA
44716706 AAGAAAAGAGAGAAAG
1 AAGAAAAGAGAGAAAG
*
44716722 GAGAAGAAGAGA-AGAAG
1 AAGAA-AAGAGAGA-AAG
*
44716739 AAG-AAAGAAAGAAAG
1 AAGAAAAGAGAGAAAG
44716754 AA
1 AA
44716756 AGAAGGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 10 0.36
16 7 0.25
17 11 0.39
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAGAGAAAG
Found at i:44717046 original size:21 final size:21
Alignment explanation
Indices: 44717020--44717060 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
44717010 TTTAAATTTG
44717020 TAAGACTTCAATATTATATTA
1 TAAGACTTCAATATTATATTA
44717041 TAAGACTTCAATATTATATT
1 TAAGACTTCAATATTATATT
44717061 TGAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAGACTTCAATATTATATTA
Found at i:44717529 original size:16 final size:16
Alignment explanation
Indices: 44717508--44717546 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
44717498 TTAACTCATT
44717508 TAATTTTTATATAATA
1 TAATTTTTATATAATA
44717524 TAATTTTTATATAATA
1 TAATTTTTATATAATA
44717540 TAATTTT
1 TAATTTT
44717547 ATTTGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:44720548 original size:57 final size:55
Alignment explanation
Indices: 44720458--44720566 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 55
44720448 TTATTAAAAG
* * *
44720458 AAAAAATAATATAAAAATTTATTGGCGCTTGTCAGATAGGCGCGATTAAAAAGAA
1 AAAAAATAATATAAAAATTCATTGGCGCCTGTCAGATAGGCGCCATTAAAAAGAA
44720513 AAAAAATTAATATAAAAAATTCATTGGCGCCTGTCAGATAGGCGCCATTAAAAA
1 AAAAAA-TAATAT-AAAAATTCATTGGCGCCTGTCAGATAGGCGCCATTAAAAA
44720567 AAACATATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
55 6 0.12
56 6 0.12
57 37 0.76
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.25
Consensus pattern (55 bp):
AAAAAATAATATAAAAATTCATTGGCGCCTGTCAGATAGGCGCCATTAAAAAGAA
Found at i:44720704 original size:17 final size:16
Alignment explanation
Indices: 44720682--44720756 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 16
44720672 ATTGGCTCGT
44720682 AAATAAAAAAATATAAA
1 AAATAAAAAAATA-AAA
*
44720699 AAATAAAAATATAAAGA
1 AAATAAAAAAATAAA-A
44720716 GAAATGAAATTAAAATAAAA
1 -AAAT-AAA--AAAATAAAA
*
44720736 ACATAAGAAAAATAATAA
1 AAATAA-AAAAATAA-AA
44720754 AAA
1 AAA
44720757 GATTGTAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
16 2 0.04
17 20 0.43
18 10 0.21
19 7 0.15
20 1 0.02
21 7 0.15
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (16 bp):
AAATAAAAAAATAAAA
Found at i:44721105 original size:7 final size:7
Alignment explanation
Indices: 44721093--44721122 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
44721083 ATTGTGGGTG
44721093 AGTGAGC
1 AGTGAGC
44721100 AGTGAGC
1 AGTGAGC
44721107 AGTGAGC
1 AGTGAGC
44721114 AGTGAGC
1 AGTGAGC
44721121 AG
1 AG
44721123 AGGCTCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.43, T:0.13
Consensus pattern (7 bp):
AGTGAGC
Found at i:44721957 original size:11 final size:11
Alignment explanation
Indices: 44721919--44721979 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
44721909 AAAATCCTTT
*
44721919 CTCTC-AATTT
1 CTCTCAAATTC
44721929 CTCTCTAATATT-
1 CTCTC-AA-ATTC
44721941 CTCTCAAATTC
1 CTCTCAAATTC
44721952 CTCTCAAATTC
1 CTCTCAAATTC
44721963 CTCTCAAATTC
1 CTCTCAAATTC
44721974 CTCTCA
1 CTCTCA
44721980 TTCCTATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.17
11 30 0.64
12 6 0.13
13 3 0.06
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:44724092 original size:51 final size:49
Alignment explanation
Indices: 44723966--44724201 Score: 208
Period size: 51 Copynumber: 4.7 Consensus size: 49
44723956 GTGATGGTCA
* * * **
44723966 CGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGAAATG-TCG
1 CGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GGAT-AGTTGATCG
* * * * *
44724016 CATGTGCAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCG
1 CGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAG-TT-GATCG
* * * *
44724067 CGTTTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATA-TTAATGG
1 CGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTTGATCG
* * * *
44724115 TCATGTGTGTAGTACTATGTGCAAGCTACTACGTGAACTGGAAAGTTTGATCA
1 -C--GTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAG-TTGATCG
44724168 CGTGTGTAGTACTATGTG-AAGGCTACTACGTGTA
1 CGTGTGTAGTACTATGTGCAA-GCTACTACGTGTA
44724202 TCGAATGATA
Statistics
Matches: 151, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
48 4 0.03
49 9 0.06
50 61 0.40
51 72 0.48
52 1 0.01
53 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
CGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTTGATCG
Found at i:44724231 original size:101 final size:101
Alignment explanation
Indices: 44723963--44724239 Score: 301
Period size: 101 Copynumber: 2.7 Consensus size: 101
44723953 AAAGTGATGG
* * ** *
44723963 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGA-AATGTCGCATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGTCAAATGTGTAGTA
* * * *
44724027 CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 CTATGTGCAAGCTACTACGCGAACCGGAAAGCTTCGA
* * * **
44724064 TCGCGTTTGTAGTACTATGTGCAA-GCTACTACGTGTATCGGAT-ATTAATGGTCATGTGTGTAG
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGAATGA-TAAT-GTCAAATGTGTAG
* * *
44724127 TACTATGTGCAAGCTACTACGTGAACTGGAAAG-TTTGA
63 TACTATGTGCAAGCTACTACGCGAACCGGAAAGCTTCGA
* * *
44724165 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT-GTCAAATGTGTAGTA
44724230 CTATGTGCAA
65 CTATGTGCAA
44724240 ACCACCGAAT
Statistics
Matches: 145, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
99 1 0.01
100 5 0.03
101 101 0.70
102 38 0.26
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGTCAAATGTGTAGTAC
TATGTGCAAGCTACTACGCGAACCGGAAAGCTTCGA
Found at i:44726096 original size:7 final size:7
Alignment explanation
Indices: 44726084--44726109 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44726074 TAGTCGATTG
44726084 GTATTTA
1 GTATTTA
44726091 GTATTTA
1 GTATTTA
44726098 GTATTTA
1 GTATTTA
44726105 GTATT
1 GTATT
44726110 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:44726787 original size:18 final size:18
Alignment explanation
Indices: 44726764--44726806 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
44726754 TGCTAGGTAC
*
44726764 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTTTAT
44726782 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTTTAT
*
44726800 GTTTCCT
1 GTATCCT
44726807 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTTTAT
Found at i:44727093 original size:21 final size:21
Alignment explanation
Indices: 44727069--44727108 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44727059 CTACCGAAGG
*
44727069 AACCAGAATCCCT-GCCGGAGT
1 AACCACAA-CCCTCGCCGGAGT
44727090 AACCACAACCCTCGCCGGA
1 AACCACAACCCTCGCCGGA
44727109 AGCTGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.40, G:0.20, T:0.10
Consensus pattern (21 bp):
AACCACAACCCTCGCCGGAGT
Found at i:44730699 original size:126 final size:126
Alignment explanation
Indices: 44730474--44730764 Score: 433
Period size: 126 Copynumber: 2.3 Consensus size: 126
44730464 CCAAACATGC
* * *
44730474 GCTACTGTAGTAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGTTGACAAAGCATCAT
1 GCTACAGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
* *
44730539 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
* * * *
44730600 GCTACAGTAGCAAAAGCGTGTCCATGTAGGAGTTTCTTTCAGTACTAT-TGCTGACAAAGCATCT
1 GCTACAGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCA
* * *
44730664 TGTTTAAAGCTTTTTTGACACTATTTGCTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
65 TGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
*
44730726 GCTACTA-TAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 GCTAC-AGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTT
44730765 AAATTAAAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
126 145 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
GCTACAGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
Found at i:44730805 original size:7 final size:7
Alignment explanation
Indices: 44730793--44730818 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44730783 ATTAAGTAAT
44730793 CCTAAAC
1 CCTAAAC
44730800 CCTAAAC
1 CCTAAAC
44730807 CCTAAAC
1 CCTAAAC
44730814 CCTAA
1 CCTAA
44730819 TTTATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:44731862 original size:22 final size:22
Alignment explanation
Indices: 44731818--44731862 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44731808 TTTTTACTCT
* * *
44731818 TTTTTTTACTATTTTATTGTTA
1 TTTTTTTACTATTTCACTATTA
44731840 TTTTTTTACTATTTCACTATTA
1 TTTTTTTACTATTTCACTATTA
44731862 T
1 T
44731863 GTTGATACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTACTATTTCACTATTA
Found at i:44741431 original size:32 final size:32
Alignment explanation
Indices: 44741394--44741454 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
44741384 GTGTTCGTGT
44741394 ATGAATGAAAGAGACTGAGGTTTATGTAATGC
1 ATGAATGAAAGAGACTGAGGTTTATGTAATGC
44741426 ATGAATGAAAGAGACTGAGGTTTATGTAA
1 ATGAATGAAAGAGACTGAGGTTTATGTAA
44741455 CACTCCAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.28, T:0.28
Consensus pattern (32 bp):
ATGAATGAAAGAGACTGAGGTTTATGTAATGC
Found at i:44752611 original size:30 final size:30
Alignment explanation
Indices: 44752576--44752645 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
44752566 CCATCAAATA
*
44752576 ATGAAAAGGGATTGCTTCTGA-TATCGAGCT
1 ATGAAAAGGGATAGCTTC-GACTATCGAGCT
* *
44752606 TTGAAAAGTGATAGCTTCGACTATCGAGCT
1 ATGAAAAGGGATAGCTTCGACTATCGAGCT
44752636 ATGAAAAGGG
1 ATGAAAAGGG
44752646 TTGGGACAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAGCT
Found at i:44759306 original size:30 final size:31
Alignment explanation
Indices: 44759238--44759311 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
44759228 ATCATCGGCT
*
44759238 AATGAAAAGGGATAGCTTCGGCTATCAAAAC
1 AATGAAAAGGGATAGCCTCGGCTATCAAAAC
*
44759269 AATGAAAAGGGATAGCCTCGGCTATC-AAAT
1 AATGAAAAGGGATAGCCTCGGCTATCAAAAC
*
44759299 TATGAAAAGGGAT
1 AATGAAAAGGGAT
44759312 GGTGACGACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (31 bp):
AATGAAAAGGGATAGCCTCGGCTATCAAAAC
Found at i:44759326 original size:30 final size:30
Alignment explanation
Indices: 44759292--44759476 Score: 94
Period size: 30 Copynumber: 6.2 Consensus size: 30
44759282 AGCCTCGGCT
44759292 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTGACGACC
* * *
44759322 ATC-AATAATTAAAAGGGATGGTGACGACT
1 ATCAAATTATGAAAAGGGATGGTGACGACC
** ** * * *
44759351 ATTGAACAATGAAAAGGGATAGCT-TC-AGCT
1 ATCAAATTATGAAAAGGGAT-GGTGACGA-CC
* * * ** * ***
44759381 ATCGAATTGTGAAAAAGGATAACT-TCGGGT
1 ATCAAATTATGAAAAGGGAT-GGTGACGACC
* *
44759411 ATCAAATTATGAAACGGGATGGTGATGACC
1 ATCAAATTATGAAAAGGGATGGTGACGACC
*
44759441 GTCAACA--ATGAAAAGGGATGGTGACGACC
1 ATCAA-ATTATGAAAAGGGATGGTGACGACC
44759470 ATCAAAT
1 ATCAAAT
44759477 AATAATCGAG
Statistics
Matches: 117, Mismatches: 31, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
28 1 0.01
29 51 0.44
30 62 0.53
31 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTGACGACC
Found at i:44759452 original size:29 final size:29
Alignment explanation
Indices: 44759419--44759474 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
44759409 GTATCAAATT
* * *
44759419 ATGAAACGGGATGGTGATGACCGTCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
44759448 ATGAAAAGGGATGGTGACGACCATCAA
1 ATGAAAAGGGATGGTGACGACCATCAA
44759475 ATAATAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.16
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:44759455 original size:119 final size:120
Alignment explanation
Indices: 44759238--44759468 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 120
44759228 ATCATCGGCT
* * *
44759238 AATGAAAAGGGATAGCTTCGGCTATCAAAACAATGAAAAGGGATAGCCTCGGCTATCAAATTATG
1 AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAAGGATAACCTCGGCTATCAAATTATG
* *
44759303 AAAAGGGATGGTGACGACCATCAATAATTAAAAGGGATGGTGACGACTATTGAAC
66 AAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACTATTGAAC
* *** * *
44759358 AATGAAAAGGGATAGCTTCAGCTATC-GAATTGTGAAAAAGGATAACTTCGGGTATCAAATTATG
1 AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAAGGATAACCTCGGCTATCAAATTATG
* * *
44759422 AAACGGGATGGTGATGACCGTCAACAATGAAAAGGGATGGTGACGAC
66 AAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGAC
44759469 CATCAAATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
119 72 0.74
120 25 0.26
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (120 bp):
AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAAGGATAACCTCGGCTATCAAATTATG
AAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACTATTGAAC
Found at i:44763411 original size:14 final size:14
Alignment explanation
Indices: 44763392--44763431 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44763382 TTGATTGCCA
44763392 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
44763406 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
44763420 GGAAAATGTTTT
1 GTAAAATGTTTT
44763432 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:44763444 original size:34 final size:35
Alignment explanation
Indices: 44763400--44763466 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
44763390 CAGTAAAATG
* * *
44763400 TTTTCCGTAAAA-TGATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATTAATTACTGGAAAATATTTTAC
*
44763434 TTTTCTGTAAAATTAATTACTGGAAAATATTTT
1 TTTTCCGTAAAATTAATTACTGGAAAATATTTT
44763467 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATTAATTACTGGAAAATATTTTAC
Found at i:44763645 original size:22 final size:24
Alignment explanation
Indices: 44763619--44763670 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
44763609 ATGATTTATT
44763619 TATAAATAA-A-TCAA-ATT-AAA
1 TATAAATAATACTCAATATTAAAA
44763639 TATATAATAATACTCAATTATTAAAA
1 TATA-AATAATACTCAA-TATTAAAA
44763665 TATAAA
1 TATAAA
44763671 AGCATGGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 1 0.04
23 4 0.15
25 5 0.19
26 7 0.27
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TATAAATAATACTCAATATTAAAA
Found at i:44769997 original size:21 final size:21
Alignment explanation
Indices: 44769973--44770016 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44769963 TTTTTTTTGC
44769973 AAAATCA-AAATTTTCTTTAAA
1 AAAATCATAAATTTTC-TTAAA
*
44769994 AAAATCATTAATTTTCTTAAA
1 AAAATCATAAATTTTCTTAAA
44770015 AA
1 AA
44770017 TTAAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATCATAAATTTTCTTAAA
Found at i:44771127 original size:42 final size:42
Alignment explanation
Indices: 44771082--44771463 Score: 509
Period size: 42 Copynumber: 9.1 Consensus size: 42
44771072 TATACAAAGT
*
44771082 AATGAAAAGTAAATGGACCTCCACACCTGGGCCAT-TAAATGT
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCC-TCTAAATGC
*
44771124 AATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
** *
44771166 AACAAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* * * *
44771208 AATG-AAAGTGAATGGACTTCCACACCTGGGCCTTTAAATGT
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* ** * * *
44771249 AATAAAAAGCGAATGGACCTCTACACCCGGGCCTTTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
44771291 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* * *
44771333 AATAAAAAGTAAATGGACCTCCACACTTGGGCTTCTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* *
44771375 AATGAAAAGTGAATGGACATCCACACCTGGGCCTCTAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* * * * *
44771417 AAT-TAAAGTAAACGGGCCTCCACACTTGGGCCTCGAAATGC
1 AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
44771458 AATGAA
1 AATGAA
44771464 TGCTTTCTTT
Statistics
Matches: 296, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
41 70 0.24
42 226 0.76
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
Found at i:44771309 original size:125 final size:124
Alignment explanation
Indices: 44771082--44771463 Score: 523
Period size: 125 Copynumber: 3.0 Consensus size: 124
44771072 TATACAAAGT
* *
44771082 AATGAAAAGTAAATGGACCTCCACACCTGGGCCATTAAATGTAATGAAAAGTAAATGGACCTCCA
1 AATG-AAAGTAAATGGACCTCCACACCTGGGCCTTTAAATGTAATGAAAAGTGAATGGACCTCCA
* * *
44771147 CACTTGGGCCTCTAAATGCAACAAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGC
65 CACCTGGGCCTCTAAATGCAA-TAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* * * * *
44771208 AATGAAAGTGAATGGACTTCCACACCTGGGCCTTTAAATGTAATAAAAAGCGAATGGACCTCTAC
1 AATGAAAGTAAATGGACCTCCACACCTGGGCCTTTAAATGTAATGAAAAGTGAATGGACCTCCAC
* *
44771273 ACCCGGGCCTTTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
66 ACCTGGGCCTCTAAATGCAAT-AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
* * * *
44771333 AATAAAAAGTAAATGGACCTCCACACTTGGG-CTTCTAAATGCAATGAAAAGTGAATGGACATCC
1 AAT-GAAAGTAAATGGACCTCCACACCTGGGCCTT-TAAATGTAATGAAAAGTGAATGGACCTCC
* * * * *
44771397 ACACCTGGGCCTCTAAATGCAATTAAAGTAAACGGGCCTCCACACTTGGGCCTCGAAATGC
64 ACACCTGGGCCTCTAAATGCAATAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
44771458 AATGAA
1 AATGAA
44771464 TGCTTTCTTT
Statistics
Matches: 224, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 2 0.01
125 150 0.67
126 72 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (124 bp):
AATGAAAGTAAATGGACCTCCACACCTGGGCCTTTAAATGTAATGAAAAGTGAATGGACCTCCAC
ACCTGGGCCTCTAAATGCAATAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGC
Found at i:44774898 original size:23 final size:23
Alignment explanation
Indices: 44774868--44774916 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
44774858 ACACTCCATG
44774868 ATATCAATTGCACC-ATAGTGCCA
1 ATATCAATTGCACCGA-AGTGCCA
44774891 ATATCAATTGCACCGAAGTGCCA
1 ATATCAATTGCACCGAAGTGCCA
44774914 ATA
1 ATA
44774917 ATACTCACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (23 bp):
ATATCAATTGCACCGAAGTGCCA
Found at i:44776221 original size:2 final size:2
Alignment explanation
Indices: 44776214--44776239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44776204 CTATCTTAAC
44776214 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44776240 GTATGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44778344 original size:42 final size:41
Alignment explanation
Indices: 44778296--44778427 Score: 156
Period size: 42 Copynumber: 3.1 Consensus size: 41
44778286 TACAAGTTTA
* *
44778296 TACTTCAATTTGGTCAATGATGCACTTATGTGCCAGTATATT
1 TACTTCAATTT-GTCAATGATGCACTTATATGTCAGTATATT
* * *
44778338 TACTTCAATTTATTCGATGATGCACTTATATGTCAGTATAAT
1 TACTTCAATTT-GTCAATGATGCACTTATATGTCAGTATATT
* * * *
44778380 TGCTTCAGTTTGTCCAATGATGCACTTACATGTCAATATATT
1 TACTTCAATTTGT-CAATGATGCACTTATATGTCAGTATATT
44778422 TACTTC
1 TACTTC
44778428 TGTACATCTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (41 bp):
TACTTCAATTTGTCAATGATGCACTTATATGTCAGTATATT
Found at i:44778441 original size:42 final size:42
Alignment explanation
Indices: 44778354--44778450 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
44778344 AATTTATTCG
* * * ***
44778354 ATGATGCACTTATATGTCAGTATAATTGCTTCAGTTTGTCCA
1 ATGATGCACTTACATGTCAATATAATTACTTCAGTACATCCA
* * *
44778396 ATGATGCACTTACATGTCAATATATTTACTTCTGTACATCTA
1 ATGATGCACTTACATGTCAATATAATTACTTCAGTACATCCA
44778438 ATGATGCACTTAC
1 ATGATGCACTTAC
44778451 GTGCGAACAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (42 bp):
ATGATGCACTTACATGTCAATATAATTACTTCAGTACATCCA
Found at i:44778546 original size:43 final size:42
Alignment explanation
Indices: 44778470--44778620 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
44778460 TGATTACTTT
* ** * *
44778470 GGTTTATCCGATGATGCTTTGTGTGTGCCAGTATAATTGCTTC
1 GGTTTATCCAATGATGCACTATGTGTGCTAGTATAATT-CTTC
* * * *
44778513 GGCTTGTCCAATGATACACTATGTGTGCTAGTATACATTCTTT
1 GGTTTATCCAATGATGCACTATGTGTGCTAGTATA-ATTCTTC
* * *
44778556 GGTTTATCCGATGATGCACTATGTGTGCTAGAATATTTTCTTC
1 GGTTTATCCAATGATGCACTATGTGTGCTAGTATA-ATTCTTC
*
44778599 GGTTTATCTAATGATGCACTAT
1 GGTTTATCCAATGATGCACTAT
44778621 AGTACCAGAT
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 85 0.97
44 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (42 bp):
GGTTTATCCAATGATGCACTATGTGTGCTAGTATAATTCTTC
Found at i:44781485 original size:15 final size:15
Alignment explanation
Indices: 44781467--44781499 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44781457 TTACTAATTA
44781467 ATTCTTTATTTTTTT
1 ATTCTTTATTTTTTT
44781482 ATTCTTTATTTTTTT
1 ATTCTTTATTTTTTT
44781497 ATT
1 ATT
44781500 TTCAGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTCTTTATTTTTTT
Found at i:44795462 original size:30 final size:30
Alignment explanation
Indices: 44795426--44795485 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44795416 ACTTCCTTTG
44795426 CAGTTTTATACTTGCACCTACAAAAGATAC
1 CAGTTTTATACTTGCACCTACAAAAGATAC
44795456 CAGTTTTATACTTGCACCTACAAAAGATAC
1 CAGTTTTATACTTGCACCTACAAAAGATAC
44795486 GAACATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (30 bp):
CAGTTTTATACTTGCACCTACAAAAGATAC
Found at i:44796931 original size:17 final size:18
Alignment explanation
Indices: 44796904--44796951 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
44796894 AAATATTTAT
44796904 ATTTATATAAT-TAAAATA
1 ATTT-TATAATGTAAAATA
* *
44796922 ATTTTATAATGTGAATTA
1 ATTTTATAATGTAAAATA
44796940 ATTTTATAATGT
1 ATTTTATAATGT
44796952 CACATAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTTATAATGTAAAATA
Found at i:44798791 original size:7 final size:7
Alignment explanation
Indices: 44798779--44798803 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44798769 TTATTTTAGT
44798779 TATTTAA
1 TATTTAA
44798786 TATTTAA
1 TATTTAA
44798793 TATTTAA
1 TATTTAA
44798800 TATT
1 TATT
44798804 CATCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTTAA
Found at i:44801148 original size:13 final size:12
Alignment explanation
Indices: 44801130--44801163 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
44801120 GCCCACATAC
44801130 ATAAAATAATAAA
1 ATAAAATAA-AAA
44801143 ATAAAATAAAAA
1 ATAAAATAAAAA
44801155 AT-AAATAAA
1 ATAAAATAAA
44801164 TGTCCAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 5 0.24
13 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:44801444 original size:16 final size:15
Alignment explanation
Indices: 44801403--44801444 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
44801393 GCTCCCCCGC
44801403 GCATGCTGCGCCTCT
1 GCATGCTGCGCCTCT
*
44801418 GCACGCCTGCGCCTCT
1 GCATG-CTGCGCCTCT
44801434 GCATGCGTGCG
1 GCATGC-TGCG
44801445 TCTCCTCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.07, C:0.40, G:0.31, T:0.21
Consensus pattern (15 bp):
GCATGCTGCGCCTCT
Found at i:44813916 original size:44 final size:44
Alignment explanation
Indices: 44813868--44814078 Score: 184
Period size: 44 Copynumber: 4.9 Consensus size: 44
44813858 TGGAACAAAC
*
44813868 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
* * * *
44813912 TGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGAT
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
* * * * *
44813956 TAAAG-TA-AAGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-
1 TGAAGCCAGAA--ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGAT
* * *
44813999 T-CA--CATCAAATCTTATCTCCCTGAGATTACAGCGGAGTAGAT
1 TGAAGCCA-GAAATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
* * * *
44814041 TGAAGCCAGTAATCCTATTTCCCTGGGATTACAGTGGA
1 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGA
44814079 ACGGATTAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.20
42 5 0.04
43 8 0.06
44 91 0.69
45 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
Found at i:44814107 original size:129 final size:129
Alignment explanation
Indices: 44813877--44814159 Score: 431
Period size: 129 Copynumber: 2.2 Consensus size: 129
44813867 CTGAAGCCAG
* *
44813877 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATT
** *
44813942 ACAGTGGAGTGGATTAAAGTAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATC
66 ACAGTGGAACGGATTAAAGTAAAGAATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATC
* * *
44814006 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCCAGTAATCCTATTTCCCTGGGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATT
* * *
44814071 ACAGTGGAACGGATTAAAGTAAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCATATT
66 ACAGTGGAACGGATTAAAGTAAAGAATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATC
** * *
44814135 AGGTTTTATCTCCCTGATATTACAG
1 AAATCTTATCTCCCTGAGATTACAG
44814160 TGAAATAGAC
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 139 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (129 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATT
ACAGTGGAACGGATTAAAGTAAAGAATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATC
Found at i:44820229 original size:39 final size:39
Alignment explanation
Indices: 44820184--44820379 Score: 230
Period size: 39 Copynumber: 5.0 Consensus size: 39
44820174 ATTCACTTTT
* * * * *
44820184 AAGCATATATCATATTACACATATAATCACCTAACATAC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * * *
44820223 AAGCATATATTACAATACTCAAATAATCATAGAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
** *
44820262 AAGCATATATCACAATACTTGTATAATCTCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
44820301 AAGCATATATCATAATACTCATATAATCGCATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
44820340 AAGCATATATCACATTACTCGTATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
44820379 A
1 A
44820380 TAATTTAAGA
Statistics
Matches: 129, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:44820377 original size:78 final size:78
Alignment explanation
Indices: 44820181--44820379 Score: 272
Period size: 78 Copynumber: 2.6 Consensus size: 78
44820171 CACATTCACT
* * * * * *
44820181 TTTAAGCATATATCATATTACACATATAATCACCTAACATACAAGCATATATTACAATACTCAAA
1 TTTAAGCATATATCACATTACTCGTATAATCACATAACATTCAAGCATATATCACAATACTCAAA
*
44820246 TAATCATAGAACA
66 TAATCACAGAACA
* * * * *
44820259 TTTAAGCATATATCACAATACTTGTATAATCTCATAACATTCAAGCATATATCATAATACTCATA
1 TTTAAGCATATATCACATTACTCGTATAATCACATAACATTCAAGCATATATCACAATACTCAAA
* *
44820324 TAATCGCATAACA
66 TAATCACAGAACA
44820337 TTTAAGCATATATCACATTACTCGTATAATCACATAACATTCA
1 TTTAAGCATATATCACATTACTCGTATAATCACATAACATTCA
44820380 TAATTTAAGA
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 104 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (78 bp):
TTTAAGCATATATCACATTACTCGTATAATCACATAACATTCAAGCATATATCACAATACTCAAA
TAATCACAGAACA
Found at i:44824353 original size:41 final size:41
Alignment explanation
Indices: 44824292--44824373 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
44824282 TGACCAGGCT
*
44824292 GTGTAACTCACTGTGACCATGTAGCTCAGGGTCACATGGTC
1 GTGTAACTCACTGTGACCATGTAGCTCAGGGTCACAAGGTC
** * * *
44824333 GTGTAACTCTTTGTGTCCATGTGGCTTAGGGTCACAAGGTC
1 GTGTAACTCACTGTGACCATGTAGCTCAGGGTCACAAGGTC
44824374 ATGTCGCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
GTGTAACTCACTGTGACCATGTAGCTCAGGGTCACAAGGTC
Found at i:44826383 original size:22 final size:23
Alignment explanation
Indices: 44826350--44826393 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
44826340 ATAAGAGCCC
44826350 CATATTTTTTAAGGCACTACAAT
1 CATATTTTTTAAGGCACTACAAT
44826373 CATA-TTTTTAAGGCACTACAA
1 CATATTTTTTAAGGCACTACAA
44826394 GTTCGAGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
CATATTTTTTAAGGCACTACAAT
Found at i:44831456 original size:20 final size:20
Alignment explanation
Indices: 44831427--44831483 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
44831417 CACACCAAAG
44831427 GGCACCGAAGTGCTAACAGA
1 GGCACCGAAGTGCTAACAGA
* * *
44831447 GGCACAGAAGTGCAAACGGA
1 GGCACCGAAGTGCTAACAGA
*
44831467 GGCACCGAAGAGCTAAC
1 GGCACCGAAGTGCTAAC
44831484 CCGTACACGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.32, T:0.07
Consensus pattern (20 bp):
GGCACCGAAGTGCTAACAGA
Found at i:44835888 original size:42 final size:42
Alignment explanation
Indices: 44835828--44835938 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
44835818 CATGTTCTTT
* *
44835828 GTCTTTAGCGGCGCTTTTTTCTAAGCGTCGCTAAAGAACATG
1 GTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
*
44835870 GTCTTTAGCGGCGTTTTTTTCTAAGCGCCTCTAAAGAACATG
1 GTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
* * *
44835912 GTC--TAGTGACGTTTTTTTCTAAACGCC
1 GTCTTTAGCGGCGTTTTTTTCTAAGCGCC
44835939 ATTATTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 21 0.33
42 42 0.67
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (42 bp):
GTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
Found at i:44836100 original size:9 final size:9
Alignment explanation
Indices: 44836091--44836255 Score: 153
Period size: 9 Copynumber: 18.9 Consensus size: 9
44836081 ATCAATAAAT
*
44836091 TTATGTAAT
1 TTATGTAAG
*
44836100 TTATGGAAG
1 TTATGTAAG
* *
44836109 TTATTTAAT
1 TTATGTAAG
44836118 TTATGTAAG
1 TTATGTAAG
44836127 TTATGTAAG
1 TTATGTAAG
*
44836136 TTATGTAGG
1 TTATGTAAG
*
44836145 CTATGT-A-
1 TTATGTAAG
*
44836152 TTATCTAA-
1 TTATGTAAG
* *
44836160 ATA-GGAAGG
1 TTATGTAA-G
44836169 TTATGT-A-
1 TTATGTAAG
44836176 TTATGTAAG
1 TTATGTAAG
*
44836185 TTATTTAAG
1 TTATGTAAG
*
44836194 TTATGCAAG
1 TTATGTAAG
* *
44836203 TTATTTAAT
1 TTATGTAAG
44836212 TTATGTAAG
1 TTATGTAAG
44836221 TTATGTAAG
1 TTATGTAAG
*
44836230 TTATGTAAT
1 TTATGTAAG
44836239 TTATGTAAG
1 TTATGTAAG
44836248 TTATGTAA
1 TTATGTAA
44836256 TTAGAAATTT
Statistics
Matches: 123, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
7 12 0.10
8 4 0.03
9 106 0.86
10 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44836308 original size:57 final size:57
Alignment explanation
Indices: 44836235--44836399 Score: 269
Period size: 57 Copynumber: 2.9 Consensus size: 57
44836225 GTAAGTTATG
*
44836235 TAAT-TTATGTAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCT
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCT
* *
44836291 TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCT
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCT
* * *
44836348 TAATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGT
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGT
44836400 TATGTAATTC
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
56 4 0.04
57 97 0.96
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.47
Consensus pattern (57 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCT
Found at i:44836397 original size:37 final size:37
Alignment explanation
Indices: 44836344--44836444 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
44836334 TATAAAAGTA
*
44836344 ATCTTAATATTATATAAGTTATGTAATTTGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
44836381 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
44836418 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
44836445 ATTATATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
Found at i:44836480 original size:207 final size:207
Alignment explanation
Indices: 44836221--44836721 Score: 950
Period size: 207 Copynumber: 2.4 Consensus size: 207
44836211 TTTATGTAAG
* * * *
44836221 TTATGTAAGTTATGTAAT-TTATGTAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAG
1 TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
*
44836285 TAATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
66 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
44836350 ATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATAT
131 ATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATAT
44836415 TTTATCTTAACA
196 TTTATCTTAACA
44836427 TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
1 TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
44836492 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
66 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
44836557 ATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATAT
131 ATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATAT
44836622 TTTATCTTAACA
196 TTTATCTTAACA
44836634 TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
1 TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
44836699 TTATCTTAATATTATATAAGTTA
66 TTATCTTAATATTATATAAGTTA
44836722 AGAAATTTTA
Statistics
Matches: 289, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
206 17 0.06
207 272 0.94
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (207 bp):
TTATATAAGTTATGTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
ATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGATAT
TTTATCTTAACA
Found at i:44836527 original size:57 final size:57
Alignment explanation
Indices: 44836379--44836609 Score: 356
Period size: 57 Copynumber: 4.1 Consensus size: 57
44836369 ATTTGAAATT
* * *
44836379 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAG
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAG
* * *
44836436 TTAT-GTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAG
* *
44836492 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAG
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAG
* * *
44836549 TAATCTTAATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAG
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAG
44836606 TTAT
1 TTAT
44836610 GTAATTCGAT
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
56 50 0.32
57 106 0.68
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.48
Consensus pattern (57 bp):
TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAG
Found at i:44836604 original size:37 final size:37
Alignment explanation
Indices: 44836551--44836651 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
44836541 TATAAAAGTA
*
44836551 ATCTTAATATTATATAAGTTATGTAATTTGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
44836588 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
44836625 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
44836652 ATTATATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
Found at i:44836604 original size:94 final size:93
Alignment explanation
Indices: 44836492--44836702 Score: 332
Period size: 94 Copynumber: 2.3 Consensus size: 93
44836482 ATTATATAAG
* *
44836492 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTA
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAACATTATAAAAGTAAT-GTA
* *
44836557 ATATTATATAAGTTATGTAATTTGAAATT
65 ATATTATATAAATTATGTAATTAGAAATT
* * * * *
44836586 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAA
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAACATTATAAAAGTAATGTAA
44836651 TATTATATAAATTATGTAATTAGAAATT
66 TATTATATAAATTATGTAATTAGAAATT
44836679 TTATCTTAATATTATATAAGTTAT
1 TTATCTTAATATTATATAAGTTAT
44836703 CTTAATATTA
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 52 0.49
94 55 0.51
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.48
Consensus pattern (93 bp):
TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAACATTATAAAAGTAATGTAA
TATTATATAAATTATGTAATTAGAAATT
Found at i:44836660 original size:56 final size:57
Alignment explanation
Indices: 44836586--44836721 Score: 202
Period size: 56 Copynumber: 2.4 Consensus size: 57
44836576 ATTTGAAATT
* * * *
44836586 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAG
1 TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
* *
44836643 TTAT-GTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAG
1 TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
*
44836699 TTATCTTAATATTATATAAGTTA
1 TTATCGTAATATTATATAAGTTA
44836722 AGAAATTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
56 50 0.71
57 20 0.29
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (57 bp):
TTATCGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAG
Found at i:44836713 original size:150 final size:154
Alignment explanation
Indices: 44836275--44836721 Score: 583
Period size: 150 Copynumber: 3.0 Consensus size: 154
44836265 TGATCTTAAT
* * *
44836275 ATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAA
1 ATTATATAAGTTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATA
* * * *
44836340 AGTAATCTTAATATTATATAAGTTATGTAATTTGAAATTTTATCTTAATATTGTATAAGTTAT-G
66 AGTTATCTTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT
* * *
44836404 TAAT-TCGATAT--TTTATCTTAAC
131 TAATAT-TATATAAGTTATCGTAAC
* * *
44836426 ATTATATAAGTTAT-GTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATA
1 ATTATATAAGTTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATA
* * * *
44836490 AGTTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCT
66 AGTTATCTTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT
44836555 TAATATTATATAAGTTAT-GT-A-
131 TAATATTATATAAGTTATCGTAAC
* * * *
44836576 ATT-TGA-AATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATA
1 ATTAT-ATAA-GTTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATA
* *
44836639 TAAGTTAT-GTAATATTATATAAATTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
64 TAAGTTATCTTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
44836703 CTTAATATTATATAAGTTA
129 CTTAATATTATATAAGTTA
44836722 AGAAATTTTA
Statistics
Matches: 260, Mismatches: 29, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
149 3 0.01
150 179 0.69
151 72 0.28
152 2 0.01
153 4 0.02
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (154 bp):
ATTATATAAGTTATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATA
AGTTATCTTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCT
TAATATTATATAAGTTATCGTAAC
Found at i:44839250 original size:19 final size:19
Alignment explanation
Indices: 44839226--44839267 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44839216 GGACTACGTT
*
44839226 GGGGAACTGTTAGGGATTA
1 GGGGAAATGTTAGGGATTA
* *
44839245 GGGGAAATTTTAGGGATTT
1 GGGGAAATGTTAGGGATTA
44839264 GGGG
1 GGGG
44839268 GAGATGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.45, T:0.29
Consensus pattern (19 bp):
GGGGAAATGTTAGGGATTA
Found at i:44840329 original size:13 final size:13
Alignment explanation
Indices: 44840261--44840349 Score: 54
Period size: 14 Copynumber: 6.5 Consensus size: 13
44840251 CCCCAAATTT
*
44840261 CCAAACCCTTAAC
1 CCAAACCCTAAAC
*
44840274 CTCAAACACTAAAC
1 C-CAAACCCTAAAC
**
44840288 CCTAAACTCAAAAAC
1 CC-AAAC-CCTAAAC
*
44840303 CCAAATCCTAAAC
1 CCAAACCCTAAAC
*
44840316 CACAAACCCTAACC
1 C-CAAACCCTAAAC
*
44840330 CCGAAA-ACTAAACC
1 CC-AAACCCTAAA-C
44840344 CCAAAC
1 CCAAAC
44840350 TCAAAAACCA
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
13 16 0.28
14 35 0.61
15 6 0.11
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.11
Consensus pattern (13 bp):
CCAAACCCTAAAC
Found at i:44840639 original size:15 final size:14
Alignment explanation
Indices: 44840593--44840655 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
44840583 ATTAACCTAG
44840593 ACCCTAAACCTT-A
1 ACCCTAAACCTTAA
*
44840606 ACCC-AACCCTTATA
1 ACCCTAAACCTTA-A
44840620 ACCCTAAACCTCTAA
1 ACCCTAAACCT-TAA
**
44840635 ACCCTAAGTCTTAA
1 ACCCTAAACCTTAA
*
44840649 AACCTAA
1 ACCCTAA
44840656 CGTCTAACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 14 0.34
15 15 0.37
16 2 0.05
ACGTcount: A:0.40, C:0.37, G:0.02, T:0.22
Consensus pattern (14 bp):
ACCCTAAACCTTAA
Found at i:44841436 original size:41 final size:41
Alignment explanation
Indices: 44841388--44841493 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
44841378 GGTTTTTTTT
* *
44841388 GCGGCGCTTTTCAGAAAACGCCGCTAAAGACAAGATCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGACAAGAGCATTA
* *
44841429 GCGGCGC-TTTCTAAAAAACGCCGCTAAAGGCAGGAGCATTA
1 GCGGCGCTTTTC-AAAAAACGCCGCTAAAGACAAGAGCATTA
44841470 GCGGCGCTTTTCAAAAAACGCCGC
1 GCGGCGCTTTTCAAAAAACGCCGC
44841494 AACAGGGACA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 4 0.07
41 51 0.86
42 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCAAAAAACGCCGCTAAAGACAAGAGCATTA
Found at i:44841642 original size:93 final size:92
Alignment explanation
Indices: 44841484--44841660 Score: 255
Period size: 93 Copynumber: 1.9 Consensus size: 92
44841474 CGCTTTTCAA
*
44841484 AAAACGCCGCAACAGGGACAAAAACTCGGAAACGACGTCGTTGGCCTTAGGTTTTTCGCGGCGCT
1 AAAACCCCGCAACAGGGACAAAAACTCGGAAACGACGTCGTTGGCCTTAGGTTTTTCGCGGCGCT
*
44841549 TTTTAGAAATCGCCGCTAAGTCCCCCG
66 TTTCAGAAATCGCCGCTAAGTCCCCCG
* ** * * * *
44841576 AAAACCCCGCTACAGGTCCAAAAACTCAGTAAACGGCGTCGTTGGCCTTATGTTTTTTGCGGCGC
1 AAAACCCCGCAACAGGGACAAAAACTC-GGAAACGACGTCGTTGGCCTTAGGTTTTTCGCGGCGC
*
44841641 TTTTCATAAATCGCCGCTAA
65 TTTTCAGAAATCGCCGCTAA
44841661 TGCTTATTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 23 0.31
93 51 0.69
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (92 bp):
AAAACCCCGCAACAGGGACAAAAACTCGGAAACGACGTCGTTGGCCTTAGGTTTTTCGCGGCGCT
TTTCAGAAATCGCCGCTAAGTCCCCCG
Done.