Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 17 of 117
Found at i:1850182 original size:19 final size:18
Alignment explanation
Indices: 1850160--1850217 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
1850150 AATTGTAATC
1850160 TTTTTAATATTAAACTATA
1 TTTTTAATA-TAAACTATA
**
1850179 TTTTTCGTACTAAAC--TA
1 TTTTTAATA-TAAACTATA
1850196 -TTTT-ATATAAACTATA
1 TTTTTAATATAAACTATA
1850212 TTTTTA
1 TTTTTA
1850218 TCTATCTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 6 0.19
17 6 0.19
19 12 0.39
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTAATATAAACTATA
Found at i:1850335 original size:22 final size:21
Alignment explanation
Indices: 1850309--1850364 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 21
1850299 ATAAAATTAA
*
1850309 TTAAATAATAAAAATAATTATT
1 TTAAATAAT-AAAATAATAATT
1850331 TT-AA-AATAAAATAATAATT
1 TTAAATAATAAAATAATAATT
1850350 TTAAATAATTAAAAT
1 TTAAATAA-TAAAAT
1850365 TTGTTTAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 13 0.43
20 5 0.17
21 4 0.13
22 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAATAATAAAATAATAATT
Found at i:1850357 original size:41 final size:42
Alignment explanation
Indices: 1850277--1850364 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 42
1850267 TAAATTTATC
* *
1850277 AAATTATTTTTTTAAAAAAAGAATAAAATTAATTAAATAATAA
1 AAATAATTATTTTAAAAAAAGAATAAAATT-ATTAAATAATAA
* *
1850320 AAATAATTATTTTAAAATAA-AATAATAATT-TTAAATAATTA
1 AAATAATTATTTTAAAAAAAGAATAA-AATTATTAAATAATAA
1850361 AAAT
1 AAAT
1850365 TTGTTTAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 14 0.35
42 5 0.12
43 21 0.52
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (42 bp):
AAATAATTATTTTAAAAAAAGAATAAAATTATTAAATAATAA
Found at i:1850371 original size:19 final size:20
Alignment explanation
Indices: 1850349--1850386 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1850339 AAATAATAAT
1850349 TTTAA-ATAATTAAAATTTG
1 TTTAACATAATTAAAATTTG
* *
1850368 TTTAACATATTTTAAATTT
1 TTTAACATAATTAAAATTT
1850387 ATAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTAACATAATTAAAATTTG
Found at i:1851908 original size:52 final size:52
Alignment explanation
Indices: 1851847--1851948 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
1851837 GGCAAGAAGA
* * *
1851847 CTTGCAAAAGAAGAATTATGAGA-GAAATGAGATTTTTAATAGGTAAGTTTAT
1 CTTGCAAAAGAAGAATTATGAGAGGAAAAGA-ATTCTTAATAGGCAAGTTTAT
*
1851899 CTTGCAAAAGAAGAATTCTGAGAGGAAAAGAATTCTTAATAGGCAAGTTT
1 CTTGCAAAAGAAGAATTATGAGAGGAAAAGAATTCTTAATAGGCAAGTTT
1851949 GTATGCTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 39 0.87
53 6 0.13
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (52 bp):
CTTGCAAAAGAAGAATTATGAGAGGAAAAGAATTCTTAATAGGCAAGTTTAT
Found at i:1852513 original size:25 final size:25
Alignment explanation
Indices: 1852479--1852527 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1852469 GTGGTATCAG
1852479 AGCTGAAAGTTTGAGACATGGGAAA
1 AGCTGAAAGTTTGAGACATGGGAAA
*
1852504 AGCTGAAAGTTTGAGCCATGGGAA
1 AGCTGAAAGTTTGAGACATGGGAA
1852528 GAGGTAAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.33, T:0.20
Consensus pattern (25 bp):
AGCTGAAAGTTTGAGACATGGGAAA
Found at i:1853798 original size:51 final size:52
Alignment explanation
Indices: 1853698--1853799 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
1853688 GTACAAGAAG
* * *
1853698 ACTTGCAAAAGAAGAATTCTAAGAGAAAGGAGATTCTTAATAGATAAGTTTA
1 ACTTGCAAAAGAAAAATTCTAAGAGAAAGAAGATTCTTAATAGACAAGTTTA
* *
1853750 ACTTGCAGAAGAAAAATT-TAAGAGAAA-AATGATTCTTAATAGGCAAGTTT
1 ACTTGCAAAAGAAAAATTCTAAGAGAAAGAA-GATTCTTAATAGACAAGTTT
1853800 GTATGCTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 27 0.61
52 16 0.36
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (52 bp):
ACTTGCAAAAGAAAAATTCTAAGAGAAAGAAGATTCTTAATAGACAAGTTTA
Found at i:1854208 original size:928 final size:913
Alignment explanation
Indices: 1851770--1854238 Score: 3043
Period size: 928 Copynumber: 2.7 Consensus size: 913
1851760 TGGAGAAAGT
* * * *
1851770 ATTGTTATGAATAATGACTCAAATTTCATAAAAGATTTATTT-AGGATTTGTTAGATATTGCTTG
1 ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGA-GATTTATTAGATATTGCTTG
** * * * *
1851834 ATGGGCAAGAAGACTTGCAAAAGAAGAATTATGAGAGAAATGAGATTTTTAATAGGTAAGTTTAT
65 ATGCACAAGAAGACTTGCAAAAGAAGAATTATAAGAGAAAGGAGATTCTTAATAGGTAAGTTTAA
* * *
1851899 CTTGCAAAAGAAGAATTCTGAGAGGAAAA-GAATTCTTAATAGGCAAGTTTGTATGCTTATAAAT
130 CTTGCAGAAGAAAAATTCTAAGAGGAAAATG-ATTCTTAATAGGCAAGTTTGTATGCTTATAAAT
* * * * *
1851963 AGATAAAGTTTCTATAAGGTTGAGTATGAGAAAAAAATATCAGAGAGTTATAGGATTGTGTGGGA
194 AGATAAAGTCTCTATAAGGTTGGGTATGAG-AAAAAATATAAGAGAGTTGTAGGATTTTGTGGGA
* *
1852028 TAGATACCCTATAAGAGTACT-GAAGATTTACGTCTTATAAGTGTGTATGTTTGTTTGTGAGTGG
258 TAGATACCCCAT-AGAGTACTAG-AGATTTACGTCTTATAGGTGTGTATGTTTGTTTGTGAGTGG
*
1852092 ACTAGAAGAGACTGAGATGGTCCACATAGGTATGAGGTA-TAGGTGCATATGGGTATGTGTTTAG
321 ACTAGAGGAGACTGAGA-GGTCCACATAGGTATGAGGTATTA-GTGCATATGGGTATGTGTTTAG
* * * * *
1852156 TTGTGTTGAAATGGTGCATATGGGTACATGTTTATTTGGGTTAAGAATACTTCATAGAACTAGAG
384 TTGTGTTGAAAGGGTGCATAT-GGTACGTGTTTGTTTGGGTTAAAAATACTTCATAGAACTAGAA
* * * * *
1852221 GAGATTGAAAATGTCTTATGAGTATTGATTGTTAAATGAGGTAGATGATTTGATTTGTATATTTA
448 GAGATTGAGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTG
* * * *
1852286 TAATTCTCTACAAGTAGTAGATCTTATTTCTCATCCATGGATATAGGTCAGTTAGACCAAACCAC
513 TAATTCTCTACAACTAGTGGATCTTATTTCTCATCCATGGACATAGGTTAGTT-GACCAAACCAC
*
1852351 ATTAAATTGTTATCTTTTATGTATTTGATTAATTGTTTAATTTCACTTCCACTGGTGTGATTGGA
577 ATTAAATTGTTATCTTTTA--TA-TTGATTAA----TT-ATTTCACTTCCACTGGTATGATTGGA
* * *
1852416 TTGAGGTTTTTTAGCCTAACAAGTGGTATCAAAGCTGTGGTGATCACTAACAAGTGGTATCAGAG
634 TTGAGGTTTTTTAACCTAACAAGTGGTATCAAAGCTATGGTGATCACTAACAAGTGGTATAAGAG
* * *
1852481 CTGAAAGTTTGAGACATGGGAAAAGCTGAAAGTTTGAGCCATGGGAAGAGGTAAGTCCAGAGGAG
699 CTGAAAGTTCGAGA-ATGGAAAAAACTGAAAGTTTGAGCCATGGGAAGAGGTAAGTCCAGAGGAG
*
1852546 CTCAATTCAAGAAAATAGTTCAAGTTCATATTTTAAGGATTGAGGATCGGTAACATATAAAACAA
763 CTCAATTCAAGAAAAGAGTTCAAGTTCATATTTTAAGGATTGAGGATCGGTAACATATAAAACAA
* * * * *
1852611 GATGATTGTGAGACTTTCATTGCAGGTGGAGCCAAGCATATCTAGCATAAAGATAAATTATTGAT
828 GATAATTGTGAGACTTTCATTGCAAGTGAAGCCAAGCATATCTAGCATAAAGACAAATGATTGAT
*
1852676 GAAATTTGAGTCAAGGTAAAA
893 GAAATTTGAATCAAGGTAAAA
* *
1852697 ATTGTTAGGAATAATGACTCAAATCTCATAAGAGATTTGTTTGAGA-TTAGTTAGATATTGCTTC
1 ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGATTTA-TTAGATATTGCTTG
* * * * *
1852761 ATGCACAAGAAGACTTGTAAAAAAAGAATTTTTAGAGAAAAGG-GAATTCTTAATAGGCAAGTTT
65 ATGCACAAGAAGACTTGCAAAAGAAGAATTATAAGAG-AAAGGAG-ATTCTTAATAGGTAAGTTT
* *
1852825 AACTTGCAGAAGAAAAATTCTAAAAGGAAAATGATTCTTAATAGGCAAGTTTGTATACTTATAAA
128 AACTTGCAGAAGAAAAATTCTAAGAGGAAAATGATTCTTAATAGGCAAGTTTGTATGCTTATAAA
* * * * * * * *
1852890 TAGATGAAGTCTTTATAAGATTGGGTATGAGAAAAAAGTATAAAAAAGTTGTAGGATTTTATAGA
193 TAGATAAAGTCTCTATAAGGTTGGGTATGAGAAAAAA-TATAAGAGAGTTGTAGGATTTTGTGGG
* * * * *
1852955 ATAGACACCCCATAGGAGTACTAGAGATTTATGCCTTATAGGTATATATGTTTGTTTGTGAGTGG
257 ATAGATACCCCATA-GAGTACTAGAGATTTACGTCTTATAGGTGTGTATGTTTGTTTGTGAGTGG
* * **
1853020 ACTAAAGGAGACT--GA---CCACAGAGGTATGAGGTATGGGTGCATATGGGTATGTGTTTAGTT
321 ACTAGAGGAGACTGAGAGGTCCACATAGGTATGAGGTATTAGTGCATATGGGTATGTGTTTAGTT
* * * * * * *
1853080 ATGTTGAAAGAGTGCACATGAGTACGTATTTGTTTGGGTTAAAAATATTTTATAGGACTAGAAGA
386 GTGTTGAAAGGGTGCATATG-GTACGTGTTTGTTTGGGTTAAAAATACTTCATAGAACTAGAAGA
* * *
1853145 GATTTAGAGTGTCTTATGAGTATTAATTATTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTA
450 GATTGAGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTA
* * * **
1853210 ATTCTCTACAACTAGTGGATCTTGTTTCTCATCCGTGGACATAGGTTAATTGGACCAAACCATGT
515 ATTCTCTACAACTAGTGGATCTTATTTCTCATCCATGGACATAGGTTAGTT-GACCAAACCACAT
* *
1853275 TAAATTGTTATCTTTTATA-TG-TCTAA-T-TTT-GCTTCTACTGGTATGATTGGATTGAGGTTT
579 TAAATTGTTATCTTTTATATTGAT-TAATTATTTCACTTCCACTGGTATGATTGGATTGAGGTTT
* * * * *
1853335 TTTAACCTAACAAGTGGTATCAGAGTTATGGTGATCCCTAACAAGTGGTATAAGAGTTGAAGGTT
643 TTTAACCTAACAAGTGGTATCAAAGCTATGGTGATCACTAACAAGTGGTATAAGAGCTGAAAGTT
* *
1853400 CGAG-ATGTGAAAAACACTGAAAGTTTGAGCCATGGGAAGAGGTAAGTTCAGAGGAGCTCGATTC
708 CGAGAATG-GAAAAA-ACTGAAAGTTTGAGCCATGGGAAGAGGTAAGTCCAGAGGAGCTCAATTC
*
1853464 AAGAAAAGAGTTCGAA-TTCATATTTTAAGGATTAAAGATTGGTTTTCATGAAATGTGAAGACAT
771 AAGAAAAGAGTTC-AAGTTCATATTTTAAGGATT---GA--GG--ATC--G----GT--A-ACAT
* * * * *
1853528 ATAAGAGAAGATAATTGTGAGACTTTTATTGCAAGTGAAGCCAAGCATATCTAGCATGAAGACAG
819 ATAAAACAAGATAATTGTGAGACTTTCATTGCAAGTGAAGCCAAGCATATCTAGCATAAAGACAA
** *
1853593 ATGATTGATG-AATTTGAATCAAGGTGGAG
884 ATGATTGATGAAATTTGAATCAAGGTAAAA
* *
1853622 ATTGTTAGGAATAATGACTCAAATCCCATAAAAGATTTGTTTGAGATTTATTAGTTATTGCTTGA
1 ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGATTTATTAGATATTGCTTGA
* * *
1853687 TGTACAAGAAGACTTGCAAAAGAAGAATTCTAAGAGAAAGGAGATTCTTAATAGATAAGTTTAAC
66 TGCACAAGAAGACTTGCAAAAGAAGAATTATAAGAGAAAGGAGATTCTTAATAGGTAAGTTTAAC
*
1853752 TTGCAGAAGAAAAATT-TAAGAGAAAAATGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAG
131 TTGCAGAAGAAAAATTCTAAGAGGAAAATGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAG
* * * *
1853816 ATAAAATCTCTATAGGGTTGGGTATGAGAAAAAGATGTAAGAGAGTTGTAAGATTTTGTGGGATA
196 ATAAAGTCTCTATAAGGTTGGGTATGAGAAAAA-ATATAAGAGAGTTGTAGGATTTTGTGGGATA
* * * * * *
1853881 GATACCCCATAGTGTATTAGAGATTTACATCTTATGGGTGTGTATGTTTGTTTGTGAATAGACTA
260 GATACCCCATAGAGTACTAGAGATTTACGTCTTATAGGTGTGTATGTTTGTTTGTGAGTGGACTA
* * * * * *
1853946 GAGGAGACTGAGAGGGTCCATATAGGTATGACGTATTAGTGTATATGAGTATGTATTTAGTTGTA
325 GAGGAGACTGAGA-GGTCCACATAGGTATGAGGTATTAGTGCATATGGGTATGTGTTTAGTTGTG
* * * * *
1854011 TTGAAGGGGTGCATATAGGTACGCGTTTGTTTGGGTTAATAATACTCCATAAAACTAGAAGAGAT
389 TTGAAAGGGTGCATAT-GGTACGTGTTTGTTTGGGTTAAAAATACTTCATAGAACTAGAAGAGAT
* *
1854076 TGGGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATCTGATTTGTATGTTTGTAATT
453 TGAGAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATT
* * *
1854141 CTCTACAACTAGTGGATCTTATTTATCATCCATGGACGTAGGTTAGTTGTACCAAATCACATTAA
518 CTCTACAACTAGTGGATCTTATTTCTCATCCATGGACATAGGTTAGTTG-ACCAAACCACATTAA
* * *
1854206 ATTATTATCTCTTATGTGTTTGATTAATTATTT
582 ATTGTTATCT-TT-TAT-ATTGATTAATTATTT
1854239 GATTTCACTT
Statistics
Matches: 1311, Mismatches: 183, Indels: 89
0.83 0.12 0.06
Matches are distributed among these distances:
908 3 0.00
909 5 0.00
910 162 0.12
911 5 0.00
913 3 0.00
915 2 0.00
917 3 0.00
918 5 0.00
919 1 0.00
920 2 0.00
921 1 0.00
922 273 0.21
923 108 0.08
924 44 0.03
925 105 0.08
926 76 0.06
927 93 0.07
928 403 0.31
929 5 0.00
930 2 0.00
932 5 0.00
933 2 0.00
934 3 0.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (913 bp):
ATTGTTAGGAATAATGACTCAAATCTCATAAAAGATTTGTTTGAGATTTATTAGATATTGCTTGA
TGCACAAGAAGACTTGCAAAAGAAGAATTATAAGAGAAAGGAGATTCTTAATAGGTAAGTTTAAC
TTGCAGAAGAAAAATTCTAAGAGGAAAATGATTCTTAATAGGCAAGTTTGTATGCTTATAAATAG
ATAAAGTCTCTATAAGGTTGGGTATGAGAAAAAATATAAGAGAGTTGTAGGATTTTGTGGGATAG
ATACCCCATAGAGTACTAGAGATTTACGTCTTATAGGTGTGTATGTTTGTTTGTGAGTGGACTAG
AGGAGACTGAGAGGTCCACATAGGTATGAGGTATTAGTGCATATGGGTATGTGTTTAGTTGTGTT
GAAAGGGTGCATATGGTACGTGTTTGTTTGGGTTAAAAATACTTCATAGAACTAGAAGAGATTGA
GAGTGTCTTATGAGTATTGATTGTTAAGTGAGGTAGATGATTTGATTTGTATGTTTGTAATTCTC
TACAACTAGTGGATCTTATTTCTCATCCATGGACATAGGTTAGTTGACCAAACCACATTAAATTG
TTATCTTTTATATTGATTAATTATTTCACTTCCACTGGTATGATTGGATTGAGGTTTTTTAACCT
AACAAGTGGTATCAAAGCTATGGTGATCACTAACAAGTGGTATAAGAGCTGAAAGTTCGAGAATG
GAAAAAACTGAAAGTTTGAGCCATGGGAAGAGGTAAGTCCAGAGGAGCTCAATTCAAGAAAAGAG
TTCAAGTTCATATTTTAAGGATTGAGGATCGGTAACATATAAAACAAGATAATTGTGAGACTTTC
ATTGCAAGTGAAGCCAAGCATATCTAGCATAAAGACAAATGATTGATGAAATTTGAATCAAGGTA
AAA
Found at i:1854574 original size:36 final size:35
Alignment explanation
Indices: 1854526--1854596 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
1854516 TTTTACTTAA
*
1854526 AAATTATAAAATAATTTTGTAA-ATTTATTATATAAT
1 AAATTATAAAATAACTTT-TAATATTTATTA-ATAAT
1854562 AAATTA-ATAAATAACTTTTAATTATTTATTAATAA
1 AAATTATA-AAATAACTTTTAA-TATTTATTAATAA
1854597 AATCATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
35 4 0.13
36 19 0.61
37 8 0.26
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (35 bp):
AAATTATAAAATAACTTTTAATATTTATTAATAAT
Found at i:1855736 original size:144 final size:144
Alignment explanation
Indices: 1855527--1856711 Score: 1892
Period size: 144 Copynumber: 8.2 Consensus size: 144
1855517 ACTATCTATG
* * * *
1855527 TGGTTCTATTCCTGCTTCCATAGGAAACTTGACCGGTCTATCCACTCTCTACCTTCATCGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
* *
1855592 TGTTTTCTGGGTCGATACCTCAAGAGATAGTGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
*
1855657 CATAATAATTTCTC
131 CAAAATAATTTCTC
* *
1855671 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCCTATCCACTCTCTACCTTTATGGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
1855736 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
1855801 CAAAATAATTTCTC
131 CAAAATAATTTCTC
*
1855815 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTCATCGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
* *
1855880 TGTTTTTTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTG-GA
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG-
*
1855944 TGAAAATAATTTCTC
130 TCAAAATAATTTCTC
* *
1855959 TGGTCCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
*
1856024 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTGGAGTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
*
1856089 CATAATAATTTCTC
131 CAAAATAATTTCTC
*
1856103 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTTCCTTTATCGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
* * *
1856168 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCATTTACTTTGAGTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
* *
1856233 GAAAATATTTTCTC
131 CAAAATAATTTCTC
*
1856247 TGGTTCAATCCCTGCTTCCCTAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
*
1856312 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGTTGCTTAAATCTCTCACTGACTTTGAGTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
*
1856377 CATAATAATTTCTC
131 CAAAATAATTTCTC
*
1856391 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCCTATCCACTCTCTACCTTTATCGAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
*
1856456 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGATTTGAGT
66 TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
*
1856521 GAAAATAATTTCT-
131 CAAAATAATTTCTC
* * * * * * *
1856534 TCGGTCCAATCCCTGCTTCCATAGGATACTTGGCCAGTCTATCCACTCTTTATCTCTATCAAAAT
1 T-GGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAAT
* * * ** *
1856599 ATGTTTTCTGGGAT-GATACCTCAACAGATAGGGATGCTTAAATTTCTCACTTCCTTTGACTTGA
65 ATGTTTTCTGGG-TCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGA
1856663 GTCAAAAT-ATATTCTC
129 GTCAAAATAAT-TTCTC
* * * *
1856679 TGGTTCAATCCCTCCTTCAATCGGAAACATGAC
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGAC
1856712 AAAGCTTATG
Statistics
Matches: 965, Mismatches: 70, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
143 4 0.00
144 958 0.99
145 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (144 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCGAAATA
TGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
CAAAATAATTTCTC
Found at i:1858755 original size:86 final size:87
Alignment explanation
Indices: 1858589--1858764 Score: 300
Period size: 86 Copynumber: 2.0 Consensus size: 87
1858579 TGGTTTTAAG
*
1858589 ATTGTAACTTTCCAAATTTAAGTATCAAAGAATTTTACTCTAATTCAAGCATCAAATGTGTAATT
1 ATTGTAACTTTCCAAATTTAAGTATCAAAGAATTTTACTCTAATTCAAGCATAAAATGTGTAATT
1858654 AATCTTTGAAGTTTAACACCTA
66 AATCTTTGAAGTTTAACACCTA
* * *
1858676 ATTGTAACTTTTCAAATTTAAGTTTCAAAGAATTTTACT-TAATTCAAGTATAAAATGTGTAATT
1 ATTGTAACTTTCCAAATTTAAGTATCAAAGAATTTTACTCTAATTCAAGCATAAAATGTGTAATT
*
1858740 AATCTTTGAAGTTTAACACTTA
66 AATCTTTGAAGTTTAACACCTA
1858762 ATT
1 ATT
1858765 TTTTAATATT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 47 0.56
87 37 0.44
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (87 bp):
ATTGTAACTTTCCAAATTTAAGTATCAAAGAATTTTACTCTAATTCAAGCATAAAATGTGTAATT
AATCTTTGAAGTTTAACACCTA
Found at i:1861738 original size:14 final size:14
Alignment explanation
Indices: 1861706--1861751 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1861696 TAGATCGCAG
1861706 AAGAAAAAA-AAGA
1 AAGAAAAAAGAAGA
* *
1861719 AGAGAAAGAAGGAGA
1 A-AGAAAAAAGAAGA
1861734 AAGAAAAAAGAAGA
1 AAGAAAAAAGAAGA
1861748 AAGA
1 AAGA
1861752 TTTCTAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 1 0.04
14 22 0.81
15 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGAAGA
Found at i:1871117 original size:22 final size:23
Alignment explanation
Indices: 1871092--1871136 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1871082 AAATTTATTG
* *
1871092 AATTATTTAAA-AATAAGAATAA
1 AATTAATTAAATAATAAAAATAA
1871114 AATTAATTAAATAATAAAAATAA
1 AATTAATTAAATAATAAAAATAA
1871137 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATTAATTAAATAATAAAAATAA
Found at i:1871165 original size:20 final size:22
Alignment explanation
Indices: 1871131--1871186 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
1871121 TAAATAATAA
*
1871131 AAATAATAAAAAATAATTATTTT
1 AAATAAT-TAAAATAATTATTTT
1871154 AAA-AA-TAAAATAATTATTTT
1 AAATAATTAAAATAATTATTTT
1871174 AAATAATTAAAAT
1 AAATAATTAAAAT
1871187 TTGTTTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 17 0.57
21 2 0.07
22 8 0.27
23 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAATTAAAATAATTATTTT
Found at i:1876264 original size:18 final size:18
Alignment explanation
Indices: 1876213--1876264 Score: 50
Period size: 23 Copynumber: 2.6 Consensus size: 18
1876203 TTAATATATT
1876213 TGATTAGTTCAAAAAATA
1 TGATTAGTTCAAAAAATA
*
1876231 TGATAGAATAAGTTCAAAGAATA
1 TGAT----T-AGTTCAAAAAATA
1876254 TGATTAGTTCA
1 TGATTAGTTCA
1876265 TAGAGTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
18 10 0.36
19 1 0.04
22 1 0.04
23 16 0.57
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (18 bp):
TGATTAGTTCAAAAAATA
Found at i:1878040 original size:144 final size:145
Alignment explanation
Indices: 1877810--1878413 Score: 805
Period size: 144 Copynumber: 4.2 Consensus size: 145
1877800 ATGAGATCAG
* * * ** *
1877810 TGGTTCTATCCCCGC-TTCCATAGGAAACTTGACCTA-CTTATCTGTTCTCCACCTCTAT-AGAA
1 TGGTTCAATCCCTGCTTTCAATAGGAAACTTGA-CTAGCTTATCCATTCTTCACCTCTATCA-AA
* * *
1877872 ATATGTTTTTTGGATCGATACCTCAAGAAATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTG
64 ATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTG
*
1877937 AGTCATAATAATTTCTC
129 AGTCAAAATAATTTCTC
* * ** * *
1877954 TGGTTCAATCCCTGCTTTC-ATAAGAAACTTGACCAATTTATCCATTC-TCTACCT-TCACCATA
1 TGGTTCAATCCCTGCTTTCAATAGGAAACTTGACTAGCTTATCCATTCTTC-ACCTCT-ATCAAA
* *
1878016 ATATGTTTTCTGGGTCCATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTTACTTTGAGTTG
64 ATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTG
* *
1878081 GGTCGAAATAATTTCTC
129 AGTCAAAATAATTTCTC
* *
1878098 TGGTTCAATCCCTGC-TTCAATAGGAAACTTGACTAGCTTATCCACTCTTCACCTCTATAAAAAT
1 TGGTTCAATCCCTGCTTTCAATAGGAAACTTGACTAGCTTATCCATTCTTCACCTCTATCAAAAT
* *
1878162 ATGTTTTGTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTTACTTTGAGTTGAG
66 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
*
1878227 TCAAAATAATTTCTT
131 TCAAAATAATTTCTC
*
1878242 TGGTTCAATCCCT-CCTTCAATAGGAAACTTGACTAGCTTATCCATTCTTCACCTCTATCAAAAT
1 TGGTTCAATCCCTGCTTTCAATAGGAAACTTGACTAGCTTATCCATTCTTCACCTCTATCAAAAT
* * *
1878306 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTTACAGAATTTGTA-TTGA
66 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTG-AGTTGA
1878370 GTCAAAATAATTTCTC
130 GTCAAAATAATTTCTC
* * *
1878386 TGGTTCAATACCGGC-TTCCATAGGAAAC
1 TGGTTCAATCCCTGCTTTCAATAGGAAAC
1878414 ATGTTGAAGC
Statistics
Matches: 407, Mismatches: 42, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
143 8 0.02
144 390 0.96
145 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (145 bp):
TGGTTCAATCCCTGCTTTCAATAGGAAACTTGACTAGCTTATCCATTCTTCACCTCTATCAAAAT
ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
TCAAAATAATTTCTC
Found at i:1880441 original size:89 final size:89
Alignment explanation
Indices: 1880290--1880471 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 89
1880280 GCAAGTAGTA
1880290 TTAAGATTGTAACTTTTCAAATTTAAGTATCAAAAAATTTTACTCTAATTCAAGTATCAAATGTG
1 TTAAGATTGTAACTTTTCAAATTTAAGTATCAAAAAATTTTACTCTAATTCAAGTATCAAATGTG
1880355 TAATTAATCTTTGAAGTTTAACAC
66 TAATTAATCTTTGAAGTTTAACAC
*
1880379 TTAAGATTGTAACTTTTCAAATTTAAGTATCAAAGAATTTTACTCTAATTCAAGTATCAAATGTG
1 TTAAGATTGTAACTTTTCAAATTTAAGTATCAAAAAATTTTACTCTAATTCAAGTATCAAATGTG
1880444 TAATTAATCTTTGAAGTTTAACAC
66 TAATTAATCTTTGAAGTTTAACAC
1880468 TTAA
1 TTAA
1880472 TTTTTCAATA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (89 bp):
TTAAGATTGTAACTTTTCAAATTTAAGTATCAAAAAATTTTACTCTAATTCAAGTATCAAATGTG
TAATTAATCTTTGAAGTTTAACAC
Found at i:1883443 original size:24 final size:23
Alignment explanation
Indices: 1883415--1883460 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
1883405 TCTCAAAAAA
1883415 TTATTTTATTATTTTATATTTTTG
1 TTATTTTATTATTTT-TATTTTTG
*
1883439 TTATTTTGTTATTTTTATTTTT
1 TTATTTTATTATTTTTATTTTT
1883461 CTAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (23 bp):
TTATTTTATTATTTTTATTTTTG
Found at i:1884862 original size:41 final size:41
Alignment explanation
Indices: 1884724--1885174 Score: 418
Period size: 40 Copynumber: 10.8 Consensus size: 41
1884714 CCTTAAGCAA
* *
1884724 AGGCTC-ACAACTTTTGGAAAAATAAATAAAGCTCCT-TTAATCAG
1 AGGCTCAACAAC-TTT-GAAAAAT-AA-AAGGCTCCTCTAAAT-AG
** * *
1884768 AGGCTCAATGACTTTGAAAAATAAATATTGCTCCTCTAAACAG
1 AGGCTCAACAACTTTGAAAAATAAA-A-GGCTCCTCTAAATAG
*
1884811 AGGCTCAACGAA-TTTGAAAAATAAAAGGCTCCTTTAAATAG
1 AGGCTCAAC-AACTTTGAAAAATAAAAGGCTCCTCTAAATAG
* * * *
1884852 AGACTTAACGACTTTGAAAAGTAAAAGGCTCCTCTAAATAG
1 AGGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAATAG
* * * * * *
1884893 AGGCTCAACAACTTTGGAAAAATAAATAATGTTCATCTACACAT
1 AGGCTCAACAACTTT-GAAAAAT-AA-AAGGCTCCTCTAAATAG
* * *
1884937 AGGCACAACAACTTTGGAAAAATAAAA-ACTCCTCTAAACAG
1 AGGCTCAACAACTTT-GAAAAATAAAAGGCTCCTCTAAATAG
1884978 AGGCTCAACAACTTTGAAAAAT-AAAGGCTCCTCTAAATAG
1 AGGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAATAG
* **
1885018 AGGCACAACAACTTTGAAAAAT-AAAGGCTTTTCTAAATAG
1 AGGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAATAG
* *
1885058 AGGCTCAACAACTTTGAAAAATAAATAATGCTCCTCTAAACAG
1 AGGCTCAACAACTTTGAAAAAT-AA-AAGGCTCCTCTAAATAG
** *
1885101 AGGCAT-AATGACTTTGAAAAATAAAA-GCTCCTCCAAATAG
1 AGGC-TCAACAACTTTGAAAAATAAAAGGCTCCTCTAAATAG
1885141 AGGCAT-AACAACTTTGAAAAAAATAAAA-GCTCCT
1 AGGC-TCAACAACTTTG--AAAAATAAAAGGCTCCT
1885175 TAACCATCAT
Statistics
Matches: 343, Mismatches: 48, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.01
40 104 0.30
41 84 0.24
42 31 0.09
43 71 0.21
44 47 0.14
45 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (41 bp):
AGGCTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAATAG
Found at i:1886024 original size:63 final size:66
Alignment explanation
Indices: 1885943--1886088 Score: 154
Period size: 70 Copynumber: 2.2 Consensus size: 66
1885933 GACCATTTAG
* *
1885943 AACAAGTTCTATCAATTGAT-A-C-TTGACCACAATTCACAAGCTTTTCAACACTAGCAATTTCA
1 AACAAATTCTATCAATTGATCATCTTTCACCACAATTCACAAGCTTTTCAACACTAGCAATTTCA
1886005 A
66 A
* * * *
1886006 AACAAATTTTATCTATTGATCGATCTATTTTCACCATAATTCACAAGCTTTTCAACACTAGCCAT
1 AACAAATTCTATCAATTGATC-ATC---TTTCACCACAATTCACAAGCTTTTCAACACTAGCAAT
* *
1886071 TTTAG
62 TTCAA
*
1886076 AATAAATTCTATC
1 AACAAATTCTATC
1886089 CTCTAATCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
63 17 0.26
65 1 0.02
66 1 0.02
70 47 0.71
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (66 bp):
AACAAATTCTATCAATTGATCATCTTTCACCACAATTCACAAGCTTTTCAACACTAGCAATTTCA
A
Found at i:1886887 original size:19 final size:18
Alignment explanation
Indices: 1886865--1886915 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
1886855 CAATTTGAGT
1886865 ATTTCTTTTCTTTTTTTTC
1 ATTT-TTTTCTTTTTTTTC
*
1886884 ATTTTTTTTCATTTTTTTC
1 A-TTTTTTTCTTTTTTTTC
1886903 ATTTTTTTCTTTT
1 ATTTTTTTCTTTT
1886916 CATTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 15 0.52
20 3 0.10
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTTCTTTTTTTTC
Found at i:1886890 original size:148 final size:149
Alignment explanation
Indices: 1886614--1886911 Score: 408
Period size: 148 Copynumber: 2.0 Consensus size: 149
1886604 GCTTCAAGAG
* * * *
1886614 ATCTTCATATGTCTTTGATCTTCCATCCATGTGAACTATCTATCGAACTCTCAGCTCACAGATTT
1 ATCTTCATATATCTTTGATCTTCCATCCATATGAACTATCTATCGAACTCTCAGCTCAAAAATTT
* *
1886679 TTCTACCCAAATTACCCTTTTGAGTTTTCAATTTGAGTCTTTATTTTCTCTCTTTTTCA-TTTTT
66 CTCTACCCAAATTACCCTTTTGAGTTTTCAATTTGAGTATTTATTTTCTCTCTTTTTCATTTTTT
1886743 CATTTTTTTTC-TTTTTTTC
131 CA-TTTTTTTCATTTTTTTC
* *
1886762 ATCTTCATATATCTTTGATCTTCCATCTATATGAACTATCTATCTAACTCTCAAG-TCAAAAATT
1 ATCTTCATATATCTTTGATCTTCCATCCATATGAACTATCTATCGAACTCTC-AGCTCAAAAATT
* * * *
1886826 TCTCTATCCAAATTGCCCTTTT-AGGTTTTCAATTTGAGTATTTCTTTTCT-TTTTTTTCATTTT
65 TCTCTACCCAAATTACCCTTTTGA-GTTTTCAATTTGAGTATTTATTTTCTCTCTTTTTCA--TT
1886889 TTTTCATTTTTTTCATTTTTTTC
127 TTTTCATTTTTTTCATTTTTTTC
1886912 TTTTCATTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
147 9 0.07
148 98 0.74
149 10 0.08
150 15 0.11
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.53
Consensus pattern (149 bp):
ATCTTCATATATCTTTGATCTTCCATCCATATGAACTATCTATCGAACTCTCAGCTCAAAAATTT
CTCTACCCAAATTACCCTTTTGAGTTTTCAATTTGAGTATTTATTTTCTCTCTTTTTCATTTTTT
CATTTTTTTCATTTTTTTC
Found at i:1886926 original size:10 final size:10
Alignment explanation
Indices: 1886865--1886910 Score: 69
Period size: 9 Copynumber: 4.8 Consensus size: 10
1886855 CAATTTGAGT
*
1886865 ATTTCTTTTC
1 ATTTTTTTTC
1886875 -TTTTTTTTC
1 ATTTTTTTTC
1886884 ATTTTTTTTC
1 ATTTTTTTTC
1886894 A-TTTTTTTC
1 ATTTTTTTTC
1886903 ATTTTTTT
1 ATTTTTTT
1886911 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:1889333 original size:21 final size:21
Alignment explanation
Indices: 1889309--1889446 Score: 267
Period size: 21 Copynumber: 6.6 Consensus size: 21
1889299 TAATGCATGA
1889309 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
1889330 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
1889351 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
1889372 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
1889393 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
1889414 ATGAAATGTACATTTTCATTC
1 ATGAAATGTACATTTTCATTC
*
1889435 ATGAAATATACA
1 ATGAAATGTACA
1889447 ATACATTTTC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 116 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGAAATGTACATTTTCATTC
Found at i:1889664 original size:19 final size:19
Alignment explanation
Indices: 1889623--1889664 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1889613 GCAGAAAGGG
* *
1889623 CTCTATCCTTAAAGCAGGG
1 CTCTATCCTTAAAACAGGC
*
1889642 CTCTATCCTTAAAACTGGC
1 CTCTATCCTTAAAACAGGC
1889661 CTCT
1 CTCT
1889665 TAAGTGAAAA
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:0.31, G:0.14, T:0.31
Consensus pattern (19 bp):
CTCTATCCTTAAAACAGGC
Found at i:1890708 original size:111 final size:109
Alignment explanation
Indices: 1890581--1890783 Score: 309
Period size: 112 Copynumber: 1.8 Consensus size: 109
1890571 TATTCCACCA
* * *
1890581 TTTGGTCAAATTAGAAATATTTTCTTTTTC-GAATTTCTAAATTTTCCACCATTTAGGCCTATTT
1 TTTGGTCAAATTAGAAATATTTTCTCTTTCAAAATTTCAAAATTTTCCACCATTTAGGCCTATTT
*
1890645 AGAAATTTTTTTATTTATCTTTTTCTTTTGGATTTCTAAATTTCCC
66 AGAAATTCTTTT-TTT-TCTTTTTCTTTTGGATTTCTAAATTTCCC
* * *
1890691 TTTGAGTCAATTTAGAAATATTTTCTCTTTCAAAATTTCAAAATTTTTCATCATTTAGGCCTATT
1 TTTG-GTCAAATTAGAAATATTTTCTCTTTCAAAATTTCAAAATTTTCCACCATTTAGGCCTATT
1890756 TAGAAATTCTTTTTTTTCTTTTTCTTTT
65 TAGAAATTCTTTTTTTTCTTTTTCTTTT
1890784 TTTGAAAGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
110 16 0.19
111 27 0.32
112 41 0.49
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (109 bp):
TTTGGTCAAATTAGAAATATTTTCTCTTTCAAAATTTCAAAATTTTCCACCATTTAGGCCTATTT
AGAAATTCTTTTTTTTCTTTTTCTTTTGGATTTCTAAATTTCCC
Found at i:1891192 original size:25 final size:25
Alignment explanation
Indices: 1891141--1891192 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
1891131 CAAAAAATTA
***
1891141 TTTTATTATTTTATATTTTTGTTAT
1 TTTTATTATTTTATATTTTTAAAAT
* *
1891166 TTTTGTTATTTTATTTTTTTAAAAT
1 TTTTATTATTTTATATTTTTAAAAT
1891191 TT
1 TT
1891193 AATCATGTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTATTATTTTATATTTTTAAAAT
Found at i:1891749 original size:31 final size:31
Alignment explanation
Indices: 1891712--1891778 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
1891702 AAAATCATCA
1891712 AAAAATTCAA-CTGGCACCAGAAAATTCACTG
1 AAAAATTCAATC-GGCACCAGAAAATTCACTG
* * *
1891743 AAAAATTCAATCGGCGCCTGAAAATTTACTG
1 AAAAATTCAATCGGCACCAGAAAATTCACTG
1891774 AAAAA
1 AAAAA
1891779 CTAGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (31 bp):
AAAAATTCAATCGGCACCAGAAAATTCACTG
Found at i:1896308 original size:21 final size:24
Alignment explanation
Indices: 1896282--1896324 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
1896272 CTTTTTTTTG
1896282 TATTTT-TTTAT-TG-TTATTTAA
1 TATTTTATTTATGTGTTTATTTAA
1896303 TATTTTATTTATGTGTTTATTT
1 TATTTTATTTATGTGTTTATTT
1896325 TTTTGATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 2 0.11
24 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (24 bp):
TATTTTATTTATGTGTTTATTTAA
Found at i:1896832 original size:3 final size:3
Alignment explanation
Indices: 1896824--1896876 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
1896814 AAAATTTAGA
1896824 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1896872 AAT AA
1 AAT AA
1896877 AGAGGATTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1902656 original size:10 final size:10
Alignment explanation
Indices: 1902643--1902684 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1902633 TATCAAAGAT
*
1902643 AGAAAAAAAG
1 AGAAAAAAAA
1902653 AGAAAAAAAA
1 AGAAAAAAAA
1902663 AGCAAAAAAAA
1 AG-AAAAAAAA
1902674 A-AAAGAAAAA
1 AGAAA-AAAAA
1902684 A
1 A
1902685 TGAATGCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.10
10 17 0.59
11 9 0.31
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:1902660 original size:12 final size:12
Alignment explanation
Indices: 1902645--1902684 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
1902635 TCAAAGATAG
1902645 AAAAAAAGAGAA
1 AAAAAAAGAGAA
1902657 AAAAAAAGCA-AA
1 AAAAAAAG-AGAA
*
1902669 AAAAAAAAAGAA
1 AAAAAAAGAGAA
1902681 AAAA
1 AAAA
1902685 TGAATGCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:1902672 original size:14 final size:13
Alignment explanation
Indices: 1902645--1902684 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1902635 TCAAAGATAG
*
1902645 AAAAAAAG-AGAA
1 AAAAAAAGAAAAA
1902657 AAAAAAAGCAAAAA
1 AAAAAAAG-AAAAA
1902671 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
1902684 A
1 A
1902685 TGAATGCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:1903088 original size:9 final size:8
Alignment explanation
Indices: 1903074--1903112 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
1903064 AATAAAATGG
1903074 TGAAAAAA
1 TGAAAAAA
1903082 TGAAAAAA
1 TGAAAAAA
1903090 TGAAAAAA
1 TGAAAAAA
1903098 -GAGAAAAA
1 TGA-AAAAA
*
1903106 TGGAAAA
1 TGAAAAA
1903113 GAGAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 2 0.07
8 25 0.89
9 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (8 bp):
TGAAAAAA
Found at i:1903093 original size:16 final size:16
Alignment explanation
Indices: 1903074--1903122 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
1903064 AATAAAATGG
1903074 TGAAAAAATGA-AAAAA
1 TGAAAAAA-GAGAAAAA
1903090 TGAAAAAAGAGAAAAA
1 TGAAAAAAGAGAAAAA
*
1903106 TGGAAAAGAGAGAAAAA
1 T-GAAAAAAGAGAAAAA
1903123 GAAGACTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 2 0.07
16 14 0.47
17 14 0.47
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.08
Consensus pattern (16 bp):
TGAAAAAAGAGAAAAA
Found at i:1904443 original size:84 final size:79
Alignment explanation
Indices: 1904263--1904465 Score: 307
Period size: 84 Copynumber: 2.5 Consensus size: 79
1904253 TTTTTGAGTT
* * *
1904263 CTCAAATGGGAGTCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAAACCAAAATTTGTCAAA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAAACCAAAATTTATCAAA
1904328 TGTGAATCTTCAAA
66 TGTGAATCTTCAAA
*
1904342 CTCAAATGATAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAAAACAAAACAAAATTTA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTG-AAAAC----CAAAATTTA
*
1904407 TCAAATGTGAATCTTCGAA
61 TCAAATGTGAATCTTCAAA
*
1904426 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGA
1904466 ATTTCAAATG
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 43 0.38
80 5 0.04
84 64 0.57
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (79 bp):
CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAAACCAAAATTTATCAAA
TGTGAATCTTCAAA
Found at i:1904453 original size:21 final size:21
Alignment explanation
Indices: 1904407--1904486 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
1904397 ACAAAATTTA
* * *
1904407 TCAAATGTGAATCTTCGAA-C
1 TCAAATGAGAATCTTTGAATT
1904427 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
1904448 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
1904469 TCAAATGAGAATCTTTGA
1 TCAAATGAGAATCTTTGA
1904487 GGTGTGAAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 17 0.30
21 39 0.70
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATT
Found at i:1904462 original size:105 final size:101
Alignment explanation
Indices: 1904343--1904566 Score: 315
Period size: 105 Copynumber: 2.2 Consensus size: 101
1904333 ATCTTCAAAC
*
1904343 TCAAATGATAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAAAACAAAACAAAATTTAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTG--AAAC---ACAAAATTTAT
* *
1904408 CAAATGTGAATCTTCGAACTCAAATGAGAATC-TTTGAATT
61 CAAATGTAAATCTTCGAACTCAAATGAGAACCTTTTGAATT
* * * **
1904448 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACTCAAAATTTGTTGAAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAACACAAAATTTATCAAAT
*
1904513 GTAAATCTTCGAACTCAAATGAGAACCTTTTGAGTT
66 GTAAATCTTCGAACTCAAATGAGAACCTTTTGAATT
1904549 TCAAATGAGAATCTTTGA
1 TCAAATGAGAATCTTTGA
1904567 GGTGTGAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
100 37 0.34
101 25 0.23
103 4 0.04
105 43 0.39
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (101 bp):
TCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAACACAAAATTTATCAAAT
GTAAATCTTCGAACTCAAATGAGAACCTTTTGAATT
Found at i:1904551 original size:80 final size:80
Alignment explanation
Indices: 1904448--1904608 Score: 261
Period size: 80 Copynumber: 2.0 Consensus size: 80
1904438 TCTTTGAATT
* *
1904448 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACTC-AAAATTTGTTGAA
1 TCAAATGAGAACCTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCTAAAATTTGTTGAA
1904512 TGTAAATCTTCGAAC
66 TGTAAATCTTCGAAC
* *
1904527 TCAAATGAGAACCTTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCTAAAGTTTGTTGA
1 TCAAATGAGAACC-TTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCTAAAATTTGTTGA
*
1904592 ATGTGAATCTTCGAAC
65 ATGTAAATCTTCGAAC
1904608 T
1 T
1904609 AGAATGAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
79 12 0.16
80 36 0.48
81 27 0.36
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (80 bp):
TCAAATGAGAACCTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCTAAAATTTGTTGAA
TGTAAATCTTCGAAC
Found at i:1904624 original size:80 final size:80
Alignment explanation
Indices: 1904448--1904626 Score: 256
Period size: 80 Copynumber: 2.2 Consensus size: 80
1904438 TCTTTGAATT
* *
1904448 TCAAATGAGAATC-TTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACTCAAAATTTGTTGAA
1 TCAAATGAGAAACTTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAA
1904512 TGTAAATCTTCGAAC
66 TGTAAATCTTCGAAC
* * *
1904527 TCAAATGAGAACCTTTTGAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCTAAAGTTTGTTGA
1 TCAAATGAGAAACTTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCC-AAAATTTGTTGA
*
1904592 ATGTGAATCTTCGAAC
65 ATGTAAATCTTCGAAC
*
1904608 T-AGAATGA-AAAGTTTTGAA
1 TCA-AATGAGAAACTTTTGAA
1904627 CTTTTGGATG
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 12 0.13
80 45 0.51
81 32 0.36
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (80 bp):
TCAAATGAGAAACTTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAA
TGTAAATCTTCGAAC
Found at i:1905085 original size:41 final size:42
Alignment explanation
Indices: 1905038--1905224 Score: 231
Period size: 41 Copynumber: 4.5 Consensus size: 42
1905028 TGAGCCTCTG
*
1905038 TTAGAGGAGCAATTTATTTTTC-AAAGTTATGGTGCCTTTAT
1 TTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTAT
*
1905079 TTAGAGGAGCAATTTACTTTTCAAAAGTTATGGT-CCT-TATGT
1 TTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTA--T
** *
1905121 TTAGAGGAGCAATTTATTTTT-TGAAGTTGTGGTGCCTCTAT
1 TTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTAT
* * **
1905162 TTAAAGGAGCAATTTATTTTTCAAAAGTTCTGGTGCCTCTGC
1 TTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTAT
*
1905204 TTATAGGAGC-ATTTATTTTTC
1 TTAGAGGAGCAATTTATTTTTC
1905225 TCAAAGTCGT
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.02
41 65 0.51
42 59 0.46
43 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (42 bp):
TTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTAT
Found at i:1905177 original size:83 final size:83
Alignment explanation
Indices: 1905038--1905224 Score: 261
Period size: 83 Copynumber: 2.3 Consensus size: 83
1905028 TGAGCCTCTG
* *
1905038 TTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCTTTATTTAGAGGAGCAATTTACTTTTCAA
1 TTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCTCTATTTAAAGGAGCAATTTACTTTTCAA
*
1905103 AAGTTATGGT-CCTTATGT
66 AAGTTATGGTGCC-TATGC
** * *
1905121 TTAGAGGAGCAATTTATTTTTTGAAGTTGTGGTGCCTCTATTTAAAGGAGCAATTTATTTTTCAA
1 TTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCTCTATTTAAAGGAGCAATTTACTTTTCAA
* *
1905186 AAGTTCTGGTGCCTCTGC
66 AAGTTATGGTGCCTATGC
*
1905204 TTATAGGAGC-ATTTATTTTTC
1 TTAGAGGAGCAATTTATTTTTC
1905225 TCAAAGTCGT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 10 0.11
83 80 0.87
84 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (83 bp):
TTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCTCTATTTAAAGGAGCAATTTACTTTTCAA
AAGTTATGGTGCCTATGC
Found at i:1905231 original size:42 final size:43
Alignment explanation
Indices: 1905031--1905255 Score: 234
Period size: 42 Copynumber: 5.4 Consensus size: 43
1905021 AAGTCATTGA
1905031 GCCTCTG-TTAGAGGAGCAATTTATTTTTC--AAAGTTATGGT
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
* * *
1905071 GCCTTTATTTAGAGGAGCAATTTACTTTTC-AAAAGTTATGGT
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
* * *
1905113 -CCTTATGTTTAGAGGAGCAATTTATTTTT-T-GAAGTTGTGGT
1 GCC-TCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
* * *
1905154 GCCTCTATTTAAAGGAGCAATTTATTTTTC-AAAAGTTCTGGT
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
* * * ** * *
1905196 GCCTCTGCTTATAGGAGC-ATTTATTTTTCTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
1905238 GCCTCTGTTTAGAGGAGC
1 GCCTCTGTTTAGAGGAGC
1905256 TTTGTTTACT
Statistics
Matches: 154, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.03
41 66 0.43
42 83 0.54
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (43 bp):
GCCTCTGTTTAGAGGAGCAATTTATTTTTCTAAAAGTTATGGT
Found at i:1905415 original size:7 final size:7
Alignment explanation
Indices: 1905405--1905446 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
1905395 GATTTTTGCT
1905405 AATAAAA
1 AATAAAA
1905412 AATAAAA
1 AATAAAA
1905419 AATAAAA
1 AATAAAA
1905426 AATGAAAA
1 AAT-AAAA
*
1905434 ACTAAAA
1 AATAAAA
1905441 AA-AAAA
1 AATAAAA
1905447 CCAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 4 0.12
7 22 0.69
8 6 0.19
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (7 bp):
AATAAAA
Found at i:1905433 original size:15 final size:14
Alignment explanation
Indices: 1905405--1905446 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
1905395 GATTTTTGCT
1905405 AATAAAAAATAAAA
1 AATAAAAAATAAAA
1905419 AATAAAAAATGAAAA
1 AATAAAAAAT-AAAA
*
1905434 ACTAAAAAA-AAAA
1 AATAAAAAATAAAA
1905447 CCAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 10 0.38
15 12 0.46
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (14 bp):
AATAAAAAATAAAA
Found at i:1907550 original size:3 final size:3
Alignment explanation
Indices: 1907542--1907567 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1907532 AAAATTTAGA
1907542 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1907568 GGATTTCTAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1908395 original size:133 final size:133
Alignment explanation
Indices: 1908157--1908558 Score: 732
Period size: 133 Copynumber: 3.0 Consensus size: 133
1908147 GATTCAGAAC
* * *
1908157 AAAACCAAAATTCCATTTCAAGACAATCTTAATTTCCCAAAAATTTGATCAAAGCAAATGTTCGA
1 AAAACCAAAATTCCATGTCAAGACAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
*
1908222 AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTCGAAAAATAATGACCAAACATGC
66 AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTCTAAAAATAATGACCAAACATGC
1908287 CAT
131 CAT
1908290 AAAACCAAAATTCCATGTCAAGACAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
1 AAAACCAAAATTCCATGTCAAGACAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
* *
1908355 AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTATAAAAATAATGACCACACATGC
66 AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTCTAAAAATAATGACCAAACATGC
1908420 CAT
131 CAT
*
1908423 AAAACCAAAATTCCATGTCAAGAAAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
1 AAAACCAAAATTCCATGTCAAGACAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
*
1908488 AAACAATGAAGAAAACCCATCATTAATAATCAAGTTTCCCTTCTAAAAATAATGACCAAACATGC
66 AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTCTAAAAATAATGACCAAACATGC
1908553 CAT
131 CAT
1908556 AAA
1 AAA
1908559 GACCCATACA
Statistics
Matches: 259, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 259 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (133 bp):
AAAACCAAAATTCCATGTCAAGACAATCTTAATTTCCCAGAAATTTGATCAAAGCAAATGTTCAA
AAACAATGAAGAAAACCCATCATTAATAATCAAATTTCCCTTCTAAAAATAATGACCAAACATGC
CAT
Found at i:1912681 original size:58 final size:58
Alignment explanation
Indices: 1912543--1912878 Score: 437
Period size: 59 Copynumber: 5.7 Consensus size: 58
1912533 AAATTTCAAA
* * * *
1912543 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGGAATCAAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT--AAATTTTC
*
1912603 -GAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* * * * *
1912660 AAAAATGA-ATTTTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGGAAATCAATGTTTC
1 AAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT-TTTC
* *
1912719 AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 --AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
1912779 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 -AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
1912838 -AAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1912879 CTACGCAAGA
Statistics
Matches: 248, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
57 47 0.19
58 45 0.18
59 106 0.43
60 5 0.02
61 45 0.18
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:1912840 original size:178 final size:177
Alignment explanation
Indices: 1912536--1912878 Score: 514
Period size: 178 Copynumber: 1.9 Consensus size: 177
1912526 AAAAATAAAA
***
1912536 TTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGGAATCAAAATTT
1 TTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTT
* *
1912601 TCGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAA
65 TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* *
1912665 TGAATTTTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGGAAATCAATG
130 T--ATTTTCAAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAATG
*
1912715 TTTC-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTT
1 TTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
1912778 CAAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
66 C--AAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
**
1912842 AATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCC
128 AATATTTTCAAGGAAAAGTTGAAAGTATCAATTTTCC
1912879 CTACGCAAGA
Statistics
Matches: 150, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
176 8 0.05
177 31 0.21
178 101 0.67
179 10 0.07
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (177 bp):
TTTCAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAT
ATTTTCAAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAATG
Found at i:1914917 original size:30 final size:29
Alignment explanation
Indices: 1914852--1914909 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1914842 ATTGCACTAA
1914852 AAAAATCTAATTTTTTATTCCAATTTGAT
1 AAAAATCTAATTTTTTATTCCAATTTGAT
1914881 AAAAATCTAATTTTTTATTCCAATTTGAT
1 AAAAATCTAATTTTTTATTCCAATTTGAT
1914910 GCTAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.48
Consensus pattern (29 bp):
AAAAATCTAATTTTTTATTCCAATTTGAT
Found at i:1914919 original size:82 final size:78
Alignment explanation
Indices: 1914823--1914979 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 78
1914813 TCCATTTAAA
*
1914823 TTGATGCTAGATCATTCTCATTGCA-CTAAAAAAATCTAATTTTTTATTCCAATTTGAT-AAAAA
1 TTGATGCTAAATCATTCTCATTGCACCT----AAATCTAA--TTTTATTCCAATTTGATAAAAAA
1914886 TCTAATTTTTTATTCCAAT
60 TCTAATTTTTTATTCCAAT
1914905 TTGATGCTAAATCATTCTCATTGCACCTAAATCTAATTTTATTCCAATTTGATAAAAAAAATCTA
1 TTGATGCTAAATCATTCTCATTGCACCTAAATCTAATTTTATTCCAATTTGAT--AAAAAATCTA
1914970 ATTTTTTATT
64 ATTTTTTATT
1914980 TGAATAAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
77 17 0.24
79 8 0.11
80 19 0.27
82 24 0.34
83 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.44
Consensus pattern (78 bp):
TTGATGCTAAATCATTCTCATTGCACCTAAATCTAATTTTATTCCAATTTGATAAAAAATCTAAT
TTTTTATTCCAAT
Found at i:1914980 original size:26 final size:29
Alignment explanation
Indices: 1914933--1914989 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1914923 CATTGCACCT
1914933 AAATCTAATTTTATTCCAATTTG-ATAAAAA
1 AAATCTAATTTTATT-C-ATTTGAATAAAAA
1914963 AAATCTAATTTT-TT-ATTTGAATAAAAA
1 AAATCTAATTTTATTCATTTGAATAAAAA
1914990 TACAATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.19
27 7 0.27
29 2 0.08
30 12 0.46
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (29 bp):
AAATCTAATTTTATTCATTTGAATAAAAA
Found at i:1915403 original size:20 final size:20
Alignment explanation
Indices: 1915374--1915414 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1915364 TAGAGTTTTT
* *
1915374 AAAATTTTATTAATTTTAAA
1 AAAATATTATTAATTATAAA
*
1915394 AAAATATTATTGATTATAAA
1 AAAATATTATTAATTATAAA
1915414 A
1 A
1915415 TACCATGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATATTATTAATTATAAA
Found at i:1917387 original size:58 final size:56
Alignment explanation
Indices: 1917265--1917443 Score: 222
Period size: 58 Copynumber: 3.2 Consensus size: 56
1917255 GTTTTTGTAT
* ** * *
1917265 AAGGAAAATTGATGCTTTCAACTTTTCCTC-AAACCTTTTTTAGAA-AATTATTTTTA
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAGACTTA--TTTA
*
1917321 AA-GAAAATTGATATTTTCAACTTTTCCTCGAAAATATTTTTTTGAAGACTTATTTA
1 AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTGAAGACTTATTTA
1917377 GAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAGACTTATTTA
1 -AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTTGAAGACTTATTTA
1917436 AA-GAAAAT
1 AAGGAAAAT
1917444 CAAAAAATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
55 25 0.23
56 6 0.06
57 20 0.18
58 38 0.35
59 20 0.18
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (56 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAGACTTATTTA
Found at i:1917457 original size:5 final size:5
Alignment explanation
Indices: 1917447--1917501 Score: 74
Period size: 5 Copynumber: 10.4 Consensus size: 5
1917437 AGAAAATCAA
*
1917447 AAAAT AAAAT AAGAT AAAAAT CAAAAT AAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT
1917495 AAAAT AA
1 AAAAT AA
1917502 GAAATACTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
5 31 0.69
6 14 0.31
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1917465 original size:10 final size:10
Alignment explanation
Indices: 1917447--1917501 Score: 74
Period size: 11 Copynumber: 5.2 Consensus size: 10
1917437 AGAAAATCAA
1917447 AAAATAAAAT
1 AAAATAAAAT
*
1917457 AAGATAAAAAT
1 AAAAT-AAAAT
1917468 CAAAATAAAAT
1 -AAAATAAAAT
1917479 AAAAATAAAAT
1 -AAAATAAAAT
1917490 AAAATAAAAT
1 AAAATAAAAT
1917500 AA
1 AA
1917502 GAAATACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
10 16 0.40
11 20 0.50
12 4 0.10
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:1917467 original size:16 final size:16
Alignment explanation
Indices: 1917446--1917498 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
1917436 AAGAAAATCA
*
1917446 AAAAATAAAATAAGAT
1 AAAAATAAAATAAAAT
1917462 AAAAATCAAAATAAAAT
1 AAAAAT-AAAATAAAAT
1917479 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
1917495 AAAA
1 AAAA
1917499 TAAGAAATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 20 0.57
17 15 0.43
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:1917541 original size:3 final size:3
Alignment explanation
Indices: 1917471--1917558 Score: 60
Period size: 3 Copynumber: 29.7 Consensus size: 3
1917461 TAAAAATCAA
* * *
1917471 AAT AA- AAT AAA AAT AA- AAT AA- AAT AA- AAT AAGA AAT ACT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT
* *
1917514 AAT TAT AAT -CT AAT CAAT AAAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
1917559 ATATATATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.14
3 47 0.71
4 10 0.15
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1918296 original size:11 final size:11
Alignment explanation
Indices: 1918280--1918306 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1918270 ACCGAATAAG
1918280 AAAAAAAAGAA
1 AAAAAAAAGAA
1918291 AAAAAAAAGAA
1 AAAAAAAAGAA
1918302 AAAAA
1 AAAAA
1918307 TAATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:1918364 original size:53 final size:54
Alignment explanation
Indices: 1918302--1918460 Score: 138
Period size: 53 Copynumber: 3.1 Consensus size: 54
1918292 AAAAAAAGAA
1918302 AAAAATAATATATTAATAGATAACTAAAAGAA-A-ATA-ATTAGATAAAT-AATAAT
1 AAAAATAATATATTAATAGATAA-TAAAA-AACATATATATTA-ATAAATAAATAAT
* * * * *
1918355 AATAATAATAGATAAAT-TATAATAAAAAACATATATATTAATAGATAAATAAT
1 AAAAATAATATATTAATAGATAATAAAAAACATATATATTAATAAATAAATAAT
* * * * *
1918408 AAAAAAAATATGTTAATAGAT-A-AAAATA-A-ATATATTAGTAGATAAATAAT
1 AAAAATAATATATTAATAGATAATAAAAAACATATATATTAATAAATAAATAAT
1918458 AAA
1 AAA
1918461 TATATTTAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
50 25 0.28
51 7 0.08
52 17 0.19
53 37 0.42
54 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.30
Consensus pattern (54 bp):
AAAAATAATATATTAATAGATAATAAAAAACATATATATTAATAAATAAATAAT
Found at i:1918368 original size:23 final size:23
Alignment explanation
Indices: 1918305--1918379 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
1918295 AAAAGAAAAA
* *
1918305 AATAAT-ATATTAATAGATAACT
1 AATAATAATAATAATAGATAAAT
*
1918327 AA-AAGAA-AATAATTAGATAAAT
1 AATAATAATAATAA-TAGATAAAT
1918349 AATAATAATAATAATAGATAAAT
1 AATAATAATAATAATAGATAAAT
*
1918372 TATAATAA
1 AATAATAA
1918380 AAAACATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.14
22 13 0.30
23 20 0.45
24 5 0.11
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAATAATAATAATAGATAAAT
Found at i:1918380 original size:33 final size:34
Alignment explanation
Indices: 1918333--1918417 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
1918323 AACTAAAAGA
1918333 AAATAATTAGATAAATAATA-ATA-ATAATAATAGAT
1 AAATAA-TA-ATAAA-AATACATATATAATAATAGAT
* *
1918368 AAATTATAATAAAAA-ACATATATATTAATAGAT
1 AAATAATAATAAAAATACATATATAATAATAGAT
*
1918401 AAATAATAAAAAAAATA
1 AAATAATAATAAAAATA
1918418 TGTTAATAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.02
32 5 0.12
33 29 0.67
34 3 0.07
35 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (34 bp):
AAATAATAATAAAAATACATATATAATAATAGAT
Found at i:1918409 original size:30 final size:28
Alignment explanation
Indices: 1918340--1918460 Score: 98
Period size: 28 Copynumber: 4.5 Consensus size: 28
1918330 AGAAAATAAT
* *
1918340 TAGATAAATAATAATAATAATA-A-TAGA
1 TAGATAAATAATAAAAAAAATATATTA-A
* *
1918367 TAAAT-TATAATAAAAAACATATATATTAA
1 TAGATAAATAATAAAAAA-A-ATATATTAA
*
1918396 TAGATAAATAATAAAAAAAATATGTTAA
1 TAGATAAATAATAAAAAAAATATATTAA
*
1918424 TAGATAAA-AAT-----AAATATATTAG
1 TAGATAAATAATAAAAAAAATATATTAA
1918446 TAGATAAATAATAAA
1 TAGATAAATAATAAA
1918461 TATATTTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
22 17 0.22
23 3 0.04
26 9 0.12
27 8 0.11
28 19 0.25
29 7 0.09
30 13 0.17
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.31
Consensus pattern (28 bp):
TAGATAAATAATAAAAAAAATATATTAA
Found at i:1918409 original size:50 final size:50
Alignment explanation
Indices: 1918352--1918460 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
1918342 GATAAATAAT
* *
1918352 AATAATAATAATAGATAAATT-ATA-ATAAAAA-ACATATATATTAATAGATA
1 AATAATAA-AAAAAATAAATTAATAGATAAAAATA-A-ATATATTAATAGATA
** *
1918402 AATAATAAAAAAAATATGTTAATAGATAAAAATAAATATATTAGTAGATA
1 AATAATAAAAAAAATAAATTAATAGATAAAAATAAATATATTAATAGATA
1918452 AATAATAAA
1 AATAATAAA
1918461 TATATTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
49 8 0.16
50 34 0.67
51 8 0.16
52 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (50 bp):
AATAATAAAAAAAATAAATTAATAGATAAAAATAAATATATTAATAGATA
Found at i:1918423 original size:28 final size:30
Alignment explanation
Indices: 1918373--1918437 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 30
1918363 TAGATAAATT
1918373 ATAATAAAAAACATATATATTAATAGATAA
1 ATAATAAAAAACATATATATTAATAGATAA
*
1918403 ATAATAAAAAA-A-ATATGTTAATAGATAA
1 ATAATAAAAAACATATATATTAATAGATAA
1918431 A-AATAAA
1 ATAATAAA
1918438 TATATTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 6 0.18
28 16 0.47
29 1 0.03
30 11 0.32
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (30 bp):
ATAATAAAAAACATATATATTAATAGATAA
Found at i:1918462 original size:23 final size:22
Alignment explanation
Indices: 1918402--1918466 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
1918392 TTAATAGATA
*
1918402 AATA-ATAAAAA-AAATATGTT
1 AATAGATAAAAATAAATATATT
1918422 AATAGATAAAAATAAATATATT
1 AATAGATAAAAATAAATATATT
*
1918444 AGTAGATAAATAATAAATATATT
1 AATAGATAAA-AATAAATATATT
1918467 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.10
21 7 0.17
22 17 0.43
23 12 0.30
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (22 bp):
AATAGATAAAAATAAATATATT
Found at i:1918498 original size:19 final size:18
Alignment explanation
Indices: 1918468--1918507 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
1918458 AAATATATTT
1918468 AAAAAATAAAT-AAAATA
1 AAAAAATAAATAAAAATA
1918485 AAAAAATACTAATAAAAATA
1 AAAAAATA--AATAAAAATA
1918505 AAA
1 AAA
1918508 GCCAAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAATAAATAAAAATA
Found at i:1918810 original size:43 final size:43
Alignment explanation
Indices: 1918703--1918909 Score: 233
Period size: 43 Copynumber: 4.9 Consensus size: 43
1918693 AAATTTTGAT
* * *
1918703 CAAAGCTTCTCTAAGCAGAGGCTCAACGACTTTAAAAAGCATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--ATAAA
*
1918748 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
* * * * *
1918791 TAAAGTTCATCTAAACAGAGGTTCAACGACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
*
1918834 CAAAGCTCCTCTAATCAGAGG-TCAATGACTTTG-AAAAT-AA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
** * * *
1918874 -ATGGCTCCTCTAATAAGAGGCTTAACGAATTTGAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
1918910 GTAAATGGCT
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.12
40 11 0.08
41 7 0.05
42 11 0.08
43 59 0.42
45 34 0.24
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (43 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
Found at i:1918918 original size:40 final size:40
Alignment explanation
Indices: 1918752--1918967 Score: 134
Period size: 43 Copynumber: 5.2 Consensus size: 40
1918742 CATAAACAAA
* * * *
1918752 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAA
1 GCTCCTCTAATAAGAGGCTCAACGAATTT-GAAAGTAAAT--G
* * * * * **
1918795 GTTCATCTAA-ACAGAGGTTCAACGACTTTGAAAAATAAACAAA
1 GCTCCTCTAATA-AGAGGCTCAACGAATTTG-AAAGT-AA-ATG
* * * *
1918838 GCTCCTCTAATCAGAGG-TCAATGACTTTGAAAATAAATG
1 GCTCCTCTAATAAGAGGCTCAACGAATTTGAAAGTAAATG
*
1918877 GCTCCTCTAATAAGAGGCTTAACGAATTTGAAAGTAAATG
1 GCTCCTCTAATAAGAGGCTCAACGAATTTGAAAGTAAATG
* * * *
1918917 GCTTCTCTAA-ATAGAGGCACCAC-AACTTTTGAAAGTAAATT
1 GCTCCTCTAATA-AGAGGCTCAACGAA--TTTGAAAGTAAATG
1918958 GCTCCTCTAA
1 GCTCCTCTAA
1918968 ATAGAGGTAT
Statistics
Matches: 142, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
39 20 0.14
40 37 0.26
41 27 0.19
42 12 0.08
43 43 0.30
44 2 0.01
45 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (40 bp):
GCTCCTCTAATAAGAGGCTCAACGAATTTGAAAGTAAATG
Found at i:1918966 original size:41 final size:41
Alignment explanation
Indices: 1918862--1919002 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 41
1918852 AGGTCAATGA
* ***
1918862 CTTTGAAAATAAATGGCTCCTCT-AATAAGAGGCTTAACGAA-
1 CTTTGAAAGTAAATGGCTCCTCTAAAT-AGAGGCACCAC-AAC
*
1918903 -TTTGAAAGTAAATGGCTTCTCTAAATAGAGGCACCACAAC
1 CTTTGAAAGTAAATGGCTCCTCTAAATAGAGGCACCACAAC
* * * * *
1918943 TTTTGAAAGTAAATTGCTCCTCTAAATAGAGGTATCATAAC
1 CTTTGAAAGTAAATGGCTCCTCTAAATAGAGGCACCACAAC
*
1918984 CTTGGAAAGTAAATGGCTC
1 CTTTGAAAGTAAATGGCTC
1919003 TTTGACAATC
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
39 2 0.02
40 28 0.33
41 54 0.64
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (41 bp):
CTTTGAAAGTAAATGGCTCCTCTAAATAGAGGCACCACAAC
Found at i:1920039 original size:8 final size:8
Alignment explanation
Indices: 1920026--1920114 Score: 53
Period size: 8 Copynumber: 11.2 Consensus size: 8
1920016 TCACTTTTTC
1920026 TTTTCTTT
1 TTTTCTTT
1920034 TTTTC-TT
1 TTTTCTTT
1920041 TTTTCTTT
1 TTTTCTTT
1920049 TCATTT-TTT
1 T--TTTCTTT
*
1920058 TCATT-TTT
1 T-TTTCTTT
1920066 TTTTCATTT
1 TTTTC-TTT
**
1920075 TTTT-TCA
1 TTTTCTTT
1920082 TTTT-TTT
1 TTTTCTTT
* *
1920089 ATTTCATT
1 TTTTCTTT
*
1920097 TTTTCTCT
1 TTTTCTTT
1920105 TTTTCTTT
1 TTTTCTTT
1920113 TT
1 TT
1920115 CAAGCATAGT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
7 18 0.29
8 30 0.48
9 11 0.18
10 3 0.05
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1920055 original size:21 final size:21
Alignment explanation
Indices: 1920020--1920113 Score: 115
Period size: 21 Copynumber: 4.5 Consensus size: 21
1920010 TTTCATTCAC
1920020 TTTTTCTTTTC-TTTTTTTCT
1 TTTTTCTTTTCATTTTTTTCT
*
1920040 TTTTTCTTTTCATTTTTTTCA
1 TTTTTCTTTTCATTTTTTTCT
1920061 TTTTT-TTTTCATTTTTTTTCAT
1 TTTTTCTTTTCA-TTTTTTTC-T
1920083 TTTTT-TATTTCA-TTTTTTCT
1 TTTTTCT-TTTCATTTTTTTCT
1920103 CTTTTTCTTTT
1 -TTTTTCTTTT
1920114 TCAAGCATAG
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
20 18 0.27
21 36 0.55
22 7 0.11
23 5 0.08
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTTCATTTTTTTCT
Found at i:1920058 original size:9 final size:9
Alignment explanation
Indices: 1920046--1920092 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
1920036 TTCTTTTTTC
1920046 TTTTCATTT
1 TTTTCATTT
1920055 TTTTCATTTTT
1 TTTTCA--TTT
1920066 TTTTCATTTT
1 TTTTCA-TTT
1920076 TTTTCATTT
1 TTTTCATTT
1920085 TTTT-ATTT
1 TTTTCATTT
1920093 CATTTTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.11
9 13 0.36
10 10 0.28
11 9 0.25
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCATTT
Found at i:1920067 original size:30 final size:29
Alignment explanation
Indices: 1920026--1920092 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
1920016 TCACTTTTTC
1920026 TTTTC-TTTTTTTCTT-TTTTCTTTTCATTT
1 TTTTCATTTTTTT-TTATTTT-TTTTCATTT
1920055 TTTTCATTTTTTTTTCATTTTTTTTCATTT
1 TTTTCATTTTTTTTT-ATTTTTTTTCATTT
1920085 TTTT-ATTT
1 TTTTCATTT
1920093 CATTTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 11 0.31
30 20 0.57
31 4 0.11
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTCATTTTTTTTTATTTTTTTTCATTT
Found at i:1930511 original size:15 final size:17
Alignment explanation
Indices: 1930482--1930520 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
1930472 ATTTAACATT
1930482 AAAAAAAATTCAAAAAG
1 AAAAAAAATTCAAAAAG
*
1930499 AAAAAAAA-T-AAAATG
1 AAAAAAAATTCAAAAAG
1930514 AAAAAAA
1 AAAAAAA
1930521 TAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAATTCAAAAAG
Found at i:1930531 original size:18 final size:16
Alignment explanation
Indices: 1930499--1930532 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
1930489 ATTCAAAAAG
1930499 AAAAAAAATAAAATGA
1 AAAAAAAATAAAATGA
1930515 AAAAAATAATAATAATGA
1 AAAAAA-AATAA-AATGA
1930533 TTCAGCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAAAAAATAAAATGA
Found at i:1930683 original size:57 final size:57
Alignment explanation
Indices: 1930589--1930779 Score: 267
Period size: 57 Copynumber: 3.3 Consensus size: 57
1930579 TTGTATAAGA
** * *
1930589 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTAGAAAATTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTCAAGG
* * *
1930646 AAAATTGATATTTTCAACTTTTCCTCGAAAATATTTTTTTGAAGACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAA-ACTTATTTTCAAGG
* *
1930704 AAAATTGAT-TTTTCAACTTTTCCTCAAAAATATTTTTTTAGAGAACTTATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGA-AACTTATTTTCAAGG
1930762 AAAATTGATACTTTCAAC
1 AAAATTGATACTTTCAAC
1930780 GGAAAATTGA
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
57 60 0.50
58 51 0.43
59 8 0.07
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTCAAGG
Found at i:1930741 original size:26 final size:26
Alignment explanation
Indices: 1930656--1930742 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 26
1930646 AAAATTGATA
*
1930656 TTTTCAACTTTTCCTCGAAAATATTT
1 TTTTCAACTTTTCCTCAAAAATATTT
* *
1930682 TTTTGAAGACTTATT-TTCAAGGAAA-ATTGAT
1 TTTT-CA-ACTT-TTCCTCAA--AAATATT--T
1930713 TTTTCAACTTTTCCTCAAAAATATTT
1 TTTTCAACTTTTCCTCAAAAATATTT
1930739 TTTT
1 TTTT
1930743 AGAGAACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
26 9 0.19
27 4 0.09
28 12 0.26
29 13 0.28
30 4 0.09
31 5 0.11
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (26 bp):
TTTTCAACTTTTCCTCAAAAATATTT
Found at i:1930783 original size:20 final size:20
Alignment explanation
Indices: 1930760--1930799 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1930750 TTATTTCCAA
1930760 GGAAAATTGATACTTTCAAC
1 GGAAAATTGATACTTTCAAC
1930780 GGAAAATTGATACTTTCAAC
1 GGAAAATTGATACTTTCAAC
1930800 TTTTCCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
GGAAAATTGATACTTTCAAC
Found at i:1930789 original size:78 final size:78
Alignment explanation
Indices: 1930696--1930857 Score: 256
Period size: 78 Copynumber: 2.1 Consensus size: 78
1930686 GAAGACTTAT
* * *
1930696 TTTCAA-GGAAAATTGAT-TTTTCAACTTTTCCTCAAAAATATTTTTTTAGAGAACTTATTTCCA
1 TTTCAACGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-CTTTTTAGAAAACTTATTTCCA
*
1930759 AGGAAAATTGATAC
65 AGAAAAATTGATAC
*
1930773 TTTCAACGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTTCAA
1 TTTCAACGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTCCAA
1930838 GAAAAATTGATAC
66 GAAAAATTGATAC
1930851 TTTCAAC
1 TTTCAAC
1930858 TGTTCCTCAA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
77 6 0.08
78 50 0.64
79 22 0.28
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (78 bp):
TTTCAACGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTCCAA
GAAAAATTGATAC
Found at i:1930820 original size:136 final size:137
Alignment explanation
Indices: 1930645--1930916 Score: 415
Period size: 136 Copynumber: 2.0 Consensus size: 137
1930635 TATTTTCAAA
* * * * * *
1930645 GAAAATTGATATTTTCAACTTTTCCTCGAAAATATTTTTTTGAAGACTTATTTTCAAGGAAAATT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATT
* * *
1930710 GAT-TTTTCAACTTTTCCTCAAAAATATTTTTT-T-AGAGAACTTATTTCCAAGGAAAATTGATA
66 GATACTTTCAACTGTTCCTCAAAAATATTTTTTCTGA-AG-ACTTATTTCCAAGAAAAATTGATA
1930772 CTTTCAACG
129 CTTTCAACG
1930781 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATT
*
1930846 GATACTTTCAACTGTTCCTCAAAAATATTTTTTCTGAAGACTTATTTTCAAGAAAAATTGATACT
66 GATACTTTCAACTGTTCCTCAAAAATATTTTTTCTGAAGACTTATTTCCAAGAAAAATTGATACT
1930911 TTCAAC
131 TTCAAC
1930917 TTTTCCTCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
136 62 0.50
137 57 0.46
138 3 0.02
139 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.40
Consensus pattern (137 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATT
GATACTTTCAACTGTTCCTCAAAAATATTTTTTCTGAAGACTTATTTCCAAGAAAAATTGATACT
TTCAACG
Found at i:1930916 original size:59 final size:58
Alignment explanation
Indices: 1930773--1930959 Score: 286
Period size: 59 Copynumber: 3.2 Consensus size: 58
1930763 AAATTGATAC
* * * *
1930773 TTTCAACGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAACTTAT
1 TTTCAA-GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAGACTTAT
*
1930832 TTTCAAGAAAAATTGATACTTTCAACTGTTCCTCAAAAATATTTTTTCTGAAGACTTAT
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-TGAAGACTTAT
1930891 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAGACTTA-
1 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAGACTTAT
*
1930949 TTTAAAGAAAA
1 TTTCAAGAAAA
1930960 TCAAAAAATA
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
58 48 0.40
59 65 0.55
60 6 0.05
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (58 bp):
TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAGACTTAT
Found at i:1930974 original size:5 final size:5
Alignment explanation
Indices: 1930964--1931019 Score: 67
Period size: 5 Copynumber: 10.4 Consensus size: 5
1930954 AGAAAATCAA
*
1930964 AAAAT AAAAT AAGAT AAAAGT AAAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAA-AT -AAAAT AAAAT AAAAT
1931013 AAAAT AA
1 AAAAT AA
1931020 GAAATACTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 32 0.71
6 6 0.13
7 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1931025 original size:17 final size:16
Alignment explanation
Indices: 1930963--1931016 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
1930953 AAGAAAATCA
*
1930963 AAAAATAAAATAAGAT
1 AAAAATAAAATAAAAT
*
1930979 AAAAGTAAAAATAAAGAT
1 AAAAAT-AAAATAAA-AT
1930997 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
1931013 AAAA
1 AAAA
1931017 TAAGAAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 11 0.33
17 15 0.45
18 7 0.21
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:1931820 original size:29 final size:29
Alignment explanation
Indices: 1931765--1931820 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1931755 AAAAGAAAAA
* *
1931765 AAAAGAAAAAAATATATTAATAGATAACT
1 AAAAGAAAAAAATAGATAAATAGATAACT
*
1931794 AAAAGAAAATAATTAGATAAATA-ATAA
1 AAAAGAAAA-AAATAGATAAATAGATAA
1931821 TAATAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (29 bp):
AAAAGAAAAAAATAGATAAATAGATAACT
Found at i:1931918 original size:49 final size:49
Alignment explanation
Indices: 1931815--1931928 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 49
1931805 ATTAGATAAA
* *
1931815 TAATA-AT-AATAATAATAGATAAATTATAATAAAAAACATATATATAT
1 TAATAGATAAATAATAAAAGATAAATTATAATAAAAAACATAAATATAT
1931862 TAATAGATAAATAATAAAAGA-AAATGT-TAATAGATAAAA-ATAAATATAT
1 TAATAGATAAATAATAAAAGATAAAT-TATAATA-A-AAAACATAAATATAT
*
1931911 TAGTAGATAAATAATAAA
1 TAATAGATAAATAATAAA
1931929 TATATTTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
47 5 0.08
48 11 0.19
49 39 0.66
50 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (49 bp):
TAATAGATAAATAATAAAAGATAAATTATAATAAAAAACATAAATATAT
Found at i:1931919 original size:84 final size:80
Alignment explanation
Indices: 1931776--1931927 Score: 184
Period size: 84 Copynumber: 1.9 Consensus size: 80
1931766 AAAGAAAAAA
* *
1931776 ATATATTAATAGATAACTAAAAGAAAATAATTAGATAAATAATAATAATAATAATAGATAAATTA
1 ATATATTAATAGATAAATAAAAGAAAATAATTAGATAAATAATAATAATAATAATAGATAAATAA
1931841 TAATAAAAAACATAT
66 TAATAAAAAACATAT
* *
1931856 ATATATTAATAGATAAATAATAAAAGAAAATGTTAA-TAGATAAA-AATAA-ATATATTAGTAGA
1 ATATATTAATAGAT--A-AATAAAAGAAAA---TAATTAGATAAATAATAATA-ATAATAATAGA
1931918 TAAATAATAA
59 TAAATAATAA
1931928 ATATATTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
80 14 0.23
82 1 0.02
83 12 0.20
84 23 0.38
85 8 0.13
86 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (80 bp):
ATATATTAATAGATAAATAAAAGAAAATAATTAGATAAATAATAATAATAATAATAGATAAATAA
TAATAAAAAACATAT
Found at i:1931920 original size:22 final size:23
Alignment explanation
Indices: 1931856--1931934 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 23
1931846 AAAAACATAT
*
1931856 ATATATTAATAGATAAATAATAAAAGA
1 ATATATTAGTAGATAAATAAT---A-A
* * *
1931883 AAATGTTAATAGATAAA-AATAA
1 ATATATTAGTAGATAAATAATAA
1931905 ATATATTAGTAGATAAATAATAA
1 ATATATTAGTAGATAAATAATAA
1931928 ATATATT
1 ATATATT
1931935 TAAAAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
22 15 0.33
23 13 0.28
26 3 0.07
27 15 0.33
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
ATATATTAGTAGATAAATAATAA
Found at i:1931943 original size:21 final size:22
Alignment explanation
Indices: 1931900--1931991 Score: 59
Period size: 21 Copynumber: 4.2 Consensus size: 22
1931890 AATAGATAAA
* *
1931900 AATAAATATATTAGTAGATAAAT
1 AATAAATATATTA-TAAAAAAAT
1931923 AATAAATATATT-TAAAAAAAT
1 AATAAATATATTATAAAAAAAT
* *
1931944 AA-AAA-AAATAATAAATAATAAT
1 AATAAATATATTATAAA-AA-AAT
* *
1931966 AAT-AATA-ATAATAATAATAAT
1 AATAAATATATTATAA-AAAAAT
1931987 AATAA
1 AATAA
1931992 TAATAAAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
19 3 0.05
20 7 0.12
21 17 0.30
22 16 0.28
23 14 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAATATATTATAAAAAAAT
Found at i:1931956 original size:3 final size:3
Alignment explanation
Indices: 1931950--1931997 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
1931940 AAATAAAAAA
1931950 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1931996 AA
1 AA
1931998 AAAGAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1931994 original size:49 final size:51
Alignment explanation
Indices: 1931773--1932000 Score: 138
Period size: 49 Copynumber: 4.5 Consensus size: 51
1931763 AAAAAAGAAA
* *
1931773 AAAATATATTAATAGATAACTAAAAGAAAATAAT-TA-GATAAATA-AT-AATAAT
1 AAAATAGA-TAATA-ATAA-TAAAA-AAAATAATATATAAT-AATAGATAAATAAT
* * *
1931825 AATAATAGATAAATTATAATAAAAAACAT-ATATATATTAATAGATAAATAAT
1 AA-AATAGAT-AATAATAATAAAAAAAATAATATATAATAATAGATAAATAAT
* ** * * *
1931877 -AAA-AGAAAATGTTAATAGATAAAAATAA-ATATATTAGTAGATAAATAAT
1 AAAATAGATAATAATAATA-AAAAAAATAATATATAATAATAGATAAATAAT
** * *
1931926 AAATATATTTAA-AAAAATAAAAAAAATAATAAATAATAATA-AT-AATAAT
1 AAA-ATAGATAATAATAATAAAAAAAATAATATATAATAATAGATAAATAAT
*
1931975 AATAATA-ATAATAATAATAATAAAAA
1 AA-AATAGATAATAATAATAAAAAAAA
1932001 GAAAAAATGT
Statistics
Matches: 138, Mismatches: 24, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
48 11 0.08
49 54 0.39
50 27 0.20
51 22 0.16
52 16 0.12
53 8 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (51 bp):
AAAATAGATAATAATAATAAAAAAAATAATATATAATAATAGATAAATAAT
Found at i:1934654 original size:55 final size:54
Alignment explanation
Indices: 1934579--1934687 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
1934569 CACATCAATA
* * * *
1934579 GTAATAATTATCTTTATTAAATCAATGTTTGC-ATTTCAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAA--TATCCAATTGCAAAATATAAAAATTTAAG
* *
1934634 GTAAAAATTATTTTTGTTAAATCAATATCCAATTGCAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAATATCCAATTGCAAAATATAAAAATTTAAG
1934688 TTGAATTGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.06
54 22 0.47
55 22 0.47
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (54 bp):
GTAAAAATTATCTTTATTAAATCAATATCCAATTGCAAAATATAAAAATTTAAG
Found at i:1935782 original size:17 final size:18
Alignment explanation
Indices: 1935735--1935784 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
1935725 ATCATGCATA
*
1935735 AATATATAAAAAAATACTT
1 AATATAT-AAAAAATACAT
*
1935754 AAAATA-ACAAAAATA-AT
1 AATATATA-AAAAATACAT
1935771 AATATATAAAAAAT
1 AATATATAAAAAAT
1935785 TAGAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 8 0.31
19 5 0.19
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AATATATAAAAAATACAT
Found at i:1936848 original size:13 final size:13
Alignment explanation
Indices: 1936830--1936872 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1936820 GTCTTCTTTC
1936830 TTTTTTTAAAATT
1 TTTTTTTAAAATT
**
1936843 TTTTTTTTTAATT
1 TTTTTTTAAAATT
1936856 TTTTGATTTAAAATT
1 TTTT--TTTAAAATT
1936871 TT
1 TT
1936873 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 15 0.62
15 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTTTTAAAATT
Found at i:1936850 original size:15 final size:15
Alignment explanation
Indices: 1936830--1936882 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1936820 GTCTTCTTTC
1936830 TTTTTTTAAAATTTT
1 TTTTTTTAAAATTTT
1936845 TTTTTTT--AATTTT
1 TTTTTTTAAAATTTT
**
1936858 TTGATTTAAAATTTT
1 TTTTTTTAAAATTTT
1936873 AATTTTTTTA
1 --TTTTTTTA
1936883 GTTAATTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.37
15 13 0.43
17 6 0.20
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTTTTAAAATTTT
Found at i:1936887 original size:21 final size:21
Alignment explanation
Indices: 1936848--1936887 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1936838 AAATTTTTTT
*
1936848 TTTTAATTTTTTGATTTAAAA
1 TTTTAATTTTTTGAGTTAAAA
*
1936869 TTTTAATTTTTTTAGTTAA
1 TTTTAATTTTTTGAGTTAA
1936888 TTAACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTAATTTTTTGAGTTAAAA
Found at i:1938468 original size:32 final size:33
Alignment explanation
Indices: 1938432--1938496 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
1938422 CTTCTCAATA
*
1938432 TTCTTAC-ATAATAGTG-TATTGATTAGATATAT
1 TTCTTACTA-AATAGAGATATTGATTAGATATAT
*
1938464 TTCTTGCTAAATAGAGCATATTGATTAGATATA
1 TTCTTACTAAATAGAG-ATATTGATTAGATATA
1938497 AATGCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 12 0.43
33 1 0.04
34 15 0.54
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (33 bp):
TTCTTACTAAATAGAGATATTGATTAGATATAT
Found at i:1939390 original size:23 final size:24
Alignment explanation
Indices: 1939360--1939406 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1939350 TAATTAAATA
1939360 AAAAATAA-TATTTATGATTTCAT
1 AAAAATAATTATTTATGATTTCAT
*
1939383 AAAAATAATTTTTTATGATTTCAT
1 AAAAATAATTATTTATGATTTCAT
1939407 TTGGGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
AAAAATAATTATTTATGATTTCAT
Found at i:1940053 original size:15 final size:14
Alignment explanation
Indices: 1940034--1940090 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 14
1940024 GTATTTAAGT
1940034 TTTTTTTTATTTTC
1 TTTTTTTTATTTTC
*
1940048 -TTTTTTTATTTTGA
1 TTTTTTTTATTTT-C
*
1940062 TTTTTTTGATTTATC
1 TTTTTTTTATTT-TC
*
1940077 TATTTTTTATTTTC
1 TTTTTTTTATTTTC
1940091 ATTTAATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 12 0.34
14 2 0.06
15 20 0.57
16 1 0.03
ACGTcount: A:0.12, C:0.05, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTTTTTATTTTC
Found at i:1940083 original size:30 final size:28
Alignment explanation
Indices: 1940034--1940094 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
1940024 GTATTTAAGT
* *
1940034 TTTTTTTTATTTTCTTTTTTTATTTTGA
1 TTTTTTTGATTTTCTTTTTTTATTTTCA
1940062 TTTTTTTGATTTATCTATTTTTTATTTTCA
1 TTTTTTTGATTT-TCT-TTTTTTATTTTCA
1940092 TTT
1 TTT
1940095 AATTATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.38
29 3 0.10
30 15 0.52
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (28 bp):
TTTTTTTGATTTTCTTTTTTTATTTTCA
Found at i:1940574 original size:16 final size:16
Alignment explanation
Indices: 1940545--1940598 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
1940535 TAAATACTAA
1940545 TAAATAAATAAAAATATT
1 TAAA-AAATAAAAATA-T
*
1940563 TATAAAATAAAAATAT
1 TAAAAAATAAAAATAT
1940579 TAAAAAATAAAAATAAT
1 TAAAAAATAAAAAT-AT
1940596 TAA
1 TAA
1940599 TTAAGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 14 0.42
17 16 0.48
18 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAAATAAAAATAT
Found at i:1941717 original size:15 final size:17
Alignment explanation
Indices: 1941704--1941737 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1941694 CTTTTTCTTC
1941704 TTTTTTTCTTTCTTACA
1 TTTTTTTCTTTCTTACA
*
1941721 TTTTTTTTCTTTATTAC
1 -TTTTTTTCTTTCTTAC
1941738 GGTGGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTCTTTCTTACA
Found at i:1942202 original size:19 final size:19
Alignment explanation
Indices: 1942180--1942216 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1942170 ACTTGTAATC
*
1942180 TTTTTAATATTAAACTATA
1 TTTTTAATACTAAACTATA
*
1942199 TTTTTCATACTAAACTAT
1 TTTTTAATACTAAACTAT
1942217 TATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTAATACTAAACTATA
Found at i:1942287 original size:13 final size:13
Alignment explanation
Indices: 1942271--1942300 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1942261 TTTAATTTCT
1942271 AATTTTATGTATG
1 AATTTTATGTATG
1942284 AATTTTATGTATG
1 AATTTTATGTATG
1942297 AATT
1 AATT
1942301 AAATTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
AATTTTATGTATG
Found at i:1942378 original size:18 final size:18
Alignment explanation
Indices: 1942357--1942412 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
1942347 ATTAAATAAT
1942357 AAATAATAATTATTTTAA
1 AAATAATAATTATTTTAA
*
1942375 AAATAAAATAATAATTTTAA
1 AAAT--AATAATTATTTTAA
1942395 ATAATTAA-AATT-TTTTAA
1 A-AA-TAATAATTATTTTAA
1942413 TATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.31
19 3 0.09
20 16 0.50
21 2 0.06
22 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAATAATTATTTTAA
Found at i:1942386 original size:20 final size:22
Alignment explanation
Indices: 1942348--1942405 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
1942338 ATTAAATGAA
* *
1942348 TTAAATAATAAATAATAATTATT
1 TTAAATAATTAA-AATAATAATT
1942371 TTAAA-AA-TAAAATAATAATT
1 TTAAATAATTAAAATAATAATT
1942391 TTAAATAATTAAAAT
1 TTAAATAATTAAAAT
1942406 TTTTTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 8 0.26
23 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAATAATTAAAATAATAATT
Found at i:1942404 original size:27 final size:27
Alignment explanation
Indices: 1942374--1942431 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
1942364 AATTATTTTA
1942374 AAAATAAAATAATA-ATTTTAAATAATT
1 AAAATAAAATAATATATTTT-AATAATT
****
1942401 AAAATTTTTTAATATATTTTAATAATT
1 AAAATAAAATAATATATTTTAATAATT
1942428 AAAA
1 AAAA
1942432 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATAAAATAATATATTTTAATAATT
Found at i:1942437 original size:27 final size:27
Alignment explanation
Indices: 1942383--1942444 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1942373 AAAAATAAAA
**
1942383 TAATAATTTTAAATAATTAAAATTTTT
1 TAATAATTTTAAATAATTAAAAAATTT
1942410 TAATATATTTT-AATAATTAAAAAATTT
1 TAATA-ATTTTAAATAATTAAAAAATTT
1942437 TAAATAAT
1 T-AATAAT
1942445 ATATACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAATTTTAAATAATTAAAAAATTT
Found at i:1945042 original size:8 final size:8
Alignment explanation
Indices: 1945029--1945060 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
1945019 AAATGTTTGA
1945029 AATGTTTC
1 AATGTTTC
1945037 AATGTTTC
1 AATGTTTC
1945045 AATGTTTC
1 AATGTTTC
1945053 AATGTTTC
1 AATGTTTC
1945061 TACTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (8 bp):
AATGTTTC
Found at i:1946113 original size:13 final size:13
Alignment explanation
Indices: 1946078--1946129 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
1946068 CAAGATTTTT
*
1946078 TTTAATTTATCAA
1 TTTAATTTTTCAA
1946091 TTTAGA-TTTTCAA
1 TTTA-ATTTTTCAA
1946104 TTTAATTTTT--A
1 TTTAATTTTTCAA
1946115 TTTAATATTTTCAA
1 TTTAAT-TTTTCAA
1946129 T
1 T
1946130 AAAAAACTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
11 7 0.21
12 5 0.15
13 18 0.55
14 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (13 bp):
TTTAATTTTTCAA
Found at i:1946405 original size:22 final size:21
Alignment explanation
Indices: 1946379--1946458 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
1946369 ATGAAATAAT
1946379 ATTTTAATTTAATATAATAAAA
1 ATTTTAATTT-ATATAATAAAA
*
1946401 ATTTTTATTT-TATAAT-AAA
1 ATTTTAATTTATATAATAAAA
*
1946420 ATTATAATTATATTATGAACTAAAA
1 ATTTTAATT-TA-TAT-AA-TAAAA
*
1946445 ATTATTATTTTATA
1 ATT-TTAATTTATA
1946459 AATTTTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 10 0.22
20 7 0.15
22 12 0.26
23 2 0.04
24 3 0.07
25 8 0.17
26 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
ATTTTAATTTATATAATAAAA
Found at i:1946406 original size:23 final size:20
Alignment explanation
Indices: 1946391--1946459 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
1946381 TTTAATTTAA
1946391 TATAATAAAAATTTTTATTT
1 TATAATAAAAATTTTTATTT
*
1946411 TATAAT-AAAATTATAATTATAT
1 TATAATAAAAATT-T--TTATTT
*
1946433 TATGAACTAAAAATTATTATTT
1 TAT-AA-TAAAAATTTTTATTT
1946455 TATAA
1 TATAA
1946460 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 2 0.05
22 16 0.40
23 2 0.05
24 1 0.03
25 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
TATAATAAAAATTTTTATTT
Found at i:1946460 original size:17 final size:17
Alignment explanation
Indices: 1946440--1946479 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1946430 TATTATGAAC
*
1946440 TAAAAATTATTATTTTA
1 TAAAAATTATTATTATA
**
1946457 TAAATTTTATTATTATA
1 TAAAAATTATTATTATA
1946474 TAAAAA
1 TAAAAA
1946480 ATTAATTAAC
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAAATTATTATTATA
Found at i:1947347 original size:20 final size:18
Alignment explanation
Indices: 1947312--1947349 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
1947302 TATATGATAG
1947312 ATTTTTAAAAATTTATTA
1 ATTTTTAAAAATTTATTA
1947330 ATTTTTATAAAATATTATTA
1 ATTTTTA-AAAAT-TTATTA
1947350 TAAAATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAAATTTATTA
Found at i:1948066 original size:13 final size:13
Alignment explanation
Indices: 1948048--1948072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1948038 AGTAATTTTA
1948048 AAAAATTAAAATT
1 AAAAATTAAAATT
1948061 AAAAATTAAAAT
1 AAAAATTAAAAT
1948073 CGATAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:1948400 original size:21 final size:19
Alignment explanation
Indices: 1948375--1948413 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1948365 TAAAATTAAT
1948375 AATTTGATTATAAATTTTTAG
1 AATTT-ATT-TAAATTTTTAG
*
1948396 AATTTATTTATATTTTTA
1 AATTTATTTAAATTTTTA
1948414 AAATCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTTATTTAAATTTTTAG
Found at i:1950741 original size:35 final size:36
Alignment explanation
Indices: 1950673--1950741 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
1950663 TATATGTGAA
1950673 GTCAGTTGTAGATTTATGCCCAAAAAAACATTTGCT
1 GTCAGTTGTAGATTTATGCCCAAAAAAACATTTGCT
*
1950709 GTCAGTTGTATATTTATGCCC-AAAAAACATTTG
1 GTCAGTTGTAGATTTATGCCCAAAAAAACATTTG
1950742 GTTTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (36 bp):
GTCAGTTGTAGATTTATGCCCAAAAAAACATTTGCT
Found at i:1952492 original size:21 final size:21
Alignment explanation
Indices: 1952468--1952508 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1952458 TCATTGAGGC
1952468 GTTGCTCTTTATCA-TTAATTT
1 GTTGCTCTTTA-CACTTAATTT
*
1952489 GTTGCTGTTTACACTTAATT
1 GTTGCTCTTTACACTTAATT
1952509 ATTGCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.54
Consensus pattern (21 bp):
GTTGCTCTTTACACTTAATTT
Found at i:1956314 original size:355 final size:353
Alignment explanation
Indices: 1954737--1956336 Score: 1935
Period size: 356 Copynumber: 4.5 Consensus size: 353
1954727 TATAACAAAT
* *
1954737 TATTGAAGGTG-GTTTATAATAAAAGACGCCTTTAATATTCTGAAAAAAATTTTTTTAGGGAAAT
1 TATTGAAGGTGTG-TCATAATAAAAGACGCCTTTAATAATC-GAAAAAAA-TTTTTTA-GGAAAT
* *
1954801 TATTGAAGGCGTTGTTATT-TGAAA-T-CACATTCAGTAATTATATACAAACTATGATAGGAATT
62 TATTGAAAGCGTTGTT-TTCTGAAACTGC-C-TTCAGTAATTA-ATACAAACTGTGATAGGAATT
** * *
1954863 ATTAAAGGTGTCTATCTTAAATATACACCTTCAATAATAGTGTTACAATTTGTGTGGTGGTATAT
123 ATTAAAGGCATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGGTATAT
* * * ** *
1954928 AGAAGGCATTTTACAGTAGAAGACACCTTTAATAATTCTCAAAATATTTAGTGGGAAAATTTTGA
188 AGAAAGCATTTTACAATAAAAGATGCCTTTAATAATTCCCAAAATATTTAGT-GGAAAATTTTGA
*
1954993 AGGCG-CTATTATTAACAAATGCTTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTG
252 AGGCGTCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTG
* * *
1955057 -CTTCTTCTAATAAATGCCTTCCATTACCATCGTGGTC
317 CCTT-TTCTAATAAACGCCTTCCATTACCATCATGGTA
** * * *
1955094 TATTGAAGGCATGTCATAATAAAAGACACCTTTAATAATCCGAGAAAAATTTTGTAGGAAAATTA
1 TATTGAAGGTGTGTCATAATAAAAGACGCCTTTAATAAT-CGAAAAAAATTTTTTAGG-AAATTA
* * *
1955159 TT-AAAGGCATTGTTTTCTGCAACCGCCTTCAGTAATTAACTACAAACTGTGATAGGAATTATTA
64 TTGAAA-GCGTTGTTTTCTGAAACTGCCTTCAGTAATTAA-TACAAACTGTGATAGGAATTATTA
* ** *
1955223 AAGGCATCTTTCTTGGATATACGCCTTCAATAATAGTGTTAGAATTTGTGTGGCGGTATATAGAA
127 AAGGCATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGGTATATAGAA
* * * * *
1955288 AGTATTTTATAGTAGAAGATGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGC
192 AGCATTTTACAATAAAAGATGCCTTTAATAATTCCCAAAATATTTAGTGG-AAAATTTTGAAGGC
1955353 GTCTATTATTAACAAATGCCTTCAG---T--A--ACTAAGTTTAAAGGTATATTGAAGGTGCCTT
256 GTCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
* * * *
1955411 TTCTAATAAACACTTTCCATTACCAACGTGGTA
321 TTCTAATAAACGCCTTCCATTACCATCATGGTA
* * * *
1955444 TATTGAAGGTGTTTTATAATAAAAGATGCCTTTAATAATCCAAAAAAATTTTTTAGGAAAATTAT
1 TATTGAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCGAAAAAAATTTTTTAGG-AAATTAT
* * ** * * * *
1955509 TGAAGGTGTTGTTTTCCAAAACTACCTTCAGTAATTATTTACAAACTGTGATAAGAATTGTTAAA
65 TGAAAGCGTTGTTTTCTGAAACTGCCTTCAGTAATTA-ATACAAACTGTGATAGGAATTATTAAA
* * *
1955574 GGCATCTATCTTAAATATATGCCTTCAATAATTGTGTTACAATTTGTGTGGCGATATATA-AAAG
129 GGCATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGGTATATAGAAA-
* * * *
1955638 GTATTTTACAATAAAAGATGCCTTTAATAGTTCTCAAACTATTTAGTGAGAAAATTTTGAAGGCG
193 GCATTTTACAATAAAAGATGCCTTTAATAATTCCCAAAATATTTAGTG-GAAAATTTTGAAGGCG
* * **
1955703 TTTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
257 TCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTT
*
1955768 TCTAATAAATGCCTTCCATTACCATCATGGTA
322 TCTAATAAACGCCTTCCATTACCATCATGGTA
* * * ** **
1955800 TATTGAAGGCT-TTTGATAATAAAAAACGCCTTTAATAATTTAAAAAAAAATTTTAGAGAAATTA
1 TATTGAAGG-TGTGTCATAATAAAAGACGCCTTTAATAATCGAAAAAAATTTTTTAG-GAAATTA
* * *
1955864 TT-AAAGATGTTGTTTTCT-AAAATCGCCTTCAGTAATTGTATACAAACTGTGATAGGAATTATT
64 TTGAAAG-CGTTGTTTTCTGAAACT-GCCTTCAGTAATT-AATACAAACTGTGATAGGAATTATT
* *
1955927 AAAGGCATCTATCTTAAATATACGCCTTCAATAATGGTATTACAATTTGTGTGGCGGTATATAGA
126 AAAGGCATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGGTATATAGA
*
1955992 AAGCATTTTACAATAAAAGATGCTTTTAATAATTCCCAAAATATTTAGTAGGAAAATTTTGAAGG
191 AAGCATTTTACAATAAAAGATGCCTTTAATAATTCCCAAAATATTTAGT-GGAAAATTTTGAAGG
* * * * *
1956057 CATCTATTATTAACAAACGCCCTCAGTAAT-GATTACTAAGTTTAAAGGTATATTAAAGGTGCAT
255 CGTCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCT
*
1956121 TTTCTAATAAACGCCTTTCATTACCATCATGGTA
320 TTTCTAATAAACGCCTTCCATTACCATCATGGTA
* *
1956155 TATTGAAGGTGTGTCATAATAAAAGA-GACTTTAATAATCGAAGAAAATTTTTTTAGAGAAATTA
1 TATTGAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCGAA-AAAAATTTTTTAG-GAAATTA
* *
1956219 TTGAAAGCGTTGTTTGCTGCAACTGCCTTCAGTAATTAACTACAAACTGTGATAGGAATTATTAA
64 TTGAAAGCGTTGTTTTCTGAAACTGCCTTCAGTAATTAA-TACAAACTGTGATAGGAATTATTAA
** * ** * * * * * *
1956284 AGGTGTCTTTCTTGGATAAATGCTTTCAATAATTGCGTTAGAATTTGTGTGGC
128 AGGCATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGC
1956337 AATATTTTCA
Statistics
Matches: 1072, Mismatches: 137, Indels: 70
0.84 0.11 0.05
Matches are distributed among these distances:
348 3 0.00
349 204 0.19
350 91 0.08
351 3 0.00
352 2 0.00
354 17 0.02
355 207 0.19
356 474 0.44
357 68 0.06
358 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (353 bp):
TATTGAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCGAAAAAAATTTTTTAGGAAATTATT
GAAAGCGTTGTTTTCTGAAACTGCCTTCAGTAATTAATACAAACTGTGATAGGAATTATTAAAGG
CATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATTTGTGTGGCGGTATATAGAAAGCA
TTTTACAATAAAAGATGCCTTTAATAATTCCCAAAATATTTAGTGGAAAATTTTGAAGGCGTCTA
TTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTTTCTA
ATAAACGCCTTCCATTACCATCATGGTA
Found at i:1963130 original size:135 final size:136
Alignment explanation
Indices: 1962871--1963134 Score: 295
Period size: 135 Copynumber: 1.9 Consensus size: 136
1962861 CGTCACTAAA
* * * * *
1962871 GCAATGATGTTTTTCTCATAACAACACCACTGAATTAGCAGTGCCTAAAAAAATACAAACACCGT
1 GCAACGATGTTTTTCTCATAAAAACACCACTGAAATAGCAGTGACTAAAAAAATACAAACACCCT
* * *
1962936 AAATATTAAAACATTTTCAGATTCAAAAGCCATGCAAAGTAGCAGCATTTTCTATTATAAACGCC
66 AAATATTAAAACATTTTCAGATTCAAAAGCCATGCAAAGTAGCAGCATTCTCAAATATAAACGCC
1963001 ATCAAT
131 ATCAAT
** * * * *
1963007 GCAACGATGTTTTTCTCATAAAAATGCCATTGAAATAGCGGTGACT-AAAAGATACAAACGCCAC
1 GCAACGATGTTTTTCTCATAAAAACACCACTGAAATAGCAGTGACTAAAAAAATACAAACACC-C
** * *
1963071 T-AATATTAAGCCATTTTCAGATTCAAATGCC-T-CTAAAGTAGCGGCA-TCTCAAAGATATAAA
65 TAAATATTAAAACATTTTCAGATTCAAAAGCCATGC-AAAGTAGCAGCATTCTC-AA-ATATAAA
1963132 CGC
127 CGC
1963135 TGCTAAAATA
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
133 4 0.04
134 13 0.12
135 50 0.47
136 39 0.37
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (136 bp):
GCAACGATGTTTTTCTCATAAAAACACCACTGAAATAGCAGTGACTAAAAAAATACAAACACCCT
AAATATTAAAACATTTTCAGATTCAAAAGCCATGCAAAGTAGCAGCATTCTCAAATATAAACGCC
ATCAAT
Done.