Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 18 of 25
Found at i:2822507 original size:812 final size:811
Alignment explanation
Indices: 2820932--2822540 Score: 2390
Period size: 812 Copynumber: 2.0 Consensus size: 811
2820922 GGTTAGGAGG
* * * *
2820932 AATTTAAAAAACTAATCTTAAAAAATAAGGAAACAAGTTAAAACAAATCTTTTAGATTAAAGAAC
1 AATTAAAAAAACTAATCTTAAAAAATAAGAAAACAAGCTAAAACAAATCCTTTAGATTAAAGAAC
* * * * *
2820997 TTTAGTCTTTAATTTAAAGGAGTCCCATAAGTTATAAATCTTATCCTAATCCTAACTATATTTTC
66 TCTAGTCCTTAATTTAAAGAAGTCCCATAAGCTACAAATCTTATCCTAATCCTAACTATATTTTC
* *
2821062 TAATTTTTTTTGTTATTTCCTTATTTTTTCTCATTGTATTTACTAAAGTAATAAACATAAGGGTA
131 TAATTTTTTTTGTTATTTCCTTATTTTTTCTCATTGTATTTACTAAAGTAATAAACATAAAGGCA
* * *
2821127 AGGTTGTACTTCTACTTGCAAATATCCTATTATGGATAATAAAATTAAATTGCAATTAGAGCCAA
196 AGGTTGTACTTCTACTTGCAAATATCCTATTATGAACAATAAAATTAAATTGCAATTAAAGCCAA
* * * * ** * *
2821192 ATTGTTTTTTAATTACATAACTCTAAAAGATACAGAAGGCCAAAAAATATCACTTGATTTGGTTT
261 ACTATTTTTTAATTACATAACTCTAAAAGAAACAGAAGGCCAAAAAAAAAAACTTAATGTGGTTT
* * *
2821257 ATTGTCAAGAAAACAAATCTAGCAGAAGTCACATGAAACTCACATACACTAAGGAATAAAGAACA
326 ATTGTCAAGAAAACAAATCTAGCAAAAGTCACATGAAACTCACATACACTAACGAACAAAGAACA
* * * * *
2821322 TTTGCTTACTTTAAGTGACAAAACCTCATCAACATTACTTAATGACTGCAGTATAAATGAACACT
391 TTTGCTTACCTTAAGAGAAAAAACCTCATCAACATTACTTAATGACTGCAATATAAATGAAAACT
* * *
2821387 CTAAATTCAGGTGCTCGAGACAAATTTTTATTTCATTGTGATTAATCCTTTTTTCAGAAGCATGG
456 CTAAATTCAGGTGCTCAAGACAAATTTGTATTTCATTGTGATTAATCCTTTTTTCAAAAGCATGG
** *
2821452 GACACTATTCTTTTGTCTATTTCACTTATTTTATCCCTTATTTCAAGTGTATCATCCCTTGAAAT
521 GACACTATTCTTTTCCCTATTTCACTTATTTTATCCCTTATTTCAAGTATATCATCCCTTGAAAT
* * *
2821517 ATTTGTTGACCATTTCATTTCATTGAAGTAATTTCAATAGTTACATGTATCAATAGTACAAATAG
586 ATTTGTTGACCATTTCATTTCATTAAAGTAATTTCAATAGTTACATCTATCAATAATACAAATAG
*
2821582 AAATCTATCGAAACCAAACTTCATAAACATAAAACACTCGAAACTAATAAATGGCTACCTTTATA
651 AAATCTATCAAAACCAAACTTCATAAACATAAAACACTCGAAACTAATAAATGGCTACCTTTATA
* *
2821647 TTTCCTACCTGCAAACCACCCTACTCTTTGAAACCTCCACTCTTTCCATATTGGATTTCTTAAAC
716 TTTCCTACCTACAAA-CACCCTACTCTTTGAAACCTCCACTATTTCCATATTGGATTTCTTAAAC
*
2821712 CATTAATGCCTAAAAGAAATTGTTTATAAGGA
780 CATCAATGCCTAAAAGAAATTGTTTATAAGGA
* *
2821744 AATTAAAAAAACTAATCTTAAATAATAAGAAAACTAGCTAAAACAAATCCTTTAGATTAAAGAAC
1 AATTAAAAAAACTAATCTTAAAAAATAAGAAAACAAGCTAAAACAAATCCTTTAGATTAAAGAAC
*
2821809 TCTAGTCCTTAATTTAACA-AAGTCCCATAAGCTGCAAAT-TCTATCCTAATCCTAACTATATTT
66 TCTAGTCCTTAATTTAA-AGAAGTCCCATAAGCTACAAATCT-TATCCTAATCCTAACTATATTT
*
2821872 TCTAATTTTTTTTGTTATTTCCTTATTTTTTTCTCGTTGTATTTACTAAAGTAATAAACATAAAG
129 TCTAATTTTTTTTGTTATTTCCTTA-TTTTTTCTCATTGTATTTACTAAAGTAATAAACATAAAG
*
2821937 GCAAGGTTGTACTTC-ACTTGCAAATATCCTATTATGAACAATAAAATTGAATTGCAATTAAAGC
193 GCAAGGTTGTACTTCTACTTGCAAATATCCTATTATGAACAATAAAATTAAATTGCAATTAAAGC
*
2822001 CAGACTATTTTTTAATTACATAACTCTAAAAGAAACAGAAGGCCAAAAAAAAAAAACTTCTAATG
258 CAAACTATTTTTTAATTACATAACTCTAAAAGAAACAGAAGGCC-AAAAAAAAAAAC-T-TAATG
* * *
2822066 TGGTTTATTTGTCAAGAAAATAAATCTAGCAAAAGTCACATGAAGCTCACATACATTAACGAACA
320 TGGTTTA-TTGTCAAGAAAACAAATCTAGCAAAAGTCACATGAAACTCACATACACTAACGAACA
* * *
2822131 AAGATCATTTGCTTACCTTCAGAGAAAAAACCTCATCAACATTACTTAATGACTGCAATATAGAT
384 AAGAACATTTGCTTACCTTAAGAGAAAAAACCTCATCAACATTACTTAATGACTGCAATATAAAT
* *
2822196 GAAAACTCTAAATTTAGGTGCTCAAGACAAATTTGTATTTTATTGTGATTAATCCCTTTTTT-AA
449 GAAAACTCTAAATTCAGGTGCTCAAGACAAATTTGTATTTCATTGTGATTAAT-CCTTTTTTCAA
* * * *
2822260 AAGCATGGGACACTGTTTTTTTCCCTA-TTCACTTATTTTTTCTCTTATTTCAAGTATATCATCC
513 AAGCATGGGACACTATTCTTTTCCCTATTTCACTTATTTTATCCCTTATTTCAAGTATATCATCC
* * * *
2822324 CTTGAAATATTTGTTGACCATTTTATTTCATTAAAGTAATTTTAGTAGTTGCATCTATCAATAAT
578 CTTGAAATATTTGTTGACCATTTCATTTCATTAAAGTAATTTCAATAGTTACATCTATCAATAAT
* * *
2822389 ACATATAGAAATCTATCAAAACCAAACTTCATAGACATAAAACACTCGAAACTAATAGATGGCTA
643 ACAAATAGAAATCTATCAAAACCAAACTTCATAAACATAAAACACTCGAAACTAATAAATGGCTA
* ** * *
2822454 CCTTCT-TA-TTCTTTACCTAC-AA-ATTCTGCTCTTTGAAAGCTCCACTATTTCCATATTGGAT
708 CCTT-TATATTTC-CTACCTACAAACACCCTACTCTTTGAAACCTCCACTATTTCCATATTGGAT
*
2822515 TTCTTAAACCATCAATGCCTGAAAGA
771 TTCTTAAACCATCAATGCCTAAAAGA
2822541 GACTGGTTTT
Statistics
Matches: 713, Mismatches: 74, Indels: 20
0.88 0.09 0.02
Matches are distributed among these distances:
811 1 0.00
812 280 0.39
813 61 0.09
814 6 0.01
815 175 0.25
816 182 0.26
817 8 0.01
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (811 bp):
AATTAAAAAAACTAATCTTAAAAAATAAGAAAACAAGCTAAAACAAATCCTTTAGATTAAAGAAC
TCTAGTCCTTAATTTAAAGAAGTCCCATAAGCTACAAATCTTATCCTAATCCTAACTATATTTTC
TAATTTTTTTTGTTATTTCCTTATTTTTTCTCATTGTATTTACTAAAGTAATAAACATAAAGGCA
AGGTTGTACTTCTACTTGCAAATATCCTATTATGAACAATAAAATTAAATTGCAATTAAAGCCAA
ACTATTTTTTAATTACATAACTCTAAAAGAAACAGAAGGCCAAAAAAAAAAACTTAATGTGGTTT
ATTGTCAAGAAAACAAATCTAGCAAAAGTCACATGAAACTCACATACACTAACGAACAAAGAACA
TTTGCTTACCTTAAGAGAAAAAACCTCATCAACATTACTTAATGACTGCAATATAAATGAAAACT
CTAAATTCAGGTGCTCAAGACAAATTTGTATTTCATTGTGATTAATCCTTTTTTCAAAAGCATGG
GACACTATTCTTTTCCCTATTTCACTTATTTTATCCCTTATTTCAAGTATATCATCCCTTGAAAT
ATTTGTTGACCATTTCATTTCATTAAAGTAATTTCAATAGTTACATCTATCAATAATACAAATAG
AAATCTATCAAAACCAAACTTCATAAACATAAAACACTCGAAACTAATAAATGGCTACCTTTATA
TTTCCTACCTACAAACACCCTACTCTTTGAAACCTCCACTATTTCCATATTGGATTTCTTAAACC
ATCAATGCCTAAAAGAAATTGTTTATAAGGA
Found at i:2822655 original size:3 final size:3
Alignment explanation
Indices: 2822647--2822711 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
2822637 TTTTACAATA
2822647 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
2822695 TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TA
2822712 ATAATAATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:2831308 original size:19 final size:19
Alignment explanation
Indices: 2831281--2831320 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2831271 TGATACTTGC
*
2831281 TTTTAATTGTATCGATACA
1 TTTTAATTGTATCAATACA
*
2831300 TTTTTATTGTATCAATACA
1 TTTTAATTGTATCAATACA
2831319 TT
1 TT
2831321 CTGGGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTTAATTGTATCAATACA
Found at i:2833827 original size:79 final size:79
Alignment explanation
Indices: 2833694--2834114 Score: 410
Period size: 79 Copynumber: 5.3 Consensus size: 79
2833684 TCATTTATGT
* * * * *
2833694 TTTTATTTCCAAAATAT-AATTTTCTTCACCATTGGGGATACTCTAACC-CATTATTTTTGAGGG
1 TTTTATTTCCAAAATATCGA-TTT-TTCACCATCGAGGATACTCCAACCTCGTTATTTTTGAGGG
* * *
2833757 GATACTTCAACCTCGA
64 GATACTCCAACCCCAA
* * * *
2833773 TTTTATTTCTACAAA-ATCGATTTTTCACCATTGAGGATACTCCAACCTCGTTATTTTCGAGAGG
1 TTTTATTTCCA-AAATATCGATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTTGAGGGG
*
2833837 ATACTCCAACCCCGA
65 ATACTCCAACCCCAA
* * * **
2833852 TTTTATTTCCAAAATATCGACTTTTT-ATCATCGATGATACTCCAACCTTGTTATTTTTGAAAGG
1 TTTTATTTCCAAAATATCGA-TTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTTGAGGGG
*
2833916 ATACTTCAA-CCCAA
65 ATACTCCAACCCCAA
* * * * *
2833930 TTTTTTTTACAAAATATCAATTTTGT-ACCATCG-GGATACTCCAACCCCATTATTTTTTCGAGG
1 TTTTATTTCCAAAATATCGATTTT-TCACCATCGAGGATACTCCAACCTCGTTA-TTTTT-GAGG
* ** *
2833993 GGATCCTCCAACCTTAT
63 GGATACTCCAACCCCAA
* *
2834010 TTTTATTTCCAAAATATCGATTTTTCACCATCAAGGATACTCCAACCTTGTTA-TTTTGAAGGGG
1 TTTTATTTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTTG-AGGGG
2834074 ATACTCCAACCCCAA
65 ATACTCCAACCCCAA
**
2834089 TTTTATTTTTAAAATATC-AGTTTTTC
1 TTTTATTTCCAAAATATCGA-TTTTTC
2834115 GCTATTAGGG
Statistics
Matches: 283, Mismatches: 46, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
77 19 0.07
78 60 0.21
79 150 0.53
80 38 0.13
81 16 0.06
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (79 bp):
TTTTATTTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCTCGTTATTTTTGAGGGGA
TACTCCAACCCCAA
Found at i:2833988 original size:158 final size:158
Alignment explanation
Indices: 2833693--2834184 Score: 468
Period size: 158 Copynumber: 3.1 Consensus size: 158
2833683 TTCATTTATG
* *** * ** *
2833693 TTTTTATTTCCAAAATAT-AATTTTCTTCACCATTGGGGATACTCTAACC-CATTATTTTTGAGG
1 TTTTTATTTCCAAAATATCGA-TTT-TTCACCATCAAGGATACTCCAACCTTGTTATTTTTGAAG
* * *
2833756 GGATACTTCAACCTCGATTTTATTTCTAC-AAA-ATCGATTTTTCACCATTGAGGATACTCCAAC
64 GGATACTTCAACC-CAATTTTATTT-TACAAAATATCAATTTTTCACCATCGAGGATACTCCAAC
* *
2833819 CTCGTTATTTTCGAGAGGATACTCCAACCCCGA
127 CCCATTATTTTCGAGAGGATACTCCAA-CCCGA
* * * *
2833852 -TTTTATTTCCAAAATATCGACTTTTT-ATCATCGATGATACTCCAACCTTGTTATTTTTGAAAG
1 TTTTTATTTCCAAAATATCGA-TTTTTCACCATCAAGGATACTCCAACCTTGTTATTTTTGAAGG
2833915 GATACTTCAACCCAATTTT-TTTTACAAAATATCAATTTTGT-ACCATCG-GGATACTCCAACCC
65 GATACTTCAACCCAATTTTATTTTACAAAATATCAATTTT-TCACCATCGAGGATACTCCAACCC
* * **
2833977 CATTATTTTTTCGAGGGGATCCTCCAACCTTA
129 CATTA--TTTTCGAGAGGATACTCCAACCCGA
2834009 TTTTTATTTCCAAAATATCGATTTTTCACCATCAAGGATACTCCAACCTTGTTA-TTTTGAAGGG
1 TTTTTATTTCCAAAATATCGATTTTTCACCATCAAGGATACTCCAACCTTGTTATTTTTGAA-GG
* * * * * * * * *
2834073 GATACTCCAACCCCAATTTTATTTT-TAAAATATCAGTTTTTCGCTAT-TAGGGATGCTCTAATC
65 GATACTTCAA-CCCAATTTTATTTTACAAAATATCAATTTTTCACCATCGA-GGATACTCCAACC
* * * * *
2834136 CCGTTGTTTTCGAGAGGGTACTCCAATCCTA
128 CCATTATTTTCGAGAGGATACTCCAACCCGA
*
2834167 TTTTTATCTCCAAAATAT
1 TTTTTATTTCCAAAATAT
2834185 GAAAATTTTC
Statistics
Matches: 277, Mismatches: 41, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
155 3 0.01
156 23 0.08
157 51 0.18
158 153 0.55
159 29 0.10
160 18 0.06
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.39
Consensus pattern (158 bp):
TTTTTATTTCCAAAATATCGATTTTTCACCATCAAGGATACTCCAACCTTGTTATTTTTGAAGGG
ATACTTCAACCCAATTTTATTTTACAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCA
TTATTTTCGAGAGGATACTCCAACCCGA
Found at i:2837006 original size:13 final size:13
Alignment explanation
Indices: 2836988--2837012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2836978 ACATAAGTGT
2836988 TGTATCGATACAA
1 TGTATCGATACAA
2837001 TGTATCGATACA
1 TGTATCGATACA
2837013 GAGCTACCCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2837080 original size:20 final size:20
Alignment explanation
Indices: 2837038--2837080 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2837028 CTACCAAGCA
*
2837038 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATAC
*
2837058 AATGTATCGATACATTGTAC
1 AATGTATCGATACATTATAC
2837078 AAT
1 AAT
2837081 ACATTGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:2841884 original size:2 final size:2
Alignment explanation
Indices: 2841877--2841905 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2841867 TATCTATTAG
2841877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2841906 TTTGAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2856890 original size:3 final size:3
Alignment explanation
Indices: 2856882--2856933 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
2856872 AGGCATTATG
2856882 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
2856930 ACA A
1 ACA A
2856934 TAATAATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:2856938 original size:3 final size:3
Alignment explanation
Indices: 2856932--2856972 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2856922 CAACAACAAC
2856932 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2856973 GTTATGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2857097 original size:13 final size:13
Alignment explanation
Indices: 2857066--2857090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2857056 AGATACAAAT
2857066 AAATAATATGTAA
1 AAATAATATGTAA
2857079 AAATAATATGTA
1 AAATAATATGTA
2857091 TATATAAGAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
AAATAATATGTAA
Found at i:2857178 original size:20 final size:20
Alignment explanation
Indices: 2857155--2857192 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2857145 AAAAAAAAAC
* *
2857155 AAATAAAAGTAATATGTAAA
1 AAATAAAAATAACATGTAAA
2857175 AAATAAAAATAACATGTA
1 AAATAAAAATAACATGTA
2857193 TATATAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (20 bp):
AAATAAAAATAACATGTAAA
Found at i:2857184 original size:26 final size:30
Alignment explanation
Indices: 2857144--2857205 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 30
2857134 CTTGAAAAAA
2857144 TAAAAAAAAACAAATAA-AAGTA-ATAT-G
1 TAAAAAAAAACAAATAACAAGTATATATAG
* *
2857171 TAAAAAATAA-AAATAACATGTATATATAG
1 TAAAAAAAAACAAATAACAAGTATATATAG
2857200 TAAAAA
1 TAAAAA
2857206 TAATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 13 0.43
28 4 0.13
29 7 0.23
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (30 bp):
TAAAAAAAAACAAATAACAAGTATATATAG
Found at i:2857560 original size:38 final size:38
Alignment explanation
Indices: 2857504--2857613 Score: 136
Period size: 37 Copynumber: 2.9 Consensus size: 38
2857494 AAATAAAAAA
* *
2857504 TCATATTAAA-CCCAAATTACTACTTAAAAAAAATA-TT
1 TCATATTAAATCTCGAATTACTA-TTAAAAAAAATACTT
* *
2857541 TCATATTAAATCTCGAATTATTATTTAAAAAAATACTT
1 TCATATTAAATCTCGAATTACTATTAAAAAAAATACTT
*
2857579 T-ATATTAAATCTCGAATTACTATTTAAAAATAATA
1 TCATATTAAATCTCGAATTACTA-TTAAAAAAAATA
2857614 AAAAATTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
37 41 0.65
38 22 0.35
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (38 bp):
TCATATTAAATCTCGAATTACTATTAAAAAAAATACTT
Found at i:2857866 original size:153 final size:154
Alignment explanation
Indices: 2857568--2857873 Score: 399
Period size: 153 Copynumber: 2.0 Consensus size: 154
2857558 TTATTATTTA
* *
2857568 AAAAAATACTTTATATTAAATCTCGAATTACTATTTAAAAATAATAAAAAATTAAAAATATGTTT
1 AAAAAATACTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTAAAAATATATTT
* * * * *
2857633 TACATTAAAATTTAAATTACTATTTAAAAAATAAAAATTAAAAAAATATTTTATATTCAATCTAA
66 TACATTAAAATCTAAATTACTATATAAAAAATAAAAATTAAAAAAATATTTTAAAGTAAATCTAA
* *
2857698 AATTATTTTTTAAAATAA-AAAAT
131 AATTATATTTAAAAATAATAAAAT
* *
2857721 AAAAAATATTTTATATTAAATCTCAAATTACTATTT-AAAA-AATAAGAAACTTAAAAA-ATATT
1 AAAAAATACTTTATATTAAATCTCAAATTACTATTTAAAAATAATAA-AAAATTAAAAATATATT
*
2857783 TTATATT-AAATCCTAAATTACTATATAAAAATAGTAAAAATT-AAAAAATATTTTAAAGTAAAT
65 TTACATTAAAAT-CTAAATTACTATATAAAAA-A-TAAAAATTAAAAAAATATTTTAAAGTAAAT
**
2857846 CTTGAATTACTATTTAAAAATAATAAAA
127 CTAAAATTA-TATTTAAAAATAATAAAA
2857874 ATTAAAATTA
Statistics
Matches: 133, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
150 4 0.03
151 32 0.24
152 40 0.30
153 53 0.40
154 4 0.03
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (154 bp):
AAAAAATACTTTATATTAAATCTCAAATTACTATTTAAAAATAATAAAAAATTAAAAATATATTT
TACATTAAAATCTAAATTACTATATAAAAAATAAAAATTAAAAAAATATTTTAAAGTAAATCTAA
AATTATATTTAAAAATAATAAAAT
Found at i:2857890 original size:52 final size:52
Alignment explanation
Indices: 2857568--2857880 Score: 365
Period size: 52 Copynumber: 6.1 Consensus size: 52
2857558 TTATTATTTA
* **
2857568 AAAAAATACTTTATATTAAATCTCGAATTACTATTTAAAAATAATAAAAAATT
1 AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAAT-AAAAATT
* *
2857621 AAAAATATGTTTTACATTAAAAT-TTAAATTACTATTT-AAAA-AATAAAAATT
1 AAAAA-ATATTTTATATT-AAATCTTAAATTACTATTTAAAAATAATAAAAATT
* * * *
2857672 AAAAAAATATTTTATATTCAATCTAAAATTA-TTTTTTAAAAT-A-AAAAA-T
1 -AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAATAAAAATT
*
2857721 AAAAAATATTTTATATTAAATCTCAAATTACTATTT-AAAA-AATAAGAAACTT
1 AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAATAA-AAA-TT
* * *
2857773 AAAAAATATTTTATATTAAATCCTAAATTACTATATAAAAATAGTAAAAATT
1 AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAATAAAAATT
* * *
2857825 AAAAAATATTTTAAAGTAAATCTTGAATTACTATTTAAAAATAATAAAAATT
1 AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAATAAAAATT
2857877 AAAA
1 AAAA
2857881 TTATGTTTAA
Statistics
Matches: 223, Mismatches: 23, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
48 33 0.15
49 7 0.03
50 15 0.07
51 29 0.13
52 94 0.42
53 16 0.07
54 25 0.11
55 4 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (52 bp):
AAAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAATAAAAATT
Found at i:2858117 original size:22 final size:22
Alignment explanation
Indices: 2858076--2858117 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2858066 GTGCACGCTC
*
2858076 TTATAATCATATGAATATTTAG
1 TTATAATCATATGAACATTTAG
*
2858098 TTATAATCATATGTACATTT
1 TTATAATCATATGAACATTT
2858118 TTTTTATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATAATCATATGAACATTTAG
Found at i:2858257 original size:22 final size:22
Alignment explanation
Indices: 2858229--2858300 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
2858219 TATTTTTACT
* *
2858229 ATATGTACATTTAGTTAAAGTC
1 ATATGTATATTTAGTTATAGTC
* *
2858251 ATATGTATATGCT-GTTATGGTC
1 ATATGTATAT-TTAGTTATAGTC
*
2858273 ATATGTATATTTAATTATAGTC
1 ATATGTATATTTAGTTATAGTC
2858295 ATATGT
1 ATATGT
2858301 GCATATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
ATATGTATATTTAGTTATAGTC
Found at i:2858456 original size:22 final size:21
Alignment explanation
Indices: 2858431--2858483 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
2858421 TTTTTATTAT
2858431 ATGTACATTTAGTTA-AAGTCAC
1 ATGTACATTT-GTTATAA-TCAC
*
2858453 ATGTACATATTGTTATAATCAT
1 ATGTACAT-TTGTTATAATCAC
2858475 ATGTACATT
1 ATGTACATT
2858484 CAATCATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 23 0.82
23 4 0.14
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
ATGTACATTTGTTATAATCAC
Found at i:2858838 original size:13 final size:13
Alignment explanation
Indices: 2858820--2858845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2858810 TATTTTTCTG
2858820 TGTATCGATACAT
1 TGTATCGATACAT
2858833 TGTATCGATACAT
1 TGTATCGATACAT
2858846 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2861381 original size:28 final size:27
Alignment explanation
Indices: 2861313--2861387 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
2861303 AAATTCTCAC
*
2861313 AATCGGGGATACTCTAACCCCGTTAAT
1 AATCGGGGATACTCCAACCCCGTTAAT
2861340 AATCGGGGATACTCCAACCCCGTT-AT
1 AATCGGGGATACTCCAACCCCGTTAAT
**
2861366 TTTCGAGGGGATACTCCAACCC
1 AATC--GGGGATACTCCAACCC
2861388 TGACTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.53
28 16 0.37
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
AATCGGGGATACTCCAACCCCGTTAAT
Found at i:2861436 original size:51 final size:50
Alignment explanation
Indices: 2861372--2861594 Score: 207
Period size: 52 Copynumber: 4.3 Consensus size: 50
2861362 TTATTTTCGA
* * ***
2861372 GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTGATTTTTCACAATC
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * *
2861423 GGGGATACTCCAACCCCGGTTTTATTACTC-AAACACTAATTTTTCTACAATT
1 GGGGATACTCCAA-CCCGATTTTATTTC-CAAAACACCAATTTTTC-ACAATC
* *
2861475 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTTC-CTTTAATC
1 GGGGATACTCCAACCCGA-TTTTATTTCCAAAACACCAATTTTTCAC---AATC
* * *
2861528 GGGGATACTTCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
2861580 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2861595 TCGTTATCTC
Statistics
Matches: 140, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
50 1 0.01
51 38 0.27
52 58 0.41
53 24 0.17
54 18 0.13
55 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:2861668 original size:28 final size:28
Alignment explanation
Indices: 2861613--2861681 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2861603 TCATCGGGGG
*
2861613 TACTCCAACCCCGTTACTTCTGAGGGGA
1 TACTCCAACCCCGTTACTTCTGAAGGGA
* *
2861641 TAGTCCAACCCCGTTA-TTTTCGAAGGGA
1 TACTCCAACCCCGTTACTTCT-GAAGGGA
*
2861669 TACTCCAATCCCG
1 TACTCCAACCCCG
2861682 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 3 0.09
28 32 0.91
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (28 bp):
TACTCCAACCCCGTTACTTCTGAAGGGA
Found at i:2865670 original size:17 final size:17
Alignment explanation
Indices: 2865650--2865682 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2865640 AGATAGTTGG
2865650 AGTAATTGTATTTGACA
1 AGTAATTGTATTTGACA
2865667 AGTAATTGTATTTGAC
1 AGTAATTGTATTTGAC
2865683 TAACTCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (17 bp):
AGTAATTGTATTTGACA
Found at i:2866413 original size:19 final size:21
Alignment explanation
Indices: 2866365--2866420 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2866355 AATTTCAATA
2866365 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
2866386 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
2866406 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
2866421 TGTATCGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 14 0.48
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:2872625 original size:168 final size:167
Alignment explanation
Indices: 2872261--2872652 Score: 453
Period size: 168 Copynumber: 2.4 Consensus size: 167
2872251 TCATCGGTTC
* *
2872261 AAAATTTTAAAATTTCAT-TAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCA
1 AAAATTTTTAAATTTCATCTAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCA
* *
2872325 TTCATTTTCATGAGTTTTTGAATTTTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAGTTT
66 TTCATTTTCATGAGTTTTT--ATATTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAATTT
* * *
2872390 TCTACTTCGAAATTTTTTCAGGGAGATTTTTCTTGGTTT
129 TCTACTTCGAAATATTTTCAGAGAGATTTTTCTTGGTCT
** * * *
2872429 TTAATTTTTAAAATCCATC-AAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCA
1 AAAATTTTTAAATTTCATCTAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCA
* * * *
2872493 TTTATTTTCATGAGTTTTT-TATTTTTTCCTTGAAATTCCTTTTTTTTCCTAAAA-ACTAAATTT
66 TTCATTTTCATGAGTTTTTATATTTTTTCCTTGAAATTCC-CTTGTTTCC-AAAATACGAAATTT
* *
2872556 TCTA-TTCCATAAATATTTTCAGAG-GATTTTT-TTTGTCT
129 TCTACTT-C-GAAATATTTTCAGAGAGATTTTTCTTGGTCT
* * *
2872594 AAAATTTTTAAATTTTATCT-AATATTATTATTTAACTCTCA-A-TAAATCAGTTTTGAAAA
1 AAAATTTTTAAATTTCATCTAAATATTATTATTT-A-TTTCATATTAAATCAGTTTTCAAAA
2872653 TGTAATTTAT
Statistics
Matches: 191, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
165 69 0.36
166 28 0.15
167 20 0.10
168 74 0.39
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (167 bp):
AAAATTTTTAAATTTCATCTAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCA
TTCATTTTCATGAGTTTTTATATTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAATTTTC
TACTTCGAAATATTTTCAGAGAGATTTTTCTTGGTCT
Found at i:2872642 original size:165 final size:166
Alignment explanation
Indices: 2872261--2872684 Score: 454
Period size: 165 Copynumber: 2.6 Consensus size: 166
2872251 TCATCGGTTC
* * *
2872261 AAAATTTTAAAATTTCAT-TAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCA
1 AAAATTTTTAAATTTCATCT-AATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCA
* * *
2872325 TTCATTTTCATGAGTTTTTGAATTTTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAGTTT
65 TTTATTTTCATGAGTTTTT--ATATTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAATTT
* * *
2872390 TCTACTTCGAAATTTTTTCAGGGAGATTTTTCTTGGTTT
128 TCTACTTCGAAATATTTTCAGAGAGATTTTTCTTGGTCT
** * * *
2872429 TTAATTTTTAAAATCCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCAT
1 AAAATTTTTAAATTTCATCTAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCAT
* * *
2872494 TTATTTTCATGAGTTTTT-TATTTTTTCCTTGAAATTCCTTTTTTTTCCTAAAA-ACTAAATTTT
66 TTATTTTCATGAGTTTTTATATTTTTTCCTTGAAATTCC-CTTGTTTCC-AAAATACGAAATTTT
* *
2872557 CTA-TTCCATAAATATTTTCAGAG-GATTTTT-TTTGTCT
129 CTACTT-C-GAAATATTTTCAGAGAGATTTTTCTTGGTCT
* * *
2872594 AAAATTTTTAAATTTTATCTAATATTATTATTTAACTCTCA-A-TAAATCAG-TTTTGAAAATGT
1 AAAATTTTTAAATTTCATCTAATATTATTATTT-A-TTTCATATTAAATCAGTTTTTAAAAAT-T
* * * *
2872656 AATTTATTTT-ATAAATTTTTAAATTTTTT
63 CATTTATTTTCATGAGTTTTTATATTTTTT
2872685 TTATATATCG
Statistics
Matches: 216, Mismatches: 31, Indels: 21
0.81 0.12 0.08
Matches are distributed among these distances:
164 17 0.08
165 78 0.36
166 28 0.13
167 20 0.09
168 73 0.34
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (166 bp):
AAAATTTTTAAATTTCATCTAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCAT
TTATTTTCATGAGTTTTTATATTTTTTCCTTGAAATTCCCTTGTTTCCAAAATACGAAATTTTCT
ACTTCGAAATATTTTCAGAGAGATTTTTCTTGGTCT
Found at i:2874915 original size:159 final size:157
Alignment explanation
Indices: 2874608--2874915 Score: 374
Period size: 156 Copynumber: 1.9 Consensus size: 157
2874598 TCACCTGTTA
* *
2874608 TAGGGGCATTTTCATAATTTCTCTAGAACCGAGCCCTAGGTTGTCATCGAGTCCGTTTTCATGCC
1 TAGGGGCATTTTCATAATTTCTCTAGAACCGAGCCCTAAGTTGTCACCGAGTCCGTTTTCATGCC
* * * *
2874673 GAAAGAGGGTATTTAGGGTAGGTTCATCCCTTTTAAAGTCATTTTTCGAATCCTTTAGGGGTATC
66 GAAAGAGGGTATTTAAGATAGGTTCATCCCTTTTAAAGTCATTTTTAGAATCCTTTAGGGATATC
* * *
2874738 GGGTACTTTTATGTCAAAGGTTTTTTC
131 AGGTACTTCTACGTCAAAGGTTTTTTC
* * * *
2874765 TAGGGGCATTTTTATAATTT-TTTAGAATCGAGTCCTAAGTTGTCACCGAGTCTAC-TTTT-ATG
1 TAGGGGCATTTTCATAATTTCTCTAGAACCGAGCCCTAAGTTGTCACCGAGTC--CGTTTTCATG
* * *
2874827 TCG-AAGATGGGTATTTAAAGATAGGTTCATCCCATTTTTAAA-TCCTTTTTATAAGTCCTTTAG
64 CCGAAAGA-GGGTATTT-AAGATAGGTTCATCCC--TTTTAAAGTCATTTTTAGAA-TCCTTTAG
2874890 GGATATCAGGTACTTCTACGTCAAAG
124 GGATATCAGGTACTTCTACGTCAAAG
2874916 ATATCTCCTT
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
155 4 0.03
156 40 0.31
157 37 0.29
158 10 0.08
159 37 0.29
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (157 bp):
TAGGGGCATTTTCATAATTTCTCTAGAACCGAGCCCTAAGTTGTCACCGAGTCCGTTTTCATGCC
GAAAGAGGGTATTTAAGATAGGTTCATCCCTTTTAAAGTCATTTTTAGAATCCTTTAGGGATATC
AGGTACTTCTACGTCAAAGGTTTTTTC
Found at i:2874932 original size:159 final size:156
Alignment explanation
Indices: 2874612--2874946 Score: 363
Period size: 159 Copynumber: 2.1 Consensus size: 156
2874602 CTGTTATAGG
* * *
2874612 GGCATTTTCATAATTTCTCTAGAACCGAGCCCTAGGTTGTCATCGAGTCCGTTTTCATGCCGAAA
1 GGCATTTTCATAATTT-TTTAGAACCGAGCCCTAAGTTGTCACCGAGTCCGTTTTCATGCCGAAA
* * * * *
2874677 GAGGGTATTTAGGGTAGGTTCATCCCTTTTAAAGTCATTTTTCGAATCCTTTAGGGGTATCGGGT
65 GAGGGTATTTAAGATAGGTTCATCCCTTTTAAAGTCATTTTTAGAATCCTTTAGGGATATCAGGT
* * * * * * *
2874742 ACTTTTATGTCAAAGGTTTTTTCTAGG
130 ACTTCTACGTCAAAGATATCTCCTAGA
* * * *
2874769 GGCATTTTTATAATTTTTTAGAATCGAGTCCTAAGTTGTCACCGAGTCTAC-TTTT-ATGTCG-A
1 GGCATTTTCATAATTTTTTAGAACCGAGCCCTAAGTTGTCACCGAGTC--CGTTTTCATGCCGAA
* *
2874831 AGATGGGTATTTAAAGATAGGTTCATCCCATTTTTAAA-TCCTTTTTATAAGTCCTTTAGGGATA
64 AGA-GGGTATTT-AAGATAGGTTCATCCC--TTTTAAAGTCATTTTTAGAA-TCCTTTAGGGATA
**
2874895 TCAGGTACTTCTACGTCAAAGATATCTCCTTTA
124 TCAGGTACTTCTACGTCAAAGATATCTCCTAGA
2874928 GGCATTTTCATAATTTTTT
1 GGCATTTTCATAATTTTTT
2874947 TTGAACTTAG
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
155 4 0.03
156 40 0.27
157 33 0.22
158 10 0.07
159 60 0.41
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (156 bp):
GGCATTTTCATAATTTTTTAGAACCGAGCCCTAAGTTGTCACCGAGTCCGTTTTCATGCCGAAAG
AGGGTATTTAAGATAGGTTCATCCCTTTTAAAGTCATTTTTAGAATCCTTTAGGGATATCAGGTA
CTTCTACGTCAAAGATATCTCCTAGA
Found at i:2876834 original size:28 final size:30
Alignment explanation
Indices: 2876759--2876839 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 30
2876749 ACATACCACT
* *
2876759 AAAATTAATTTATATAAAGTAATAATATAGTTA
1 AAAATT-ATTTATA-AAACTAA-AATATAGATA
* **
2876792 AAAAAT-TTTCCAAAA-TAAAATATA-ATA
1 AAAATTATTTATAAAACTAAAATATAGATA
2876819 AAAATTATTTATAAAACTAAA
1 AAAATTATTTATAAAACTAAA
2876840 TTAATTGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
27 7 0.18
28 13 0.33
29 7 0.18
30 3 0.08
31 4 0.10
33 5 0.13
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATTATTTATAAAACTAAAATATAGATA
Found at i:2877984 original size:23 final size:25
Alignment explanation
Indices: 2877958--2878007 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
2877948 CGTTATGGTA
2877958 TTACTATA-TA-AATATATTTTATG
1 TTACTATATTACAATATATTTTATG
**
2877981 TTACTATATTACTCTATATTTTATG
1 TTACTATATTACAATATATTTTATG
2878006 TT
1 TT
2878008 GTAATAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
25 13 0.57
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
TTACTATATTACAATATATTTTATG
Found at i:2877991 original size:31 final size:31
Alignment explanation
Indices: 2877938--2877998 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2877928 TAAAATTACT
*
2877938 ATATATTTTACGTTATGGTATTACTATATAA
1 ATATATTTTACGTTATGATATTACTATATAA
* *
2877969 ATATATTTTATGTTACT-ATATTACTCTATA
1 ATATATTTTACGTTA-TGATATTACTATATA
2877999 TTTTATGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (31 bp):
ATATATTTTACGTTATGATATTACTATATAA
Found at i:2878813 original size:57 final size:57
Alignment explanation
Indices: 2878752--2878864 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
2878742 TTTATCTTAA
**
2878752 GAAAAACTCTATTTTCCTAATATGTAATTTTCTCTTATATTTTTGACAGGCAAACCT
1 GAAAAACTCTATTTTCCTAATATGTAATTTTCTCTTATATTTTCAACAGGCAAACCT
*
2878809 GAAAAACTCTATTTTCCTATTATGTAATTTTCTCTTATATTTTCAACAGGCAAACC
1 GAAAAACTCTATTTTCCTAATATGTAATTTTCTCTTATATTTTCAACAGGCAAACC
2878865 CGACCATTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (57 bp):
GAAAAACTCTATTTTCCTAATATGTAATTTTCTCTTATATTTTCAACAGGCAAACCT
Found at i:2879438 original size:17 final size:17
Alignment explanation
Indices: 2879416--2879470 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
2879406 CAAATTCAGA
* *
2879416 TTATTTTTAGTTTATAT
1 TTATTTTAAGTTTAAAT
2879433 TTATTTTAAGTTTAAAT
1 TTATTTTAAGTTTAAAT
2879450 TT-TTTT--GTTTAAAT
1 TTATTTTAAGTTTAAAT
2879464 TT-TTTTA
1 TTATTTTA
2879471 GATTTGGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 14 0.40
16 4 0.11
17 17 0.49
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TTATTTTAAGTTTAAAT
Found at i:2879467 original size:13 final size:14
Alignment explanation
Indices: 2879419--2879469 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
2879409 ATTCAGATTA
* *
2879419 TTTTTAGTTTATAT
1 TTTTTTGTTTAAAT
2879433 TTATTTTAAGTTTAAAT
1 TT-TTTT--GTTTAAAT
2879450 TTTTTTGTTTAAAT
1 TTTTTTGTTTAAAT
2879464 TTTTTT
1 TTTTTT
2879470 AGATTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 16 0.50
15 3 0.09
16 4 0.12
17 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTTTGTTTAAAT
Found at i:2879756 original size:27 final size:28
Alignment explanation
Indices: 2879714--2879779 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
2879704 AAAAGAATAA
** *
2879714 ATATTTTATTGGTATA-AAATTATATAAT
1 ATATTTTATTTATATATAAATCAT-TAAT
*
2879742 A-ATTTTATTTATATATTAATCATTAAT
1 ATATTTTATTTATATATAAATCATTAAT
2879769 ATATTTTATTT
1 ATATTTTATTT
2879780 GAATATTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (28 bp):
ATATTTTATTTATATATAAATCATTAAT
Found at i:2880593 original size:23 final size:23
Alignment explanation
Indices: 2880567--2880635 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
2880557 ATGAATATTA
*
2880567 GATCTAATTGTACATATTTAATT
1 GATCTAATTATACATATTTAATT
* *
2880590 GATCAAATTATGA-ATA--TGA--
1 GATCTAATTAT-ACATATTTAATT
2880609 GATCTAATTATACATATTTAATT
1 GATCTAATTATACATATTTAATT
2880632 GATC
1 GATC
2880636 AAATGTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
18 1 0.03
19 13 0.37
21 4 0.11
23 16 0.46
24 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (23 bp):
GATCTAATTATACATATTTAATT
Found at i:2880602 original size:42 final size:42
Alignment explanation
Indices: 2880556--2880639 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
2880546 AAACACTAAA
* *
2880556 TATGAATATTAGATCTAATTGTACATATTTAATTGATCAAAT
1 TATGAATATGAGATCTAATTATACATATTTAATTGATCAAAT
2880598 TATGAATATGAGATCTAATTATACATATTTAATTGATCAAAT
1 TATGAATATGAGATCTAATTATACATATTTAATTGATCAAAT
2880640 GTTTAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (42 bp):
TATGAATATGAGATCTAATTATACATATTTAATTGATCAAAT
Found at i:2883208 original size:211 final size:211
Alignment explanation
Indices: 2882844--2883270 Score: 836
Period size: 211 Copynumber: 2.0 Consensus size: 211
2882834 TATGATGCAT
2882844 ATTTAGAAGAACTTGTAATTGTTGCCCCATGGCAAGCAACCATTTAAAGTTATCTCAATCGTCGA
1 ATTTAGAAGAACTTGTAATTGTTGCCCCATGGCAAGCAACCATTTAAAGTTATCTCAATCGTCGA
*
2882909 ACCAATTGGTGAGTAACTTCAATTATTTTATAAGATTGTAATTGTGTAAAAGTGGAAAGTGGTCA
66 ACCAATTGGTGAGTAACTTCAATTATTTTATAAGATTGTAATTGTGGAAAAGTGGAAAGTGGTCA
*
2882974 AGTAGCAGTTTTGAGCTGTTCGTTTTCAAGTTGGCAAATAAATGTCTGCCATTGTCTAAAGTTTT
131 AGTAGCAGTTTTGAGCTGTTCGTTTTCAAGTTGGCAAATAAATGTCTGCCATTGTCTAAAGTCTT
2883039 TGAGAAGTGCTACATG
196 TGAGAAGTGCTACATG
2883055 ATTTAGAAGAACTTGTAATTGTTGCCCCATGGCAAGCAACCATTTAAAGTTATCTCAATCGTCGA
1 ATTTAGAAGAACTTGTAATTGTTGCCCCATGGCAAGCAACCATTTAAAGTTATCTCAATCGTCGA
2883120 ACCAATTGGTGAGTAACTTCAATTATTTTATAAGATTGTAATTGTGGAAAAGTGGAAAGTGGTCA
66 ACCAATTGGTGAGTAACTTCAATTATTTTATAAGATTGTAATTGTGGAAAAGTGGAAAGTGGTCA
2883185 AGTAGCAGTTTTGAGCTGTTCGTTTTCAAGTTGGCAAATAAATGTCTGCCATTGTCTAAAGTCTT
131 AGTAGCAGTTTTGAGCTGTTCGTTTTCAAGTTGGCAAATAAATGTCTGCCATTGTCTAAAGTCTT
2883250 TGAGAAGTGCTACATG
196 TGAGAAGTGCTACATG
2883266 ATTTA
1 ATTTA
2883271 AATGGAACAA
Statistics
Matches: 214, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 214 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (211 bp):
ATTTAGAAGAACTTGTAATTGTTGCCCCATGGCAAGCAACCATTTAAAGTTATCTCAATCGTCGA
ACCAATTGGTGAGTAACTTCAATTATTTTATAAGATTGTAATTGTGGAAAAGTGGAAAGTGGTCA
AGTAGCAGTTTTGAGCTGTTCGTTTTCAAGTTGGCAAATAAATGTCTGCCATTGTCTAAAGTCTT
TGAGAAGTGCTACATG
Found at i:2887746 original size:2 final size:2
Alignment explanation
Indices: 2887739--2887765 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2887729 ATTAATATTC
2887739 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2887766 ACCCGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2887844 original size:19 final size:17
Alignment explanation
Indices: 2887820--2887855 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
2887810 TTTGGATAAA
2887820 TTACTTACTTATGTGATAT
1 TTACTTA-TTAT-TGATAT
2887839 TTACTTATTATTGATAT
1 TTACTTATTATTGATAT
2887856 ATCTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (17 bp):
TTACTTATTATTGATAT
Found at i:2890202 original size:15 final size:16
Alignment explanation
Indices: 2890171--2890218 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
2890161 TTCCTTTCTC
* *
2890171 TTCTCTCTCTTCATTT
1 TTCTTTCTCTTCTTTT
2890187 TTCTTTC-CTTCTTTT
1 TTCTTTCTCTTCTTTT
*
2890202 TTCTTTCTCTTGTTTT
1 TTCTTTCTCTTCTTTT
2890218 T
1 T
2890219 CTCCCTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (16 bp):
TTCTTTCTCTTCTTTT
Found at i:2890730 original size:13 final size:11
Alignment explanation
Indices: 2890695--2890744 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
2890685 ATTTTATTGA
2890695 AATATAGAAAAT
1 AATATA-AAAAT
2890707 AA-ATAATAAAT
1 AATATAA-AAAT
2890718 AATATTTAAAAAT
1 AATA--TAAAAAT
2890731 -ATATAAAAAT
1 AATATAAAAAT
2890741 AATA
1 AATA
2890745 AATTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
10 8 0.24
11 12 0.36
12 6 0.18
13 4 0.12
14 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:2892653 original size:181 final size:180
Alignment explanation
Indices: 2892265--2892789 Score: 689
Period size: 181 Copynumber: 3.0 Consensus size: 180
2892255 ATATAAAAAG
* * *
2892265 AATATAACATCAATTTATACATATCT-AATGATAATTGTATATTTTATTATCTATAAAGTCTTTG
1 AATATAAGATCAATTTATACATAT-TAAATGGTAATTGTATATTTTATTATCTATAAAGTCTTTA
* * * *
2892329 TTTGAATTAGTGTTATTGGTCAAATGATACCAATTCAACAAAGAAAATTAC---AA-AAAAAT-T
65 ATTAAATTAGTGTTATTAGTCAAATGATACCAATTCAACAAA-AAAATTACAAAAATAAAAATAA
* *
2892389 AATTAATAAAAATCTAAATTAAAG--ATTTACGTGATGATATATAAAGAACA
129 AATTAATAAAAATATAAATTAAAGATATTTATGTGATGATATATAAAGAACA
* * *
2892439 AATATAAGATCAATTTATACATACTAAATGGTAATTGTATACTTTATTGTCTATAAAGTCTTTAA
1 AATATAAGATCAATTTATACATATTAAATGGTAATTGTATATTTTATTATCTATAAAGTCTTTAA
2892504 TTAAATTAGTGTTATTAGTCAAATGATACCAATTCAACAAAAAAATTACAAAAATAAAAATAAAT
66 TTAAATTAGTGTTATTAGTCAAATGATACCAATTCAACAAAAAAATTACAAAAATAAAAATAAA-
*
2892569 ATTAACAAAAATATAAATTAAAGATATTTATGTGATGATATATAAAGAACA
130 ATTAATAAAAATATAAATTAAAGATATTTATGTGATGATATATAAAGAACA
*
2892620 AATATAAGATCAATTTATACATATTAAATGGTAATTGTATATTTTATTATCTATAAAGT-TTTAC
1 AATATAAGATCAATTTATACATATTAAATGGTAATTGTATATTTTATTATCTATAAAGTCTTTAA
* * * * * * * * * *
2892684 TTGAAA-CAGGGTCATGAGTAAAATAATAACAATT-AAGTCAAGAGAATTACAAAAATACAAA-A
66 TT-AAATTAGTGTTATTAGTCAAATGATACCAATTCAA--CAAAAAAATTACAAAAATAAAAATA
2892746 AAA-TAATAAAAATATAAATTAAAGATATTTATGTGATGATATAT
128 AAATTAATAAAAATATAAATTAAAGATATTTATGTGATGATATAT
2892790 GGCACCCACA
Statistics
Matches: 311, Mismatches: 28, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
173 9 0.03
174 95 0.31
176 2 0.01
177 6 0.02
178 41 0.13
179 24 0.08
180 30 0.10
181 104 0.33
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (180 bp):
AATATAAGATCAATTTATACATATTAAATGGTAATTGTATATTTTATTATCTATAAAGTCTTTAA
TTAAATTAGTGTTATTAGTCAAATGATACCAATTCAACAAAAAAATTACAAAAATAAAAATAAAA
TTAATAAAAATATAAATTAAAGATATTTATGTGATGATATATAAAGAACA
Found at i:2897299 original size:3 final size:3
Alignment explanation
Indices: 2897291--2897327 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2897281 TGTTAAACAC
2897291 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2897328 AGAATGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2899669 original size:17 final size:17
Alignment explanation
Indices: 2899647--2899703 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
2899637 TTATTTTACT
2899647 TAATTAAATTATTATTA
1 TAATTAAATTATTATTA
** *
2899664 TAATTATTTTATTTTTA
1 TAATTAAATTATTATTA
*
2899681 TTAAAT-AATTATTTATTA
1 -TAATTAAATTA-TTATTA
2899699 TAATT
1 TAATT
2899704 TTATTTTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTAAATTATTATTA
Found at i:2899692 original size:31 final size:32
Alignment explanation
Indices: 2899649--2899710 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
2899639 ATTTTACTTA
* *
2899649 ATTAAATTATTA-TTATAATTATTTTATTTTT
1 ATTAAATAATTATTTATAATAATTTTATTTTT
*
2899680 ATTAAATAATTATTTATTATAATTTTATTTT
1 ATTAAATAATTATTTATAATAATTTTATTTT
2899711 ATTCTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (32 bp):
ATTAAATAATTATTTATAATAATTTTATTTTT
Found at i:2899697 original size:35 final size:36
Alignment explanation
Indices: 2899628--2899713 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 36
2899618 TATTTAAATC
*
2899628 TTAT-ATT-TTTTA-TTTTACTTAATTAAATTATTA
1 TTATAATTATTTTATTTTTACTTAAATAAATTATTA
2899661 TTATAATTATTTTATTTTTA-TTAAAT-AATTATTTA
1 TTATAATTATTTTATTTTTACTTAAATAAATTA-TTA
2899696 TTATAATTTTATTTTATT
1 TTATAA--TTATTTTATT
2899714 CTAATAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 4 0.09
34 8 0.17
35 19 0.41
36 5 0.11
37 10 0.22
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (36 bp):
TTATAATTATTTTATTTTTACTTAAATAAATTATTA
Found at i:2899711 original size:31 final size:30
Alignment explanation
Indices: 2899639--2899713 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
2899629 TATATTTTTT
* * * *
2899639 ATTTTACTTAATTAAATTATTATTATAATT
1 ATTTTATTTTATTAAATAATTATTATAATA
*
2899669 ATTTTATTTTTATTAAATAATTATTTATTATA
1 ATTTTA-TTTTATTAAATAATTA-TTATAATA
2899701 ATTTTATTTTATT
1 ATTTTATTTTATT
2899714 CTAATAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 20 0.53
32 12 0.32
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTATTTTATTAAATAATTATTATAATA
Found at i:2900626 original size:29 final size:29
Alignment explanation
Indices: 2900567--2900626 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
2900557 TTGCTATAAT
*
2900567 TTTAAAAGTACAAAAATTAAAATATTAAA
1 TTTAAAAGTACAAAAATTAAAATACTAAA
* * * *
2900596 TTTAATAGTATAAAGATTAAAATACTCAA
1 TTTAAAAGTACAAAAATTAAAATACTAAA
2900625 TT
1 TT
2900627 CACTATAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (29 bp):
TTTAAAAGTACAAAAATTAAAATACTAAA
Found at i:2903617 original size:12 final size:12
Alignment explanation
Indices: 2903593--2903629 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2903583 AAAGATTTAA
2903593 TATTAATTAATTT
1 TATTAA-TAATTT
2903606 TATTAATAATTT
1 TATTAATAATTT
*
2903618 TAATAATAATTT
1 TATTAATAATTT
2903630 CAATAGTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTAATAATTT
Found at i:2904316 original size:10 final size:10
Alignment explanation
Indices: 2904281--2904308 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2904271 TCAGTCACAG
2904281 AATTTTTAAT
1 AATTTTTAAT
2904291 AATTTTTAAT
1 AATTTTTAAT
2904301 AATTTTTA
1 AATTTTTA
2904309 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:2909065 original size:299 final size:299
Alignment explanation
Indices: 2908527--2909129 Score: 978
Period size: 299 Copynumber: 2.0 Consensus size: 299
2908517 GAGCAAACTT
*
2908527 AATTTTTTTTTTTCATTGTGTCTGGTCAGATATGCTTGTCTTTTTGTTTTATCGGTCACTGATAT
1 AATTTTTTTTTTTCATTGTGTCTGGTCAGATATGCTTGTCTTTTTATTTTATCGGTCACTGATAT
* * *
2908592 AATCACTCCTTTTTGATAAATTTTCTCCCTTTGATTCCCACTGTATTTTGCATTCCCATTGATAT
66 AATCACTCCTATGTGATAAATTTTCTCCCTTTGATTCCCACTGTATTTTGAATTCCCATTGATAT
* *
2908657 TGGGGACATAACTCTATTTATTAGTAATATATGTTTTGCAAAATTCACTAATTTAGTGTTGCTGA
131 TGGGGACATAACTCTATTTATTAGTAATATATGTTTGGCAAAATTCACAAATTTAGTGTTGCTGA
* * **
2908722 CTGTTTTAATTCTCACTTTGTAGATCAGAACTGTTTTTTATTTTTATTTTTTTTGGATATTGCTG
196 ATGTTTTAATTCTCACTTTGTAGATCAGAACTCTTTTTTATTTTTA-TTTTTTTGGATATTGCCA
* *
2908787 TAAGTCTAGCTTATGAATATAAATTTGG-AACGCA-TGGCA
260 TAAATCTAGCTTATGAATATAAATTTGGCAA-GCATTGACA
* *
2908826 AATTTTTTTTTTTCATTTTGTCTGGTCAGATA-GCTTGTCTTTTTATTTTATTGGTCACTGATAT
1 AATTTTTTTTTTTCATTGTGTCTGGTCAGATATGCTTGTCTTTTTATTTTATCGGTCACTGATAT
* *
2908890 AATTACTCCTATGTGATAAATTTTTTTCCCTTTGATTCCCACTGTATTTTGAATTCCCATTGATA
66 AATCACTCCTATGTGATAAA-TTTTCTCCCTTTGATTCCCACTGTATTTTGAATTCCCATTGATA
* *
2908955 TTGGGGTCATAATTCTATTTATTAGTAATATATGTTTGGCAAAATTCACAAATTTAGTGTTGCTG
130 TTGGGGACATAACTCTATTTATTAGTAATATATGTTTGGCAAAATTCACAAATTTAGTGTTGCTG
*
2909020 AATGTTTTGATTCTCACTTTGTAGATCAGAACTCTTTTTTATTTTTATTTTTTTGGATATTGCCA
195 AATGTTTTAATTCTCACTTTGTAGATCAGAACTCTTTTTTATTTTTATTTTTTTGGATATTGCCA
*
2909085 TAAATCTAGCTTATTAATATAAATTTGGCAAGCATTGACA
260 TAAATCTAGCTTATGAATATAAATTTGGCAAGCATTGACA
2909125 AATTT
1 AATTT
2909130 AGTGGTGCTG
Statistics
Matches: 281, Mismatches: 20, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
298 92 0.33
299 189 0.67
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (299 bp):
AATTTTTTTTTTTCATTGTGTCTGGTCAGATATGCTTGTCTTTTTATTTTATCGGTCACTGATAT
AATCACTCCTATGTGATAAATTTTCTCCCTTTGATTCCCACTGTATTTTGAATTCCCATTGATAT
TGGGGACATAACTCTATTTATTAGTAATATATGTTTGGCAAAATTCACAAATTTAGTGTTGCTGA
ATGTTTTAATTCTCACTTTGTAGATCAGAACTCTTTTTTATTTTTATTTTTTTGGATATTGCCAT
AAATCTAGCTTATGAATATAAATTTGGCAAGCATTGACA
Found at i:2910562 original size:2 final size:2
Alignment explanation
Indices: 2910557--2910588 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2910547 ACTCACACTC
*
2910557 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2910589 GGTGCCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2911880 original size:40 final size:40
Alignment explanation
Indices: 2911825--2911913 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
2911815 CTGCATCCAT
*
2911825 TATCTGAATCCGCTTTATTTATACGGATAACAGATTTAGA
1 TATCTGAATCCGCTTTATTTATACGGATAACAGATTCAGA
** * * *
2911865 TATCTGAATTTGCTTTATTTATATGGGTAACGGATTCAGA
1 TATCTGAATCCGCTTTATTTATACGGATAACAGATTCAGA
2911905 TATCTGAAT
1 TATCTGAAT
2911914 GCGATATCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (40 bp):
TATCTGAATCCGCTTTATTTATACGGATAACAGATTCAGA
Found at i:2915267 original size:3 final size:3
Alignment explanation
Indices: 2915259--2915293 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2915249 CCAGCAATGC
2915259 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2915294 AGTTTTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2916606 original size:3 final size:3
Alignment explanation
Indices: 2916598--2916653 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
2916588 GTCAGTTTCT
2916598 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2916646 TTA TTA TT
1 TTA TTA TT
2916654 TTTGTTGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2917674 original size:12 final size:12
Alignment explanation
Indices: 2917657--2917689 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2917647 TAGCTTATGT
*
2917657 ATTGGTGATATC
1 ATTGGTAATATC
2917669 ATTGGTAATATC
1 ATTGGTAATATC
2917681 ATTGGTAAT
1 ATTGGTAAT
2917690 TTGATGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (12 bp):
ATTGGTAATATC
Found at i:2917915 original size:20 final size:20
Alignment explanation
Indices: 2917890--2917932 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2917880 TCAAAATCTA
2917890 TATAATATGAATTATTAACG
1 TATAATATGAATTATTAACG
2917910 TATAATATGAATTATTAACG
1 TATAATATGAATTATTAACG
2917930 TAT
1 TAT
2917933 CTAAATCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
TATAATATGAATTATTAACG
Found at i:2928110 original size:1 final size:1
Alignment explanation
Indices: 2928100--2928157 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2928090 TGGCAATTGG
* * * ** * *
2928100 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAACAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2928158 GTGAAGATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:2928122 original size:13 final size:13
Alignment explanation
Indices: 2928100--2928157 Score: 71
Period size: 13 Copynumber: 4.2 Consensus size: 13
2928090 TGGCAATTGG
*
2928100 AAAAAGAAAAAAA
1 AAAAACAAAAAAA
*
2928113 CAAAACAAAAAAAA
1 AAAAAC-AAAAAAA
2928127 GGAAAAACAAAAAAA
1 --AAAAACAAAAAAA
2928142 AAAAACAAAAAAA
1 AAAAACAAAAAAA
2928155 AAA
1 AAA
2928158 GTGAAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
13 20 0.51
14 7 0.18
15 7 0.18
16 5 0.13
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:2928130 original size:29 final size:29
Alignment explanation
Indices: 2928098--2928155 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2928088 CATGGCAATT
* *
2928098 GGAAAAAGAAAAAAACAAAACAAAAAAAA
1 GGAAAAACAAAAAAAAAAAACAAAAAAAA
2928127 GGAAAAACAAAAAAAAAAAACAAAAAAAA
1 GGAAAAACAAAAAAAAAAAACAAAAAAAA
2928156 AAGTGAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (29 bp):
GGAAAAACAAAAAAAAAAAACAAAAAAAA
Found at i:2928132 original size:21 final size:20
Alignment explanation
Indices: 2928108--2928146 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2928098 GGAAAAAGAA
2928108 AAAAACAAAACAAAAAAAAGG
1 AAAAACAAAA-AAAAAAAAGG
2928129 AAAAACAAAAAAAAAAAA
1 AAAAACAAAAAAAAAAAA
2928147 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAAAGG
Found at i:2928133 original size:16 final size:14
Alignment explanation
Indices: 2928106--2928157 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
2928096 TTGGAAAAAG
*
2928106 AAAAAAACAAAACA
1 AAAAAAAAAAAACA
2928120 AAAAAAAGGAAAAAC-
1 AAAAAAA--AAAAACA
2928135 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
2928149 AAAAAAAAA
1 AAAAAAAAA
2928158 GTGAAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 6 0.18
14 16 0.47
15 7 0.21
16 5 0.15
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:2928153 original size:21 final size:21
Alignment explanation
Indices: 2928100--2928155 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2928090 TGGCAATTGG
*
2928100 AAAAAGAAAAAAACAAAACAA
1 AAAAAAAAAAAAACAAAACAA
** *
2928121 AAAAAAGGAAAAACAAAAAAA
1 AAAAAAAAAAAAACAAAACAA
2928142 AAAAACAAAAAAAA
1 AAAAA-AAAAAAAA
2928156 AAGTGAAGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAACAAAACAA
Found at i:2931696 original size:46 final size:46
Alignment explanation
Indices: 2931643--2931734 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
2931633 CTTCTGACTC
* *
2931643 CTTAACTAACACTTGGATTTTAGAATTCTCATAACAAACTTAACAA
1 CTTAACTAACACTTGGATTCTAGAATTCTAATAACAAACTTAACAA
*
2931689 CTTAACTAATACTTGGATTCTAGAATTCTAATAACAAACTTAACAA
1 CTTAACTAACACTTGGATTCTAGAATTCTAATAACAAACTTAACAA
2931735 TTGCACAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (46 bp):
CTTAACTAACACTTGGATTCTAGAATTCTAATAACAAACTTAACAA
Found at i:2939176 original size:18 final size:18
Alignment explanation
Indices: 2939153--2939190 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2939143 TAGCGTCTTT
2939153 ATTTACATTATTTCCTTC
1 ATTTACATTATTTCCTTC
2939171 ATTTACATTATTTCCTTC
1 ATTTACATTATTTCCTTC
2939189 AT
1 AT
2939191 CAAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTACATTATTTCCTTC
Found at i:2942935 original size:34 final size:34
Alignment explanation
Indices: 2942892--2942957 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
2942882 TAAGTATTTA
*
2942892 AGTCATATATTTACAAAGTTTAACTATCATATCT
1 AGTCATATATTTACAAAATTTAACTATCATATCT
2942926 AGTCATATATTTACAAAATTTAACTATCATAT
1 AGTCATATATTTACAAAATTTAACTATCATAT
2942958 ATTACCCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (34 bp):
AGTCATATATTTACAAAATTTAACTATCATATCT
Found at i:2947375 original size:28 final size:28
Alignment explanation
Indices: 2947343--2947408 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
2947333 ATAGTGACTT
*
2947343 ATAATATAAATTGTATTTTTTTATTCTA
1 ATAATATAAATTGTAATTTTTTATTCTA
* *
2947371 ATAAT-T-ATTTGTAATTTTTTATTTTA
1 ATAATATAAATTGTAATTTTTTATTCTA
2947397 A-AATATATAATT
1 ATAATATA-AATT
2947409 TGATTGACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 3 0.10
26 19 0.61
27 1 0.03
28 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
ATAATATAAATTGTAATTTTTTATTCTA
Found at i:2950655 original size:19 final size:19
Alignment explanation
Indices: 2950631--2950670 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2950621 TCTAACACCT
*
2950631 ATAAAAGATAGGCAAGAAA
1 ATAAAAGATAGACAAGAAA
* *
2950650 ATAAAAGGTAGACAAGTAA
1 ATAAAAGATAGACAAGAAA
2950669 AT
1 AT
2950671 CAACATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.20, T:0.15
Consensus pattern (19 bp):
ATAAAAGATAGACAAGAAA
Found at i:2951814 original size:22 final size:23
Alignment explanation
Indices: 2951788--2951836 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2951778 TGAAATTTAT
2951788 AAACCCAAA-ATCAAACCCTTAA
1 AAACCCAAATATCAAACCCTTAA
* *
2951810 AAACCCAAATTTCAAATCCTTAA
1 AAACCCAAATATCAAACCCTTAA
2951833 AAAC
1 AAAC
2951837 GAACCCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (23 bp):
AAACCCAAATATCAAACCCTTAA
Found at i:2954994 original size:2 final size:2
Alignment explanation
Indices: 2954987--2955033 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2954977 GCTTTCATTT
2954987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2955029 TA TA T
1 TA TA T
2955034 TTTTTCTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2957064 original size:14 final size:14
Alignment explanation
Indices: 2957045--2957072 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2957035 CTAATATCCA
2957045 AACCTTAAGTCTAT
1 AACCTTAAGTCTAT
2957059 AACCTTAAGTCTAT
1 AACCTTAAGTCTAT
2957073 TTTAAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
AACCTTAAGTCTAT
Found at i:2958544 original size:2 final size:2
Alignment explanation
Indices: 2958537--2958578 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2958527 CCTATTGAAA
2958537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2958579 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2960944 original size:2 final size:2
Alignment explanation
Indices: 2960937--2960973 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2960927 TGCGACAATA
2960937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2960974 GTGGTAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2965989 original size:34 final size:35
Alignment explanation
Indices: 2965951--2966017 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
2965941 CCTTACAACA
2965951 CTATC-TTTC-AAGGCTAAAATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAAATAG-AACCTCTCTCT
*
2965985 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAAATAGAACCTCTC
2966018 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAAATAGAACCTCTCTCT
Found at i:2966506 original size:13 final size:13
Alignment explanation
Indices: 2966488--2966513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2966478 CTATTCAAAA
2966488 TGTATCGATACAT
1 TGTATCGATACAT
2966501 TGTATCGATACAT
1 TGTATCGATACAT
2966514 GAATAGTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2966592 original size:13 final size:13
Alignment explanation
Indices: 2966574--2966598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2966564 CTATTCACAA
2966574 TGTATCGATACAC
1 TGTATCGATACAC
2966587 TGTATCGATACA
1 TGTATCGATACA
2966599 TAAATAGTAA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2966689 original size:22 final size:22
Alignment explanation
Indices: 2966663--2966717 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2966653 TTATGAATAG
2966663 TGAACAGTGATATATCGATACA
1 TGAACAGTGATATATCGATACA
*
2966685 TGAACAGTGATATATCGATAGA
1 TGAACAGTGATATATCGATACA
2966707 TGAACAGTGAT
1 TGAACAGTGAT
2966718 GAATACTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATATATCGATACA
Found at i:2966782 original size:13 final size:13
Alignment explanation
Indices: 2966764--2966789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2966754 TGCCAATGCT
2966764 ATGTATCGATACA
1 ATGTATCGATACA
2966777 ATGTATCGATACA
1 ATGTATCGATACA
2966790 TCTGAGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2973452 original size:33 final size:32
Alignment explanation
Indices: 2973412--2973480 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
2973402 CTGTTACAAG
2973412 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCGATAC-ATT-ATACATGTATCGATA
2973445 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATA-CATGTATCGATA
2973478 CAA
1 CAA
2973481 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 29 0.85
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACATTATACATGTATCGATA
Found at i:2973465 original size:20 final size:20
Alignment explanation
Indices: 2973442--2973479 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2973432 TCATGTATCG
2973442 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
2973462 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
2973480 AACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:2973478 original size:13 final size:13
Alignment explanation
Indices: 2973412--2973459 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
2973402 CTGTTACAAG
2973412 CAATGTATCGATA
1 CAATGTATCGATA
2973425 CAA--T-TC-AT-
1 CAATGTATCGATA
2973433 C-ATGTATCGATA
1 CAATGTATCGATA
2973445 CAATGTATCGATA
1 CAATGTATCGATA
2973458 CA
1 CA
2973460 TTATACCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2973553 original size:19 final size:19
Alignment explanation
Indices: 2973509--2973564 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2973499 CTGCTAATTT
**
2973509 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2973529 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2973548 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2973565 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2973567 original size:13 final size:13
Alignment explanation
Indices: 2973549--2973575 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2973539 TACAATGAAC
2973549 ATGTATCGATACA
1 ATGTATCGATACA
2973562 ATGTATCGATACA
1 ATGTATCGATACA
2973575 A
1 A
2973576 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2980280 original size:22 final size:22
Alignment explanation
Indices: 2980233--2980283 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2980223 ATTTTTGCCT
* *
2980233 TAAAAACATTTGAATTAAAGTT
1 TAAAAACATTTGAATTAAACTC
*
2980255 TAAAAACATTTG-TTTATAACTC
1 TAAAAACATTTGAATTA-AACTC
2980277 TAAAAAC
1 TAAAAAC
2980284 GTCCATTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (22 bp):
TAAAAACATTTGAATTAAACTC
Found at i:2983458 original size:32 final size:32
Alignment explanation
Indices: 2983400--2983937 Score: 853
Period size: 32 Copynumber: 16.8 Consensus size: 32
2983390 CTTTTAAATT
* *
2983400 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2983431 CACAAGTCGGTGGCAACCCATTCCAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
2983463 CACAAGTTGGTGGCAACCCATTCCAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2983495 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2983527 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2983559 CACAAGTCGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2983591 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2983623 CACAAATCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2983655 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2983687 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2983719 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
2983751 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2983783 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
2983815 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2983847 CACAAGTCAGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2983879 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
2983911 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
2983938 TCACCATTTT
Statistics
Matches: 475, Mismatches: 31, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
31 12 0.03
32 463 0.97
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2985183 original size:17 final size:15
Alignment explanation
Indices: 2985163--2985216 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
2985153 TTAGGTAAAA
2985163 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
2985180 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
2985194 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
2985206 AAGAAAAGAAA
1 AAG-AAAGAAA
2985217 AAAATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.06
13 3 0.09
14 16 0.47
15 1 0.03
16 9 0.26
17 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:2985213 original size:20 final size:20
Alignment explanation
Indices: 2985159--2985218 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 20
2985149 AAAGTTAGGT
2985159 AAAAAAGAAAGAAAGAAGATGA
1 AAAAAAGAAAGAAA-AAGA-GA
2985181 AGAAGAAAGAAAGAAAAAGA-A
1 A-AA-AAAGAAAGAAAAAGAGA
2985202 AAAAAAGAAAAGAAAAA
1 AAAAAAG-AAAGAAAAA
2985219 AATATGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 2 0.06
22 1 0.03
23 6 0.17
24 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAGAAAAAGAGA
Found at i:2985213 original size:24 final size:24
Alignment explanation
Indices: 2985161--2985220 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2985151 AGTTAGGTAA
** *
2985161 AAAAGAAAGAAAGAAGATGAAGAAG
1 AAAAGAAAGAAA-AAGAAAAAAAAG
2985186 -AAAGAAAGAAAAAGAAAAAAAAG
1 AAAAGAAAGAAAAAGAAAAAAAAG
2985209 AAAAGAAA-AAAA
1 AAAAGAAAGAAAA
2985221 TATGAAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (24 bp):
AAAAGAAAGAAAAAGAAAAAAAAG
Found at i:2992894 original size:27 final size:27
Alignment explanation
Indices: 2992855--2993491 Score: 887
Period size: 27 Copynumber: 23.0 Consensus size: 27
2992845 GTGGTATTTT
* **
2992855 CTTTTAAAGTCCACAACTCTGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2992883 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2992910 CTTTTAAGTCCACAACTCTGTGGCACCGCACC
1 CTTTTAAGTCCACAACTCCGT-G----GCACC
* *
2992942 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* **
2992970 CTTTTAATTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2992997 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
2993025 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2993052 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2993079 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2993107 CTTTTAAGTCCACAATTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2993134 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2993162 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2993190 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2993217 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2993245 CTTTTAAGACCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2993272 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2993299 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2993327 CTTTTAAGTCCACAATTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2993354 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2993382 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2993410 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2993437 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2993464 CTTTTAAATTCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2993491 C
1 C
2993492 ATTTCAAAGC
Statistics
Matches: 553, Mismatches: 44, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
27 297 0.54
28 231 0.42
31 1 0.00
32 24 0.04
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2993179 original size:165 final size:166
Alignment explanation
Indices: 2992855--2993506 Score: 922
Period size: 165 Copynumber: 3.9 Consensus size: 166
2992845 GTGGTATTTT
* ** * *
2992855 CTTTTAAAGTCCACAACTCTGTGGCA-TTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * * *
2992919 CCACAACTCTGTGGCACCGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAATTCCACA
66 CCACAACTCCGTGGCA----TCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACA
**
2992984 ACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGGCACC
126 ACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACC
* *
2993025 CTTTT-AAGACCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * *
2993088 CCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGTCCACAACTC
66 CCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTC
*
2993153 CGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
130 CGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACC
*
2993190 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGA
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
2993254 CCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCC
66 CCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
* *
2993318 GTGGCATCTCTTTT-AAGTCCACAATTCTGTGGCACC
131 GTGGCA-CCCTTTTAAAGTCCACAACTCTGTGGCACC
2993354 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * *
2993419 CCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAATTCACAACTCT
66 CCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
* *
2993483 GTGGCACCCATTTCAAAGCCCACA
131 GTGGCACCC-TTTTAAAGTCCACA
2993507 CAAGTCGGTG
Statistics
Matches: 439, Mismatches: 35, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
164 52 0.12
165 262 0.60
166 53 0.12
169 63 0.14
170 9 0.02
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (166 bp):
CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
CCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
GTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACC
Found at i:2993243 original size:220 final size:220
Alignment explanation
Indices: 2992855--2993491 Score: 1041
Period size: 220 Copynumber: 2.9 Consensus size: 220
2992845 GTGGTATTTT
* * * *
2992855 CTTTTAAAGTCCACAACTCTGTGGCAT-TTTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAG
1 CTTTT-AAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAG
* * * *
2992918 TCCACAACTCTGTGGCACCGCACCCTTTT-AAGTCCATAACTCCGTGGCATCTCTTTTAATTCCA
65 TCCACAACTCCGT-G----GCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCA
** *
2992982 CAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGACCACAACTCCGTG
124 CAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTG
2993047 GCACCCTTTTAAGTCCACAACTCTGTGGCACC
189 GCACCCTTTTAAGTCCACAACTCTGTGGCACC
2993079 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGT
2993144 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
66 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
*
2993209 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCATCCT
131 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCT
2993274 TTTAAGTCCACAACTCTGTGGCACC
196 TTTAAGTCCACAACTCTGTGGCACC
2993299 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGT
2993364 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
66 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
* *
2993429 GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAA-ATTCACAACTCTGTGGCACCC
131 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGA-CCACAACTCCGTGGCACCC
2993492 ATTTCAAAGC
Statistics
Matches: 394, Mismatches: 15, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
218 1 0.00
219 45 0.11
220 258 0.65
221 19 0.05
223 19 0.05
224 37 0.09
225 15 0.04
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (220 bp):
CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAATTCTGTGGCACCCTTTTAAAGT
CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCT
TTTAAGTCCACAACTCTGTGGCACC
Found at i:2993532 original size:32 final size:32
Alignment explanation
Indices: 2993474--2994011 Score: 864
Period size: 32 Copynumber: 16.8 Consensus size: 32
2993464 CTTTTAAATT
* *
2993474 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2993505 CACAAGTCGGTGGCAACCCATTCCAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2993537 CACAAGTTGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2993569 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2993601 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2993633 CACAAGTCGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2993665 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2993697 CACAAATCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2993729 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2993761 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2993793 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2993825 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
2993857 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
2993889 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2993921 CACAAGTCAGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2993953 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
2993985 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
2994012 TCACCATTTT
Statistics
Matches: 477, Mismatches: 27, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
31 15 0.03
32 459 0.96
33 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2995257 original size:17 final size:15
Alignment explanation
Indices: 2995237--2995290 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
2995227 TTAGGTAAAA
2995237 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
2995254 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
2995268 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
2995280 AAGAAAAGAAA
1 AAG-AAAGAAA
2995291 AAAATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.06
13 3 0.09
14 16 0.47
15 1 0.03
16 9 0.26
17 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:2995287 original size:20 final size:20
Alignment explanation
Indices: 2995233--2995292 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 20
2995223 AAAGTTAGGT
2995233 AAAAAAGAAAGAAAGAAGATGA
1 AAAAAAGAAAGAAA-AAGA-GA
2995255 AGAAGAAAGAAAGAAAAAGA-A
1 A-AA-AAAGAAAGAAAAAGAGA
2995276 AAAAAAGAAAAGAAAAA
1 AAAAAAG-AAAGAAAAA
2995293 AATATGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 2 0.06
22 1 0.03
23 6 0.17
24 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAGAAAAAGAGA
Found at i:2995287 original size:24 final size:24
Alignment explanation
Indices: 2995235--2995294 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2995225 AGTTAGGTAA
** *
2995235 AAAAGAAAGAAAGAAGATGAAGAAG
1 AAAAGAAAGAAA-AAGAAAAAAAAG
2995260 -AAAGAAAGAAAAAGAAAAAAAAG
1 AAAAGAAAGAAAAAGAAAAAAAAG
2995283 AAAAGAAA-AAAA
1 AAAAGAAAGAAAA
2995295 TATGAAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (24 bp):
AAAAGAAAGAAAAAGAAAAAAAAG
Found at i:3001564 original size:11 final size:10
Alignment explanation
Indices: 3001548--3001577 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
3001538 GTACATATAC
3001548 ATATATAAAT
1 ATATATAAAT
3001558 AATATATAAAT
1 -ATATATAAAT
3001569 ATATATAAA
1 ATATATAAA
3001578 GTAACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATAAAT
Found at i:3020363 original size:32 final size:32
Alignment explanation
Indices: 3020322--3020383 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
3020312 CTTTACTAGC
*
3020322 TAAATTTGGGCATTTTAAATTGAGATTATCGT
1 TAAATTTGGGCATTTTAAATAGAGATTATCGT
*
3020354 TAAATTTGGGTATTTTAAATAGAGATTATC
1 TAAATTTGGGCATTTTAAATAGAGATTATC
3020384 TTAGAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (32 bp):
TAAATTTGGGCATTTTAAATAGAGATTATCGT
Found at i:3021084 original size:18 final size:18
Alignment explanation
Indices: 3021061--3021095 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3021051 AGCTGAAAGA
3021061 AAAAACAAGA-AAAAAAAT
1 AAAAACAA-ACAAAAAAAT
3021079 AAAAACAAACAAAAAAA
1 AAAAACAAACAAAAAAA
3021096 GCACAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (18 bp):
AAAAACAAACAAAAAAAT
Found at i:3021314 original size:20 final size:20
Alignment explanation
Indices: 3021285--3021322 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3021275 CTTCTCTCTT
*
3021285 AGATTCAGAAAAATCTAAAA
1 AGATTCAGAAAAAACTAAAA
*
3021305 AGATTTAGAAAAAACTAA
1 AGATTCAGAAAAAACTAA
3021323 CCCCGGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.21
Consensus pattern (20 bp):
AGATTCAGAAAAAACTAAAA
Found at i:3023181 original size:27 final size:27
Alignment explanation
Indices: 3023151--3023208 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
3023141 TACGTTACTA
*
3023151 GCATATTTCTTTTGTTGATGACAGTTT
1 GCATATTTCTTTTGTTGATGACAATTT
3023178 GCATATTTCTTTTGTTGATGACAATTT
1 GCATATTTCTTTTGTTGATGACAATTT
3023205 GCAT
1 GCAT
3023209 TCATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (27 bp):
GCATATTTCTTTTGTTGATGACAATTT
Found at i:3023217 original size:27 final size:27
Alignment explanation
Indices: 3023151--3023217 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
3023141 TACGTTACTA
* * *
3023151 GCATATTTCTTTTGTTGATGACAGTTT
1 GCATATATATTTTGTTGATGACAATTT
* *
3023178 GCATATTTCTTTTGTTGATGACAATTT
1 GCATATATATTTTGTTGATGACAATTT
3023205 GCAT-TCATATTTT
1 GCATAT-ATATTTT
3023218 ACAAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (27 bp):
GCATATATATTTTGTTGATGACAATTT
Found at i:3023397 original size:55 final size:55
Alignment explanation
Indices: 3023303--3023406 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
3023293 CCTTTTAACA
* * *
3023303 TTAAATCTAAAGATCATTTTATCGAAAACTCTATTTTTCCCATACTTTCGGGACT
1 TTAAATCTAAAGATCATTTTATCAAAAACCCTATATTTCCCATACTTTCGGGACT
3023358 TTAAATCTACAA-ATCATTTTATCAAAAACCCTATATTTCCCATACTTTC
1 TTAAATCTA-AAGATCATTTTATCAAAAACCCTATATTTCCCATACTTTC
3023407 AAGATGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 43 0.96
56 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (55 bp):
TTAAATCTAAAGATCATTTTATCAAAAACCCTATATTTCCCATACTTTCGGGACT
Found at i:3029441 original size:27 final size:28
Alignment explanation
Indices: 3029390--3029443 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3029380 CACACAAATA
*
3029390 TAATATAAGAAAATAATTAAATACGATT
1 TAATATAAGAAAATAAATAAATACGATT
3029418 TAATAT-A-AAAATAACATAAATACGAT
1 TAATATAAGAAAATAA-ATAAATACGAT
3029444 ACGAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (28 bp):
TAATATAAGAAAATAAATAAATACGATT
Found at i:3030457 original size:53 final size:52
Alignment explanation
Indices: 3030372--3030472 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 52
3030362 CAATAAAAGA
3030372 ATTGGATTGATCAATATTGGTGGCCACCATATGAACAATAAAAATATATTAAC
1 ATTGGATTGATCAATATTGGTGGCCACCATATGAA-AATAAAAATATATTAAC
* * * *
3030425 ATTGGATTGATCAATATTGGTGGCCGCTATATGAAAATATATATATAT
1 ATTGGATTGATCAATATTGGTGGCCACCATATGAAAATAAAAATATAT
3030473 ATATATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 11 0.25
53 33 0.75
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.34
Consensus pattern (52 bp):
ATTGGATTGATCAATATTGGTGGCCACCATATGAAAATAAAAATATATTAAC
Found at i:3030468 original size:2 final size:2
Alignment explanation
Indices: 3030461--3030486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3030451 CTATATGAAA
3030461 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3030487 TGGTGGCGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3031192 original size:20 final size:20
Alignment explanation
Indices: 3031154--3031193 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3031144 AGATCGATTG
* * *
3031154 AATTAGTAAAAATTTAATTT
1 AATTAATAAAAAATGAATTT
3031174 AATTAATAAAAAATGAATTT
1 AATTAATAAAAAATGAATTT
3031194 GATTTTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATTAATAAAAAATGAATTT
Found at i:3031322 original size:20 final size:22
Alignment explanation
Indices: 3031299--3031344 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
3031289 TATTTATTAC
3031299 ATTTATTACTT-AAT-ATTAAA
1 ATTTATTACTTAAATAATTAAA
*
3031319 ATTTATTATTTAAATAATTAAA
1 ATTTATTACTTAAATAATTAAA
3031341 ATTT
1 ATTT
3031345 TATTTTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 3 0.13
22 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTACTTAAATAATTAAA
Found at i:3033323 original size:127 final size:127
Alignment explanation
Indices: 3033097--3033343 Score: 467
Period size: 127 Copynumber: 1.9 Consensus size: 127
3033087 AGTTTTGTTT
3033097 GAGATTTTATATTAAGTGTTAATATCAAGATTTCAGTATGCGTCTATTCAGAAATGAAGTAAGCA
1 GAGATTTTATATTAAGTGTTAATATCAAGATTTCAGTATGCGTCTATTCAGAAATGAAGTAAGCA
3033162 AGCATTCAAGGAAACTTTTTTTGGATTTACTATGACAGTTTTGTTAATAATTTTCGGCAGCA
66 AGCATTCAAGGAAACTTTTTTTGGATTTACTATGACAGTTTTGTTAATAATTTTCGGCAGCA
**
3033224 GAGATTTTATATTCTGTGTTAATATCAAGATTTCAGTATGCGTCTATTCAGAAATGAAGTAAGCA
1 GAGATTTTATATTAAGTGTTAATATCAAGATTTCAGTATGCGTCTATTCAGAAATGAAGTAAGCA
*
3033289 AGCATTCAAGGAAAGTTTTTTTGGATTTACTATGACAGTTTTGTTAATAATTTTC
66 AGCATTCAAGGAAACTTTTTTTGGATTTACTATGACAGTTTTGTTAATAATTTTC
3033344 AGCATCATGA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
127 117 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (127 bp):
GAGATTTTATATTAAGTGTTAATATCAAGATTTCAGTATGCGTCTATTCAGAAATGAAGTAAGCA
AGCATTCAAGGAAACTTTTTTTGGATTTACTATGACAGTTTTGTTAATAATTTTCGGCAGCA
Found at i:3040015 original size:29 final size:29
Alignment explanation
Indices: 3039983--3040052 Score: 133
Period size: 28 Copynumber: 2.4 Consensus size: 29
3039973 AAAATTTTTT
3039983 TTTATTTTTTATTGAAATAAAAAATAATA
1 TTTATTTTTTATTGAAATAAAAAATAATA
3040012 TTTA-TTTTTATTGAAATAAAAAATAATA
1 TTTATTTTTTATTGAAATAAAAAATAATA
3040040 TTTATTTTTTATT
1 TTTATTTTTTATT
3040053 TAGTTGTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTATTTTTTATTGAAATAAAAAATAATA
Found at i:3043854 original size:18 final size:18
Alignment explanation
Indices: 3043805--3043854 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
3043795 TATGTATTGT
*
3043805 TTTATTAAATTTATTTTCA
1 TTTATGAAATTTATTTT-A
3043824 TTTATGAAA-TTATTTT-
1 TTTATGAAATTTATTTTA
*
3043840 TTTTTGACAATTTAT
1 TTTATGA-AATTTAT
3043855 GAGATCGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.22
17 2 0.07
18 11 0.41
19 8 0.30
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATGAAATTTATTTTA
Found at i:3044010 original size:16 final size:16
Alignment explanation
Indices: 3043984--3044042 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
3043974 TTCAGGCTCT
*
3043984 TTCAAGTTTGAGCTTA
1 TTCAGGTTTGAGCTTA
*
3044000 TTCGGGTTTGAGCTT-
1 TTCAGGTTTGAGCTTA
*
3044015 TTTAGGTTT-AGGCTTA
1 TTCAGGTTTGA-GCTTA
3044031 TTCAGGTTTGAG
1 TTCAGGTTTGAG
3044043 TTCAAGTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 22 0.63
17 1 0.03
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.46
Consensus pattern (16 bp):
TTCAGGTTTGAGCTTA
Found at i:3044441 original size:11 final size:10
Alignment explanation
Indices: 3044413--3044455 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
3044403 AAACTGAATT
3044413 AATATTTAAA
1 AATATTTAAA
3044423 AA-ATTTAAA
1 AATATTTAAA
3044432 ATATATTTAATA
1 A-ATATTTAA-A
3044444 AATATTTAAA
1 AATATTTAAA
3044454 AA
1 AA
3044456 CTTATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.27
10 6 0.20
11 14 0.47
12 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AATATTTAAA
Found at i:3044455 original size:23 final size:22
Alignment explanation
Indices: 3044414--3044465 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
3044404 AACTGAATTA
3044414 ATATTTAA-AAAATTTAAAA-T
1 ATATTTAATAAAATTTAAAACT
3044434 ATATTTAATAAATATTTAAAAACT
1 ATATTTAATAAA-ATTT-AAAACT
3044458 -TATTTAAT
1 ATATTTAAT
3044466 TTTAACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 4 0.14
23 12 0.43
24 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTTAATAAAATTTAAAACT
Found at i:3045753 original size:28 final size:30
Alignment explanation
Indices: 3045717--3045789 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
3045707 ATTATGATGC
*
3045717 TTTATATAAATTAATTT-T-TATTTAAAAA
1 TTTAAATAAATTAATTTATATATTTAAAAA
3045745 TTTAAATAAATTAATTTTATATATTTAAAAA
1 TTTAAATAAATTAA-TTTATATATTTAAAAA
* *
3045776 -TAAAATAAAATAAT
1 TTTAAATAAATTAAT
3045790 AATAAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 13 0.33
29 4 0.10
30 12 0.31
31 10 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTAAATAAATTAATTTATATATTTAAAAA
Found at i:3045793 original size:11 final size:10
Alignment explanation
Indices: 3045771--3045818 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
3045761 TTATATATTT
3045771 AAAAATAA-A
1 AAAAATAATA
3045780 ATAAAATAATA
1 A-AAAATAATA
*
3045791 ATAAATAAATA
1 AAAAAT-AATA
*
3045802 AAAAATATTA
1 AAAAATAATA
3045812 AAAAATA
1 AAAAATA
3045819 TGATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 1 0.03
10 21 0.64
11 11 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATAATA
Found at i:3045808 original size:21 final size:20
Alignment explanation
Indices: 3045771--3045818 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
3045761 TTATATATTT
*
3045771 AAAAATAAAATAAAATAATA
1 AAAAATAAAAAAAAATAATA
* *
3045791 ATAAATAAATAAAAAATATTA
1 AAAAATAAA-AAAAAATAATA
3045812 AAAAATA
1 AAAAATA
3045819 TGATAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATAAAAAAAAATAATA
Found at i:3045921 original size:18 final size:18
Alignment explanation
Indices: 3045898--3045950 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
3045888 AATTTTTATT
3045898 ATTAAATATATTATTTTA
1 ATTAAATATATTATTTTA
3045916 ATTAAATTAATAATT-TTTTA
1 ATTAAA-T-AT-ATTATTTTA
* *
3045936 ATTATATTTATTATT
1 ATTAAATATATTATT
3045951 AATTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 2 0.07
20 12 0.41
21 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTAAATATATTATTTTA
Found at i:3045934 original size:20 final size:20
Alignment explanation
Indices: 3045850--3045939 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 20
3045840 TTTGACATAA
*
3045850 TTTAATTAAAATTAATAAATT
1 TTTAATT-AAATTAATAATTT
* *
3045871 TTAAATATAATTTTTAA-AATTT
1 TTTAAT-TAA--ATTAATAATTT
*
3045893 TTATTATTAAA-T-AT-ATTAT
1 TT-TAATTAAATTAATAATT-T
3045912 TTTAATTAAATTAATAATTT
1 TTTAATTAAATTAATAATTT
3045932 TTTAATTA
1 TTTAATTA
3045940 TATTTATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 19
0.67 0.09 0.24
Matches are distributed among these distances:
18 11 0.21
19 5 0.09
20 11 0.21
21 10 0.19
22 10 0.19
23 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTAAATTAATAATTT
Done.