Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009603.1 Hibiscus syriacus cultivar Beakdansim tig00116983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1462390
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:877458 original size:21 final size:21
Alignment explanation
Indices: 877433--877494 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
877423 ATTTTCCAAT
*
877433 AAACTTGACATCCATAATAAC
1 AAACTTGAAATCCATAATAAC
* * *
877454 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAATAAC
**
877475 AAAAATGAAATCCATAATAA
1 AAACTTGAAATCCATAATAA
877495 TAAATCAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (21 bp):
AAACTTGAAATCCATAATAAC
Found at i:882713 original size:25 final size:25
Alignment explanation
Indices: 882681--882766 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
882671 TGGGCAATAG
*
882681 GAAAAAGGGAATCGTGGGAATAGAT
1 GAAAAAGGGGATCGTGGGAATAGAT
882706 GAAAAAGGGGATCGTGGGAATAGAT
1 GAAAAAGGGGATCGTGGGAATAGAT
* *
882731 GGAAAAGGGGATCGTGGGAACAGAT
1 GAAAAAGGGGATCGTGGGAATAGAT
*
882756 GGAAAAGGGGA
1 GAAAAAGGGGA
882767 ATGGGATTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.41, C:0.05, G:0.42, T:0.13
Consensus pattern (25 bp):
GAAAAAGGGGATCGTGGGAATAGAT
Found at i:883077 original size:81 final size:83
Alignment explanation
Indices: 882945--883109 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 83
882935 GAAAAAATGG
* * * * * *
882945 CACTATAGATGAACCCTATTATGGCATTTTTTATAAAAATACCACTAAAGTACTAATCTGTTGTG
1 CACTATAGATGAACCCTATTACGGCAGTTTGTATAAAAACACCACTAAAGTACTAATCTATTGCG
*
883010 GCGTTTGTATAAAAACGC
66 GCGTTTATATAAAAACGC
* * *
883028 CACTATAGATGGA-CCTATTACGGC-GTTTGTATAAAAACACCGCTAAAGTACTACTCTATTGCG
1 CACTATAGATGAACCCTATTACGGCAGTTTGTATAAAAACACCACTAAAGTACTAATCTATTGCG
*
883091 GTGTTTATATAAAAACGC
66 GCGTTTATATAAAAACGC
883109 C
1 C
883110 GCTAAAGTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 49 0.69
82 10 0.14
83 12 0.17
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (83 bp):
CACTATAGATGAACCCTATTACGGCAGTTTGTATAAAAACACCACTAAAGTACTAATCTATTGCG
GCGTTTATATAAAAACGC
Found at i:883160 original size:42 final size:41
Alignment explanation
Indices: 882989--883160 Score: 172
Period size: 41 Copynumber: 4.2 Consensus size: 41
882979 AAAAATACCA
* * * * *
882989 CTAAAGTACTAATCTGTTGTGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGACG
* *
883030 CTATAG-A-TGGAC-CTATTACGGCGTTTGTATAAAAAC-ACCG
1 CTAAAGTACT--ACTCTATTGCGGCGTTTGTATAAAAACGA-CG
* * *
883070 CTAAAGTACTACTCTATTGCGGTGTTTATATAAAAACGCCG
1 CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGACG
* *
883111 CTAAAGTACTACTCTATTGCTGCGTTTGTTTAAAAAACGACG
1 CTAAAGTACTACTCTATTGCGGCGTTTGTAT-AAAAACGACG
883153 CTAAAGTA
1 CTAAAGTA
883161 TCATTTTGTG
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 30 0.28
41 57 0.54
42 18 0.17
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (41 bp):
CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGACG
Found at i:890885 original size:31 final size:30
Alignment explanation
Indices: 890849--890907 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
890839 TCGGGTATCA
*
890849 GGTTGGGTCAATATC-GACTCGATTGATTTCG
1 GGTTGGATCAA-ATCAGA-TCGATTGATTTCG
*
890880 GGTTGGATTAAATCAGATCGATTGATTT
1 GGTTGGATCAAATCAGATCGATTGATTT
890908 TTAGGTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (30 bp):
GGTTGGATCAAATCAGATCGATTGATTTCG
Found at i:891735 original size:60 final size:60
Alignment explanation
Indices: 891596--891761 Score: 187
Period size: 60 Copynumber: 2.8 Consensus size: 60
891586 GTATTATATG
* * **
891596 TCCCTAAATTATGACTCTCATT-TCAAAGTAGTCCTTAAACTTTTAAATATTTTAATTTCA
1 TCCCTAAATTATGACTCTCATTCT-AAATTAGTCCTTAAACTTTTAAACATTAAAATTTCA
* *
891656 TCCTTAAACTT-TGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCAAAATTT-A
1 TCCCTAAA-TTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATT-AAAATTTCA
* * * *
891716 TCCCCAAATTATGAATCTCATTCTAAATTGGTTCTT-AACTTTTAAA
1 TCCCTAAATTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAA
891762 TCTTTCAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
59 11 0.12
60 71 0.79
61 8 0.09
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.42
Consensus pattern (60 bp):
TCCCTAAATTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTAAAATTTCA
Found at i:893903 original size:11 final size:11
Alignment explanation
Indices: 893858--893916 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
893848 AAAGTTGACG
893858 TTTTTATTG-A
1 TTTTTATTGCA
*
893868 ATTTTATT-CA
1 TTTTTATTGCA
* * * *
893878 CTTTTAATCCT
1 TTTTTATTGCA
893889 TTTTTATTGCA
1 TTTTTATTGCA
*
893900 TTTTTATTGAA
1 TTTTTATTGCA
893911 TTTTTA
1 TTTTTA
893917 AAAAAGTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 14 0.37
11 24 0.63
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.64
Consensus pattern (11 bp):
TTTTTATTGCA
Found at i:894016 original size:20 final size:20
Alignment explanation
Indices: 893974--894017 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
893964 ATGAAAATAC
*
893974 AATAAAAATAATAAAAAGTG
1 AATAAAAATAATAAAAAGAG
*
893994 AATAAAATTAATACAAAA-AG
1 AATAAAAATAATA-AAAAGAG
894014 AATA
1 AATA
894018 TAAAGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (20 bp):
AATAAAAATAATAAAAAGAG
Found at i:895464 original size:111 final size:111
Alignment explanation
Indices: 895266--895637 Score: 602
Period size: 111 Copynumber: 3.3 Consensus size: 111
895256 AACTTTCAAA
* * * *
895266 AAAGTATCGATCATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTCAATTTTACTGATT
1 AAAGTATCGATCATTTTTAT-AAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
* *
895331 TTGTCATAATGAAACTGATTTTGTCATATTTATACTTGTTATATTGT
65 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATATTGT
* *
895378 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
*
895443 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATATTGT
* *
895489 AAAGTATCTATCCTTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
895554 TGTCATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATATTTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATA-TTGT
*
895601 AAAATATCGATACATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATCGAT-CATTTTTATAAAAGTATCGATACTTT
895638 ATAGGCGCTA
Statistics
Matches: 243, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
111 187 0.77
112 48 0.20
113 8 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
TGTCATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATATTGT
Found at i:896162 original size:804 final size:803
Alignment explanation
Indices: 894941--896440 Score: 2646
Period size: 804 Copynumber: 1.9 Consensus size: 803
894931 TGTCCATATA
* * *
894941 TATTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAG
1 TATTTCACTGTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAGTTTTAAGATACTAATTTAG
* * *
895006 TAATTATACGCGTCTAATGATTTATTTTTTATGTTATGGTATATATTATTATTAAATTAAAAATA
66 TAATTATACGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAACA
*
895071 ATAAACATAGATATTACATATTTATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAAT
131 ATAAACATAGATATTACATATTTATTATTATCTTTGATTAAAATTGTTAAATTTAAATTCTAAAT
*
895136 AATATTTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAAT
196 AATATTTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAATGAAATTATTAAATTAAT
*
895201 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAAA
261 ATTGTAGGTGGAAAACAAGAAACACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAAA
* * *
895266 AAAGTATCGATCATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTCAATTTTACTGATT
326 AAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGATAAATTTTACTGATT
***
895331 TTGTCATAATGAAACTGATTTTGTCATATTTATACTTGTTATATTGTAAAGTATCTATCATTTTT
391 TTGTCATAATGAAACTGATTTTGTCATATTTATACCCATTATATTGTAAAGTATCTATCATTTTT
* *
895396 ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
456 ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACT-AT
* *
895461 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCGATACTTT
520 TTTGTCATATTTTTACATGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTT
* *
895526 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACTTG
585 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTG
*
895591 TTATATTTGTAAAATATCGATACATTTTTATAAAGT-ATCGATACTTTATAGGCGCTATTATTGC
650 TTATA-TTGTAAAATATCGAT-CATTTTTATAAAATGATCGATACTTTATAGGCGCTATTATTGC
895655 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCG
713 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCG
895720 GTAGGTAGTTTAATGTAATAGGTAGG
778 GTAGGTAGTTTAATGTAATAGGTAGG
*
895746 TATTTCACTGT-GAAAATCATTAATTTAAGGTTATGGTTTGAGTGAGTTTTAAGATACTAATTTA
1 TATTTCACTGTGGAAAA-CATTAATTTAAGGTTATCGTTTGAGTGAGTTTTAAGATACTAATTTA
895810 GTAATTATACGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAAC
65 GTAATTATACGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAAC
*
895875 AATAAACATAGATATTACATCTTTATTATTATCTTTGATTAAAATTGTTAAATTTAAATTCTAAA
130 AATAAACATAGATATTACATATTTATTATTATCTTTGATTAAAATTGTTAAATTTAAATTCTAAA
895940 TAATA-TTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAATGAAATTATTAAATTAA
195 TAATATTTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAATGAAATTATTAAATTAA
*
896004 TATTGTAGGTGGAAAACAAGAAGCACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAA
260 TATTGTAGGTGGAAAACAAGAAACACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAA
* *
896069 AAAAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGATAAATTTTACTGAT
325 AAAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGATAAATTTTACTGAT
* *
896134 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACCCATTATATTGTAAAGTATCTATCCTTTT
390 TTTGTCATAATGAAACTGATTTTGTCATATTTATACCCATTATATTGTAAAGTATCTATCATTTT
896199 TATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTAT
455 TATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTAT
* *
896264 TTTGTCATATTTTTACATGTTATATTGTAAAGTATTTATCCTTTTTATAAAAGGATTGATACTTT
520 TTTGTCATATTTTTACATGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTT
896329 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTG
585 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTG
* *
896394 TTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACTTTA
650 TTATATTGTAAAATATCGATCATTTTTATAAAATGATCGATACTTTA
896441 AACATATCAG
Statistics
Matches: 660, Mismatches: 33, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
801 13 0.02
802 25 0.04
803 130 0.20
804 308 0.47
805 184 0.28
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (803 bp):
TATTTCACTGTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAGTTTTAAGATACTAATTTAG
TAATTATACGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAACA
ATAAACATAGATATTACATATTTATTATTATCTTTGATTAAAATTGTTAAATTTAAATTCTAAAT
AATATTTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAATGAAATTATTAAATTAAT
ATTGTAGGTGGAAAACAAGAAACACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAAA
AAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGATAAATTTTACTGATT
TTGTCATAATGAAACTGATTTTGTCATATTTATACCCATTATATTGTAAAGTATCTATCATTTTT
ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTATT
TTGTCATATTTTTACATGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTC
AACATATCAGGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGT
TATATTGTAAAATATCGATCATTTTTATAAAATGATCGATACTTTATAGGCGCTATTATTGCTTT
TCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGTA
GGTAGTTTAATGTAATAGGTAGG
Found at i:896436 original size:111 final size:111
Alignment explanation
Indices: 896070--896550 Score: 678
Period size: 111 Copynumber: 4.3 Consensus size: 111
896060 AACTTTCAAA
* * ** * * * *
896070 AAAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGATAAATTTTACTGATT
1 AAAGTATCTATCCTTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
**
896135 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCCATTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
*
896182 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
*
896247 TGTCATAATGAAACT-ATTTTGTCATATTTTTACATGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* *
896292 AAAGTATTTATCCTTTTTATAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* *
896357 TGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* * *
896403 AAAGTATCTATCATTTTTATAAAATGATCGATACTTTAAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* * * * *
896468 TATCATAATGAAACTGGTTTTATCATATTTTTACCTGTGACATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* * * *
896514 AAAATATCGATACATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATCTAT-CCTTTTTATAAAAGGATCGATACTTT
896551 ATAGGCGCTA
Statistics
Matches: 336, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
110 103 0.31
111 205 0.61
112 28 0.08
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (111 bp):
AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
Found at i:896730 original size:913 final size:885
Alignment explanation
Indices: 895266--897278 Score: 3059
Period size: 914 Copynumber: 2.2 Consensus size: 885
895256 AACTTTCAAA
* * * * *
895266 AAAGTATCGATCATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTCAATTTTACTGATT
1 AAAGTATCTATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGATT
*
895331 TTGTCATAATGAAACTGATTTTGTCATATTTATACTTGTTATATTGTAAAGTATCTATCATTTTT
65 TTGTCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCTATCATTTTT
895396 ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
130 ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
*
895461 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCGATACTTT
195 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCGATACTTT
* * * *
895526 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACTTG
260 AAACATATCAGGTAAATTTTACCGTTTTTATCATAATGAAACTGGTTTTATCATATTTTTACCTG
* * *
895591 TTATATTTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTATTGCT
325 TGACATTTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCT
895656 TTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGG
390 TTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGG
* *
895721 TAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAATCATTAATTTAAGGTTATGGTTTG
455 TAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAAACATTAATTTAAGGTTATCGTTTG
* * *
895786 AGTGAGTTTTAAGATACTAATTTAGTAATTATACGCGTCTAATGATTTATTTTTTATGTTACGAT
520 AGTGAGTTTTAAGATACTAATTTAGTAATTATACACGTC---T-ATTGA----TTATGTTACGAC
* *
895851 ATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATCTTTATTATTATCTTTGATTA
577 ATATATTATTATTAAATTAAAAACAATAAACATAAATATTACATATTTATTATTATCTTTGATTA
*
895916 AAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAGAATTTTTTG
642 AAATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAGAATTTTTTG
* * *
895981 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAAGAAGCACTATTAAAAAATTTTGA
707 TGTAAATAAAATTATTAAATTAATATTGTAGGTCGAAAACAAGAAACACTATTAAAAAATTTTGA
896046 AACATAAATTACATAACTTTCAAAAAAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAA
772 AACATAAATTACATAACTTTC-AAAAA--A--G----------T----A-T-T-TATACTTTCAA
* * * *
896111 CATAT-TAGATAAATTTTACTGATTTTGTCATAATGAAA-CTGATTTTGTCATATTTTTACCCAT
815 CATATCAAG-TAAATTTTACCGATTATATCATAATGAAAGCTG-TTTTGTCATATTTTTACCCAT
896174 TATATTGT
878 TATATTGT
* *
896182 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTT
1 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGATTT
* * *
896247 TGTCATAATGAAACT-ATTTTGTCATATTTTTACATGTTATATTGTAAAGTATTTATCCTTTTTA
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCTATCATTTTTA
* *
896311 TAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTT
131 TAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
896376 TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAA-TGATCGATACTTT
196 TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGT-ATCGATACTTT
896440 AAACATATCAGGTAAATTTTACCGTTTTTATCATAATGAAACTGGTTTTATCATATTTTTACCTG
260 AAACATATCAGGTAAATTTTACCGTTTTTATCATAATGAAACTGGTTTTATCATATTTTTACCTG
896505 TGACA-TTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCT
325 TGACATTTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCT
* *
896569 TTTCTTTTAAATTCCAAAAGTTTCGATACTTTTTTAAATGGAATCGATACTTTCAACATATCCGG
390 TTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGG
*
896634 TAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTG
455 TAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAAACATTAATTTAAGGTTATCGTTTG
* *
896699 AGTGA-TATTTAAGATATTAATTTAGTAATTATACACGTCTATTGATTATGTTACGGCATATATT
520 AGTGAGT-TTTAAGATACTAATTTAGTAATTATACACGTCTATTGATTATGTTACGACATATATT
* * *
896763 ATTATTAAATTAAAAATAATAAACATAAATATTATATATTTATTATTATCTTTGGTTAAAATTAT
584 ATTATTAAATTAAAAACAATAAACATAAATATTACATATTTATTATTATCTTTGATTAAAATTAT
* *
896828 TAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAAT
649 TAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAAT
*
896893 AAAATTATTAAATTAATATTGTAGGTCGAAAACATGAAACACTATTAAAAAATTTTGAAACATAA
714 AAAATTATTAAATTAATATTGTAGGTCGAAAACAAGAAACACTATTAAAAAATTTTGAAACATAA
*
896958 ATTACATAACTTTCAAAAAAGTATTTATACTTTCAACATATCAAGTAAATTTTACCGGTTATATC
779 ATTACATAACTTTCAAAAAAGTATTTATACTTTCAACATATCAAGTAAATTTTACCGATTATATC
* * *
897023 ATAATGAAAGTTGTTTTTTCATATTTTTACCTATTATATTGT
844 ATAATGAAAGCTGTTTTGTCATATTTTTACCCATTATATTGT
* * * * *
897065 AAAGTATCTATTATTTTTATAAAATGATTGATAATTTCAACATATTAGGTAAATTTTACC-ATTT
1 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGA-TT
* * * * *
897129 TTGTCATAATGAAATTGGTTTTATCATATTTTTACTTGTTATATAGTAAAATATCTATCATTTTT
65 TTGTCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCTATCATTTTT
* * * * *
897194 ATAAAAGAATCGATACTTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAATTGTT
130 ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
897259 TTTGTCATATTTTTACCTGT
195 TTTGTCATATTTTTACCTGT
897279 AATTAACCTA
Statistics
Matches: 1018, Mismatches: 73, Indels: 44
0.90 0.06 0.04
Matches are distributed among these distances:
883 139 0.14
884 124 0.12
885 1 0.00
886 1 0.00
890 1 0.00
900 1 0.00
902 1 0.00
904 5 0.00
905 214 0.21
909 4 0.00
910 1 0.00
912 1 0.00
913 219 0.22
914 233 0.23
915 55 0.05
916 18 0.02
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (885 bp):
AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGATTT
TGTCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCTATCATTTTTA
TAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCGATACTTTA
AACATATCAGGTAAATTTTACCGTTTTTATCATAATGAAACTGGTTTTATCATATTTTTACCTGT
GACATTTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTT
TTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGT
AGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAAACATTAATTTAAGGTTATCGTTTGA
GTGAGTTTTAAGATACTAATTTAGTAATTATACACGTCTATTGATTATGTTACGACATATATTAT
TATTAAATTAAAAACAATAAACATAAATATTACATATTTATTATTATCTTTGATTAAAATTATTA
AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAGAATTTTTTGTGTAAATAA
AATTATTAAATTAATATTGTAGGTCGAAAACAAGAAACACTATTAAAAAATTTTGAAACATAAAT
TACATAACTTTCAAAAAAGTATTTATACTTTCAACATATCAAGTAAATTTTACCGATTATATCAT
AATGAAAGCTGTTTTGTCATATTTTTACCCATTATATTGT
Found at i:897184 original size:111 final size:111
Alignment explanation
Indices: 896988--897276 Score: 402
Period size: 111 Copynumber: 2.6 Consensus size: 111
896978 GTATTTATAC
* * * * *
896988 TTTCAACATATCAAGTAAATTTTACCGGTTATATCATAATGAAAGTT-GTTTTTTCATATTTTTA
1 TTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAA-TTGGTTTTATCATATTTTTA
* * * *
897052 CCTATTATATTGTAAAGTATCTATTATTTTTATAAAATG-ATTGATAA
65 CCTATTATATAGTAAAATATCTATCATTTTTATAAAA-GAATCGATAA
* *
897099 TTTCAACATATTAGGTAAATTTTACCATTTTTGTCATAATGAAATTGGTTTTATCATATTTTTAC
1 TTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAATTGGTTTTATCATATTTTTAC
* * *
897164 TTGTTATATAGTAAAATATCTATCATTTTTATAAAAGAATCGATAC
66 CTATTATATAGTAAAATATCTATCATTTTTATAAAAGAATCGATAA
* *
897210 TTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAATTGTTTTTGTCATATTTTTAC
1 TTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAATTGGTTTTATCATATTTTTAC
897275 CT
66 CT
897277 GTAATTAACC
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
110 3 0.02
111 154 0.98
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (111 bp):
TTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATGAAATTGGTTTTATCATATTTTTAC
CTATTATATAGTAAAATATCTATCATTTTTATAAAAGAATCGATAA
Found at i:897319 original size:23 final size:23
Alignment explanation
Indices: 897288--897421 Score: 151
Period size: 23 Copynumber: 5.8 Consensus size: 23
897278 TAATTAACCT
* * * *
897288 ATTACATAAGCGCTGCCTAATAC
1 ATTATATAAACGCTACCTATTAC
*
897311 ATTATATAAACGTTACCTATTAC
1 ATTATATAAACGCTACCTATTAC
*
897334 ATTATATAAACGCTACCTATTAT
1 ATTATATAAACGCTACCTATTAC
* *
897357 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAACGCTACCTATTAC
* * *
897380 TTTATATAAACGTTACATATTAC
1 ATTATATAAACGCTACCTATTAC
* *
897403 ATTATACAAACGGTACCTA
1 ATTATATAAACGCTACCTA
897422 ATATGTTATT
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAACGCTACCTATTAC
Found at i:897378 original size:46 final size:46
Alignment explanation
Indices: 897288--897421 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 46
897278 TAATTAACCT
* * * *
897288 ATTACATAAGCGCTGCCTAATACATTATATAAACGTTACCTATTAC
1 ATTATATAAACGCTACCTATTACATTATATAAACGTTACCTATTAC
* *
897334 ATTATATAAACGCTACCTATTATATTATATAAGCGTTACCTATTAC
1 ATTATATAAACGCTACCTATTACATTATATAAACGTTACCTATTAC
* * * * *
897380 TTTATATAAACGTTACATATTACATTATACAAACGGTACCTA
1 ATTATATAAACGCTACCTATTACATTATATAAACGTTACCTA
897422 ATATGTTATT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (46 bp):
ATTATATAAACGCTACCTATTACATTATATAAACGTTACCTATTAC
Found at i:897390 original size:69 final size:69
Alignment explanation
Indices: 897287--897430 Score: 198
Period size: 69 Copynumber: 2.1 Consensus size: 69
897277 GTAATTAACC
* * * *
897287 TATTACATAAGCGCTGCCTAATACATTATATAAACGTTACCTATTACATTATATAAACGCTACCT
1 TATTATATAAGCGCTACCTAATACATTATATAAACGTTACATATTACATTATACAAACGCTACCT
*
897352 ATTA
66 AATA
* * * *
897356 TATTATATAAGCGTTACCTATTACTTTATATAAACGTTACATATTACATTATACAAACGGTACCT
1 TATTATATAAGCGCTACCTAATACATTATATAAACGTTACATATTACATTATACAAACGCTACCT
897421 AATA
66 AATA
*
897425 TGTTAT
1 TATTAT
897431 TGTGCATGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (69 bp):
TATTATATAAGCGCTACCTAATACATTATATAAACGTTACATATTACATTATACAAACGCTACCT
AATA
Found at i:897506 original size:23 final size:23
Alignment explanation
Indices: 897458--897517 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
897448 CTAGTAATTA
* **
897458 ACCTATTTTATTATATAAGCTTT
1 ACCTATTATATTATATAAGCGGT
*
897481 ACCTATTACATTATATAAGCGGT
1 ACCTATTATATTATATAAGCGGT
*
897504 ACCTAATATATTAT
1 ACCTATTATATTAT
897518 TGTACTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGGT
Found at i:897825 original size:16 final size:18
Alignment explanation
Indices: 897804--897837 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
897794 TCATACAAAG
897804 AAAG-AACTCAGC-TTGA
1 AAAGAAACTCAGCATTGA
897820 AAAGAAACTCAGCATTGA
1 AAAGAAACTCAGCATTGA
897838 TCTGCTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (18 bp):
AAAGAAACTCAGCATTGA
Found at i:905764 original size:3 final size:3
Alignment explanation
Indices: 905758--905800 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
905748 TATTTATTTA
* *
905758 ATT ATT AAT AAT ATT ATT AATT A-T ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A
905801 ACATATTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:905773 original size:12 final size:12
Alignment explanation
Indices: 905758--905801 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
905748 TATTTATTTA
905758 ATTATTAATAAT
1 ATTATTAATAAT
*
905770 ATTATTAATTAT
1 ATTATTAATAAT
* *
905782 ATTATTATTATT
1 ATTATTAATAAT
905794 ATTATTAA
1 ATTATTAA
905802 CATATTTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTAATAAT
Found at i:907419 original size:30 final size:30
Alignment explanation
Indices: 907364--907576 Score: 198
Period size: 30 Copynumber: 7.1 Consensus size: 30
907354 TTTATTTGTG
* *
907364 TTTAAGTCCCTAAAGTTTTTATTTTTT-TAT
1 TTTAA-TCCCTTAAGTTTCTATTTTTTCTAT
*
907394 TTTAATCCCTCAAGTTTCTATTTTTTCTAT
1 TTTAATCCCTTAAGTTTCTATTTTTTCTAT
* *
907424 TTTAGTCCCTTAAGTTTCTATTTTTGCTAT
1 TTTAATCCCTTAAGTTTCTATTTTTTCTAT
* *
907454 TTTATTCCCTTAAGTTTCTATTTTTAT-GAT
1 TTTAATCCCTTAAGTTTCTATTTTT-TCTAT
* * * * * * *
907484 TTTAGTCCTTTAAATTTTTGTTTATGCTAT
1 TTTAATCCCTTAAGTTTCTATTTTTTCTAT
** * * *
907514 TTTAATCAATTAAATTTGTGTTTTTTCTAT
1 TTTAATCCCTTAAGTTTCTATTTTTTCTAT
*
907544 TTTAGTCCCTTAAGTTTCT-TTGTTTTCTAT
1 TTTAATCCCTTAAGTTTCTATT-TTTTCTAT
907574 TTT
1 TTT
907577 GGTCCTTTTA
Statistics
Matches: 152, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
29 21 0.14
30 131 0.86
ACGTcount: A:0.20, C:0.13, G:0.08, T:0.60
Consensus pattern (30 bp):
TTTAATCCCTTAAGTTTCTATTTTTTCTAT
Found at i:907472 original size:60 final size:60
Alignment explanation
Indices: 907368--907576 Score: 226
Period size: 60 Copynumber: 3.5 Consensus size: 60
907358 TTTGTGTTTA
* * * *
907368 AGTCCCTAAAGTTTTTATTTTT-TTATTTTAATCCCTCAAGTTTCTATTTTTTCTATTTT
1 AGTCCCTTAAGTTTCTATTTTTGCTATTTTAATCCCTTAAGTTTCTATTTTTTCTATTTT
* *
907427 AGTCCCTTAAGTTTCTATTTTTGCTATTTTATTCCCTTAAGTTTCTATTTTTAT-GATTTT
1 AGTCCCTTAAGTTTCTATTTTTGCTATTTTAATCCCTTAAGTTTCTATTTTT-TCTATTTT
* * * * * ** * * *
907487 AGTCCTTTAAATTTTTGTTTATGCTATTTTAATCAATTAAATTTGTGTTTTTTCTATTTT
1 AGTCCCTTAAGTTTCTATTTTTGCTATTTTAATCCCTTAAGTTTCTATTTTTTCTATTTT
*
907547 AGTCCCTTAAGTTTCT-TTGTTTTCTATTTT
1 AGTCCCTTAAGTTTCTATT-TTTGCTATTTT
907577 GGTCCTTTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
59 23 0.19
60 99 0.80
61 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.08, T:0.59
Consensus pattern (60 bp):
AGTCCCTTAAGTTTCTATTTTTGCTATTTTAATCCCTTAAGTTTCTATTTTTTCTATTTT
Found at i:919553 original size:21 final size:21
Alignment explanation
Indices: 919527--919566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
919517 CCCCCTTTGA
*
919527 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
919548 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
919567 TGGGGTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:920752 original size:20 final size:20
Alignment explanation
Indices: 920727--920764 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
920717 TTTTGGTGCA
920727 GAGGGAATCGATACCCCCAT
1 GAGGGAATCGATACCCCCAT
*
920747 GAGGGAATCGATTCCCCC
1 GAGGGAATCGATACCCCC
920765 TTTGAAGGGG
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:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAT
Found at i:924328 original size:63 final size:64
Alignment explanation
Indices: 924159--924329 Score: 197
Period size: 63 Copynumber: 2.7 Consensus size: 64
924149 ACAGTTTTTT
* * * *
924159 TTTTGA-AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAGTTTTGTCTCACTTGAGACAATTTC
1 TTTTGAGAAAAATCCTTGAGTTTGTTTCTTTGGAAACAAAATTTTATCT-ACTTGAGACAATTTC
* * * * * *
924223 TTTTGAGAAAAAAACCATTGAGATTGTTCCATT-GAAAC-AAATTTTATCT-CTTGAGATAGTTT
1 TTTTGAG-AAAAATCC-TTGAGTTTGTTTCTTTGGAAACAAAATTTTATCTACTTGAGACAATTT
924285 C
64 C
924286 TTTTGAGAAAAATCCTTGAGTTTGTTTCTTTGGAAACAAAATTT
1 TTTTGAGAAAAATCCTTGAGTTTGTTTCTTTGGAAACAAAATTT
924330 ACCATCTTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
61 13 0.15
62 12 0.14
63 25 0.28
64 6 0.07
65 9 0.10
66 11 0.12
67 12 0.14
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (64 bp):
TTTTGAGAAAAATCCTTGAGTTTGTTTCTTTGGAAACAAAATTTTATCTACTTGAGACAATTTC
Found at i:924803 original size:132 final size:131
Alignment explanation
Indices: 924556--925070 Score: 469
Period size: 132 Copynumber: 3.9 Consensus size: 131
924546 TGAAACCATT
* * * * * * **
924556 ACCCCTAGATAATCAGCCGTCCTCATCACGTAGGAATCATGTTATCATCCCTAAAGATGGCTTGC
1 ACCCCCAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTAT
* * * *
924621 CATCCTCATCATGTAGGAA-TCGTGTCATCGCCCCGACCATACCTCATCATCACATAGGAGCCGT
66 CATCCTCATCACGTAGGAACT-GTGTCATC-CCCCGACCAGATCTCCTCATCACATAGGAGCCGT
924685 GTC
129 GTC
* * *
924688 ACCCCCATATAACCAACCGTCCAT-ATCACGTAGGAACCGTGTTATCATCCCTAAAAATAGCCTA
1 ACCCCCAGATAACCAACCGTCC-TCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTA
* * *
924752 TCATCTTCATCACGTAGGAACTGTGTCATCCCCCTGACCAGATCTCCTCATCACGTAGGAGCTGT
65 TCATCCTCATCACGTAGGAACTGTGTCATCCCCC-GACCAGATCTCCTCATCACATAGGAGCCGT
924817 GTC
129 GTC
* ** * * * * *
924820 ACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACTGTGTTATCATTCCTAAAGATGGTCTCT
1 ACCCCCAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTAT
* * ** * * * * *
924885 CATCCTCATCACATAGAAACCATGTTATCCCCCGACCAGATCTCCTTATCACTTAAGAGTCGTGT
66 CATCCTCATCACGTAGGAACTGTGTCATCCCCCGACCAGATCTCCTCATCACATAGGAGCCGTGT
924950 C
131 C
* * ** * * * * *
924951 ACCCCTAGATAACTAGTCGTCCTCATCGCTTAGGAACCATGTTATTACCCTTCTTAAAGATGGCC
1 ACCCCCAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCATCC--C-TAAAGATGGCC
** * * ** * *
925016 -AGAACTCTTCATCACGTATGAGTTGTGTCATCCACCGACCAGATCTTCTCATCAC
63 TATCA-TCCTCATCACGTAGGAACTGTGTCATCCCCCGACCAGATCTCCTCATCAC
925071 GTATCAGCCC
Statistics
Matches: 310, Mismatches: 65, Indels: 14
0.80 0.17 0.04
Matches are distributed among these distances:
131 74 0.24
132 184 0.59
133 4 0.01
134 48 0.15
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (131 bp):
ACCCCCAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTAT
CATCCTCATCACGTAGGAACTGTGTCATCCCCCGACCAGATCTCCTCATCACATAGGAGCCGTGT
C
Found at i:924849 original size:43 final size:41
Alignment explanation
Indices: 924751--924861 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 41
924741 AAAATAGCCT
*
924751 ATCATCTTCATCACGTAGGAACTGTGTCATCCCCCTGACCAG
1 ATCATCCTCATCACGTAGGAACTGTGTCA-CCCCCTGACCAG
*
924793 ATC-TCCTCATCACGTAGGAGCTGTGTCA-CCCCTAGATAACCAG
1 ATCATCCTCATCACGTAGGAACTGTGTCACCCCCT-G---ACCAG
924836 -TCATCCTCATCACGTAGGAACTGTGT
1 ATCATCCTCATCACGTAGGAACTGTGT
924862 TATCATTCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
39 5 0.08
40 1 0.02
41 23 0.38
42 5 0.08
43 27 0.44
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (41 bp):
ATCATCCTCATCACGTAGGAACTGTGTCACCCCCTGACCAG
Found at i:925069 original size:40 final size:40
Alignment explanation
Indices: 925024--925125 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
925014 CCAGAACTCT
* *
925024 TCATCACGTATGAGTTGTGTCATCCACCGACCAGATCTTC
1 TCATCACGTATGAGTCGTGTCATCCACCGACCAGATCTAC
* * * * *
925064 TCATCACGTATCAGCCCTATCATTCACCGACCAGATCTAC
1 TCATCACGTATGAGTCGTGTCATCCACCGACCAGATCTAC
* *
925104 TCATCATGTAGGAGTCGTGTCA
1 TCATCACGTATGAGTCGTGTCA
925126 CCCATAAACG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (40 bp):
TCATCACGTATGAGTCGTGTCATCCACCGACCAGATCTAC
Found at i:925107 original size:21 final size:21
Alignment explanation
Indices: 925043--925107 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
925033 ATGAGTTGTG
* *
925043 TCATCCACCGACCAGATCTTC
1 TCATTCACCGACCAGATCTAC
* **
925064 TCA-TCA-CGTATCAGCCCTA-
1 TCATTCACCG-ACCAGATCTAC
925083 TCATTCACCGACCAGATCTAC
1 TCATTCACCGACCAGATCTAC
925104 TCAT
1 TCAT
925108 CATGTAGGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 5 0.16
20 18 0.56
21 9 0.28
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.26
Consensus pattern (21 bp):
TCATTCACCGACCAGATCTAC
Found at i:925335 original size:3 final size:3
Alignment explanation
Indices: 925329--925376 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
925319 TATTTATTTA
* *
925329 ATT ATT AAT ACT ATT ATT AGTT ATT -TT ATT ATT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
925373 ATT A
1 ATT A
925377 ACATATTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:926900 original size:35 final size:34
Alignment explanation
Indices: 926835--926902 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
926825 CCATATTTCT
926835 GGTTATTTTATTTTAGTCCTTAATATTATTTAGG
1 GGTTATTTTATTTTAGTCCTTAATATTATTTAGG
926869 GGTTATTTTCATTTCTAGTACC-T-ATATTATTTAG
1 GGTTATTTT-ATTT-TAGT-CCTTAATATTATTTAG
926903 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 9 0.29
35 15 0.48
36 5 0.16
37 2 0.06
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (34 bp):
GGTTATTTTATTTTAGTCCTTAATATTATTTAGG
Found at i:926980 original size:30 final size:29
Alignment explanation
Indices: 926944--927181 Score: 219
Period size: 30 Copynumber: 8.0 Consensus size: 29
926934 TTTGTGTTTA
*
926944 AGTCCCTTAAGTTTCTATATTTTCTATTTT
1 AGTCCCTTAAATTTCTAT-TTTTCTATTTT
* * * *
926974 AATCCCTCAAGTTTCTATTTTTGGTATTTT
1 AGTCCCTTAAATTTCTATTTTT-CTATTTT
* *
927004 AGTCCTTTAAATATC-AGTTTTTCTATTTT
1 AGTCCCTTAAATTTCTA-TTTTTCTATTTT
* * *
927033 AGTCCCATAAGTTTCTATTTTTGTGATTTT
1 AGTCCCTTAAATTTCTATTTTTCT-ATTTT
* *
927063 AGTCCCTTAAATGTCTATTTTTACTTTTTT
1 AGTCCCTTAAATTTCTATTTTT-CTATTTT
*
927093 AGTCCTTTAAATTTCTATTTATGT-TATTTT
1 AGTCCCTTAAATTTCTATTT-T-TCTATTTT
* * * *
927123 AATCTCTTAAATTTATGTTTTTTCTATTTT
1 AGTCCCTTAAATTTCT-ATTTTTCTATTTT
* *
927153 AGTCCCTTAAGTTTCTTTTTTTCTATTTT
1 AGTCCCTTAAATTTCTATTTTTCTATTTT
927182 GGTTCTTTTA
Statistics
Matches: 168, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
29 42 0.25
30 120 0.71
31 5 0.03
32 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.08, T:0.58
Consensus pattern (29 bp):
AGTCCCTTAAATTTCTATTTTTCTATTTT
Found at i:927044 original size:89 final size:89
Alignment explanation
Indices: 926944--927195 Score: 260
Period size: 89 Copynumber: 2.8 Consensus size: 89
926934 TTTGTGTTTA
* * **
926944 AGTCCCTTAAGTTTCTATATTTTCTATTTTAATCCCTCAAGTTTCTATTTTTGGTATTTTAGTCC
1 AGTCCCTTAAGTTTCTAT-TTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTACTATTTTAGTCC
927009 TTTAAATATC-AGTTT-T-TCTATTTT
65 TTTAAATATCTA-TTTATGT-TATTTT
* * * * *
927033 AGTCCCATAAGTTTCTATTTTTGTGATTTTAGTCCCTTAAATGTCTATTTTTACTTTTTTAGTCC
1 AGTCCCTTAAGTTTCTATTTTTCT-ATTTTAGTCCCTTAAGTTTCTATTTTTACTATTTTAGTCC
*
927098 TTTAAATTTCTATTTATGTTATTTT
65 TTTAAATATCTATTTATGTTATTTT
* * * * * * *
927123 AATCTCTTAAATTTATGTTTTTTCTATTTTAGTCCCTTAAGTTTCT-TTTTTTCTATTTTGGTTC
1 AGTCCCTTAAGTTTCT-ATTTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTACTATTTTAG-TC
*
927187 TTTTAAATA
64 CTTTAAATA
927196 GAATATGATT
Statistics
Matches: 133, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 5 0.04
89 74 0.56
90 47 0.35
91 7 0.05
ACGTcount: A:0.21, C:0.14, G:0.08, T:0.57
Consensus pattern (89 bp):
AGTCCCTTAAGTTTCTATTTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTACTATTTTAGTCCT
TTAAATATCTATTTATGTTATTTT
Found at i:927122 original size:60 final size:59
Alignment explanation
Indices: 926944--927181 Score: 257
Period size: 60 Copynumber: 4.0 Consensus size: 59
926934 TTTGTGTTTA
* * * *
926944 AGTCCCTTAAGTTTCTATATTTTCTATTTTAATCCCTCAAGTTTCTATTTTTGGTATTTT
1 AGTCCCTTAAATTTCTAT-TTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTGTTATTTT
* * * *
927004 AGTCCTTTAAATATC-AGTTTTTCTATTTTAGTCCCATAAGTTTCTATTTTTGTGATTTT
1 AGTCCCTTAAATTTCTA-TTTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTGTTATTTT
* * * * *
927063 AGTCCCTTAAATGTCTATTTTTACTTTTTTAGTCCTTTAAATTTCTATTTATGTTATTTT
1 AGTCCCTTAAATTTCTATTTTT-CTATTTTAGTCCCTTAAGTTTCTATTTTTGTTATTTT
* * * *
927123 AATCTCTTAAATTTATGTTTTTTCTATTTTAGTCCCTTAAGTTTCT-TTTTT-TCTATTTT
1 AGTCCCTTAAATTTCT-ATTTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTGT-TATTTT
927182 GGTTCTTTTA
Statistics
Matches: 148, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
58 1 0.01
59 65 0.44
60 77 0.52
61 5 0.03
ACGTcount: A:0.21, C:0.14, G:0.08, T:0.58
Consensus pattern (59 bp):
AGTCCCTTAAATTTCTATTTTTCTATTTTAGTCCCTTAAGTTTCTATTTTTGTTATTTT
Found at i:929578 original size:3 final size:3
Alignment explanation
Indices: 929572--929599 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
929562 TCATCCAAGT
929572 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
929600 AACCCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:929643 original size:16 final size:16
Alignment explanation
Indices: 929622--929655 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
929612 ATATGCAATG
929622 GGGTAAGGGGGAGGTA
1 GGGTAAGGGGGAGGTA
929638 GGGTAAGGGGGAGGTA
1 GGGTAAGGGGGAGGTA
929654 GG
1 GG
929656 TTAGTAGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.65, T:0.12
Consensus pattern (16 bp):
GGGTAAGGGGGAGGTA
Found at i:938148 original size:53 final size:53
Alignment explanation
Indices: 938089--938213 Score: 137
Period size: 53 Copynumber: 2.4 Consensus size: 53
938079 TAAAATATAA
* * * * *
938089 AAATTAACACATATTTACAATGGT-ATAAGTATGTACATCTCTCAATATTTTA-
1 AAATTAACACATACTTACAACGATGA-AAGTATATACATCTCTCAATATATTAG
* *
938141 ACAATTAACACATACTTACACCGATGAAAGTATATACATCTCTTAATATATTAG
1 A-AATTAACACATACTTACAACGATGAAAGTATATACATCTCTCAATATATTAG
**
938195 AAATTAACACCCACTTACA
1 AAATTAACACATACTTACA
938214 CCAATGTAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.02
53 58 0.95
54 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (53 bp):
AAATTAACACATACTTACAACGATGAAAGTATATACATCTCTCAATATATTAG
Found at i:938214 original size:53 final size:53
Alignment explanation
Indices: 938115--938226 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 53
938105 ACAATGGTAT
* * * *
938115 AAGTATGTACATCTCTCAATATTTTAACAATTAACACATACTTACACCGATGA
1 AAGTATATACATCTCTCAATATATTAACAATTAACACACACTTACACCAATGA
* * *
938168 AAGTATATACATCTCTTAATATATTAGA-AATTAACACCCACTTACACCAATGT
1 AAGTATATACATCTCTCAATATATTA-ACAATTAACACACACTTACACCAATGA
938221 AAGTAT
1 AAGTAT
938227 TTTTATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 50 0.98
54 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (53 bp):
AAGTATATACATCTCTCAATATATTAACAATTAACACACACTTACACCAATGA
Found at i:938237 original size:2 final size:2
Alignment explanation
Indices: 938230--938280 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
938220 TAAGTATTTT
* * *
938230 TA TA TA TA TT TT TA AA 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
938272 TA TA TA TA T
1 TA TA TA TA T
938281 TAAATTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:941310 original size:26 final size:26
Alignment explanation
Indices: 941274--941323 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
941264 AACAAAGGTT
* *
941274 CTTTACATTTTGTTTTTATTTTTTAG
1 CTTTACATTTTATTATTATTTTTTAG
941300 CTTTACATTTTATTATTATTTTTT
1 CTTTACATTTTATTATTATTTTTT
941324 TCGTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (26 bp):
CTTTACATTTTATTATTATTTTTTAG
Found at i:942536 original size:34 final size:34
Alignment explanation
Indices: 942489--942556 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
942479 TCCATTAAAA
*
942489 ATATTGGATTATTTTCTATTTCTCTTTAGAATTT
1 ATATTGGAATATTTTCTATTTCTCTTTAGAATTT
*
942523 ATATTGTAATATTTTCTATTTCTCTTTAGAATTT
1 ATATTGGAATATTTTCTATTTCTCTTTAGAATTT
942557 CCTGTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (34 bp):
ATATTGGAATATTTTCTATTTCTCTTTAGAATTT
Found at i:943361 original size:20 final size:20
Alignment explanation
Indices: 943336--943392 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
943326 TGGTTCACGG
943336 GAATGTAAGATTATCAGTGA
1 GAATGTAAGATTATCAGTGA
* * *
943356 GAATGTAAGATTACCGGTGG
1 GAATGTAAGATTATCAGTGA
943376 GAATGTAAGATTATCAG
1 GAATGTAAGATTATCAG
943393 GGAATAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (20 bp):
GAATGTAAGATTATCAGTGA
Found at i:944590 original size:21 final size:21
Alignment explanation
Indices: 944566--944663 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
944556 TATCGCAAAT
*
944566 TCGCGTTGCAATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
944587 TCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
944608 TCGTGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
944628 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
944649 TCGCATTGCGATAGT
1 TCGCGTTGCGATAGT
944664 CTACAGTTGT
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 14 0.23
21 47 0.77
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:944682 original size:22 final size:22
Alignment explanation
Indices: 944654--944765 Score: 81
Period size: 22 Copynumber: 5.3 Consensus size: 22
944644 GAAAATCGCA
944654 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
* * * **
944676 TTGCGAT-TTTTCCAAAT-TCG
1 TTGCGATAGTCTACAGTTGTCG
** * *
944696 TTGCGATTTTCCA-AATT--CG
1 TTGCGATAGTCTACAGTTGTCG
** *
944715 TTGCGATAGTCTACAGCAGTTG
1 TTGCGATAGTCTACAGTTGTCG
944737 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
944759 TTGCGAT
1 TTGCGAT
944766 TTTCCAAATT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 12 0.18
20 14 0.21
21 7 0.10
22 34 0.51
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (22 bp):
TTGCGATAGTCTACAGTTGTCG
Found at i:944698 original size:20 final size:20
Alignment explanation
Indices: 944673--944721 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
944663 TCTACAGTTG
944673 TCGTTGCGATTTTTCCAAAT
1 TCGTTGCGATTTTTCCAAAT
944693 TCGTTGCGA-TTTTCCAAAT
1 TCGTTGCGATTTTTCCAAAT
944712 TCGTTGCGAT
1 TCGTTGCGAT
944722 AGTCTACAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (20 bp):
TCGTTGCGATTTTTCCAAAT
Found at i:944704 original size:83 final size:81
Alignment explanation
Indices: 944612--944780 Score: 220
Period size: 83 Copynumber: 2.0 Consensus size: 81
944602 TAAAAATCGT
*
944612 GTTGCGATTTTCC-ATTTCGCGTTGCGATAGT-TGA-A-AATCGCATTGCGATAGTCTACAGTTG
1 GTTGCGATTTTCCAAATT--CGTTGCGATAGTCT-ACACAATCG--TTGCGATAGTCTACAGTTG
944673 TCGTTGCGATTTTTCCAAATTC
61 TCGTTGCGA-TTTTCCAAATTC
* *
944695 GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGCAGTTGTTGCGATAGTCTACAGTTGTCGT
1 GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACA-CAATCGTTGCGATAGTCTACAGTTGTCGT
944760 TGCGATTTTCCAAATTC
65 TGCGATTTTCCAAATTC
944777 GTTG
1 GTTG
944781 TGATAGTTAA
Statistics
Matches: 78, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
82 29 0.37
83 43 0.55
84 3 0.04
85 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (81 bp):
GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACACAATCGTTGCGATAGTCTACAGTTGTCGTT
GCGATTTTCCAAATTC
Found at i:945505 original size:22 final size:22
Alignment explanation
Indices: 945480--945532 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
945470 AATTTAGAAA
945480 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
945502 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
945524 ATCGCAACG
1 ATCGCAACG
945533 CGATTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:945547 original size:21 final size:21
Alignment explanation
Indices: 945521--945638 Score: 116
Period size: 21 Copynumber: 5.7 Consensus size: 21
945511 ACAACTGTAG
945521 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
945542 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
* **
945563 A-AATCGCAACGCGA--AACA
1 ACTATCGCAACGCGATTTTCA
** *
945581 GAAAAGCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGATTTTCA
945603 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
945624 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
945639 AATACAACGC
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 24 0.30
21 51 0.65
22 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:945570 original size:20 final size:20
Alignment explanation
Indices: 945545--945596 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
945535 ATTTTCAACT
**
945545 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAACAGAAA
945565 ATCGCAACGCGAAACAGAAA
1 ATCGCAACGCGAAACAGAAA
*
945585 AGCGCAACGCGA
1 ATCGCAACGCGA
945597 TTTTCAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.25, T:0.06
Consensus pattern (20 bp):
ATCGCAACGCGAAACAGAAA
Found at i:949897 original size:22 final size:22
Alignment explanation
Indices: 949872--949913 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
949862 GGCGACATCC
*
949872 GTCCCTATCTCCGACGAAATTT
1 GTCCCCATCTCCGACGAAATTT
949894 GTCCCCATCTCCGACGAAAT
1 GTCCCCATCTCCGACGAAAT
949914 CCGTATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.26
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATTT
Found at i:952495 original size:21 final size:21
Alignment explanation
Indices: 952467--952585 Score: 134
Period size: 21 Copynumber: 5.7 Consensus size: 21
952457 AATGCACCTG
*
952467 TCATCGTTCAAGAGGCGCCTC
1 TCATCGTTCAAGAGGCCCCTC
952488 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
*
952509 TCATCGTTCAATAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
952530 -CTACCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTC
**
952551 TCATCGTTCAAGAGATCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
952572 CCACCGTTCAAGAG
1 TCATCGTTCAAGAG
952586 CTCGATTCAC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.02
21 79 0.95
22 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:952514 original size:42 final size:42
Alignment explanation
Indices: 952467--952585 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
952457 AATGCACCTG
* * *
952467 TCATCGTTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCTACCGTTCAAGAGGCCCCTA
*
952509 TCATCGTTCAATAGGCCCCTCCTACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTCCTACCGTTCAAGAGGCCCCTA
** *
952551 TCATCGTTCAAGAGATCCCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGGCCCCTCCTACCGTTCAAGAG
952586 CTCGATTCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCTACCGTTCAAGAGGCCCCTA
Found at i:954000 original size:64 final size:64
Alignment explanation
Indices: 953890--954047 Score: 289
Period size: 64 Copynumber: 2.5 Consensus size: 64
953880 TTAATTGAAT
953890 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
* *
953955 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
954019 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
954048 GTTTATTCAA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
64 87 0.96
65 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:954206 original size:20 final size:20
Alignment explanation
Indices: 954149--954199 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
954139 TCGTTGTGAT
**
954149 AGTCAAATTCGCAACG-TTA
1 AGTCAAATTCGCAACGCGAA
954168 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAACGCGAA
954188 AGTCAAATTCGC
1 AGTCAAATTCGC
954200 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAA
Found at i:954230 original size:14 final size:15
Alignment explanation
Indices: 954195--954230 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
954185 GAAAGTCAAA
954195 TTCGCG-TTGCGATT
1 TTCGCGTTTGCGATT
954209 TTCG-GTTTGCGA-T
1 TTCGCGTTTGCGATT
954222 TTCGCGTTT
1 TTCGCGTTT
954231 CAAATTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCGCGTTTGCGATT
Found at i:954291 original size:20 final size:20
Alignment explanation
Indices: 954266--954309 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
954256 AACGCGATAA
*
954266 TCGCGTTGCGAATTTGACTT
1 TCGCGTTACGAATTTGACTT
*
954286 TCGCGTTATGAATTTGACTT
1 TCGCGTTACGAATTTGACTT
954306 TCGC
1 TCGC
954310 AACAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTACGAATTTGACTT
Found at i:954578 original size:18 final size:18
Alignment explanation
Indices: 954555--954590 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
954545 AAACCGGTTG
954555 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
954573 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
954591 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:956913 original size:24 final size:24
Alignment explanation
Indices: 956862--956913 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
956852 ATCCGAGTAT
*** *
956862 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCAAATAC
*
956886 TGACCAAGATCAAATTTCAAATAC
1 TGACCAAGATCAAAGTTCAAATAC
956910 TGAC
1 TGAC
956914 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCAAATAC
Found at i:957673 original size:14 final size:15
Alignment explanation
Indices: 957639--957676 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
957629 GAAATCATTG
957639 AAAAATTATATATAA
1 AAAAATTATATATAA
*
957654 ATAAAATTATGTA-AA
1 A-AAAATTATATATAA
957669 AAAAATTA
1 AAAAATTA
957677 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAAATTATATATAA
Found at i:957971 original size:41 final size:41
Alignment explanation
Indices: 957913--958001 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
957903 TGACTTCTTT
* *
957913 GTTGCGATTTTCTAAATTCGCGTTGCGATTTTCTAAATTCGC
1 GTTGCGATTTACTAAATTCGCGTTGCGATTTAC-AAATTCGC
*
957955 GTTGCGATTTAC-AAATTCGCGTTGCGATTTACAAATTCGT
1 GTTGCGATTTACTAAATTCGCGTTGCGATTTACAAATTCGC
957995 GTTGCGA
1 GTTGCGA
958002 ATTTGAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 14 0.32
41 19 0.43
42 11 0.25
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (41 bp):
GTTGCGATTTACTAAATTCGCGTTGCGATTTACAAATTCGC
Found at i:957972 original size:20 final size:21
Alignment explanation
Indices: 957913--958001 Score: 137
Period size: 20 Copynumber: 4.3 Consensus size: 21
957903 TGACTTCTTT
*
957913 GTTGCGATTTTCTAAATTCGC
1 GTTGCGATTTACTAAATTCGC
*
957934 GTTGCGATTTTCTAAATTCGC
1 GTTGCGATTTACTAAATTCGC
957955 GTTGCGATTTAC-AAATTCGC
1 GTTGCGATTTACTAAATTCGC
*
957975 GTTGCGATTTAC-AAATTCGT
1 GTTGCGATTTACTAAATTCGC
957995 GTTGCGA
1 GTTGCGA
958002 ATTTGAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
20 34 0.52
21 32 0.48
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (21 bp):
GTTGCGATTTACTAAATTCGC
Found at i:960088 original size:2 final size:2
Alignment explanation
Indices: 960072--960110 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
960062 CTATTACAAG
* * *
960072 TA TA TA CA TA GA TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
960111 TAAAATATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:960721 original size:63 final size:63
Alignment explanation
Indices: 960615--960740 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
960605 AAGGGAATTA
*
960615 AACCGATTTGGGGACCAAATTAAACGTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
* * * * *
960678 AACCGGTTTGGGGACCAAATTGAATGTTTTTCAGAACATAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
960741 CTTTTAACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (63 bp):
AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:962187 original size:105 final size:105
Alignment explanation
Indices: 962005--962741 Score: 1395
Period size: 105 Copynumber: 7.0 Consensus size: 105
961995 GTTGTGAAGT
* * **
962005 TGAAATTG-GAAATTGTTTATTGACAACCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
962069 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
962110 TGAAATTGAGAAATGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962175 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
962215 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962280 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
962320 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962385 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
962425 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962490 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
962530 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962595 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
962635 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
962700 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
962740 TG
1 TG
962742 GGTAAAACCT
Statistics
Matches: 624, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
105 620 0.99
106 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:963543 original size:1 final size:1
Alignment explanation
Indices: 963532--963565 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
963522 ACCCTAAACG
*
963532 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
963566 CAACTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:970670 original size:22 final size:23
Alignment explanation
Indices: 970629--970674 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
970619 TAATATGATG
970629 TAAAAAACATGGAAAATATAAAA
1 TAAAAAACATGGAAAATATAAAA
970652 TAAACAAACAT-G-AAATATAAAA
1 TAAA-AAACATGGAAAATATAAAA
970674 T
1 T
970675 GCAAGAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.50
23 5 0.23
24 6 0.27
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAAAACATGGAAAATATAAAA
Found at i:974546 original size:60 final size:61
Alignment explanation
Indices: 974472--974592 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 61
974462 AAGGGAATTA
*
974472 AACCGATTTGGGGACCAAATAAACGTTTTTTAAAACAGAGGGAGCCAAAATGAAG-TTACCC
1 AACCGATTTGGGGACCAAATAAACGTTTTTCAAAACAGAGGGAGCCAAAATG-AGTTTACCC
* * * * * *
974533 AACCGGTTT-GGGACCAATTGAATGTTTTTCAGAACATAGGGAGCCAAAATGAGTTTACCC
1 AACCGATTTGGGGACCAAATAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAGTTTACCC
974593 CTTTTAAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 2 0.04
60 42 0.81
61 8 0.15
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (61 bp):
AACCGATTTGGGGACCAAATAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAGTTTACCC
Found at i:977209 original size:28 final size:30
Alignment explanation
Indices: 977137--977210 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
977127 AAAAATCGAA
* *
977137 TTAAACGGGGATGAGGAAAAACCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
977167 TTAAAC-GGGACGGGGAAAAACCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
977196 TT-AACGGGGA-GGGGA
1 TTAAACGGGGACGGGGA
977211 CAGATTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 8 0.20
29 27 0.66
30 6 0.15
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.20
Consensus pattern (30 bp):
TTAAACGGGGACGGGGAAAAACCGTTTATG
Found at i:977675 original size:58 final size:60
Alignment explanation
Indices: 977608--977728 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 60
977598 AGTAAAATGG
977608 AATCATTTTTTCCTCTAGAAAGTTTCAT-AC-AATTGCAAGCATCAAAGAACTCAAAGAA
1 AATCATTTTTTCCTCTAGAAAGTTTCATAACTAATTGCAAGCATCAAAGAACTCAAAGAA
977666 AATCATTTTTTCCTCTAGAAAGTTTCATACACTAATTGCAAGCATCAAAGAACTCAAAGAA
1 AATCATTTTTTCCTCTAGAAAGTTTCATA-ACTAATTGCAAGCATCAAAGAACTCAAAGAA
977727 AA
1 AA
977729 GCAGTGGCTC
Statistics
Matches: 60, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 28 0.47
60 2 0.03
61 30 0.50
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (60 bp):
AATCATTTTTTCCTCTAGAAAGTTTCATAACTAATTGCAAGCATCAAAGAACTCAAAGAA
Found at i:979658 original size:24 final size:25
Alignment explanation
Indices: 979631--979677 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
979621 TAAATGATAG
979631 AAATTA-AA-ATAATTATTAAAATAA
1 AAATTAGAATATAATT-TTAAAATAA
*
979655 AAATTAGAATCTAATTTTAAAAT
1 AAATTAGAATATAATTTTAAAAT
979678 TATATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 9 0.45
26 5 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
AAATTAGAATATAATTTTAAAATAA
Found at i:983633 original size:167 final size:169
Alignment explanation
Indices: 983434--983774 Score: 659
Period size: 169 Copynumber: 2.0 Consensus size: 169
983424 TATATTATAT
983434 TTTTCTTATAATTTTAAAGATTAAGATTCATGGACGAAGTT-AAAAATTAAATCATATTATTAAA
1 TTTTCTTATAATTTTAAAGATTAAGATTCATGGACGAAGTTAAAAAATTAAATCATATTATTAAA
983498 ATTCTTAAAAGAATCTTTAAAAGAATTATTTTAAATAAGATCAAATTATACGTGCCAATTAATTT
66 ATTCTTAAAAGAATCTTTAAAAGAATTATTTTAAATAAGATCAAATTATACGTGCCAATTAATTT
983563 TATAATATGCCAATTATTTTTAAAGTGGTATTAAGATTC
131 TATAATATGCCAATTATTTTTAAAGTGGTATTAAGATTC
983602 TTTT-TTATAATTTTAAAGATTAAGATTCATGGACGAAGTTAAAAAAATTAAATCATATTATTAA
1 TTTTCTTATAATTTTAAAGATTAAGATTCATGGACGAAGTT-AAAAAATTAAATCATATTATTAA
983666 AATTCTTAAAAGAATCTTTAAAAGAATTATTTTAAATAAGATCAAATTATACGTGCCAATTAATT
65 AATTCTTAAAAGAATCTTTAAAAGAATTATTTTAAATAAGATCAAATTATACGTGCCAATTAATT
983731 TTATAATATGCCAATTATTTTTAAAGTGGTATTAAGATTC
130 TTATAATATGCCAATTATTTTTAAAGTGGTATTAAGATTC
983771 TTTT
1 TTTT
983775 AAAATAGCGT
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
167 36 0.21
168 4 0.02
169 131 0.77
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (169 bp):
TTTTCTTATAATTTTAAAGATTAAGATTCATGGACGAAGTTAAAAAATTAAATCATATTATTAAA
ATTCTTAAAAGAATCTTTAAAAGAATTATTTTAAATAAGATCAAATTATACGTGCCAATTAATTT
TATAATATGCCAATTATTTTTAAAGTGGTATTAAGATTC
Found at i:1001463 original size:6 final size:6
Alignment explanation
Indices: 1001452--1001494 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
1001442 TTAAAGAAGA
*
1001452 AAAAAG AAAAAG AAAAAG -AAAAG AAAAAG TAGAAAAT AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -A-AAAAG AAAAAG
1001495 GAGGGTCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 2 0.06
8 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:1001473 original size:11 final size:12
Alignment explanation
Indices: 1001452--1001494 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
1001442 TTAAAGAAGA
1001452 AAAAAGAAAAAG
1 AAAAAGAAAAAG
1001464 AAAAAG-AAAAG
1 AAAAAGAAAAAG
*
1001475 AAAAAGTAGAAAAT
1 AAAAAG-A-AAAAG
1001489 AAAAAG
1 AAAAAG
1001495 GAGGGTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 11 0.41
12 6 0.22
14 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:1001475 original size:17 final size:16
Alignment explanation
Indices: 1001444--1001480 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1001434 TATTATGCTT
*
1001444 AAAGAAGAAAAAAGAA
1 AAAGAAAAAAAAAGAA
1001460 AAAGAAAAAGAAAAGAA
1 AAAGAAAAA-AAAAGAA
1001477 AAAG
1 AAAG
1001481 TAGAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAAGAA
Found at i:1001863 original size:18 final size:18
Alignment explanation
Indices: 1001840--1001876 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1001830 TCCAAGTTTA
1001840 TCTTTTCGAAACTCAATT
1 TCTTTTCGAAACTCAATT
* *
1001858 TCTTTTTGAAATTCAATT
1 TCTTTTCGAAACTCAATT
1001876 T
1 T
1001877 ATTCTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TCTTTTCGAAACTCAATT
Found at i:1002428 original size:16 final size:16
Alignment explanation
Indices: 1002409--1002482 Score: 96
Period size: 16 Copynumber: 4.6 Consensus size: 16
1002399 GTTCATAATG
*
1002409 AGAAGAACTCAACTAA
1 AGAAGAACTCAACTGA
* *
1002425 AGAAGAATTCATCTGA
1 AGAAGAACTCAACTGA
1002441 AGAAGAACTCAACTGA
1 AGAAGAACTCAACTGA
*
1002457 AGAAGAATTCATA-TGA
1 AGAAGAACTCA-ACTGA
1002473 AGAAGAACTC
1 AGAAGAACTC
1002483 GTCCGAAGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
16 49 0.98
17 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AGAAGAACTCAACTGA
Found at i:1002430 original size:32 final size:32
Alignment explanation
Indices: 1002394--1002482 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
1002384 TTATTTCAAG
*
1002394 GAAGAGTTCATAATG-AGAAGAACTCAACTAAA
1 GAAGAATTCAT-ATGAAGAAGAACTCAACTAAA
* *
1002426 GAAGAATTCATCTGAAGAAGAACTCAACTGAA
1 GAAGAATTCATATGAAGAAGAACTCAACTAAA
1002458 GAAGAATTCATATGAAGAAGAACTC
1 GAAGAATTCATATGAAGAAGAACTC
1002483 GTCCGAAGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 2 0.04
32 50 0.96
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (32 bp):
GAAGAATTCATATGAAGAAGAACTCAACTAAA
Found at i:1005001 original size:137 final size:136
Alignment explanation
Indices: 1004804--1005147 Score: 451
Period size: 137 Copynumber: 2.5 Consensus size: 136
1004794 TCTGATGATA
* * * *
1004804 ACACTGCTCATTTGTATTGAGGAGATCTAGTCGATGGAC-ATCATTATTTCTTA-GCATTGAGGA
1 ACACTGCTCATTTGTGTTGAGGAGATCTGGTCGATGGACGA-CATTGTTCCTTATG--TTGAGGA
* *
1004867 TGTCTAGACGTATTTGGATAATTTGGAGACAACA-CGATTCCTTTGTGTTGAGGAAGTCTGAATG
63 CGTCTAGACGTATTTGGATAATTTGGAGACAACATCG-TTCCTTCGTGTTGAGGAAGTCTGAATG
1004931 TCTAAGAATG
127 TCTAAGAATG
* *
1004941 ACACTGCTCCTTTGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCATGTTGAGGACG
1 ACACTGCTCATTTGTGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTT-ATGTTGAGGACG
* * *
1005006 TCTAGACGTATTTGGATAATTTGGAGATAACATTGTTCCTTCGTGTTGAGGAAGTCTGATTGTCT
65 TCTAGACGTATTTGGATAATTTGGAGACAACATCGTTCCTTCGTGTTGAGGAAGTCTGAATGTCT
*
1005071 AAGGATG
130 AAGAATG
* * * * * *
1005078 ACATTGCTCTTTTGCGTTGAGGAGATATGGTTGATGGACGACATTGTTCCTTTGTGTTGAGGACG
1 ACACTGCTCATTTGTGTTGAGGAGATCTGGTCGATGGACGACATTGTTCC-TTATGTTGAGGACG
1005143 TCTAG
65 TCTAG
1005148 CAGTACTTTG
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
137 177 0.97
138 5 0.03
139 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (136 bp):
ACACTGCTCATTTGTGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTATGTTGAGGACGT
CTAGACGTATTTGGATAATTTGGAGACAACATCGTTCCTTCGTGTTGAGGAAGTCTGAATGTCTA
AGAATG
Found at i:1005696 original size:73 final size:74
Alignment explanation
Indices: 1005576--1005714 Score: 167
Period size: 73 Copynumber: 1.9 Consensus size: 74
1005566 ACAATTTCAA
* * *
1005576 AATTTATGTTTCAATGGAAAACTGTCTCAAACGAGACGATACTTGTTTTTAG-GAAAACAATATC
1 AATTTATGTTTCAATGAAAAACTGTCTCAAACGAGACGAAACTTGTTTTGAGAG-AAACAATATC
1005640 AAGTGATATC
65 AAGTGATATC
* * * * *
1005650 AATTT-TGTTTCAA-GAAAAATTGTCTTAACCGAGATGAAACTTTGTTTTGAGAGAAACAATCTC
1 AATTTATGTTTCAATGAAAAACTGTCTCAAACGAGACGAAAC-TTGTTTTGAGAGAAACAATATC
1005713 AA
65 AA
1005715 AGGTGACAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
72 21 0.38
73 28 0.51
74 6 0.11
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (74 bp):
AATTTATGTTTCAATGAAAAACTGTCTCAAACGAGACGAAACTTGTTTTGAGAGAAACAATATCA
AGTGATATC
Found at i:1011494 original size:23 final size:23
Alignment explanation
Indices: 1011464--1011522 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1011454 CATATAAATA
*
1011464 CACCAAAGTGCTACGTAGAATTG
1 CACCAAAGTGCCACGTAGAATTG
*
1011487 CACCAAAGTGCCGCGTAGAATTG
1 CACCAAAGTGCCACGTAGAATTG
**
1011510 CACTGAAGTGCCA
1 CACCAAAGTGCCA
1011523 TATAAAATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (23 bp):
CACCAAAGTGCCACGTAGAATTG
Found at i:1013096 original size:19 final size:19
Alignment explanation
Indices: 1013072--1013109 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1013062 TTTAAGGGGG
*
1013072 TGCATCGATGCACTGATTA
1 TGCATCGATGCACTAATTA
1013091 TGCATCGATGCACTAATTA
1 TGCATCGATGCACTAATTA
1013110 CATTCGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (19 bp):
TGCATCGATGCACTAATTA
Found at i:1016444 original size:23 final size:23
Alignment explanation
Indices: 1016407--1016478 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
1016397 ACCACAGCTT
1016407 ATATA-AA-TGCACCGAAGTGCC
1 ATATAGAATTGCACCGAAGTGCC
*
1016428 ATGTAGAATTGCACCGAAGTGCC
1 ATATAGAATTGCACCGAAGTGCC
**
1016451 GCATAGAATTGCACCGAAGTGCC
1 ATATAGAATTGCACCGAAGTGCC
1016474 ATATA
1 ATATA
1016479 AAATGTCCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.09
22 2 0.05
23 37 0.86
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (23 bp):
ATATAGAATTGCACCGAAGTGCC
Found at i:1018095 original size:64 final size:63
Alignment explanation
Indices: 1018005--1018141 Score: 152
Period size: 64 Copynumber: 2.2 Consensus size: 63
1017995 TTTTTAACAT
* *
1018005 GTGCATCGATGCACTACCCATACATCGATACACCAATCACCTTCGATGTTTTCAT-TTTAAAGGG
1 GTGCATCGATGCACTACCCATACATCGATACACCAATCACATTCGATG-TTTCATCTTTAAA-GA
* * * * ** *
1018069 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATACATCGATACACCAATCACATTCGATGTTTCATCTTTAAAGA
1018132 GTGCATCGAT
1 GTGCATCGAT
1018142 ACACCTTGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
63 18 0.29
64 44 0.71
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATACATCGATACACCAATCACATTCGATGTTTCATCTTTAAAGA
Found at i:1021420 original size:23 final size:23
Alignment explanation
Indices: 1021390--1021446 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
1021380 CTTATATAAA
*
1021390 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
1021413 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
1021436 TACACCGAAGT
1 TGCACCGAAGT
1021447 ACCATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:1021472 original size:22 final size:21
Alignment explanation
Indices: 1021447--1021499 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
1021437 ACACCGAAGT
*
1021447 ACCATATAAAATGTCCCTAAGG
1 ACCATATAAAAT-TCCCTAAGA
*
1021469 ACCACGTATAAAATTCCTTAAGA
1 ACCA--TATAAAATTCCCTAAGA
*
1021492 ATCATATA
1 ACCATATA
1021500 CATATACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 10 0.38
24 8 0.31
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.26
Consensus pattern (21 bp):
ACCATATAAAATTCCCTAAGA
Found at i:1026705 original size:20 final size:21
Alignment explanation
Indices: 1026659--1026708 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1026649 TCTCTTTTCC
*
1026659 CCCTTTTTTGGGTTCGAATGA
1 CCCTTTTTTGGGTTCGAAAGA
*
1026680 CCCTTTTTTGGGTTCTAAAG-
1 CCCTTTTTTGGGTTCGAAAGA
*
1026700 CTCTTTTTT
1 CCCTTTTTT
1026709 TTTAATATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (21 bp):
CCCTTTTTTGGGTTCGAAAGA
Found at i:1026878 original size:20 final size:20
Alignment explanation
Indices: 1026853--1026890 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1026843 TAATATGTTT
*
1026853 TTGATTTGGTTTGTTGTTGA
1 TTGATTTGGTTTATTGTTGA
1026873 TTGATTTGGTTTATTGTT
1 TTGATTTGGTTTATTGTT
1026891 TGGCTAGATT
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:0.11, C:0.00, G:0.26, T:0.63
Consensus pattern (20 bp):
TTGATTTGGTTTATTGTTGA
Found at i:1027272 original size:3 final size:3
Alignment explanation
Indices: 1027257--1027304 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1027247 GTAACCTGAA
* * * * *
1027257 AAT AAT AAA AAT AAT ATT AGT AGT AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1027305 TACAATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1027646 original size:9 final size:9
Alignment explanation
Indices: 1027632--1027656 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1027622 AGGGACTAAA
1027632 AATTTATAT
1 AATTTATAT
1027641 AATTTATAT
1 AATTTATAT
1027650 AATTTAT
1 AATTTAT
1027657 CTCGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTATAT
Found at i:1028428 original size:54 final size:54
Alignment explanation
Indices: 1028385--1028735 Score: 387
Period size: 54 Copynumber: 6.5 Consensus size: 54
1028375 TAAACATATT
*** * * *
1028385 ATGAATTCCGTGTTTTGCACCCATGGTGCCAAAATGGTTATTCATCCATATAGG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
* *
1028439 ATGAATTCTGTGAAATGCACACTTAGTGCCAAAATGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
* * * **
1028493 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATTTG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
* * * * *** *
1028547 ATGAATTCCATGAAATACACACTTATTGTTGAAATGATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
** * * * * * *
1028601 ATGAATTCTATAAAATACACACTTAGTGCCGAAACGATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
* ** *
1028655 ATGAATTCCGTGAAATGTACATTTAGTGCCGAAATGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
* *
1028709 ATGAATTCCGTGAAATACACACTTAGT
1 ATGAATTCCGTGAAATGCACACATAGT
1028736 ACCTATTTGG
Statistics
Matches: 258, Mismatches: 39, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 258 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACATAGTGCCAAAATGGTTATTCATCCACATAGG
Found at i:1028533 original size:108 final size:108
Alignment explanation
Indices: 1028410--1028735 Score: 472
Period size: 108 Copynumber: 3.0 Consensus size: 108
1028400 TGCACCCATG
* * * * *
1028410 GTGCCAAAATGGTTATTCATCCATATAGGATGAATTCTGTGAAATGCACACTTAGTGCCAAAATG
1 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATG
*
1028475 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
66 GTTATTCATCCACATAGGATGAATTCCGTGAAATACACACTTA
** * * * **
1028518 GTGCCGAAACGGTTATTCATCCACATTTGATGAATTCCATGAAATACACACTTATTGTTGAAATG
1 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATG
* ** *
1028583 ATTATTCATCCACATAGGATGAATTCTATAAAATACACACTTA
66 GTTATTCATCCACATAGGATGAATTCCGTGAAATACACACTTA
* * *
1028626 GTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATGTACATTTAGTGCCGAAATG
1 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATG
1028691 GTTATTCATCCACATAGGATGAATTCCGTGAAATACACACTTA
66 GTTATTCATCCACATAGGATGAATTCCGTGAAATACACACTTA
1028734 GT
1 GT
1028736 ACCTATTTGG
Statistics
Matches: 187, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 187 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAATG
GTTATTCATCCACATAGGATGAATTCCGTGAAATACACACTTA
Found at i:1028624 original size:162 final size:162
Alignment explanation
Indices: 1028416--1028733 Score: 510
Period size: 162 Copynumber: 2.0 Consensus size: 162
1028406 CATGGTGCCA
* * * * * * *
1028416 AAATGGTTATTCATCCATATAGGATGAATTCTGTGAAATGCACACTTAGTGCCAAAATGGTTATT
1 AAATGATTATTCATCCACATAGGATGAATTCTATAAAATACACACTTAGTGCCAAAACGATTATT
**
1028481 CATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATTT
66 CATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
1028546 GATGAATTCCATGAAATACACACTTATTGTTG
131 GATGAATTCCATGAAATACACACTTATTGTTG
*
1028578 AAATGATTATTCATCCACATAGGATGAATTCTATAAAATACACACTTAGTGCCGAAACGATTATT
1 AAATGATTATTCATCCACATAGGATGAATTCTATAAAATACACACTTAGTGCCAAAACGATTATT
* * *
1028643 CATCCACATAGGATGAATTCCGTGAAATGTACATTTAGTGCCGAAATGGTTATTCATCCACATAG
66 CATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
1028708 GATGAATTCCGTGAAATACACACTTA
131 GATGAATTCCATGAAATACACACTTA
1028734 GTACCTATTT
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
162 142 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (162 bp):
AAATGATTATTCATCCACATAGGATGAATTCTATAAAATACACACTTAGTGCCAAAACGATTATT
CATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
GATGAATTCCATGAAATACACACTTATTGTTG
Found at i:1029072 original size:20 final size:21
Alignment explanation
Indices: 1029044--1029094 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
1029034 TGGTCCCTCA
*
1029044 GTATTGATAC-CCATACCATG
1 GTATCGATACACCATACCATG
* *
1029064 GTATCGATACTACCATTCTATG
1 GTATCGATAC-ACCATACCATG
1029086 GTATCGATA
1 GTATCGATA
1029095 TTATGCTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
22 17 0.65
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACACCATACCATG
Found at i:1033012 original size:2 final size:2
Alignment explanation
Indices: 1033005--1033029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1032995 TTCTTTTAAT
1033005 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 T
1033030 TAAAGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1033599 original size:169 final size:169
Alignment explanation
Indices: 1033415--1033749 Score: 483
Period size: 169 Copynumber: 2.0 Consensus size: 169
1033405 TAGATGATAA
* *
1033415 ATTATTATTTTATGAAATTACATGATTAACAAAATAATTTTAAAGTTTTTAAAGGAATGTTTTGC
1 ATTATTATTTTATGAAATTACATGATTAACAAAATAATTTTAAAGTTGTTAAAGGAATGTTTTAC
* * * * * *
1033480 AATGAAAC-AATTTTAAGCATTTACGTTTAACGAAAATATGTATTGTTGATGTTATATCTTAGAC
66 AATGAAACAAATTTTAAGCATTTACGTTCAACGAAAAT-TGTAATGTTCATGTAACATCTTAAAC
* *
1033544 TCGTATTTCAAGATATATACAGGTTATGGGTGTTACCTTT
130 TCGTATTTCAAGATATATACAAGTTATGGATGTTACCTTT
* *
1033584 ATTATTATTTTATGAATTTACATGATTAACAAAATAGTTTTAAAGTTGTTAAAGGAATGTTTTAC
1 ATTATTATTTTATGAAATTACATGATTAACAAAATAATTTTAAAGTTGTTAAAGGAATGTTTTAC
* * **
1033649 AATGAAACAAAATTTTAAGCATTTATGTTCAATGAATGTTGTAATGTTCATGTAACATCTTAAAC
66 AATGAAAC-AAATTTTAAGCATTTACGTTCAACGAAAATTGTAATGTTCATGTAACATCTTAAAC
* *
1033714 TCGTATTTCAAGTTGTATACAAGTTATGGATGTTAC
130 TCGTATTTCAAGATATATACAAGTTATGGATGTTAC
1033750 TTGCATCTTG
Statistics
Matches: 146, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
169 69 0.47
170 53 0.36
171 24 0.16
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.41
Consensus pattern (169 bp):
ATTATTATTTTATGAAATTACATGATTAACAAAATAATTTTAAAGTTGTTAAAGGAATGTTTTAC
AATGAAACAAATTTTAAGCATTTACGTTCAACGAAAATTGTAATGTTCATGTAACATCTTAAACT
CGTATTTCAAGATATATACAAGTTATGGATGTTACCTTT
Found at i:1039739 original size:35 final size:36
Alignment explanation
Indices: 1039693--1039768 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 36
1039683 TAAGTGCATT
* *
1039693 TATGGTGAAATACC-CAGATGATTAGAGAGCACATC
1 TATGGTGAAATACCTCAAATGATTAAAGAGCACATC
* *
1039728 TATGGTGAAATACCTTCAAATTATTAAAGAGTACATC
1 TATGGTGAAATACC-TCAAATGATTAAAGAGCACATC
1039765 TATG
1 TATG
1039769 CTTACTGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 14 0.40
37 21 0.60
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
TATGGTGAAATACCTCAAATGATTAAAGAGCACATC
Found at i:1045059 original size:60 final size:60
Alignment explanation
Indices: 1044995--1045107 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
1044985 TCAGGTGATT
* *
1044995 ATTTTGTAACTTTTAATAGTCG-ATGAACTTAACAAAACAACATTCTATAGTCGAAAGATC
1 ATTTTGTAACTTTTAATAGTCGAAAG-ACTTAACAAAACAACATCCTATAGTCGAAAGATC
* * *
1045055 ATTTTGTAACTTTTAATAGTTGAAAGACTTAATAAAGCAACATCCTATAGTCG
1 ATTTTGTAACTTTTAATAGTCGAAAGACTTAACAAAACAACATCCTATAGTCG
1045108 GAGGACCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCGAAAGACTTAACAAAACAACATCCTATAGTCGAAAGATC
Found at i:1045118 original size:60 final size:60
Alignment explanation
Indices: 1044995--1045127 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
1044985 TCAGGTGATT
* * *
1044995 ATTTTGTAACTTTTAATAGTCGATGAACTTAACAAAACAACATTCTATAGTCGAAAGATC
1 ATTTTGTAACTTTTAATAGTCGAAGAACTTAACAAAACAACATCCTATAGTCGAAAGACC
* * * * *
1045055 ATTTTGTAACTTTTAATAGTTGAA-AGACTTAATAAAGCAACATCCTATAGTCGGAGGACC
1 ATTTTGTAACTTTTAATAGTCGAAGA-ACTTAACAAAACAACATCCTATAGTCGAAAGACC
1045115 ATTTGTGT-ACTTT
1 ATTT-TGTAACTTT
1045128 AACCTAAAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 59 0.94
61 3 0.05
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCGAAGAACTTAACAAAACAACATCCTATAGTCGAAAGACC
Found at i:1047502 original size:23 final size:22
Alignment explanation
Indices: 1047476--1047523 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1047466 TATATACTAA
1047476 TTAA-TTAATAATTTAAATATAAT
1 TTAACTTAA-AATTTAAATAT-AT
*
1047499 TTAACTTAAAATTTTAATATAT
1 TTAACTTAAAATTTAAATATAT
1047521 TTA
1 TTA
1047524 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAACTTAAAATTTAAATATAT
Found at i:1048105 original size:17 final size:17
Alignment explanation
Indices: 1048083--1048132 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1048073 CGCGGTTGTC
*
1048083 TAATGTATACTTATGTA
1 TAATGTATACTTATATA
1048100 TAATGTATACTTATATA
1 TAATGTATACTTATATA
* *
1048117 TATATATATACATATA
1 TA-ATGTATACTTATA
1048133 CTTTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
TAATGTATACTTATATA
Found at i:1049625 original size:31 final size:31
Alignment explanation
Indices: 1049587--1049711 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
1049577 AGGGTCGAGG
* *
1049587 GTTTACCTATATTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1049618 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1049649 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1049680 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1049711 G
1 G
1049712 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1051188 original size:17 final size:17
Alignment explanation
Indices: 1051166--1051205 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
1051156 TTAAATACAC
1051166 CTTGGATCACTTCTGAA
1 CTTGGATCACTTCTGAA
1051183 CTTGGATCACTTCTGAA
1 CTTGGATCACTTCTGAA
1051200 CGTTGG
1 C-TTGG
1051206 GAATCATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (17 bp):
CTTGGATCACTTCTGAA
Found at i:1051667 original size:19 final size:20
Alignment explanation
Indices: 1051643--1051685 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1051633 AATTTAATCA
* *
1051643 AATATATAAT-TTAAAATTG
1 AATATAAAATCTTAAAATTC
1051662 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
1051682 AATA
1 AATA
1051686 ATATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:1057759 original size:116 final size:117
Alignment explanation
Indices: 1057611--1057846 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 117
1057601 AAGCTTAACT
*
1057611 TTTAAATCAAAATTTTCTTTTTCAATACTTTCAAATTTT-ATTTTTGAAAGTTCTAAATCA-TTT
1 TTTAAATCAAAATTTTCTTTTTCAATACTTTC-AATTTTCATTTTTGAAAGCTCTAAATCATTTT
* * * * *
1057674 TCAATATTTCATTTTGATTCTCAAAATCTATTTTAGTTTTTAGAAGAAGATCA
65 TCAACATTTCATTTTGATTCTCAAAATATATTTTAGCTTTCAAAAGAAGATCA
* * * *
1057727 TTTAATTCGAAAA-TTTCTTTTTCAA-AGTTTTCAGTTTTCATTTTTGAAAGCTCTAACTCATTT
1 TTTAAATC-AAAATTTTCTTTTTCAATA-CTTTCAATTTTCATTTTTGAAAGCTCTAAATCATTT
* *
1057790 TTCAACATTTCATTTTGATTTTCAAAATATATTTTAGCTTTCAAAAGAATATCA
64 TTCAACATTTCATTTTGATTCTCAAAATATATTTTAGCTTTCAAAAGAAGATCA
1057844 TTT
1 TTT
1057847 TTAGCTATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
115 6 0.06
116 42 0.40
117 56 0.54
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (117 bp):
TTTAAATCAAAATTTTCTTTTTCAATACTTTCAATTTTCATTTTTGAAAGCTCTAAATCATTTTT
CAACATTTCATTTTGATTCTCAAAATATATTTTAGCTTTCAAAAGAAGATCA
Found at i:1059608 original size:50 final size:49
Alignment explanation
Indices: 1059543--1059647 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 49
1059533 CAACAATACT
*
1059543 TATATAAACTAGGGTTTATACTTATAGTTATAAGCATTATATATATATA
1 TATATAAACTAGGGTTTATACTTATAGTTATAAGCATAATATATATATA
*
1059592 TATATAAACTAAGGGTTTATACTTATAGTTATAAGCATAATGTATATATA
1 TATATAAACT-AGGGTTTATACTTATAGTTATAAGCATAATATATATATA
1059642 TATATA
1 TATATA
1059648 TATAAAAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 10 0.19
50 43 0.81
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (49 bp):
TATATAAACTAGGGTTTATACTTATAGTTATAAGCATAATATATATATA
Found at i:1059718 original size:12 final size:12
Alignment explanation
Indices: 1059701--1059921 Score: 69
Period size: 12 Copynumber: 19.8 Consensus size: 12
1059691 TACATTATAA
*
1059701 ATATATGTACTT
1 ATATATATACTT
1059713 ATATATATACTT
1 ATATATATACTT
1059725 ATA-AGTATA---
1 ATATA-TATACTT
*
1059734 AT-GA-ATACTT
1 ATATATATACTT
1059744 A-A-ATATA-TT
1 ATATATATACTT
*
1059753 A-AGATATACTT
1 ATATATATACTT
1059764 ATATTATATACTT
1 ATA-TATATACTT
*
1059777 ATA-ATA-AATT
1 ATATATATACTT
1059787 ATATAT-TA-TAT
1 ATATATATACT-T
1059798 ATATATATAC--
1 ATATATATACTT
1059808 ATATATATA--T
1 ATATATATACTT
* * *
1059818 ATACACACACTT
1 ATATATATACTT
1059830 ATATATATA--T
1 ATATATATACTT
* *
1059840 ATATA-AAAGTT
1 ATATATATACTT
* *
1059851 -TAATGTATATTT
1 AT-ATATATACTT
*
1059863 ATATTATATTCTT
1 ATA-TATATACTT
*
1059876 A-AAAGTATACTT
1 ATATA-TATACTT
1059888 ATATTATATA-TAT
1 ATA-TATATACT-T
1059901 ATATATATA-TAT
1 ATATATATACT-T
1059913 ATATATATA
1 ATATATATA
1059922 TATATTAAAA
Statistics
Matches: 161, Mismatches: 19, Indels: 58
0.68 0.08 0.24
Matches are distributed among these distances:
7 3 0.02
9 10 0.06
10 38 0.24
11 21 0.13
12 60 0.37
13 28 0.17
14 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (12 bp):
ATATATATACTT
Found at i:1059733 original size:14 final size:13
Alignment explanation
Indices: 1059663--1059821 Score: 58
Period size: 14 Copynumber: 12.5 Consensus size: 13
1059653 AAGTTTAAAC
*
1059663 ATATACTTATGAT
1 ATATACTTATAAT
**
1059676 -TATAAGTATAAT
1 ATATACTTATAAT
1059688 ATATACATTATAAAT
1 ATATAC-TTAT-AAT
1059703 ATATGTACTTAT-AT
1 ATA--TACTTATAAT
1059717 ATATACTTATAAGT
1 ATATACTTATAA-T
*
1059731 ATAATGA-ATACTTAA-
1 AT-AT-ACTTA--TAAT
*
1059746 ATATA--T-TAAG
1 ATATACTTATAAT
*
1059756 ATATACTTATATT
1 ATATACTTATAAT
1059769 ATATACTTATAAT
1 ATATACTTATAAT
1059782 A-A-A-TTAT-AT
1 ATATACTTATAAT
1059791 AT-TA--TATATAT
1 ATATACTTATA-AT
*
1059802 ATATACATATATAT
1 ATATACTTATA-AT
1059816 ATATAC
1 ATATAC
1059822 ACACACTTAT
Statistics
Matches: 115, Mismatches: 9, Indels: 43
0.69 0.05 0.26
Matches are distributed among these distances:
9 9 0.08
10 10 0.09
11 5 0.04
12 21 0.18
13 21 0.18
14 26 0.23
15 12 0.10
16 5 0.04
17 6 0.05
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATACTTATAAT
Found at i:1059743 original size:31 final size:29
Alignment explanation
Indices: 1059685--1059751 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
1059675 TTATAAGTAT
1059685 AATATATACATTATAAATATATGTACTTA
1 AATATATACATTATAAATATATGTACTTA
* *
1059714 TATATATAC-TTATAAGTATAATGAATACTTA
1 AATATATACATTATAAATAT-ATG--TACTTA
1059745 AATATAT
1 AATATAT
1059752 TAAGATATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.28
29 11 0.34
31 12 0.38
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (29 bp):
AATATATACATTATAAATATATGTACTTA
Found at i:1059791 original size:2 final size:2
Alignment explanation
Indices: 1059786--1059926 Score: 86
Period size: 2 Copynumber: 73.5 Consensus size: 2
1059776 TATAATAAAT
* * * *
1059786 TA TA TA T- TA TA TA TA TA TA TA CA TA TA TA TA TA TA CA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1059827 CT- TA TA TA TA TA TA TA TA -A AA GTT TA -A TG TA TA TT TA TA T-
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
1059867 TA TA T- TC T- TA -A AA GTA TA CT- TA TA T- 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
1059906 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1059927 TAAAATTGTT
Statistics
Matches: 113, Mismatches: 12, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
1 10 0.09
2 101 0.89
3 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1059797 original size:25 final size:24
Alignment explanation
Indices: 1059763--1059821 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
1059753 AAGATATACT
1059763 TATATTATATACT-TATAATAAATTA
1 TATATTATATACTATAT-ATAAA-TA
*
1059788 TATATTATATA-TATATATACATA
1 TATATTATATACTATATATAAATA
1059811 TATA-TATATAC
1 TATATTATATAC
1059822 ACACACTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 6 0.19
23 6 0.19
24 5 0.16
25 14 0.45
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATTATATACTATATATAAATA
Found at i:1060914 original size:22 final size:23
Alignment explanation
Indices: 1060879--1060925 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
1060869 ATCAAGTATA
*
1060879 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
1060902 ATAAT-TAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
1060924 AT
1 AT
1060926 TGACCTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1061670 original size:182 final size:182
Alignment explanation
Indices: 1061363--1061810 Score: 740
Period size: 182 Copynumber: 2.5 Consensus size: 182
1061353 TTACTACTGA
**
1061363 TTTTGTCATTTCGAAACCCATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
*
1061428 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
1061493 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGG
131 TACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCGG
1061545 TTTTGTCATTTCGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* *
1061610 TTTATAAAGTATCGAAACTTTATT-AGCGTTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGA-CGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCG
*
1061674 ATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCGG
* ** * *
1061727 TTTTATCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATC-A-ACATT
1 TTTTGTCATTTCGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1061790 TTTATAAAGTATCGACACTTT
66 TTTATAAAGTATCGACACTTT
1061811 CAATATATCC
Statistics
Matches: 250, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
180 25 0.10
181 2 0.01
182 223 0.89
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCGG
Found at i:1062035 original size:112 final size:112
Alignment explanation
Indices: 1061683--1062142 Score: 755
Period size: 112 Copynumber: 4.1 Consensus size: 112
1061673 GATACTTATA
* * * *
1061683 ATAAAATATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTATCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1061748 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATC-A-ACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
1061793 ATAAAGTATCGACACTTTCAATATATCCAGTAGTGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1061858 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
1061904 ATAAAGAATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
** *
1061969 TTTGTCAGCTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1062016 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
1062081 TCTGTCATTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1062128 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
1062143 AAACCGACAA
Statistics
Matches: 326, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
109 28 0.09
110 66 0.20
111 75 0.23
112 157 0.48
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:1066903 original size:2 final size:2
Alignment explanation
Indices: 1066896--1066921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1066886 GTTGGCACTA
1066896 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
1066922 TTTAACTAAG
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:1070270 original size:3 final size:3
Alignment explanation
Indices: 1070262--1070301 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1070252 GTGATGTTTT
1070262 ATA 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 ATA A
1070302 CTATTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1080404 original size:21 final size:24
Alignment explanation
Indices: 1080364--1080413 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
1080354 AATAAAGTAA
1080364 AAAAATAATTAAAGATAAA-TCCC
1 AAAAATAATTAAAGATAAATTCCC
*
1080387 AAAAAT-ATTAAA-ATAAATTCCT
1 AAAAATAATTAAAGATAAATTCCC
1080409 AAAAA
1 AAAAA
1080414 CAAATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAATTAAAGATAAATTCCC
Found at i:1080440 original size:6 final size:6
Alignment explanation
Indices: 1080429--1080468 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
1080419 GATAATTCTT
1080429 AATTCA AATTCA AATTCA AATTCA AATTCA AATTCA AATT
1 AATTCA AATTCA AATTCA AATTCA AATTCA AATTCA AATT
1080469 TAAACTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
AATTCA
Found at i:1093909 original size:45 final size:44
Alignment explanation
Indices: 1093845--1093950 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 44
1093835 AGAGAGAGAC
*
1093845 CTTAGGAAATAAGTTGGGTAATGCTGGTAATAACTCCAACATAG
1 CTTAGGAAATAAGTTGGGTAATGATGGTAATAACTCCAACATAG
*
1093889 TCTTAGGAAATAAGTTGGGTAATGATGGTAATAGCTCCAACATAG
1 -CTTAGGAAATAAGTTGGGTAATGATGGTAATAACTCCAACATAG
*
1093934 -TGAGAGAAATAAGTTGG
1 CTTAG-GAAATAAGTTGG
1093951 AATTCCAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 3 0.05
44 12 0.21
45 42 0.74
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTAGGAAATAAGTTGGGTAATGATGGTAATAACTCCAACATAG
Found at i:1096558 original size:70 final size:70
Alignment explanation
Indices: 1096445--1096577 Score: 230
Period size: 70 Copynumber: 1.9 Consensus size: 70
1096435 TAGAAGTCAG
*
1096445 TTGGGATGATCTTCTATGTTTCTTAGCCATGTGGGATTGTTTTGTTCTCCTATTTTTACTCTTTA
1 TTGGGATGATCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTTCTCCTATTTTTACTCTTTA
1096510 GACTT
66 GACTT
* * *
1096515 TTGGGATGCTCTTCTATGTTTCTTAACCATGTGTGATTGTTTTGTTCTCCTATTTTTGCTCTT
1 TTGGGATGATCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTTCTCCTATTTTTACTCTT
1096578 CTATGCTCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.53
Consensus pattern (70 bp):
TTGGGATGATCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTTCTCCTATTTTTACTCTTTA
GACTT
Found at i:1103014 original size:18 final size:18
Alignment explanation
Indices: 1102988--1103058 Score: 124
Period size: 18 Copynumber: 3.9 Consensus size: 18
1102978 ACTGAATATT
*
1102988 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1103006 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1103024 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1103042 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1103059 GATAATCCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Done.