Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 88 of 444
Found at i:20988126 original size:27 final size:26
Alignment explanation
Indices: 20988090--20988204 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
20988080 AGCATGGCTG
* *
20988090 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
20988116 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
20988144 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
20988171 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
20988198 CCAGAAC
1 CCAGAAC
20988205 GCTTCCTCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:20988154 original size:54 final size:54
Alignment explanation
Indices: 20988090--20988204 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
20988080 AGCATGGCTG
*
20988090 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
20988144 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
20988198 CCAGAAC
1 CCAGAAC
20988205 GCTTCCTCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:20989858 original size:26 final size:26
Alignment explanation
Indices: 20989820--20989955 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
20989810 CATGAAATTC
* * *
20989820 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
20989846 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20989872 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20989898 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
20989924 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20989950 TTATCA
1 TTATCA
20989956 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:20990778 original size:56 final size:56
Alignment explanation
Indices: 20990687--20990798 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
20990677 TTATCATGCT
* *
20990687 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
20990743 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
20990799 GCAATTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 49 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:20991372 original size:3 final size:3
Alignment explanation
Indices: 20991357--20991410 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
20991347 CCATTTTTCC
* *
20991357 TCT TCT CCT TCT TCT TCT TCT TC- TCT TCCT GCT TC- TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT
20991401 TCT TCT TCT T
1 TCT TCT TCT T
20991411 TTTCCAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:20993455 original size:83 final size:81
Alignment explanation
Indices: 20993367--20993521 Score: 181
Period size: 82 Copynumber: 1.9 Consensus size: 81
20993357 ATAAAAATAT
* * **
20993367 AATTTTATTATT-TTAATAGCCT-AAATTTTATAATTTTTAAAGAGA-TAAATTAAACTTTTATC
1 AATTTTATTATTATTAAT---CTAAAATTTTATAAATTATAAAG-GACTAAATTAAAAATTTATC
20993429 ATTTTTAAGAGATCAAAGTAC
62 A-TTTTAAGAGATCAAAGTAC
* *
20993450 AATTTTCTTATTATTAATTTAAAATTTTATAAATTATAAAGGACTTAAATTAAAAATTTATCATT
1 AATTTTATTATTATTAATCTAAAATTTTATAAATTATAAAGGAC-TAAATTAAAAATTTATCATT
20993515 TTAAGAG
65 TTAAGAG
20993522 GGTAGGATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
81 3 0.05
82 27 0.44
83 27 0.44
84 5 0.08
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (81 bp):
AATTTTATTATTATTAATCTAAAATTTTATAAATTATAAAGGACTAAATTAAAAATTTATCATTT
TAAGAGATCAAAGTAC
Found at i:20995525 original size:2 final size:2
Alignment explanation
Indices: 20995518--20995552 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20995508 CTTTTGTATT
20995518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20995553 GCTTCGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20995693 original size:2 final size:2
Alignment explanation
Indices: 20995686--20995717 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20995676 AGCTGATTAC
20995686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20995718 TCTTTTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21000278 original size:16 final size:16
Alignment explanation
Indices: 21000257--21000287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21000247 CAAAATTCTT
21000257 GGACAATCTTCTCATG
1 GGACAATCTTCTCATG
*
21000273 GGACAATCTTTTCAT
1 GGACAATCTTCTCAT
21000288 TCCATATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (16 bp):
GGACAATCTTCTCATG
Found at i:21005825 original size:16 final size:15
Alignment explanation
Indices: 21005799--21005832 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
21005789 ATTAATTTTT
21005799 AAATTTTAAAAATTA
1 AAATTTTAAAAATTA
21005814 AAATTATTAAAAATTA
1 AAATT-TTAAAAATTA
21005830 AAA
1 AAA
21005833 AGATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTTAAAAATTA
Found at i:21005865 original size:21 final size:19
Alignment explanation
Indices: 21005813--21005865 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
21005803 TTTAAAAATT
21005813 AAAATTATTAAAAATTAAA
1 AAAATTATTAAAAATTAAA
*
21005832 AAGATATTTTTAAAAATTTAAA
1 AA-A-ATTATTAAAAA-TTAAA
21005854 AAAATTAATTAA
1 AAAATT-ATTAA
21005866 TTATTGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 15 0.54
22 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATTATTAAAAATTAAA
Found at i:21009324 original size:17 final size:19
Alignment explanation
Indices: 21009291--21009326 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21009281 TCTCCATTTC
21009291 ACATTTTGCCTTCATTCTT
1 ACATTTTGCCTTCATTCTT
21009310 ACATTTT-CC-TCATTCTT
1 ACATTTTGCCTTCATTCTT
21009327 TCCGCAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.17, C:0.28, G:0.03, T:0.53
Consensus pattern (19 bp):
ACATTTTGCCTTCATTCTT
Found at i:21015717 original size:8 final size:9
Alignment explanation
Indices: 21015705--21015902 Score: 93
Period size: 9 Copynumber: 21.0 Consensus size: 9
21015695 TTATGATTTT
21015705 TTTTTATAA
1 TTTTTATAA
*
21015714 TTTTTATTA
1 TTTTTATAA
21015723 TTTTATATCAA
1 TTTT-TAT-AA
* *
21015734 TTTTAATAC
1 TTTTTATAA
21015743 TTTTTATAA
1 TTTTTATAA
*
21015752 TTTTTATGA
1 TTTTTATAA
21015761 TTTTTATAAA
1 TTTTTAT-AA
* * *
21015771 ATTTAATATG
1 TTTTTATA-A
21015781 TTTTTATAAA
1 TTTTTAT-AA
*
21015791 ATTTTA-AA
1 TTTTTATAA
21015799 TATGCTTTATTAA
1 T-T--TTTA-TAA
21015812 -TTTTATAAA
1 TTTTTAT-AA
*
21015821 TATTTTAGAA
1 T-TTTTATAA
*
21015831 -TTTTAT-G
1 TTTTTATAA
21015838 TTTTTGATAA
1 TTTTT-ATAA
*
21015848 TATTTATATA
1 TTTTTATA-A
21015858 TTTTT-TAA
1 TTTTTATAA
21015866 TTTTTATAA
1 TTTTTATAA
* *
21015875 GATTATATCAA
1 -TTTTTAT-AA
*
21015886 TTTTCAT-A
1 TTTTTATAA
21015894 TTTTTATAA
1 TTTTTATAA
21015903 AGATTTTCTG
Statistics
Matches: 140, Mismatches: 28, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
8 25 0.18
9 54 0.39
10 41 0.29
11 18 0.13
13 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21015737 original size:19 final size:18
Alignment explanation
Indices: 21015705--21015789 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 18
21015695 TTATGATTTT
*
21015705 TTTTTATAATTTTTATTA-
1 TTTTTATAA-TTTTAATAC
21015723 TTTTATATCAATTTTAATAC
1 TTTT-TAT-AATTTTAATAC
*
21015743 TTTTTATAATTTTTATGA-
1 TTTTTATAATTTTAAT-AC
* *
21015761 TTTTTATAAAATTTAATATG
1 TTTTTAT-AATTTTAATA-C
21015781 TTTTTATAA
1 TTTTTATAA
21015790 AATTTTAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
18 20 0.36
19 23 0.41
20 13 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTAATAC
Found at i:21015753 original size:38 final size:38
Alignment explanation
Indices: 21015705--21015789 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
21015695 TTATGATTTT
* * *
21015705 TTTTTATAATTTTTATTATTTTATATCAATTTTAATA-C
1 TTTTTATAATTTTTATGATTTT-TATAAAATTTAATATC
*
21015743 TTTTTATAATTTTTATGATTTTTATAAAATTTAATATG
1 TTTTTATAATTTTTATGATTTTTATAAAATTTAATATC
21015781 TTTTTATAA
1 TTTTTATAA
21015790 AATTTTAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 12 0.29
38 30 0.71
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (38 bp):
TTTTTATAATTTTTATGATTTTTATAAAATTTAATATC
Found at i:21015784 original size:20 final size:21
Alignment explanation
Indices: 21015756--21015794 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
21015746 TTATAATTTT
21015756 TATGATTTTTATAAAATTTAA
1 TATGATTTTTATAAAATTTAA
21015777 TATG-TTTTTATAAAATTT
1 TATGATTTTTATAAAATTT
21015795 TAAATATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TATGATTTTTATAAAATTTAA
Found at i:21015807 original size:21 final size:22
Alignment explanation
Indices: 21015763--21015823 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
21015753 TTTTATGATT
*
21015763 TTTATAAAA-TTT-AATATGTT
1 TTTATAAAATTTTAAATATGTC
21015783 TTTATAAAATTTTAAATATG-C
1 TTTATAAAATTTTAAATATGTC
* *
21015804 TTTATTAATTTTATAAATAT
1 TTTATAAAATTT-TAAATAT
21015824 TTTAGAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.26
21 13 0.37
22 13 0.37
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTATAAAATTTTAAATATGTC
Found at i:21015827 original size:20 final size:20
Alignment explanation
Indices: 21015744--21015836 Score: 52
Period size: 20 Copynumber: 4.8 Consensus size: 20
21015734 TTTTAATACT
* *
21015744 TTTTATAATTTTTAT-GAT-
1 TTTTATAAATTTTATAAATA
* * *
21015762 TTTTATAAAATTTA-ATATGT
1 TTTTATAAATTTTATAAAT-A
*
21015782 TTTTATAAAATTT-TAAATA
1 TTTTATAAATTTTATAAATA
*
21015801 TGCTTTATTAATTTTATAAATA
1 T--TTTATAAATTTTATAAATA
*
21015823 TTTTA-GAATTTTAT
1 TTTTATAAATTTTAT
21015837 GTTTTTGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
18 14 0.23
19 9 0.15
20 20 0.33
21 10 0.17
22 7 0.12
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTATAAATTTTATAAATA
Found at i:21019178 original size:93 final size:93
Alignment explanation
Indices: 21019050--21019282 Score: 315
Period size: 93 Copynumber: 2.5 Consensus size: 93
21019040 TGGTTTAGAG
* * * * * *
21019050 TGTAAGATTATTTAGTATATTATCATGTATATAATATTATCTTATTTTATCCATCTAGTTGGAGG
1 TGTAAGATTATTTAGTACACTATCAGGTATATAATATTATCTTATTTGATCCATCTAGTTAGAAG
*
21019115 GTAAAATTTTACTGTTTAGTTGATGGAA
66 GTAAAATTTTACTATTTAGTTGATGGAA
* * * * *
21019143 TGTAAAATTATTTAGTACACTATCAGGTATGTAATATTAGCTTATTTGATTCATTTAGTTAGAAG
1 TGTAAGATTATTTAGTACACTATCAGGTATATAATATTATCTTATTTGATCCATCTAGTTAGAAG
* *
21019208 GTAAAATTTTGCTATTTGGTTGATGGAA
66 GTAAAATTTTACTATTTAGTTGATGGAA
*
21019236 TGTAAGATTATTTAGTACAAC-ATCGGGTATATAATATTATCTTATTT
1 TGTAAGATTATTTAGTAC-ACTATCAGGTATATAATATTATCTTATTT
21019283 ATTTTATTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
93 119 0.98
94 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (93 bp):
TGTAAGATTATTTAGTACACTATCAGGTATATAATATTATCTTATTTGATCCATCTAGTTAGAAG
GTAAAATTTTACTATTTAGTTGATGGAA
Found at i:21019304 original size:93 final size:93
Alignment explanation
Indices: 21019050--21019310 Score: 305
Period size: 93 Copynumber: 2.8 Consensus size: 93
21019040 TGGTTTAGAG
* ** * * * *
21019050 TGTAAGATTATTTAGTATATTATCATGTATATAATATTATCTTATTT-TATCCATCTAGTTGGAG
1 TGTAAGATTATTTAGTACAACATCAGGTATATAATATTATCTTATTTAT-TTCATTTAGTTAGAG
*
21019114 GGTAAAATTTTACTGTTTAGTTGATGGAA
65 GGTAAAATTTTACTATTTAGTTGATGGAA
* * *
21019143 TGTAAAATTATTTAGTAC-ACTATCAGGTATGTAATATTAGCTTATTTGA-TTCATTTAGTTAGA
1 TGTAAGATTATTTAGTACAAC-ATCAGGTATATAATATTATCTTATTT-ATTTCATTTAGTTAGA
* * *
21019206 AGGTAAAATTTTGCTATTTGGTTGATGGAA
64 GGGTAAAATTTTACTATTTAGTTGATGGAA
* * *
21019236 TGTAAGATTATTTAGTACAACATCGGGTATATAATATTATCTTATTTATTTTATTTTGCTT-GAG
1 TGTAAGATTATTTAGTACAACATCAGGTATATAATATTATCTTATTTATTTCATTTAG-TTAGAG
21019300 GGTAAAATTTT
65 GGTAAAATTTT
21019311 TGATAAATTG
Statistics
Matches: 141, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
92 1 0.01
93 136 0.96
94 4 0.03
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (93 bp):
TGTAAGATTATTTAGTACAACATCAGGTATATAATATTATCTTATTTATTTCATTTAGTTAGAGG
GTAAAATTTTACTATTTAGTTGATGGAA
Found at i:21020196 original size:16 final size:16
Alignment explanation
Indices: 21020175--21020225 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
21020165 TATGATTGAA
21020175 ATATTACCTGAAGAAT
1 ATATTACCTGAAGAAT
** *
21020191 ATATTAAAT-TA-AA-
1 ATATTACCTGAAGAAT
21020204 ATATTACCTGAAGAAT
1 ATATTACCTGAAGAAT
21020220 ATATTA
1 ATATTA
21020226 AATAATTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 7 0.27
14 3 0.12
15 3 0.12
16 13 0.50
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (16 bp):
ATATTACCTGAAGAAT
Found at i:21020205 original size:29 final size:29
Alignment explanation
Indices: 21020173--21020228 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
21020163 AATATGATTG
21020173 AAATATTACCTGAAGAATATATTAAATTA
1 AAATATTACCTGAAGAATATATTAAATTA
21020202 AAATATTACCTGAAGAATATATTAAAT
1 AAATATTACCTGAAGAATATATTAAAT
21020229 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATATTACCTGAAGAATATATTAAATTA
Found at i:21020226 original size:24 final size:26
Alignment explanation
Indices: 21020162--21020227 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
21020152 AATAATAAAT
* *
21020162 AAATATGATTGAAATATTACCTGAAG
1 AAATATAATTAAAATATTACCTGAAG
21020188 AATATATTAAATTAAAATATTACCTGAAG
1 AA-ATA-T-AATTAAAATATTACCTGAAG
21020217 -AATAT-ATTAAA
1 AAATATAATTAAA
21020228 TAATTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 6 0.17
26 3 0.09
27 6 0.17
28 2 0.06
29 18 0.51
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATATAATTAAAATATTACCTGAAG
Found at i:21032418 original size:35 final size:35
Alignment explanation
Indices: 21032330--21032418 Score: 128
Period size: 36 Copynumber: 2.6 Consensus size: 35
21032320 TTTTTTTCTA
21032330 ATTTTTTT--TATTGATTTTGATATATTCACATAT
1 ATTTTTTTCATATTGATTTTGATATATTCACATAT
* *
21032363 ACTTTTTTCATATTTGATTTTGATATATTCACGTAT
1 ATTTTTTTCATA-TTGATTTTGATATATTCACATAT
*
21032399 ATTTTTTTCATATTCATTTT
1 ATTTTTTTCATATTGATTTT
21032419 ATTTTTCTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 7 0.14
35 9 0.18
36 33 0.67
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.61
Consensus pattern (35 bp):
ATTTTTTTCATATTGATTTTGATATATTCACATAT
Found at i:21033020 original size:39 final size:39
Alignment explanation
Indices: 21032966--21033043 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
21032956 AAACTATGAA
21032966 GAAGAAAGGGGAAATACTATGTTGAATCTATACAAAAGG
1 GAAGAAAGGGGAAATACTATGTTGAATCTATACAAAAGG
21033005 GAAGAAAGGGGAAATACTATGTTGAATCTATACAAAAGG
1 GAAGAAAGGGGAAATACTATGTTGAATCTATACAAAAGG
21033044 TAACATTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (39 bp):
GAAGAAAGGGGAAATACTATGTTGAATCTATACAAAAGG
Found at i:21036336 original size:21 final size:21
Alignment explanation
Indices: 21036312--21036405 Score: 134
Period size: 21 Copynumber: 4.5 Consensus size: 21
21036302 GGCACATAAA
* *
21036312 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
21036333 GTGCCTGATACGACACACGAA
1 GTGCCTGATACGACACACGAG
21036354 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
** *
21036375 GTGCCTGATACGACACATAAA
1 GTGCCTGATACGACACACGAG
21036396 GTGCCTGATA
1 GTGCCTGATA
21036406 GATAAAGCCG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:21036402 original size:42 final size:42
Alignment explanation
Indices: 21036298--21036405 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 42
21036288 CCTGATCAGT
* * *
21036298 ATACGGCACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
**
21036340 ATACGACACACGAAGTGCCTGATACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
21036382 ATACGACACATAAAGTGCCTGATA
1 ATACGACACATAAAGTGCCTGATA
21036406 GATAAAGCCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGATACGACACACGAGGTGCCTG
Found at i:21036800 original size:15 final size:15
Alignment explanation
Indices: 21036775--21036832 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
21036765 TCATATATAT
21036775 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
21036791 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
21036806 AATAATTTCAATCAA
1 TATAAATTCAATCAA
21036821 TATAAATTCAAT
1 TATAAATTCAAT
21036833 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:21038163 original size:8 final size:8
Alignment explanation
Indices: 21038150--21038178 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
21038140 TATCTTTATT
21038150 ATATAATA
1 ATATAATA
21038158 ATATAATA
1 ATATAATA
21038166 ATATAATA
1 ATATAATA
21038174 ATATA
1 ATATA
21038179 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:21042079 original size:15 final size:16
Alignment explanation
Indices: 21042059--21042088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21042049 TTTTATTTTT
21042059 ATATAT-AAAAATATA
1 ATATATCAAAAATATA
21042074 ATATATCAAAAATAT
1 ATATATCAAAAATAT
21042089 TAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATATCAAAAATATA
Found at i:21042299 original size:22 final size:22
Alignment explanation
Indices: 21042238--21042301 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
21042228 TCCGGACAAT
* * *
21042238 AACAACATAATAGTTAAATGAC
1 AACAAAATAATAGTAAAATAAC
* * *
21042260 AATAAAATAGTAGAAAAATAAC
1 AACAAAATAATAGTAAAATAAC
*
21042282 AACAAAATAACAGTAAAATA
1 AACAAAATAATAGTAAAATA
21042302 GTAGGATTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.19
Consensus pattern (22 bp):
AACAAAATAATAGTAAAATAAC
Found at i:21047436 original size:5 final size:5
Alignment explanation
Indices: 21047426--21047453 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21047416 AAAAAACCAT
21047426 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
21047454 GCTCGACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:21052573 original size:156 final size:155
Alignment explanation
Indices: 21052291--21052752 Score: 431
Period size: 156 Copynumber: 3.0 Consensus size: 155
21052281 GCTTATGTAG
* *
21052291 AAAACGCCGCAAAAA-ATAAAGCATTAGCGGCG-TTTA-TAAAAGAACACCGCAATGGCTGACAC
1 AAAACGCCGCAAAAACTTAAAGCATTAGCGGCGTTTTAGT-AAA-AACGCCGCAATGG-TGACAC
* * * **
21052353 ATTAGCGGCGGTTGTCAAAAAACGCCGCAAAAGTGTTGAGCAAAACGGTGCCGTATGTTTGTGAG
63 ATTAGCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAG
* *
21052418 CTCTTTTGAGGCATTAGCGGTGTTT-TACCA
128 --CTATTGAGGCATTAGCGGCGTTTCT-CCA
* * * *
21052448 AAAACGCCGCTATAACTTCAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAATAGGTGACGCAT
1 AAAACGCCGCAAAAACTTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAAT-GGTGACACAT
* * * *
21052513 TA-CGGCGGTT-TCTACAAACGTCACAAAAGTATTGAGCAAAACGGCGCCGTGTGTAGGTGAGCT
65 TAGCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAGCT
**
21052576 ATTGAGGCATTAGCGGCGTTTCTCGT
130 ATTGAGGCATTAGCGGCGTTTCTCCA
* * * *
21052602 AAAACGCCGCAAAAAGTTAAAGCATTAGCGGCGTTTTTGTAAAAGCGCCGCAATGGGTGA-AGTA
1 AAAACGCCGCAAAAACTTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAAT-GGTGACA-CA
* * * * * * * * * *
21052666 TTAGCGAC-GTTTTTATCAAAACGCCGCAGAAGTGTTGAGCAATACGGCGCCATCCAT-TA-GTT
64 TTAGCGGCGGTTGTCA-AAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGT--ATGTAGGTG
* *
21052728 AGCTATTGGGGAATTAGCGGCGTTT
126 AGCTATTGAGGCATTAGCGGCGTTT
21052753 GTTTTTAAAA
Statistics
Matches: 251, Mismatches: 43, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
154 82 0.33
155 5 0.02
156 96 0.38
157 23 0.09
158 35 0.14
159 9 0.04
160 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (155 bp):
AAAACGCCGCAAAAACTTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAATGGTGACACATT
AGCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAGCTA
TTGAGGCATTAGCGGCGTTTCTCCA
Found at i:21052632 original size:154 final size:155
Alignment explanation
Indices: 21052291--21052657 Score: 431
Period size: 154 Copynumber: 2.4 Consensus size: 155
21052281 GCTTATGTAG
* *
21052291 AAAACGCCGCAAAAAATAAAGCATTAGCGGCG-TTTA-TAAAAGAACACCGCAATGGCTGACACA
1 AAAACGCCGCAAAAATTAAAGCATTAGCGGCGTTTTAGT-AAA-AACGCCGCAATGG-TGACACA
* * * **
21052354 TTAGCGGCGGTTGTCAAAAAACGCCGCAAAAGTGTTGAGCAAAACGGTGCCGTATGTTTGTGAGC
63 TTAGCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAGC
* *
21052419 TCTTTTGAGGCATTAGCGGTGTTTTACCA
128 -CTATTGAGGCATTAGCGGCGTTTTACCA
* * * *
21052448 AAAACGCCGCTATAACTTCAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAATAGGTGACGCAT
1 AAAACGCCGC-AAAAATTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAAT-GGTGACACAT
* * * *
21052513 TA-CGGCGGTT-TCTACAAACGTCACAAAAGTATTGAGCAAAACGGCGCCGTGTGTAGGTGAG-C
64 TAGCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAGCC
**
21052575 TATTGAGGCATTAGCGGCGTTTCT-CGT
129 TATTGAGGCATTAGCGGCGTTT-TACCA
* *
21052602 AAAACGCCGCAAAAAGTTAAAGCATTAGCGGCGTTTTTGTAAAAGCGCCGCAATGG
1 AAAACGCCGCAAAAA-TTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAATGG
21052658 GTGAAGTATT
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
153 5 0.03
154 67 0.37
155 1 0.01
156 42 0.23
157 18 0.10
158 37 0.21
159 9 0.05
160 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (155 bp):
AAAACGCCGCAAAAATTAAAGCATTAGCGGCGTTTTAGTAAAAACGCCGCAATGGTGACACATTA
GCGGCGGTTGTCAAAAAACGCCACAAAAGTATTGAGCAAAACGGCGCCGTATGTAGGTGAGCCTA
TTGAGGCATTAGCGGCGTTTTACCA
Found at i:21052669 original size:40 final size:39
Alignment explanation
Indices: 21052582--21052693 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
21052572 AGCTATTGAG
* *
21052582 GCATTAGCGGCGTTTCTCGTAAAACGCCGCAAAAAGTTAAA
1 GCATTAGCGGCGTTT-TTGTAAAACGCCGC-AAAAGGTAAA
** *
21052623 GCATTAGCGGCGTTTTTGTAAAAGCGCCGCAATGGGTGAA
1 GCATTAGCGGCGTTTTTGTAAAA-CGCCGCAAAAGGTAAA
* * *
21052663 GTATTAGCGACGTTTTTATCAAAACGCCGCA
1 GCATTAGCGGCGTTTTTGT-AAAACGCCGCA
21052694 GAAGTGTTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
40 36 0.59
41 25 0.41
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (39 bp):
GCATTAGCGGCGTTTTTGTAAAACGCCGCAAAAGGTAAA
Found at i:21053081 original size:2 final size:2
Alignment explanation
Indices: 21053036--21053062 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21053026 TGTCCCTTGT
21053036 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21053063 TAAAACTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21053391 original size:15 final size:15
Alignment explanation
Indices: 21053371--21053425 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
21053361 TACTTATGGT
21053371 TGGTTTAGGGGTTAA
1 TGGTTTAGGGGTTAA
* *
21053386 TGGTTTTGGGGTTTA
1 TGGTTTAGGGGTTAA
*
21053401 TGGTTTTAGGGTTTAA
1 TGG-TTTAGGGGTTAA
*
21053417 -AGTTTAGGG
1 TGGTTTAGGG
21053426 TTAGGGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 7 0.21
15 17 0.52
16 9 0.27
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.45
Consensus pattern (15 bp):
TGGTTTAGGGGTTAA
Found at i:21056106 original size:14 final size:13
Alignment explanation
Indices: 21056083--21056112 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21056073 ATTACTATAA
21056083 TAATTATATGAAG
1 TAATTATATGAAG
21056096 TAATATATATGAAG
1 TAAT-TATATGAAG
21056110 TAA
1 TAA
21056113 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:21056589 original size:15 final size:15
Alignment explanation
Indices: 21056569--21056597 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21056559 GGAGTAGACC
21056569 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
21056584 AGGTACGTTTTATT
1 AGGTACGTTTTATT
21056598 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:21057378 original size:272 final size:273
Alignment explanation
Indices: 21056859--21057529 Score: 1328
Period size: 272 Copynumber: 2.5 Consensus size: 273
21056849 CTAACCTTAT
21056859 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
21056924 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACG-CACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
21056988 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTATTTCCAATTTACTTATAA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTATTTCCAATTTACTTATAA
21057053 AAATTAAACTACGATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAATG
196 AAATTAAACTACGATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAATG
21057118 TTTGATTTTAATA
261 TTTGATTTTAATA
21057131 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
21057196 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
21057261 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTATTTCCAATTTACTTATAA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTATTTCCAATTTACTTATAA
21057326 AAATTAAACTACGATTCTTTTTTATATTATTATATTTAAATTACTA-TTTTTTATATTAATAATG
196 AAATTAAACTACGATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAATG
21057390 TTTGATTTTAATA
261 TTTGATTTTAATA
21057403 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
21057468 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
21057530 TGTATGTTTC
Statistics
Matches: 398, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
272 259 0.65
273 139 0.35
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (273 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTATTTCCAATTTACTTATAA
AAATTAAACTACGATTCTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAATG
TTTGATTTTAATA
Found at i:21057676 original size:23 final size:24
Alignment explanation
Indices: 21057621--21057687 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
21057611 ATTATTATTG
*
21057621 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
21057645 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
21057669 -AATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
21057688 CCGTTTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 2 0.05
23 16 0.40
24 20 0.50
25 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:21058018 original size:9 final size:9
Alignment explanation
Indices: 21058006--21058231 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
21057996 TATTTGATAT
*
21058006 CATAATTTA
1 CATAACTTA
21058015 CATAACTTA
1 CATAACTTA
* *
21058024 TATAACATA
1 CATAACTTA
*
21058033 TATAACTTA
1 CATAACTTA
21058042 CATAACTTA
1 CATAACTTA
* *
21058051 TATAACATA
1 CATAACTTA
21058060 CATAACTTA
1 CATAACTTA
*
21058069 TATAACTTA
1 CATAACTTA
*
21058078 TATAACTTA
1 CATAACTTA
* *
21058087 GATAA-ATA
1 CATAACTTA
*
21058095 TATAACTTA
1 CATAACTTA
21058104 CATAACTTA
1 CATAACTTA
21058113 CATAATACTTA
1 CAT-A-ACTTA
* *
21058124 AATATATTTTATA
1 CATA-A--CT-TA
*
21058137 TCATAATTTA
1 -CATAACTTA
21058147 CATAACTTA
1 CATAACTTA
21058156 CATAACTTA
1 CATAACTTA
*
21058165 TATAACTTA
1 CATAACTTA
* *
21058174 GATAA-ATA
1 CATAACTTA
* *
21058182 TATAATTTA
1 CATAACTTA
*
21058191 CATAA-ATA
1 CATAACTTA
* * *
21058199 TATATCATA
1 CATAACTTA
*
21058208 TCATAAATTA
1 -CATAACTTA
21058218 CATAACTTA
1 CATAACTTA
21058227 CATAA
1 CATAA
21058232 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:21058028 original size:18 final size:18
Alignment explanation
Indices: 21058006--21058231 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
21057996 TATTTGATAT
* *
21058006 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
21058024 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
21058042 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
21058060 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
21058078 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
21058095 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
21058113 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
21058137 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
21058156 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
21058174 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
21058191 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
21058208 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
21058227 CATAA
1 CATAA
21058232 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:21058219 original size:114 final size:114
Alignment explanation
Indices: 21058034--21058255 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
21058024 TATAACATAT
* * *
21058034 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
21058099 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
21058148 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
21058211 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
21058256 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:21063900 original size:21 final size:21
Alignment explanation
Indices: 21063867--21063917 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
21063857 ACAACTTAGA
*
21063867 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
21063888 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
21063909 GCAGAGGCA
1 GCAGAGGCA
21063918 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:21064422 original size:43 final size:43
Alignment explanation
Indices: 21064315--21064512 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
21064305 AAAAGCGACA
* *
21064315 CTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
**
21064358 CTAAAAAGCCTTGATGTTTAGCGGCGCTTCTCCCACAAACGCCG
1 CT-AAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
*
21064402 CTAAAAGCCTTGACCTTTAGCAGCGCTTCTCCCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
21064445 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
1 CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
21064488 CTAAAAGCCTTGACCTTTAGCGGCG
1 CTAAAAGCCTTGACCTTTAGCGGCG
21064513 TCTTTTTCCA
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
43 107 0.73
44 39 0.27
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (43 bp):
CTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGCCG
Found at i:21078135 original size:24 final size:25
Alignment explanation
Indices: 21078097--21078148 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
21078087 ACACATTAGC
21078097 AAACAAAAATATATAAATAT-AAAT
1 AAACAAAAATATATAAATATAAAAT
* * *
21078121 AAACAAATATTTATATATATAAAAT
1 AAACAAAAATATATAAATATAAAAT
21078146 AAA
1 AAA
21078149 TTGAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAACAAAAATATATAAATATAAAAT
Found at i:21079544 original size:10 final size:10
Alignment explanation
Indices: 21079531--21079574 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
21079521 AGAAATATTT
21079531 AAAATTCATA
1 AAAATTCATA
21079541 AAAATT-ATA
1 AAAATTCATA
*
21079550 AAAATTTAATA
1 AAAA-TTCATA
*
21079561 AAAATTCACA
1 AAAATTCATA
21079571 AAAA
1 AAAA
21079575 ATAGCTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 7 0.23
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTCATA
Found at i:21079545 original size:19 final size:20
Alignment explanation
Indices: 21079503--21079545 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
21079493 TCATGTCAAC
*
21079503 AAATAATTTAAAATATATAG
1 AAATAATTTAAAATATATAA
21079523 AAAT-ATTTAAAAT-TCATAA
1 AAATAATTTAAAATAT-ATAA
21079542 AAAT
1 AAAT
21079546 TATAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.76
20 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAATTTAAAATATATAA
Found at i:21080180 original size:21 final size:21
Alignment explanation
Indices: 21080156--21080196 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21080146 TAATTAATTT
* *
21080156 TAAATTTTTATGATATAAAAA
1 TAAATATTTAAGATATAAAAA
*
21080177 TAAATATTTAAGATTTAAAA
1 TAAATATTTAAGATATAAAA
21080197 TAGTGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAATATTTAAGATATAAAAA
Found at i:21081632 original size:20 final size:19
Alignment explanation
Indices: 21081607--21081644 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21081597 AATTAATGAG
*
21081607 TATTAATTTATCATATTAAT
1 TATTAAATTATCAT-TTAAT
21081627 TATTAAATTATCATTTAA
1 TATTAAATTATCATTTAA
21081645 AGCTCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATTATCATTTAAT
Found at i:21081934 original size:48 final size:42
Alignment explanation
Indices: 21081843--21081923 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
21081833 CAAATTGACG
21081843 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
1 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
* * *
21081885 GAGTTAACTAAAGTGTGCTAAAACTAAAAGTACGAACTA
1 GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTA
21081924 CCCAATTCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (42 bp):
GAGTTAACTAAACTGAGCTAAAACTAAAAGTAAGAACTATCC
Found at i:21082904 original size:23 final size:22
Alignment explanation
Indices: 21082885--21082944 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
21082875 TATATGTTGA
21082885 TGAACATATTCGTTTAATGTTTG
1 TGAAC-TATTCGTTTAATGTTTG
21082908 TGAAC---TCGTTTAATGTTTG
1 TGAACTATTCGTTTAATGTTTG
*
21082927 TGAACGTATTCATTTAAT
1 TGAAC-TATTCGTTTAAT
21082945 TTAAATGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 19 0.59
23 13 0.41
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (22 bp):
TGAACTATTCGTTTAATGTTTG
Found at i:21082918 original size:19 final size:19
Alignment explanation
Indices: 21082894--21082931 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21082884 ATGAACATAT
21082894 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
21082913 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
21082932 GTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGTTTAATGTTTGTGAAC
Found at i:21086863 original size:20 final size:20
Alignment explanation
Indices: 21086838--21086884 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21086828 ACATATATAA
*
21086838 ATACATATATACA-GACATGC
1 ATACATAAATACATG-CATGC
21086858 ATACATAAATACATGCATGC
1 ATACATAAATACATGCATGC
*
21086878 ATGCATA
1 ATACATA
21086885 CAAAGAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (20 bp):
ATACATAAATACATGCATGC
Found at i:21089447 original size:22 final size:22
Alignment explanation
Indices: 21089422--21089463 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
21089412 TTAAAAAGTT
21089422 TGACACTTATTTGAACAAACTA
1 TGACACTTATTTGAACAAACTA
21089444 TGACACTTATTTGAACAAAC
1 TGACACTTATTTGAACAAAC
21089464 GATAAGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (22 bp):
TGACACTTATTTGAACAAACTA
Found at i:21091208 original size:2 final size:2
Alignment explanation
Indices: 21091201--21091244 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
21091191 ATTAAATACA
21091201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21091243 AT
1 AT
21091245 GCTTACGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21092891 original size:22 final size:22
Alignment explanation
Indices: 21092865--21092907 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21092855 TGAGAGAAAC
21092865 TGTTAAAAAAACTGATGTGACT
1 TGTTAAAAAAACTGATGTGACT
21092887 TGTTAAAAAAACTGATGTGAC
1 TGTTAAAAAAACTGATGTGAC
21092908 AGGGATGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (22 bp):
TGTTAAAAAAACTGATGTGACT
Found at i:21092969 original size:27 final size:27
Alignment explanation
Indices: 21092921--21092990 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
21092911 GATGGAGGGC
* *
21092921 ATGCTAGAGGCTGCACTGGTGAAGCCT
1 ATGCCAGAGGCGGCACTGGTGAAGCCT
* * *
21092948 GTGGCAGAGGCGGCAC-GAGTGAAGCTT
1 ATGCCAGAGGCGGCACTG-GTGAAGCCT
*
21092975 ATGCCATAGGCGGCAC
1 ATGCCAGAGGCGGCAC
21092991 CCACTCCCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (27 bp):
ATGCCAGAGGCGGCACTGGTGAAGCCT
Found at i:21093509 original size:17 final size:17
Alignment explanation
Indices: 21093489--21093537 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
21093479 ATTGAGAAAA
21093489 TTTTTTAGTATTTTATT
1 TTTTTTAGTATTTTATT
*
21093506 TTTTTTGGTATTTTATT
1 TTTTTTAGTATTTTATT
* *
21093523 TTTTATAATATTTTA
1 TTTTTTAGTATTTTA
21093538 GTAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTTAGTATTTTATT
Found at i:21093692 original size:27 final size:27
Alignment explanation
Indices: 21093662--21093729 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
21093652 GGGAGAGTGG
* * * *
21093662 GTGCCGCCTATGGCATAGGTTTCACTA
1 GTGCCGCCTCTGGCACAGGCTTCACCA
* *
21093689 GTGCTGCCTCTGCCACAGGCTTCACCA
1 GTGCCGCCTCTGGCACAGGCTTCACCA
*
21093716 GTGTCGCCTCTGGC
1 GTGCCGCCTCTGGC
21093730 GTGCCCTCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
GTGCCGCCTCTGGCACAGGCTTCACCA
Found at i:21093795 original size:26 final size:27
Alignment explanation
Indices: 21093743--21093795 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
21093733 CCCTCCATCC
* *
21093743 CTGTCACATCAATTTTTTTAACTGTTT
1 CTGTCACATCAATATTTTTAACAGTTT
21093770 CTGTCACATCAA-ATTTTTAACAGTTT
1 CTGTCACATCAATATTTTTAACAGTTT
21093796 TTTTTTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (27 bp):
CTGTCACATCAATATTTTTAACAGTTT
Found at i:21093802 original size:14 final size:14
Alignment explanation
Indices: 21093783--21093821 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
21093773 TCACATCAAA
21093783 TTTTTAACAGTTTT
1 TTTTTAACAGTTTT
*
21093797 TTTTTAACTAATTTT
1 TTTTTAAC-AGTTTT
*
21093812 TTTTAAACAG
1 TTTTTAACAG
21093822 AGGTTGTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTTAACAGTTTT
Found at i:21096044 original size:20 final size:20
Alignment explanation
Indices: 21096019--21096072 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
21096009 TGCAAATGGG
21096019 CAGGCCACAAGGGCATGTTC
1 CAGGCCACAAGGGCATGTTC
* *
21096039 CAGGCCACATGGGCATGTTT
1 CAGGCCACAAGGGCATGTTC
* *
21096059 TAGGCCACACGGGC
1 CAGGCCACAAGGGC
21096073 GTGTGCCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGCCACAAGGGCATGTTC
Found at i:21096193 original size:22 final size:22
Alignment explanation
Indices: 21096138--21096186 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
21096128 ACTTCTAAAA
21096138 CATATATAGGGCCCTGTAGGCC
1 CATATATAGGGCCCTGTAGGCC
21096160 CATATATAGGGCCCTGTAGGCC
1 CATATATAGGGCCCTGTAGGCC
21096182 CATAT
1 CATAT
21096187 TAAGGGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
CATATATAGGGCCCTGTAGGCC
Found at i:21104517 original size:24 final size:23
Alignment explanation
Indices: 21104490--21104539 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
21104480 TATTACTAAA
*
21104490 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
21104514 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
21104537 ATA
1 ATA
21104540 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:21107937 original size:6 final size:6
Alignment explanation
Indices: 21107926--21107950 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21107916 GTCATGTGCA
21107926 TTAGTG TTAGTG TTAGTG TTAGTG T
1 TTAGTG TTAGTG TTAGTG TTAGTG T
21107951 GCATGAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTAGTG
Found at i:21110746 original size:40 final size:40
Alignment explanation
Indices: 21110683--21110840 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
21110673 CGGATGTAAC
* *
21110683 AACCAGCACAAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
*
21110723 AACCCGCACAAATGCCTTCGGGACTCAACCCGGTTATAAT
1 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
*
21110763 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
21110803 AACCCGCACGAATGCCTTCGGGACTTAACCTGGTTATA
1 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATA
21110841 TTTTTTTTTC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:21113014 original size:93 final size:94
Alignment explanation
Indices: 21112902--21113072 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
21112892 GCCCATAAGT
*
21112902 GAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTCGCAACCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTC-GGACAGTTCACAACCATAAGTGAACTCGGACTCAACTC
21112965 AACGAGTTCGGATGCCTAGTTACATCTCAC
65 AACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
21112995 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCGACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCACAACCATAAGTGAACTCGGACTCAACTCA
*
21113060 ACGGGTTCGGATG
66 ACGAGTTCGGATG
21113073 TTCAACCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
92 2 0.03
93 26 0.37
94 42 0.60
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCACAACCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21113046 original size:47 final size:47
Alignment explanation
Indices: 21112894--21113070 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
21112884 TGTAACCCGC
* * *
21112894 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTCGCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACAGTTCACAT
21112940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * *
21112990 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
* *
21113034 CCATAAGTGAACTCGGACTCGACTCAACGGGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21113071 TGTTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 3 0.03
46 35 0.32
47 56 0.50
48 2 0.02
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:21120520 original size:46 final size:46
Alignment explanation
Indices: 21120453--21120626 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
21120443 ATGTAACCGC
* * *
21120453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTACAT
* * *
21120499 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGGC-ATTTACAT
* * *
21120547 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTT-ACAT
* *
21120591 CCATAAGTGAACTCGAACTCAACTTAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
21120627 ATGTTCAACC
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 27 0.25
46 37 0.35
47 29 0.27
48 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTACAT
Found at i:21127637 original size:11 final size:12
Alignment explanation
Indices: 21127613--21127641 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21127603 TGGTTAATTT
21127613 AATTTAAGTTAA
1 AATTTAAGTTAA
21127625 AATTTAA-TTAA
1 AATTTAAGTTAA
21127636 AATTTA
1 AATTTA
21127642 CATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
AATTTAAGTTAA
Found at i:21133517 original size:632 final size:632
Alignment explanation
Indices: 21132033--21133645 Score: 2928
Period size: 632 Copynumber: 2.5 Consensus size: 632
21132023 CCCTTGATCG
*
21132033 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCTTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
**
21132098 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATACATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
21132163 CCTGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
* *
21132228 CTGTTTCATCCCCCCCCCCCCCCAAAAAAAAAAAAAAGAAAAATAATAGTAATAATAAAAGGATA
196 CTGTTTCAT---CCCCCCCCCCC---AAAAAAAAAAA-AATAATAATAATAATAA-AAAA--A-A
*
21132293 AAGGAGCATTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTC-TTTACCTTCAAAATCCC
250 AAGGAGCATTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCC
21132357 ATATCAGCTATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAAC
315 ATATCAGCTATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAAC
21132422 AACAGTAAGAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCT
380 AACAGTAAGAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCT
21132487 GGAGCATAGAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATC
445 GGAGCATAGAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATC
21132552 TTCATCTGTTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAAC
510 TTCATCTGTTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAAC
21132617 CCAAAGACATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
575 CCAAAGACATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
21132675 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
*
21132740 ACTTTTAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
21132805 CCAGTGTAGTTCTTTGGCCAAATCACTTTGGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
21132870 CTGTTTCAT-CCCCCCCCCCAAAAAAAAATAATAATAATAATAATAA-AAAAAAAAAAGGAGCAT
196 CTGTTTCATCCCCCCCCCCCAAAAAAAAA-AA-AATAATAATAATAATAAAAAAAAAAGGAGCAT
* *
21132933 TCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCTCACATCAGCT
259 TCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCT
21132998 ATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAG
324 ATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAG
21133063 AAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAG
389 AAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAG
*
21133128 AGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTTATCTGT
454 AGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGT
*
21133193 TGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTT-GAACTCGCAAACCCAAAGACG
519 TGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACA
*
21133257 TGATGTATCTGTGAATTGGGATCTGTATACCTCAAATCTATTGGCACAT
584 TGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
21133306 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
*
21133371 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACGTCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
21133436 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
21133501 CTGTTTCATCCCCCCCCCCCAAAAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATT
196 CTGTTTCATCCCCCCCCCCCAAAAAAAAAAAAATAATAATAATAATAAAA-AAAAAAGGAGCATT
*
21133566 TCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTA
260 CCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTA
21133631 TCAAACAATGAACAC
325 TCAAACAATGAACAC
21133646 TTTGCTTTTT
Statistics
Matches: 945, Mismatches: 21, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
630 14 0.01
631 323 0.34
632 371 0.39
634 4 0.00
635 11 0.01
636 14 0.01
638 10 0.01
642 198 0.21
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (632 bp):
ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
CTGTTTCATCCCCCCCCCCCAAAAAAAAAAAAATAATAATAATAATAAAAAAAAAAGGAGCATTC
CTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTAT
CAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAA
AAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAG
AAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGTTG
TCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACATG
ATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
Found at i:21134296 original size:48 final size:48
Alignment explanation
Indices: 21134228--21134386 Score: 239
Period size: 48 Copynumber: 3.3 Consensus size: 48
21134218 AAGGTATATT
* * * * *
21134228 TGTCTTTCACTATTTGCACTCTTAGAGTTGGTAC-TTTATTATATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTA-TGTATGGCA
21134276 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
* *
21134324 TGTTATTCATTATTTTCACTCTTAGATTTTGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
21134372 TGTCATTCATTATTT
1 TGTCATTCATTATTT
21134387 ATATTGATAA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
48 98 0.96
49 4 0.04
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (48 bp):
TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
Found at i:21139415 original size:3 final size:3
Alignment explanation
Indices: 21139407--21139433 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21139397 CACACCAAAA
21139407 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
21139434 GGTAAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21139906 original size:12 final size:12
Alignment explanation
Indices: 21139889--21139913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21139879 TATTTTCCAG
21139889 AAACTTGAGCAA
1 AAACTTGAGCAA
21139901 AAACTTGAGCAA
1 AAACTTGAGCAA
21139913 A
1 A
21139914 GAAGCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAACTTGAGCAA
Found at i:21143535 original size:3 final size:3
Alignment explanation
Indices: 21143527--21143557 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21143517 GGTGACCCTG
*
21143527 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
21143558 ACTTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21145493 original size:13 final size:14
Alignment explanation
Indices: 21145468--21145501 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
21145458 TAAAGGTCTT
21145468 TCTTTATTTTAATA
1 TCTTTATTTTAATA
21145482 TCTTTA-TTTAATA
1 TCTTTATTTTAATA
21145495 TCATTTA
1 TC-TTTA
21145502 GAAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTTATTTTAATA
Found at i:21147144 original size:28 final size:26
Alignment explanation
Indices: 21147094--21147151 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
21147084 ACTACTATTT
21147094 TATTGTTATTATTTGGATATTGTATAAC
1 TATTGTTATTATTTGGATATTGT-T-AC
* *
21147122 TATTGTT-TTATTGTTGATTTTGTTAC
1 TATTGTTATTATT-TGGATATTGTTAC
21147148 TATT
1 TATT
21147152 TTAGAGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
27 6 0.22
28 15 0.56
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.60
Consensus pattern (26 bp):
TATTGTTATTATTTGGATATTGTTAC
Found at i:21160997 original size:18 final size:18
Alignment explanation
Indices: 21160974--21161016 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21160964 GAATAGATTT
21160974 TTAATTAAATAAAATT-AA
1 TTAATTAAA-AAAATTAAA
*
21160992 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAAATTAAA
21161010 TTAATTA
1 TTAATTA
21161017 CACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:21162751 original size:132 final size:131
Alignment explanation
Indices: 21162391--21162822 Score: 470
Period size: 132 Copynumber: 3.3 Consensus size: 131
21162381 GGTAGAAGGT
* * * *
21162391 CGCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATGGTGAAATGCTTGATGAAAA
1 CGCTACGAGAAAGATCAAAATACATCCAGAGATGGTGATGGTGATGGTGATATGCTTGATGAAAA
** ** * * * * * *
21162456 TAGATCTACTGGCTCTCATAGTGAGGAGCAAGATCAGCACTTATTGGTAGAAGGGCGACGTAATG
66 TAGATCTACTGATTCTCATAGCAAGGAGCACGGTGAGAACTTATCGGTAGAA-GGCCACGTAATG
*
21162521 GT
130 GA
* * * * * *
21162523 TGCTATGAGAAGGAACAAAATGCATCCAGAGA---T-A--GTGATGGTGATATGCTCGATGAAAA
1 CGCTACGAGAAAGATCAAAATACATCCAGAGATGGTGATGGTGATGGTGATATGCTTGATGAAAA
*
21162582 TAGATCTACTGATTCTCGTAGCAAGGAGCACGGTGAGAAGC-TATCGGTAGAAGGCCAACGTAAT
66 TAGATCTACTGATTCTCATAGCAAGGAGCACGGTGAGAA-CTTATCGGTAGAAGGCC-ACGTAAT
21162646 GGA
129 GGA
* * *
21162649 CGCTACGAGAAAGATCAAAATACTTCCAGAGATGGTGATGGTGATGGTGATATGGTTGATGAAAG
1 CGCTACGAGAAAGATCAAAATACATCCAGAGATGGTGATGGTGATGGTGATATGCTTGATGAAAA
* *
21162714 TAGGTCTATTGATTCTCATAGCAAGGAGCACGGTGAGAACTTATCGGTAGAAGGCCA--TAATGG
66 TAGATCTACTGATTCTCATAGCAAGGAGCACGGTGAGAACTTATCGGTAGAAGGCCACGTAATGG
21162777 TA
131 -A
** * * *
21162779 -GCTACGAGGCAGATCAAATTGCGTCCAGAGATGGTGATGGTGAT
1 CGCTACGAGAAAGATCAAAATACATCCAGAGATGGTGATGGTGAT
21162823 ATGGTTGATG
Statistics
Matches: 256, Mismatches: 34, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
125 3 0.01
126 98 0.38
127 1 0.00
128 1 0.00
129 47 0.18
130 2 0.01
131 2 0.01
132 102 0.40
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (131 bp):
CGCTACGAGAAAGATCAAAATACATCCAGAGATGGTGATGGTGATGGTGATATGCTTGATGAAAA
TAGATCTACTGATTCTCATAGCAAGGAGCACGGTGAGAACTTATCGGTAGAAGGCCACGTAATGG
A
Found at i:21170049 original size:25 final size:27
Alignment explanation
Indices: 21170012--21170065 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
21170002 TCAAACATGC
21170012 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
21170038 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
21170064 AT
1 AT
21170066 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:21171577 original size:26 final size:26
Alignment explanation
Indices: 21171546--21171757 Score: 361
Period size: 26 Copynumber: 8.2 Consensus size: 26
21171536 TGAAATGCCC
* *
21171546 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
*
21171572 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
21171598 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
21171624 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
21171650 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
21171676 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
21171702 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
21171728 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
21171754 ATCA
1 ATCA
21171758 ATTTGTACCA
Statistics
Matches: 176, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 176 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:21174316 original size:24 final size:24
Alignment explanation
Indices: 21174289--21174335 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21174279 ATTGAAATGG
21174289 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
21174313 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
21174336 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:21176529 original size:41 final size:41
Alignment explanation
Indices: 21176478--21176811 Score: 438
Period size: 41 Copynumber: 8.2 Consensus size: 41
21176468 GTTTAGAATA
* *
21176478 AAACGCCACTAAAAACTGAGCAATAGCAGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
21176519 AAACGCCACTAAAAATCGAGCAATAGGGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* ** * *
21176560 AAATGCCACTAAAAATAGAGCAATAGCGACGTTTCATGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * ** *
21176601 AAACGCCACTAAAAACCAAGCAATAGTGATGTTTCAGTTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
21176642 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
21176683 -AACGCCACTAAAAACCAAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
21176723 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
21176764 AAAAGCCACTAAAAACCGAGCAATAGCAGCGTTTCTA-GTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTC-AGGTCC
21176805 AAACGCC
1 AAACGCC
21176812 GTAAAATTTT
Statistics
Matches: 255, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
40 37 0.15
41 218 0.85
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
Found at i:21176749 original size:122 final size:123
Alignment explanation
Indices: 21176478--21176811 Score: 460
Period size: 122 Copynumber: 2.7 Consensus size: 123
21176468 GTTTAGAATA
* *
21176478 AAACGCCACTAAAAACTGAGCAATAG-CAGCGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
1 AAACGCCACTAAAAACCGAGCAATAGTGA-CGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAA
* * * *
21176542 TAGGGGCGTTTCAGGTCCAAATGCCACTAAAAATAGAGCAATAGCGACGTTTCATGTCC
65 TAGCGGCGTTTCAGGTCCAAACGCCACTAAAAACAGAGCAATAGCGACGTTTCAAGTCC
* * *
21176601 AAACGCCACTAAAAACCAAGCAATAGTGATGTTTCAGTTCCAAACGCCACTAAAAATCGAGCAAT
1 AAACGCCACTAAAAACCGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
*
21176666 AGCGGCGTTTCAGGTCC-AACGCCACTAAAAACCA-AGCAATAGCGGCGTTTCAAGTCC
66 AGCGGCGTTTCAGGTCCAAACGCCACTAAAAA-CAGAGCAATAGCGACGTTTCAAGTCC
* * * * *
21176723 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCAAAAAGCCACTAAAAACCGAGCAAT
1 AAACGCCACTAAAAACCGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
* *
21176788 AGCAGCGTTTCTA-GTCAAAACGCC
66 AGCGGCGTTTC-AGGTCCAAACGCC
21176812 GTAAAATTTT
Statistics
Matches: 187, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
122 104 0.56
123 82 0.44
124 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (123 bp):
AAACGCCACTAAAAACCGAGCAATAGTGACGTTTCAGGTCCAAACGCCACTAAAAATCGAGCAAT
AGCGGCGTTTCAGGTCCAAACGCCACTAAAAACAGAGCAATAGCGACGTTTCAAGTCC
Found at i:21176973 original size:18 final size:17
Alignment explanation
Indices: 21176941--21176975 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21176931 ATTTTCTTAT
*
21176941 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
21176958 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
21176976 AACTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:21177747 original size:21 final size:21
Alignment explanation
Indices: 21177695--21177748 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
21177685 TTAAGTTTAT
21177695 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
21177716 GGCTTGGGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
21177737 GGTTTAAGGTTT
1 GGTTTAAGGTTT
21177749 AGGGTATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.11, C:0.02, G:0.33, T:0.54
Consensus pattern (21 bp):
GGTTTAAGGTTTGTTATTTTG
Found at i:21178308 original size:21 final size:21
Alignment explanation
Indices: 21178264--21178308 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21178254 AATTAATTTT
*
21178264 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
*
21178285 ATTTTA-TTAAAATTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
21178306 ATT
1 ATT
21178309 ATACAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:21178317 original size:60 final size:59
Alignment explanation
Indices: 21178198--21178344 Score: 171
Period size: 59 Copynumber: 2.5 Consensus size: 59
21178188 AAGATTAATA
* *
21178198 AAATTAATTTACTTTTAAATAAAA---TAA-AATTAT-TTAAAAGTTTAAATAATTATAC
1 AAATTAATTTA-TTTTATATAAAAGTTTAATAATTTTATTAAAAGTTTAAATAATTATAC
* *
21178253 AAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAA-AATTATAC
1 AAATTAA-TTTATTTTATATAAAAGTTTAATAATTTTATTAAAAGTTTA-AATAATTATAC
**
21178313 AAATTAATTTATTTTATATAAACTTTTAATAA
1 AAATTAATTTATTTTATATAAAAGTTTAATAA
21178345 AATTATTGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 17 0.22
56 4 0.05
58 3 0.04
59 27 0.35
60 25 0.32
61 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (59 bp):
AAATTAATTTATTTTATATAAAAGTTTAATAATTTTATTAAAAGTTTAAATAATTATAC
Found at i:21178350 original size:21 final size:21
Alignment explanation
Indices: 21178326--21178368 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21178316 TTAATTTATT
21178326 TTATATAAACTTTT-AATAAAA
1 TTAT-TAAACTTTTAAATAAAA
*
21178347 TTATTGAACTTTTAAATAAAA
1 TTATTAAACTTTTAAATAAAA
21178368 T
1 T
21178369 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATTAAACTTTTAAATAAAA
Found at i:21178360 original size:59 final size:60
Alignment explanation
Indices: 21178220--21178360 Score: 178
Period size: 59 Copynumber: 2.4 Consensus size: 60
21178210 TTTTAAATAA
* *
21178220 AATAAAATTATTTAAAAGTTTA-AATAATTATACAAATTAATTTTATTTTATTTAAAAGTTT
1 AATAAAATTA-TTAAAATTTTATAA-AATTATACAAATTAATTTTATTTTATATAAAAGTTT
** **
21178281 AATAATTTTATTAAAATTTTATAAAATTATACAAATTAA-TTTATTTTATATAAACTTTT
1 AATAAAATTATTAAAATTTTATAAAATTATACAAATTAATTTTATTTTATATAAAAGTTT
* *
21178340 AATAAAATTATTGAACTTTTA
1 AATAAAATTATTAAAATTTTA
21178361 AATAAAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 34 0.49
60 25 0.36
61 10 0.14
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (60 bp):
AATAAAATTATTAAAATTTTATAAAATTATACAAATTAATTTTATTTTATATAAAAGTTT
Found at i:21178396 original size:20 final size:20
Alignment explanation
Indices: 21178371--21178456 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
21178361 AATAAAATAA
21178371 AATTATTTAAAAGTTTATAT
1 AATTATTTAAAAGTTTATAT
** *
21178391 AATTATACAAATTAATTT-TAT
1 AATTATTTAAA--AGTTTATAT
*
21178412 -ATTATTTAAAAGTTCA-AT
1 AATTATTTAAAAGTTTATAT
* *
21178430 AATTTTATTAAAAGTTTATAA
1 AATTAT-TTAAAAGTTTATAT
21178451 AATTAT
1 AATTAT
21178457 ACAAATTAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
18 5 0.10
19 4 0.08
20 27 0.55
21 9 0.18
22 4 0.08
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (20 bp):
AATTATTTAAAAGTTTATAT
Found at i:21178404 original size:146 final size:147
Alignment explanation
Indices: 21178091--21178534 Score: 741
Period size: 146 Copynumber: 3.0 Consensus size: 147
21178081 TCGTCCACAA
* *
21178091 TTTATAAAATTATACAAATTAATTTTATTTTATTAAAAAGTTTAATAATTTTATTAAAAGTTTT-
1 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAA-TTTTA
*
21178155 TAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAA
65 TAAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAAATAA
21178220 AATAAAATTATTTAAAAG
130 AATAAAATTATTTAAAAG
*
21178238 TTTAAATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTAT
1 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTAT
* * * *
21178303 AAAATTATACAAATTAA-TTTATTTTATATAAACTTTTAATAAAATT-ATTGAACTTTTAAATAA
66 AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATT-TACTTTTAAATAA
21178366 AATAAAATTATTTAAAAG
130 AATAAAATTATTTAAAAG
* * *
21178384 TTTATATAATTATACAAATTAATTTTATATTATTTAAAAGTTCAATAATTTTATTAAAAGTTTAT
1 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTAT
21178449 AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAAATAAA
66 AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAAATAAA
*
21178514 ATAAATTTATTTAAAAG
131 ATAAAATTATTTAAAAG
21178531 TTTA
1 TTTA
21178535 ATACAAATTA
Statistics
Matches: 276, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
145 3 0.01
146 137 0.50
147 133 0.48
148 3 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (147 bp):
TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTAT
AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAAATAAA
ATAAAATTATTTAAAAG
Found at i:21178867 original size:22 final size:22
Alignment explanation
Indices: 21178826--21178867 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21178816 CCCAATTCGA
* **
21178826 AATCCCCAAATCTATTTCCCAC
1 AATCCCCAAATCGAAATCCCAC
21178848 AATCCCCAAATCGAAATCCC
1 AATCCCCAAATCGAAATCCC
21178868 TTTTACTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.21
Consensus pattern (22 bp):
AATCCCCAAATCGAAATCCCAC
Found at i:21179775 original size:16 final size:16
Alignment explanation
Indices: 21179733--21179790 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
21179723 ATTTGCCCGG
21179733 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
21179749 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
21179766 CCCAAAACCCAAC-AA
1 CCCAAAACCCAACTAT
21179781 CCCAAAACCC
1 CCCAAAACCC
21179791 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:21179918 original size:11 final size:11
Alignment explanation
Indices: 21179902--21179927 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21179892 CTGCAAGAGG
21179902 AACACGCAAGC
1 AACACGCAAGC
21179913 AACACGCAAGC
1 AACACGCAAGC
21179924 AACA
1 AACA
21179928 AGGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.35, G:0.15, T:0.00
Consensus pattern (11 bp):
AACACGCAAGC
Found at i:21181112 original size:17 final size:16
Alignment explanation
Indices: 21181086--21181145 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
21181076 TATTGCTTTA
21181086 ATATTATATTAACTATT
1 ATATTATATTAA-TATT
*
21181103 ATATTTTATTAATATT
1 ATATTATATTAATATT
* *
21181119 AT-TAATATTATTATT
1 ATATTATATTAATATT
*
21181134 ATTATTACATTA
1 A-TATTATATTA
21181146 TTAGTACATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 11 0.31
16 7 0.20
17 17 0.49
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTATATTAATATT
Found at i:21181130 original size:3 final size:3
Alignment explanation
Indices: 21181099--21181166 Score: 56
Period size: 3 Copynumber: 24.3 Consensus size: 3
21181089 TTATATTAAC
* * *
21181099 TAT TA- TAT T-T TAT TAA TAT TAT TAA TAT TAT TAT TAT TAT TA- CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
21181144 TAT TAG TA- CAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21181167 TTCCTTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
2 8 0.16
3 43 0.84
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:21181132 original size:12 final size:12
Alignment explanation
Indices: 21181083--21181140 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
21181073 TAGTATTGCT
21181083 TTAATATTA-TA
1 TTAATATTATTA
*
21181094 TTAACTATTATATT
1 TTAA-TATTAT-TA
* *
21181108 TTATTAATATTA
1 TTAATATTATTA
21181120 TTAATATTATTA
1 TTAATATTATTA
*
21181132 TTATTATTA
1 TTAATATTA
21181141 CATTATTAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 4 0.11
12 24 0.65
13 5 0.14
14 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:21181147 original size:11 final size:10
Alignment explanation
Indices: 21181088--21181166 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 10
21181078 TTGCTTTAAT
21181088 ATTA-TATTA
1 ATTATTATTA
*
21181097 ACTATTA-T-
1 ATTATTATTA
21181105 ATT-TTATTA
1 ATTATTATTA
21181114 A-TATTATTA
1 ATTATTATTA
21181123 A-TATTATT-
1 ATTATTATTA
21181131 ATTATTATTA
1 ATTATTATTA
*
21181141 CATTATTAGTA
1 -ATTATTATTA
21181152 CATTATT-TT-
1 -ATTATTATTA
21181161 ATTATT
1 ATTATT
21181167 TTCCTTTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
7 3 0.05
8 11 0.19
9 26 0.44
10 3 0.05
11 16 0.27
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTATTATTA
Found at i:21181324 original size:185 final size:188
Alignment explanation
Indices: 21181125--21181553 Score: 726
Period size: 185 Copynumber: 2.3 Consensus size: 188
21181115 TATTATTAAT
21181125 ATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTATTGTTACTTATT
1 ATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTATTGTTACTTATT
* *
21181190 ATTAGCTAC-TTTTTTAGTATTATTAATATATTCTATTTATTTTTTGTACTGCATTATAATT-TT
66 ATTAGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCATTATAATTATT
* *
21181253 CATTATCATATTGTATTTAGTATTGCTTTAACATTATGTTAACTATTATATTTCATTAC
131 -ATTATCATATTATATTTAGTATTGCTTTAACATTATATTAACTATTATATTTCATTAC
*
21181312 -TT-TTATTATTATTACATTATTAGTACATTATTTTATTATTTTCC-TTTTTAATGTTACTTATT
1 ATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTATTGTTACTTATT
*
21181374 ATTTGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCATTATAATTATT
66 ATTAGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCATTATAATTATT
* *
21181439 ATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTATTAC
131 ATTATCATATTATATTTAGTATTGCTTTAACATTATATTAACTATTATATTTCATTAC
21181497 TATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTT-CTTTTTTATTGT
1 -ATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTATTGT
21181554 AAATATTATT
Statistics
Matches: 227, Mismatches: 9, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
184 25 0.11
185 146 0.64
186 4 0.02
187 3 0.01
188 49 0.22
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.59
Consensus pattern (188 bp):
ATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTATTGTTACTTATT
ATTAGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCATTATAATTATT
ATTATCATATTATATTTAGTATTGCTTTAACATTATATTAACTATTATATTTCATTAC
Found at i:21183272 original size:9 final size:9
Alignment explanation
Indices: 21183258--21183313 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
21183248 CAAATGAAAA
21183258 TTAATGTTT
1 TTAATGTTT
*
21183267 TTAATG--A
1 TTAATGTTT
21183274 TTAAT-TTT
1 TTAATGTTT
*
21183282 TTAATG-GT
1 TTAATGTTT
*
21183290 TTAATGATT
1 TTAATGTTT
21183299 TTAATGTTT
1 TTAATGTTT
21183308 TTAATG
1 TTAATG
21183314 ATTTAAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
7 5 0.13
8 12 0.32
9 21 0.55
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (9 bp):
TTAATGTTT
Found at i:21183284 original size:15 final size:16
Alignment explanation
Indices: 21183257--21183304 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
21183247 TCAAATGAAA
21183257 ATTAATGTTTTTAATG
1 ATTAATGTTTTTAATG
21183273 ATTAAT-TTTTTAATGG
1 ATTAATGTTTTTAAT-G
* *
21183289 TTTAATGATTTTAATG
1 ATTAATGTTTTTAATG
21183305 TTTTTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.29
16 13 0.46
17 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTAATGTTTTTAATG
Found at i:21183310 original size:18 final size:17
Alignment explanation
Indices: 21183258--21183317 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
21183248 CAAATGAAAA
* *
21183258 TTAATGTTTTTAAT-GA
1 TTAATGATTTTAATGGT
*
21183274 TTAAT-TTTTTAATGGT
1 TTAATGATTTTAATGGT
*
21183290 TTAATGATTTTAATGTTT
1 TTAATGATTTTAATG-GT
21183308 TTAATGATTT
1 TTAATGATTT
21183318 AAACTTAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 8 0.21
16 11 0.29
17 8 0.21
18 11 0.29
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (17 bp):
TTAATGATTTTAATGGT
Found at i:21183318 original size:26 final size:23
Alignment explanation
Indices: 21183266--21183319 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 23
21183256 AATTAATGTT
*
21183266 TTTAATGATTAATTTTTTAATGG
1 TTTAATGATTAATTTTTTAATGA
21183289 TTTAATGATTTTAATGTTTTTAATGA
1 TTTAATGA--TTAAT-TTTTTAATGA
21183315 TTTAA
1 TTTAA
21183320 ACTTAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.30
25 5 0.19
26 14 0.52
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTAATGATTAATTTTTTAATGA
Found at i:21186371 original size:5 final size:5
Alignment explanation
Indices: 21186363--21186390 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21186353 TTTGAATATG
21186363 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
21186391 ATCACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:21186596 original size:98 final size:100
Alignment explanation
Indices: 21186376--21186652 Score: 381
Period size: 103 Copynumber: 2.8 Consensus size: 100
21186366 TTTTATTTTA
21186376 TTTTATTTTATTTTAATCAC-AAAAATATTTTGTCTA--C---TTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCTAAT
**
21186435 TAAATTAAATTGCATTTAAAGTTTTTTTAAATATT
66 TAAATTAAATTATATTTAAAGTTTTTTTAAATATT
21186470 TTATTGCATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCT
1 TT-TT--ATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCT
*
21186535 AATTAAATTAAATTATATTTAAAGTTTTTTTTAA-ATT
63 AATTAAATTAAATTATATTTAAAGTTTTTTTAAATATT
* * * * * *
21186572 TTTTAATTTATTTTAATCACAAAAAATATTTTATTTACTTTTATTTT-TTGTTAAATAACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCTAAT
*
21186636 TAAATTAAATTCTATTT
66 TAAATTAAATTATATTT
21186653 TTAAATATTG
Statistics
Matches: 164, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
94 2 0.01
95 2 0.01
97 16 0.10
98 47 0.29
99 39 0.24
100 1 0.01
101 2 0.01
102 5 0.03
103 50 0.30
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (100 bp):
TTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTATATTTAAAGTTTTTTTAAATATT
Found at i:21186687 original size:99 final size:99
Alignment explanation
Indices: 21186413--21186687 Score: 216
Period size: 99 Copynumber: 2.7 Consensus size: 99
21186403 TTTTGTCTAC
* * ** * * *
21186413 TTTTATTTTTAAATTACCTAATTAAATTAAATTGCATTTAAAGT-TTTTTTAAATATTTTATTGC
1 TTTTATTGTTAAATAACCTAATTAAATTAAATTATATTTAAAGTATTGTTCAAA-A-ATTA--G-
* * * *
21186477 ATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTA
61 AATTGATCTTAATCACAAAAAATATTTTATCTACTCTTA
* * * * * ** ** *
21186516 TTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTTTTTAAATTTTTTAATTT
1 TTTTATTGTTAAATAACCTAATTAAATTAAATTATATTTAAAGTATTGTTCAAAAATTAGAATTG
* * *
21186581 ATTTTAATCACAAAAAATATTTTATTTACTTTTA
66 ATCTTAATCACAAAAAATATTTTATCTACTCTTA
* *
21186615 TTTT-TTGTTAAATAACCTAATTAAATTAAATTCTATTTTTAAA-TATTGTTCAACAAATTAGAC
1 TTTTATTGTTAAATAACCTAATTAAATTAAA-T-TATATTTAAAGTATTGTTCAA-AAATTAGAA
21186678 TTGA-CTTAAT
63 TTGATCTTAAT
21186688 TCGAAAATAA
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
98 24 0.16
99 52 0.36
100 16 0.11
102 3 0.02
103 42 0.29
104 9 0.06
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (99 bp):
TTTTATTGTTAAATAACCTAATTAAATTAAATTATATTTAAAGTATTGTTCAAAAATTAGAATTG
ATCTTAATCACAAAAAATATTTTATCTACTCTTA
Found at i:21186935 original size:9 final size:9
Alignment explanation
Indices: 21186919--21186972 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
21186909 ATATCATATC
21186919 TTACATAAT
1 TTACATAAT
*
21186928 TTACATAAG
1 TTACATAAT
* * * *
21186937 ATAAACAAC
1 TTACATAAT
21186946 TTACATAAT
1 TTACATAAT
*
21186955 TTACATAAC
1 TTACATAAT
21186964 TTACATAAT
1 TTACATAAT
21186973 ACATAAATAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAT
Found at i:21186964 original size:18 final size:18
Alignment explanation
Indices: 21186919--21186972 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
21186909 ATATCATATC
* *
21186919 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* * *
21186937 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
21186955 TTACATAACTTACATAAT
1 TTACATAACTTACATAAT
21186973 ACATAAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:21189442 original size:15 final size:15
Alignment explanation
Indices: 21189419--21189448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21189409 GTTCGGTTTC
*
21189419 GGCACTAAGTGTGCG
1 GGCAATAAGTGTGCG
21189434 GGCAATAAGTGTGCG
1 GGCAATAAGTGTGCG
21189449 TGGTGACGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (15 bp):
GGCAATAAGTGTGCG
Found at i:21189494 original size:29 final size:29
Alignment explanation
Indices: 21189462--21189536 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
21189452 TGACGAGAAT
**
21189462 TGGCACTAAGTGTGC-AAGCTTGAAAT-GTA
1 TGGCACTAAGTGTGCGAA-CTT-AAATCACA
21189491 TGGCACTAAGTGTGCGAACTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATCACA
21189520 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
21189537 GATCGATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATCACA
Found at i:21195357 original size:13 final size:14
Alignment explanation
Indices: 21195341--21195369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21195331 TTATAAATAT
21195341 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
21195354 TTATAATGGTTTAA
1 TTATAATGGTTTAA
21195368 TT
1 TT
21195370 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:21195831 original size:21 final size:21
Alignment explanation
Indices: 21195776--21195833 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
21195766 ACAACTTAGA
*
21195776 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
**
21195797 GCAGCTGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
21195818 GCAGAGGCAGCAGCGA
1 GCAGAGGCAGCAGCGA
21195834 TGGCAGTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.48, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGCGAGGGAG
Found at i:21196108 original size:33 final size:33
Alignment explanation
Indices: 21196066--21196146 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 33
21196056 TTAGATTTAA
* * *
21196066 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
*
21196099 TGTTTTTGGTTGGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
21196130 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
21196147 AATGCAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.11, C:0.06, G:0.22, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
Found at i:21198752 original size:103 final size:101
Alignment explanation
Indices: 21198575--21198770 Score: 250
Period size: 103 Copynumber: 1.9 Consensus size: 101
21198565 AATTGATGGA
* * * * * *
21198575 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACTATAGCTGAGCTATGGCATTTTAG
1 TAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATCTGAG
* *
21198640 CGAAAAGACCATAATTGGGTTATGGCACCTTGGAAG
66 AGAAAAGACCATAACTGGGTTATGGCACCTTGGAAG
* * *
21198676 TAAGACCATGGTTGGACCATGATAGTATATATATGTATAAGACCATAGCTGAGCTATGACATCCT
1 TAAGACCATGGTTGGACCATGACAATATATAAATG--TAAGACCATAGCTGAGCTATGACAT-CT
*
21198741 GA-AGATAAGACCATAACTGGGTTATGGCAC
63 GAGAGAAAAGACCATAACTGGGTTATGGCAC
21198771 TGTAATAGCC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
101 30 0.38
103 48 0.60
104 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATCTGAG
AGAAAAGACCATAACTGGGTTATGGCACCTTGGAAG
Found at i:21200798 original size:51 final size:51
Alignment explanation
Indices: 21200713--21200829 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
21200703 ATTTCTGATT
* * *
21200713 AGTGACAAATGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
* * * *
21200764 AGTTACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAAA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
21200815 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
21200830 ACGTGATCCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
Found at i:21205395 original size:51 final size:51
Alignment explanation
Indices: 21205309--21205416 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
21205299 TATTTCTGAT
*
21205309 AAGTGATAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
* * *
21205360 AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
21205411 AAGTGA
1 AAGTGA
21205417 TAAATGTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (51 bp):
AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
Found at i:21208630 original size:43 final size:43
Alignment explanation
Indices: 21208499--21208646 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
21208489 CAACGCCAAC
* * * *
21208499 GTCCCAGACATGGTCTTACATGTAATTTAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATTCAGATCGATGCCTAT
* * *
21208542 ATCCCAGACAGGGTCTTACATG-AAA-TCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACATGTAAATTCAGAT-CGATGCCTAT
* * *
21208584 GTCCCAGACATGGTCTTATACGTAAATCTCA-ATCGAAGCCTAT
1 GTCCCAGACATGGTCTTACATGTAAAT-TCAGATCGATGCCTAT
* *
21208627 GTCCCAAACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
21208647 CGATGTCACA
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.05
42 28 0.33
43 48 0.56
44 2 0.02
45 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAATTCAGATCGATGCCTAT
Done.