Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 24 of 106
Found at i:4345150 original size:2 final size:2
Alignment explanation
Indices: 4345143--4345174 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4345133 AGCACTCTTT
4345143 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4345175 AATCATCAAT
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):
TA
Found at i:4345304 original size:86 final size:86
Alignment explanation
Indices: 4345159--4345331 Score: 328
Period size: 86 Copynumber: 2.0 Consensus size: 86
4345149 TATATATATA
*
4345159 TATATATATATATATAAATCATCAATATAAACCCAATGCTTATTAGCCCAGCTCACTAATCCAAC
1 TATATATATATATATAAATAATCAATATAAACCCAATGCTTATTAGCCCAGCTCACTAATCCAAC
4345224 TCACGATCATCATTAGCTTCT
66 TCACGATCATCATTAGCTTCT
4345245 TATATATATATATATAAATAATCAATATAAACCCAATGCTTATTAGCCCAGCTCACTAATCCAAC
1 TATATATATATATATAAATAATCAATATAAACCCAATGCTTATTAGCCCAGCTCACTAATCCAAC
*
4345310 TCACGATCATCATTAGTTTCT
66 TCACGATCATCATTAGCTTCT
4345331 T
1 T
4345332 TTGTTTGGGT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (86 bp):
TATATATATATATATAAATAATCAATATAAACCCAATGCTTATTAGCCCAGCTCACTAATCCAAC
TCACGATCATCATTAGCTTCT
Found at i:4345346 original size:18 final size:18
Alignment explanation
Indices: 4345323--4345360 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4345313 CGATCATCAT
* *
4345323 TAGTTTCTTTTGTTTGGG
1 TAGTTTCTTCTATTTGGG
4345341 TAGTTTCTTCTATTTGGG
1 TAGTTTCTTCTATTTGGG
4345359 TA
1 TA
4345361 ACTTGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.24, T:0.58
Consensus pattern (18 bp):
TAGTTTCTTCTATTTGGG
Found at i:4345533 original size:16 final size:16
Alignment explanation
Indices: 4345512--4345549 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4345502 TGAATTTATT
**
4345512 AATTTTAATTGTTTTG
1 AATTTTAATAATTTTG
4345528 AATTTTAATAATTTTG
1 AATTTTAATAATTTTG
4345544 AATTTT
1 AATTTT
4345550 CATTCATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
AATTTTAATAATTTTG
Found at i:4345540 original size:25 final size:25
Alignment explanation
Indices: 4345500--4345547 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4345490 TTTTTGTTAA
*
4345500 TTTGAATTTATTAATTTT-AATTGT
1 TTTGAATTTAATAATTTTGAATTGT
4345524 TTTGAATTTTAATAATTTTGAATT
1 TTTGAA-TTTAATAATTTTGAATT
4345548 TTCATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 11 0.52
26 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
TTTGAATTTAATAATTTTGAATTGT
Found at i:4346114 original size:23 final size:23
Alignment explanation
Indices: 4346088--4346321 Score: 162
Period size: 23 Copynumber: 10.5 Consensus size: 23
4346078 ATTATTCTTT
4346088 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
4346111 ATATTATTTATGAATAATATTTATGA
1 ATATTATTTATTAAT-ATA-TTAT-A
*
4346137 ATA-TATTATATT-A-ATA--GT-
1 ATATTATT-TATTAATATATTATA
* *
4346155 ATATTATTTATTAATAAATTATT
1 ATATTATTTATTAATATATTATA
*
4346178 ATAATATTTATT-A-ATA-T--A
1 ATATTATTTATTAATATATTATA
* *
4346196 ATATTATATATTAATATAATATA
1 ATATTATTTATTAATATATTATA
4346219 ATATTA-TT-T--AT-TATTATA
1 ATATTATTTATTAATATATTATA
4346237 ATATTATTTATTAATATATTTTATTA
1 ATATTATTTATTAATATA--TTA-TA
* *
4346263 ATAGTATATTATTTAT-TCA-TATA
1 ATATTAT-TTATTAATAT-ATTATA
4346286 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
4346309 ATATAATATTATT
1 ATATTAT-TTATT
4346322 TATAAGTAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 55
0.70 0.07 0.23
Matches are distributed among these distances:
18 29 0.17
19 10 0.06
20 8 0.05
21 4 0.02
22 13 0.08
23 56 0.34
24 10 0.06
25 12 0.07
26 16 0.10
27 8 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:4346131 original size:13 final size:13
Alignment explanation
Indices: 4346099--4346143 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
4346089 TATTATTTAT
4346099 TAATATATTAT-AA
1 TAATAT-TTATGAA
*
4346112 TATTATTTATGAA
1 TAATATTTATGAA
4346125 TAATATTTATGAA
1 TAATATTTATGAA
4346138 T-ATATT
1 TAATATT
4346144 ATATTAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (13 bp):
TAATATTTATGAA
Found at i:4346149 original size:41 final size:40
Alignment explanation
Indices: 4346104--4346326 Score: 193
Period size: 41 Copynumber: 5.2 Consensus size: 40
4346094 TTTATTAATA
*
4346104 TATTATAATATTATTTATGAATAATATTTATGAATATATTA-
1 TATTATAATATTATTTATTAAT-ATATTTAT-AATATATTAT
*
4346145 TATTAATAGTATATTATTTATTAATAAATTATTATAATAT-TTAT
1 TATT-ATA--ATATTATTTATTAATATA-T-TTATAATATATTAT
* * *
4346189 TAATATAATATTATATATTAATATA-ATATAATATTATTTAT
1 TATTATAATATTATTTATTAATATATTTATAATA-TA-TTAT
4346230 TATTATAATATTATTTATTAATATATTTTATTAATAGTATATTATT
1 TATTATAATATTATTTATTAATATA-TTTA-T-A-A-TATATTA-T
*
4346276 TATTCATATAATATTATTTATTAATATA-TTATAATATAATAT
1 TA-T--TATAATATTATTTATTAATATATTTATAATATATTAT
4346318 TATTTATAA
1 TA-TTATAA
4346327 GTAAAATTAT
Statistics
Matches: 153, Mismatches: 10, Indels: 39
0.76 0.05 0.19
Matches are distributed among these distances:
38 7 0.05
39 1 0.01
40 5 0.03
41 47 0.31
42 8 0.05
43 16 0.10
44 25 0.16
45 9 0.06
46 7 0.05
47 6 0.04
49 22 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (40 bp):
TATTATAATATTATTTATTAATATATTTATAATATATTAT
Found at i:4346166 original size:18 final size:17
Alignment explanation
Indices: 4346087--4346304 Score: 153
Period size: 18 Copynumber: 13.2 Consensus size: 17
4346077 TATTATTCTT
4346087 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
4346104 TATTATAATATTATTTATGA
1 TA-TATTAT-TTATTAAT-A
* *
4346124 -ATAATATTTA-TGA-A
1 TATATTATTTATTAATA
4346138 TATATTA--TATTAATA
1 TATATTATTTATTAATA
4346153 GTATATTATTTATTAATA
1 -TATATTATTTATTAATA
4346171 -A-ATTA-TTA-TAATA
1 TATATTATTTATTAATA
* *
4346184 TTTATTA-ATA-TAATA
1 TATATTATTTATTAATA
*
4346199 T-TATATATTAATATAATA
1 TATAT-TATTTAT-TAATA
*
4346217 TAATATTATTTATTATTA
1 T-ATATTATTTATTAATA
4346235 TAATATTATTTATT-A-A
1 T-ATATTATTTATTAATA
4346251 TATA-T-TTTATTAATA
1 TATATTATTTATTAATA
*
4346266 GTATATTATTTATTCATA
1 -TATATTATTTATTAATA
4346284 TAATATTATTTATTAATA
1 T-ATATTATTTATTAATA
4346302 TAT
1 TAT
4346305 TATAATATAA
Statistics
Matches: 162, Mismatches: 16, Indels: 46
0.72 0.07 0.21
Matches are distributed among these distances:
13 13 0.08
14 11 0.07
15 28 0.17
16 17 0.10
17 9 0.06
18 66 0.41
19 14 0.09
20 4 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:4346170 original size:67 final size:64
Alignment explanation
Indices: 4346087--4346321 Score: 230
Period size: 67 Copynumber: 3.6 Consensus size: 64
4346077 TATTATTCTT
*
4346087 TATATTATTTATTAATATATTATAATATTATTTATGAATAATATTTATGAATATATTATATTAAT
1 TATATTATTTATTAATATATTATAATATTATTTATTAAT-ATATTTAT-AATATATTATATTAAT
4346152 A
64 A
* * * * *
4346153 GTATATTATTTATTAATAAATTATTATAATATTTATTAATATA-ATATTATATATTA-ATATAAT
1 -TATATTATTTATTAATATATTATAATATTATTTATTAATATATTTATAATATATTATAT-TAAT
4346216 A
64 A
*
4346217 TA-A-TA-TTATTTAT-TATTATAATATTATTTATTAATATATTTTATTAATAGTATATTATTTA
1 TATATTATTTATTAATATATTATAATATTATTTATTAATATA-TTTA-T-A-A-TATATTA--TA
*
4346278 TTCATA
59 TTAATA
*
4346284 TAATATTATTTATTAATATATTATAATATAATATTATT
1 T-ATATTATTTATTAATATATTATAATATTAT-TTATT
4346322 TATAAGTAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
59 22 0.16
60 7 0.05
61 4 0.03
62 2 0.01
63 4 0.03
64 14 0.10
65 10 0.07
66 3 0.02
67 40 0.29
68 3 0.02
69 1 0.01
70 2 0.01
71 7 0.05
72 13 0.09
73 5 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (64 bp):
TATATTATTTATTAATATATTATAATATTATTTATTAATATATTTATAATATATTATATTAATA
Found at i:4346191 original size:90 final size:85
Alignment explanation
Indices: 4346085--4346313 Score: 220
Period size: 82 Copynumber: 2.6 Consensus size: 85
4346075 TTTATTATTC
*
4346085 TTTATATTATTTATTAATATATTATAATATTATTTATGAATAATATTTATGAATATATTATATTA
1 TTTATAATATTTATTAATATATTATAATATTATTTAT-AATAATA-TTAT-AATATATT-TATTA
4346150 ATAGT-ATATTATTTATTAATAAAT
62 ATA-TAATATTATTTATTAATAAAT
* * * * *
4346174 TATTATAATATTTATTAATATAATATTATA-TATTAAT-ATAATATAAT-AT-TATTTATTATTA
1 T-TTATAATATTTATTAATATATTATAATATTATTTATAATAATATTATAATATATTTATTAATA
*
4346235 TAATATTATTTATTAATATAT
65 TAATATTATTTATTAATAAAT
* *
4346256 TTTATTAATAGTATATT-ATTTATTCATATAATATTATTTATTAAT-ATATTATAATATA
1 TTTA-TAATA-TTTATTAATATA-T--TATAATATTATTTA-TAATAATATTATAATATA
4346314 ATATTATTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 24
0.76 0.09 0.16
Matches are distributed among these distances:
81 4 0.03
82 35 0.30
83 9 0.08
84 2 0.02
85 6 0.05
86 8 0.07
87 13 0.11
88 4 0.03
89 9 0.08
90 25 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (85 bp):
TTTATAATATTTATTAATATATTATAATATTATTTATAATAATATTATAATATATTTATTAATAT
AATATTATTTATTAATAAAT
Found at i:4346265 original size:49 final size:49
Alignment explanation
Indices: 4346172--4346324 Score: 181
Period size: 49 Copynumber: 3.0 Consensus size: 49
4346162 TTATTAATAA
*
4346172 ATTATTATAATATTTATTAATATAATATTATATATTAATATAATATAATATTATTT
1 ATTATTATAATA-TTATTTAT-TAATA-TAT-T-TT-AT-TAATATAATATTATTT
4346228 ATTATTATAATATTATTTATTAATATATTTTATTAATAGT-ATATTATTT
1 ATTATTATAATATTATTTATTAATATATTTTATTAATA-TAATATTATTT
4346277 ATTCA-TATAATATTATTTATTAATATA--TTA-TAATATAATATTATTT
1 ATT-ATTATAATATTATTTATTAATATATTTTATTAATATAATATTATTT
4346323 AT
1 AT
4346325 AAGTAAAATT
Statistics
Matches: 93, Mismatches: 1, Indels: 16
0.85 0.01 0.15
Matches are distributed among these distances:
45 1 0.01
46 16 0.17
47 3 0.03
49 39 0.42
50 4 0.04
51 2 0.02
52 1 0.01
53 3 0.03
54 5 0.05
55 7 0.08
56 12 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (49 bp):
ATTATTATAATATTATTTATTAATATATTTTATTAATATAATATTATTT
Found at i:4346668 original size:25 final size:25
Alignment explanation
Indices: 4346640--4346693 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4346630 AAGTCAATCT
4346640 TTTTC-AAAAACAAAAATGTGTTGAA
1 TTTTCTAAAAA-AAAAATGTGTTGAA
***
4346665 TTTTCTCTTAAAAAAATGTGTTGAA
1 TTTTCTAAAAAAAAAATGTGTTGAA
4346690 TTTT
1 TTTT
4346694 GATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (25 bp):
TTTTCTAAAAAAAAAATGTGTTGAA
Found at i:4346704 original size:25 final size:25
Alignment explanation
Indices: 4346651--4346707 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
4346641 TTTCAAAAAC
*
4346651 AAAAATGTGTTGAATTTTCTCTTAA
1 AAAAATGTGTTGAATTTTATCTTAA
*
4346676 AAAAATGTGTTGAATTTTGATTTTTAA
1 AAAAATGTGTTGAATTTT-A-TCTTAA
4346703 AAAAA
1 AAAAA
4346708 GGATGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 18 0.64
27 10 0.36
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (25 bp):
AAAAATGTGTTGAATTTTATCTTAA
Found at i:4355959 original size:11 final size:11
Alignment explanation
Indices: 4355929--4355953 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4355919 ATTTTTAGTC
4355929 AAAAATTTTGA
1 AAAAATTTTGA
4355940 AAAAATTTTGA
1 AAAAATTTTGA
4355951 AAA
1 AAA
4355954 TTTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAAATTTTGA
Found at i:4363973 original size:40 final size:40
Alignment explanation
Indices: 4363913--4364209 Score: 246
Period size: 40 Copynumber: 7.4 Consensus size: 40
4363903 ATAGGAAAGC
4363913 TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAA
* * *
4363953 TTTTAAAAGTTATGTACCTTCATTTT-AATGGAGCTTTTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAA-GAAGCCTTTAA
* * * *
4363993 CTTTAAAAGTTATGTACCTTCATTTT-AATAGAGCCGTTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAAGA-AGCCTTTAA
* * * * *
4364033 TTTTAAAAGATGTGTGCTTTCA-TTTCAAAAGAGCCTTTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAAGA-AGCCTTTAA
* * * * * *
4364073 CTTTCAAAGTTGTATGCTTTCATTTCGAAGAAGCCTTTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAA
* * ** * *
4364113 TTTTTAAAGTTGTGTGATTTCATTTTGAAGATG-CTCGTAA
1 TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCT-TTAA
* *
4364153 CTTTTAAAA-TTATGTGCCTTCATTTTGAAGGAG-TTTTGAA
1 -TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTT-AA
* *
4364193 TTTTTAAAGTTGTGTGC
1 TTTTAAAAGTTATGTGC
4364210 TTTTGTTTCT
Statistics
Matches: 210, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.07
40 183 0.87
41 12 0.06
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.44
Consensus pattern (40 bp):
TTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAA
Found at i:4364013 original size:80 final size:78
Alignment explanation
Indices: 4363914--4364212 Score: 291
Period size: 80 Copynumber: 3.8 Consensus size: 78
4363904 TAGGAAAGCT
* *
4363914 TTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAATTTTAAAAGTTATGTACCTTCATTTT
1 TTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAATTTTAAAAGTTGTGTACTTTCATTTT
4363979 AATGGAGCTTTTAAC
66 AA--GAGCTTTTAAC
* * * * *
4363994 TTTAAAAGTTATGTACCTTCATTTT-AATAGAGCCGTTAATTTTAAAAGATGTGTGCTTTCATTT
1 TTTAAAAGTTATGTGCCTTCATTTTGAAGA-AGCCTTTAATTTTAAAAGTTGTGTACTTTCATTT
* *
4364058 CAAAAGAGCCTTTAAC
65 --TAAGAGCTTTTAAC
* * * * * *
4364074 TTTCAAAGTTGTATGCTTTCATTTCGAAGAAGCCTTTAATTTTTAAAGTTGTGTGA-TTTCATTT
1 TTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAATTTTAAAAGTTGTGT-ACTTTCATTT
**
4364138 TGAAGATGCTCGTAAC
65 T-AAGA-GCTTTTAAC
* * * *
4364154 TTTTAAAA-TTATGTGCCTTCATTTTGAAGGAG-TTTTGAATTTTTAAAGTTGTGTGCTTT
1 -TTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTT-AATTTTAAAAGTTGTGTACTTT
4364213 TGTTTCTAAT
Statistics
Matches: 177, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
79 10 0.06
80 156 0.88
81 9 0.05
82 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (78 bp):
TTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAATTTTAAAAGTTGTGTACTTTCATTTT
AAGAGCTTTTAAC
Found at i:4364228 original size:120 final size:121
Alignment explanation
Indices: 4363912--4364228 Score: 308
Period size: 120 Copynumber: 2.6 Consensus size: 121
4363902 GATAGGAAAG
* * * *
4363912 CTTTTAAAAGTTATGTGCCTTCATTTTGAAGAAGCCTTTAATTTTAAAAGTTATGTACCTTCATT
1 CTTTTAAAAGTTATGTGCCTTCATTTTGAAGGAGCCTTTAATTTTAAAAGTTGTGTGCTTTCATT
*
4363977 T-TAATGGAGCTTTTAACTTTAAAAGTTATGTACCTTCATTTTAATAGAGCCGTTAA
66 TCTAAT-GAGCCTTTAACTTTAAAAGTTATGTACCTTCATTTTAATAGAGCCGTTAA
* * * ** * * * *
4364033 -TTTTAAAAGATGTGTGCTTTCATTTCAAAAGAGCCTTTAACTTTCAAAGTTGTATGCTTTCATT
1 CTTTTAAAAGTTATGTGCCTTCATTTTGAAGGAGCCTTTAATTTTAAAAGTTGTGTGCTTTCATT
* * * * * *
4364097 TCGAA-GAAGCCTTTAATTTTTAAAGTTGTGTGA-TTTCATTTTGA-AGATGCTCG-TAA
66 TCTAATG-AGCCTTTAACTTTAAAAGTTATGT-ACCTTCATTTTAATAGA-GC-CGTTAA
* * **
4364153 CTTTTAAAA-TTATGTGCCTTCATTTTGAAGGAG-TTTTGAATTTTTAAAGTTGTGTGCTTTTGT
1 CTTTTAAAAGTTATGTGCCTTCATTTTGAAGGAGCCTTT-AATTTTAAAAGTTGTGTGCTTTCAT
4364216 TTCTAATGAGCCT
65 TTCTAATGAGCCT
4364229 GTTACAAAAA
Statistics
Matches: 155, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
119 7 0.05
120 134 0.86
121 14 0.09
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (121 bp):
CTTTTAAAAGTTATGTGCCTTCATTTTGAAGGAGCCTTTAATTTTAAAAGTTGTGTGCTTTCATT
TCTAATGAGCCTTTAACTTTAAAAGTTATGTACCTTCATTTTAATAGAGCCGTTAA
Found at i:4364544 original size:20 final size:20
Alignment explanation
Indices: 4364519--4364558 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4364509 CCTTATTCCA
* *
4364519 CCTTTATTTTTATTTTATTT
1 CCTTTATCTTAATTTTATTT
4364539 CCTTTATCTTAATTTTATTT
1 CCTTTATCTTAATTTTATTT
4364559 TATTTGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (20 bp):
CCTTTATCTTAATTTTATTT
Found at i:4366199 original size:51 final size:51
Alignment explanation
Indices: 4366139--4366241 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
4366129 TCTGGTAAGA
4366139 AAGCAATTTGAAAGCATCAATTCCTAATGTAAAAATGCACGAGTATTGGTC
1 AAGCAATTTGAAAGCATCAATTCCTAATGTAAAAATGCACGAGTATTGGTC
4366190 AAGCAATTTGAAAGCATCAATTCCTAATGTAAAAATGCACGAGTATTGGTC
1 AAGCAATTTGAAAGCATCAATTCCTAATGTAAAAATGCACGAGTATTGGTC
4366241 A
1 A
4366242 TTAAATACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (51 bp):
AAGCAATTTGAAAGCATCAATTCCTAATGTAAAAATGCACGAGTATTGGTC
Found at i:4369516 original size:33 final size:33
Alignment explanation
Indices: 4369479--4369557 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
4369469 CCTTCATGTT
4369479 ATCTTTGCATCCATTGTTGCAAACCTCTACTCC
1 ATCTTTGCATCCATTGTTGCAAACCTCTACTCC
*
4369512 ATCTTTACATCCATTGTTGCAAACCTCTACTCC
1 ATCTTTGCATCCATTGTTGCAAACCTCTACTCC
4369545 ATCTTTGCATCCA
1 ATCTTTGCATCCA
4369558 GTTATTGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.37
Consensus pattern (33 bp):
ATCTTTGCATCCATTGTTGCAAACCTCTACTCC
Found at i:4372437 original size:6 final size:6
Alignment explanation
Indices: 4372428--4372453 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4372418 GACCAGACCC
4372428 AGTTGT AGTTGT AGTTGT AGTTGT AG
1 AGTTGT AGTTGT AGTTGT AGTTGT AG
4372454 ACGAGAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (6 bp):
AGTTGT
Found at i:4377092 original size:18 final size:18
Alignment explanation
Indices: 4377066--4377108 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4377056 TCTGATACTA
* *
4377066 ATGAAGACACTGGAAAAT
1 ATGATGACAATGGAAAAT
4377084 ATGATGACAATGGAAAAT
1 ATGATGACAATGGAAAAT
4377102 ATGATGA
1 ATGATGA
4377109 TGATGATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (18 bp):
ATGATGACAATGGAAAAT
Found at i:4381305 original size:462 final size:454
Alignment explanation
Indices: 4380436--4381289 Score: 1041
Period size: 462 Copynumber: 1.9 Consensus size: 454
4380426 GGAGCTTCAT
* *
4380436 ATATGGAGGTTGTTATGAAGTGGTTTCTTAACCTTTCTCTAAAATGCAAGTGTTTCTCATTTTCT
1 ATATGGAGGTTGTTATAAAGTGGTTTCTTAACCTTTCTCTAAAATGCAAGTGTTTCCCATTTTCT
* *
4380501 ATGAACAAGTGTAGCATTTCTGTGTGCTAGCGTAACGAATTATTACTCCTTGTGACCAAAAACAT
66 ATGAACAAGTG-AGCATTTCTATGTGCTAGCGTAACGAACTATTACTCCTTGTGACCAAAAACAT
* * * * * * *
4380566 ATTTTAGGACAGGCTTTAATTTCTCACGGCTGTCTTTTCCCATTAACCCATGTTTTATGCAACTT
130 ATTTGAAGACAGGCTTTAACTTCTCACAGCTATCTTTTCCAATTAACCCATGTTTTAGGCAACTT
* * **
4380631 TCATGTAACTAGCATCCTTATAACTTCCCACTCCCCACTCTCATTTGTAATTTCTCCTTGTTGGC
195 TCATGAAACTAGCATCCTTATAAC-T-CAACTCCCCACTCTCATTTGTAATTTCTCCTTGCAGGC
*
4380696 CAATAGATAGTGATCTACATACTTCATTTTGGATCTTTTGGCAATCTGACGATTTAGCTCTCAAG
258 CAATAGATAGTGATCTACATACTTCATTTTGGATCTTTTGGCAATCTAACGATTTAGCTCTCAAG
* * *
4380761 ATTTTCTATGCAATTCTTTTTGTCTCTCTAAAATTATTCCAGCCATCATACTTTTCACCTTCCTC
323 ATTTTCTATGCAACTCTTTTTGTCTCTCTAAAATTATTCCAGCCACCATACATTTCACCTTCCTC
4380826 AACCATCTTTTTCCTTCACCGTCACCAACTACCACAATACTTGTCTCTATCTATTTTACTGACTT
388 AACCATCTTTTTCCTTCACCGTCACCAACTACCACAATACTTGTCTCTATCTATTTTACTGACTT
4380891 AG
453 AG
* *
4380893 ATATGGAGGTTGTT-TAAAAGTGTTCTTCTTAAGCTTTCTCTAAAATGCAAGTGTTTCCCATTTT
1 ATATGGAGGTTGTTAT-AAAGTGGT-TTCTTAACCTTTCTCTAAAATGCAAGTGTTTCCCATTTT
* * * *
4380957 CTTTGTACAAGTG-GCATATTTCTATGTG-T-GCAGTAGCACGACTACCTATTACTCTTTGTGCC
64 CTATGAACAAGTGAGC--ATTTCTATGTGCTAGC-GTA--ACGA--A-CTATTACTCCTTGTGAC
* * *
4381019 CAAAAACAT-TCTTGAAGACATGCTTTAACTTCTCACATCTATCTTTTCCAATTAACTCATGTTT
121 CAAAAACATAT-TTGAAGACAGGCTTTAACTTCTCACAGCTATCTTTTCCAATTAACCCATGTTT
* * ** *
4381083 TAGGCTACTTTCATGAAATTAGTGT-CTT-T-A-T-AACTCCCCACTCTCATTTGTAATTTCTCT
185 TAGGCAACTTTCATGAAACTAGCATCCTTATAACTCAACTCCCCACTCTCATTTGTAATTTCTCC
* * * *
4381143 TTGCAGGCCAATAAATATAGTGATCCT-CATGCTTTATTTTGGATGTTTTGGCAATCTAACGAAT
250 TTGCAGGCCAAT--AGATAGTGAT-CTACATACTTCATTTTGGATCTTTTGGCAATCTAACG-A-
* * *
4381207 TTTGGCTCTCAAGATTTTCT-TGGCAGCTCTTTTTGTATTTCTTTCTAAAATTATTCCAGCCACC
310 TTTAGCTCTCAAGATTTTCTAT-GCAACTCTTTTTG----TCTCTCTAAAATTATTCCAGCCACC
4381271 ATA-ATTTCACCTTCCTCAA
370 ATACATTTCACCTTCCTCAA
4381290 TCGTTTTCTT
Statistics
Matches: 336, Mismatches: 40, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
455 37 0.11
456 5 0.01
457 64 0.19
458 62 0.18
459 35 0.10
460 1 0.00
461 5 0.01
462 101 0.30
463 26 0.08
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (454 bp):
ATATGGAGGTTGTTATAAAGTGGTTTCTTAACCTTTCTCTAAAATGCAAGTGTTTCCCATTTTCT
ATGAACAAGTGAGCATTTCTATGTGCTAGCGTAACGAACTATTACTCCTTGTGACCAAAAACATA
TTTGAAGACAGGCTTTAACTTCTCACAGCTATCTTTTCCAATTAACCCATGTTTTAGGCAACTTT
CATGAAACTAGCATCCTTATAACTCAACTCCCCACTCTCATTTGTAATTTCTCCTTGCAGGCCAA
TAGATAGTGATCTACATACTTCATTTTGGATCTTTTGGCAATCTAACGATTTAGCTCTCAAGATT
TTCTATGCAACTCTTTTTGTCTCTCTAAAATTATTCCAGCCACCATACATTTCACCTTCCTCAAC
CATCTTTTTCCTTCACCGTCACCAACTACCACAATACTTGTCTCTATCTATTTTACTGACTTAG
Found at i:4383685 original size:16 final size:17
Alignment explanation
Indices: 4383660--4383694 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4383650 TGCCATTTAG
4383660 TTTCAGTTAGTT-TAAT
1 TTTCAGTTAGTTATAAT
*
4383676 TTTCATTTAGTTATAAT
1 TTTCAGTTAGTTATAAT
4383693 TT
1 TT
4383695 AGGATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTCAGTTAGTTATAAT
Found at i:4389201 original size:5 final size:5
Alignment explanation
Indices: 4389191--4389225 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
4389181 GAAGGAAGCT
*
4389191 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG AGAAG
1 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG
4389226 CAAATAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (5 bp):
TGAAG
Found at i:4389395 original size:5 final size:5
Alignment explanation
Indices: 4389385--4389450 Score: 114
Period size: 5 Copynumber: 13.2 Consensus size: 5
4389375 GAAGAAAGCT
* *
4389385 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAA TGAAG TGAAG TGAAA
1 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG
4389435 TGAAG TGAAG TGAAG T
1 TGAAG TGAAG TGAAG T
4389451 AAAGAGAAGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.21
Consensus pattern (5 bp):
TGAAG
Found at i:4391434 original size:31 final size:31
Alignment explanation
Indices: 4391362--4391434 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
4391352 AATTTCCAGA
* * *
4391362 TTCCGACGAAAATTTCGGCGACTTTTGAATT
1 TTCCGACGACAATTCCGGCGACTTTTGAAGT
*
4391393 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGACGACAATTCCGGCG-ACTTTTGAAGT
4391424 TTCCGACGACA
1 TTCCGACGACA
4391435 GACCCAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (31 bp):
TTCCGACGACAATTCCGGCGACTTTTGAAGT
Found at i:4391520 original size:19 final size:19
Alignment explanation
Indices: 4391496--4391540 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4391486 TCCGGTCAAT
4391496 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
4391515 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
4391534 ATCCGGC
1 TTCCGGC
4391541 ACCGGCGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:4391770 original size:5 final size:5
Alignment explanation
Indices: 4391760--4391802 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
4391750 TTCAGCCCCT
*
4391760 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
4391803 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:4391771 original size:15 final size:15
Alignment explanation
Indices: 4391760--4391814 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
4391750 TTCAGCCCCT
4391760 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
4391774 GCCGAGCCGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
4391790 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
4391806 TCCGAGCCG
1 -CCGAGCCG
4391815 CTCCAGGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.20, C:0.44, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:4391851 original size:17 final size:17
Alignment explanation
Indices: 4391831--4391891 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
4391821 GTTTTTTTTT
*
4391831 TTTTTTTTTTTTTTGAA
1 TTTTTTTTTTATTTGAA
*
4391848 TTTTTTTTTTATTTGAC
1 TTTTTTTTTTATTTGAA
** *
4391865 TTTGATTTTGATCTTG-A
1 TTTTTTTTTTAT-TTGAA
4391882 TTTTTTTTTT
1 TTTTTTTTTT
4391892 CTTTATTCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 31 0.91
18 3 0.09
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTATTTGAA
Found at i:4392513 original size:156 final size:156
Alignment explanation
Indices: 4391897--4392495 Score: 1063
Period size: 156 Copynumber: 3.8 Consensus size: 156
4391887 TTTTTCTTTA
* *
4391897 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
4391962 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
4392027 AATTAATTACTTGGCTGATTTTGATTTTTTT
130 AATTAATTAATTGGTTGATCTTGA----TTT
4392058 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
4392123 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
4392188 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
4392214 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
4392279 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAAAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
4392344 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* *
4392370 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
* *
4392435 AGGTGAGGGAATTTTTTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
4392496 AACAACTAAC
Statistics
Matches: 427, Mismatches: 11, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
156 279 0.65
160 113 0.26
161 35 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:4396186 original size:8 final size:8
Alignment explanation
Indices: 4396172--4396210 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
4396162 AAAGAAAGAA
4396172 GAAAAAAT
1 GAAAAAAT
*
4396180 GAGAAAAT
1 GAAAAAAT
4396188 GAAAAAAT
1 GAAAAAAT
4396196 GAAAAAAT
1 GAAAAAAT
4396204 GAAAAAA
1 GAAAAAA
4396211 GAGATCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:4397555 original size:41 final size:40
Alignment explanation
Indices: 4397401--4398336 Score: 1318
Period size: 40 Copynumber: 23.0 Consensus size: 40
4397391 GTCTAGGAGT
4397401 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397441 ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397481 ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397521 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
* *
4397562 ATTTATTTTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCA
1 ATTTA--CTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
4397604 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397644 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
4397684 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
4397726 ATTTACTTTCCAAAGTTCATTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
4397766 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4397808 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397848 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
4397889 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4397929 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4397970 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4398010 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
4398051 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4398091 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4398132 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4398174 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
4398215 ATTTATTTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
4398257 ATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4398297 ATTTAC-TTTCAAAAG-TCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGTT--GCCTCTGTTTAGAGGAGC
4398337 TTCGGCCAAA
Statistics
Matches: 831, Mismatches: 37, Indels: 55
0.90 0.04 0.06
Matches are distributed among these distances:
39 23 0.03
40 378 0.45
41 236 0.28
42 182 0.22
43 12 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:4397907 original size:81 final size:81
Alignment explanation
Indices: 4397401--4398336 Score: 1410
Period size: 81 Copynumber: 11.5 Consensus size: 81
4397391 GTCTAGGAGT
*
4397401 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCGT--TGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGC
4397464 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* *
4397481 ATTTATTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCCGT--TG
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-T-CGTGGTG
4397544 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* *
4397562 ATTTATTTTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
1 ATTTA--CTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGT
4397625 GCCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* *
4397644 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGC
*
4397709 CTCTGTTGAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* * *
4397726 ATTTACTTTCCAAAGTTCATTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGC
*
4397791 CTCTGTTGAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* *
4397808 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
4397873 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
4397889 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
*
4397954 TCTGTTGAGAGGAGCA
66 TCTGTTTAGAGGAGCA
* *
4397970 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
4398035 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
4398051 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
*
4398116 TCTGTTGAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
4398132 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
*
4398196 GCCTCTGTTGAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* * *
4398215 ATTTATTTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGT--
1 ATTTA-CTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT-CGTGG
4398277 TGCCTCTGTTTAGAGGAGCA
62 TGCCTCTGTTTAGAGGAGCA
*
4398297 ATTTAC-TTTCAAAAG-TCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGTT--GCCTCTGTTTAGAGGAGC
4398337 TTCGGCCAAA
Statistics
Matches: 811, Mismatches: 31, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
79 1 0.00
80 105 0.13
81 334 0.41
82 202 0.25
83 161 0.20
84 8 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCA
Found at i:4398360 original size:9 final size:9
Alignment explanation
Indices: 4398346--4398443 Score: 92
Period size: 9 Copynumber: 10.6 Consensus size: 9
4398336 CTTCGGCCAA
4398346 AAAAAAAAC
1 AAAAAAAAC
4398355 AAAAAAAA-
1 AAAAAAAAC
4398363 AAAACAAAA-
1 AAAA-AAAAC
4398372 AAACAAAAAC
1 AAA-AAAAAC
*
4398382 AAAAAAATC
1 AAAAAAAAC
*
4398391 AAAAAAATC
1 AAAAAAAAC
*
4398400 AAAAAAATC
1 AAAAAAAAC
*
4398409 AAAAAAATAA
1 AAAAAAA-AC
*
4398419 AAACAAAAAT
1 AAA-AAAAAC
4398429 AAAAAAAATC
1 AAAAAAAA-C
4398439 AAAAA
1 AAAAA
4398444 TAAAAATGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
8 4 0.05
9 54 0.69
10 16 0.21
11 4 0.05
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4398421 original size:41 final size:39
Alignment explanation
Indices: 4398343--4398443 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 39
4398333 GAGCTTCGGC
*
4398343 CAAAAA-AAAAACAAA-AAAAAAAAACAAAAAAACAAAAA
1 CAAAAATAAAAA-AAATCAAAAAAAACAAAAAAACAAAAA
* * *
4398381 CAAAAAAATCAAAAAAATCAAAAAAATCAAAAAAATAAAAA
1 C--AAAAATAAAAAAAATCAAAAAAAACAAAAAAACAAAAA
4398422 CAAAAATAAAAAAAATCAAAAA
1 CAAAAATAAAAAAAATCAAAAA
4398444 TAAAAATGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 1 0.02
39 20 0.37
40 8 0.15
41 25 0.46
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (39 bp):
CAAAAATAAAAAAAATCAAAAAAAACAAAAAAACAAAAA
Found at i:4398449 original size:1 final size:1
Alignment explanation
Indices: 4398344--4398436 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
4398334 AGCTTCGGCC
* * * * ** ** **
4398344 AAAAAAAAAACAAAAAAAAAAAACAAAAAAACAAAAACAAAAAAATCAAAAAAATCAAAAAAATC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
4398409 AAAAAAATAAAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
4398437 TCAAAAATAA
Statistics
Matches: 69, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:4399295 original size:31 final size:31
Alignment explanation
Indices: 4399223--4399295 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
4399213 AATTTCCAGA
* *
4399223 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
*
4399254 TTCCGACGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
4399285 TTCCGGCGACA
1 TTCCGGCGACA
4399296 GACCTAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:4399631 original size:5 final size:5
Alignment explanation
Indices: 4399621--4399648 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4399611 TTCAGCCCCT
4399621 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
4399649 CACCAACCCG
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:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:4400381 original size:156 final size:156
Alignment explanation
Indices: 4399766--4400362 Score: 1020
Period size: 156 Copynumber: 3.8 Consensus size: 156
4399756 TTTTTCTTTA
* *
4399766 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
4399831 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
* * *
4399896 ATTAATTACTTGGCTGATTTTGATTTTTTT
131 ATTAATTAATTGGTTGATCTTGA----TTT
4399926 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
4399991 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
4400056 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
4400082 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
*
4400147 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTTGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
4400212 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* *
4400238 TTCTTTAAATAAT-CGACGACGGAGCCTCTGCAAGTG-AACAGTAGTTTTTCTTGCATTACTCTT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCA-TACTCCT
4400301 GAGGTGAGGGAATTTTCTTCAATTTTTCTGCTAAAAGTATTAG-GATCAATTGAGAATAATTT
65 GAGGTGAGGGAATTTTC-TCAA-TTTTCTGCTAAAAGTATTAGAG-TCAATTGAGAATAATTT
4400363 CAACAACTAA
Statistics
Matches: 424, Mismatches: 9, Indels: 11
0.95 0.02 0.02
Matches are distributed among these distances:
154 19 0.04
155 46 0.11
156 175 0.41
157 37 0.09
160 147 0.35
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:4403149 original size:10 final size:10
Alignment explanation
Indices: 4403124--4403171 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
4403114 GAAGTTGAGT
4403124 AGTTAGTTAGA
1 AGTTAGTTA-A
4403135 A-TTAGTTAA
1 AGTTAGTTAA
* *
4403144 AGTTAGCTAT
1 AGTTAGTTAA
*
4403154 AGTTAGTTAT
1 AGTTAGTTAA
4403164 AGTTAGTT
1 AGTTAGTT
4403172 GATATGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.91
11 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (10 bp):
AGTTAGTTAA
Found at i:4403149 original size:20 final size:20
Alignment explanation
Indices: 4403124--4403171 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4403114 GAAGTTGAGT
4403124 AGTTAGTTAGAATTAGTTAA
1 AGTTAGTTAGAATTAGTTAA
* * * *
4403144 AGTTAGCTATAGTTAGTTAT
1 AGTTAGTTAGAATTAGTTAA
4403164 AGTTAGTT
1 AGTTAGTT
4403172 GATATGGCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
AGTTAGTTAGAATTAGTTAA
Found at i:4404858 original size:37 final size:37
Alignment explanation
Indices: 4404817--4404889 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
4404807 TTTATGCAAG
*
4404817 ATTGGTTACAGTTATTATTTTGTTCATTTCATGCCCT
1 ATTGGTTACAGTCATTATTTTGTTCATTTCATGCCCT
*
4404854 ATTGGTTATAGTCATTATTTTGTTCATTTCATGCCC
1 ATTGGTTACAGTCATTATTTTGTTCATTTCATGCCC
4404890 CATGCTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (37 bp):
ATTGGTTACAGTCATTATTTTGTTCATTTCATGCCCT
Found at i:4427976 original size:27 final size:27
Alignment explanation
Indices: 4427946--4428002 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4427936 GCAGGGTTAG
4427946 ATAGAGAGGAAGAATTATGTCTAATTC
1 ATAGAGAGGAAGAATTATGTCTAATTC
4427973 ATAGAGAGGAAGAATTATGTCTAATTC
1 ATAGAGAGGAAGAATTATGTCTAATTC
4428000 ATA
1 ATA
4428003 TATCCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
ATAGAGAGGAAGAATTATGTCTAATTC
Found at i:4429129 original size:153 final size:153
Alignment explanation
Indices: 4428843--4429151 Score: 496
Period size: 153 Copynumber: 2.0 Consensus size: 153
4428833 GATTCTGTTA
* *
4428843 TTGCTCTTCATCGGATTGGAATTGCATCTGTAATCAAGATCTTGACAGTGAAGTGAGTTTGCCTT
1 TTGCTCTTAATCGGATTGGAA-TGCATCTATAATCAAGATCTTGACAGTGAAGTGAGTTTGCCTT
* *
4428908 TGGTGATCTGTGCTTCAATTTTGAATGTCATTTTTGCTAGATTCTCCAATACAAGGGTTAAAACA
65 TGGTGATCTGTGCTTCAATTTTGAATGTCATTTTTGCTAGATTCTCCAACACAAGGGTTAAAAAA
* *
4428973 CTGCATCTGGTGTCGGCATCTTTT
130 CTGCATCTGATGTCAGCATCTTTT
*
4428997 TTGCTTTTAATCGGATTGGAA-GCATCTATAATCAAGATCTTGACAGTGAAGTGAGTTTGCC-TT
1 TTGCTCTTAATCGGATTGGAATGCATCTATAATCAAGATCTTGACAGTGAAGTGAGTTTGCCTTT
*
4429060 GGTGATCTGTGCTTCAATTTTGAATTTGTCATTTTTGCTAGATTCTCCAGCACAAGGGTTAAAAA
66 GGTGATCTGTGCTTCAATTTTGAA--TGTCATTTTTGCTAGATTCTCCAACACAAGGGTTAAAAA
*
4429125 ACTGCCTCTGATGTCAGCATCTTTT
129 ACTGCATCTGATGTCAGCATCTTTT
4429150 TT
1 TT
4429152 AGTCTTTTTT
Statistics
Matches: 144, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
151 26 0.18
152 39 0.27
153 60 0.42
154 19 0.13
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (153 bp):
TTGCTCTTAATCGGATTGGAATGCATCTATAATCAAGATCTTGACAGTGAAGTGAGTTTGCCTTT
GGTGATCTGTGCTTCAATTTTGAATGTCATTTTTGCTAGATTCTCCAACACAAGGGTTAAAAAAC
TGCATCTGATGTCAGCATCTTTT
Found at i:4429921 original size:11 final size:12
Alignment explanation
Indices: 4429890--4429919 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4429880 AAATATGGAG
*
4429890 TTTTTTTTTTTA
1 TTTTTTTCTTTA
4429902 TTTTTTTCTTTA
1 TTTTTTTCTTTA
4429914 TTTTTT
1 TTTTTT
4429920 CTATCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTA
Found at i:4430864 original size:25 final size:25
Alignment explanation
Indices: 4430794--4430864 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
4430784 GTAATATAAA
4430794 TATTAAAA-TATTAAAAATTATTTAT
1 TATTAAAATTATT-AAAATTATTTAT
* *
4430819 TATTAAAGTATATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
*
4430845 TATTAAAATTATTAATATTA
1 TATTAAAATTATTAAAATTA
4430865 AAAATAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 16 0.41
26 19 0.49
27 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Found at i:4430865 original size:15 final size:16
Alignment explanation
Indices: 4430828--4430867 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
4430818 TTATTAAAGT
*
4430828 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
4430844 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
4430859 ATATTAAAA
1 ATATTAAAA
4430868 ATAATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:4430873 original size:19 final size:19
Alignment explanation
Indices: 4430851--4430925 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 19
4430841 TTATTATTAA
4430851 AATTATTAATATTAAAAAT
1 AATTATTAATATTAAAAAT
* *
4430870 AATTA-T-ATTTTAATAAT
1 AATTATTAATATTAAAAAT
*
4430887 AATTTTTAATA-TAAAAA-
1 AATTATTAATATTAAAAAT
*
4430904 AATTAAGTTAATATAAAAAAT
1 AATT-A-TTAATATTAAAAAT
4430925 A
1 A
4430926 CTTAAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 17 0.40
18 7 0.16
19 13 0.30
20 5 0.12
21 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
AATTATTAATATTAAAAAT
Found at i:4430930 original size:16 final size:18
Alignment explanation
Indices: 4430892--4430937 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
4430882 ATAATAATTT
*
4430892 TTAATATAAAAAAATTAAG
1 TTAATAT-AAAAAATTAAC
4430911 TTAATATAAAAAA-T-AC
1 TTAATATAAAAAATTAAC
*
4430927 TTAAAATAAAA
1 TTAATATAAAA
4430938 CTATTTCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.44
17 1 0.04
18 6 0.24
19 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TTAATATAAAAAATTAAC
Found at i:4431008 original size:11 final size:11
Alignment explanation
Indices: 4430994--4431060 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
4430984 TTTAATATAT
*
4430994 TATATTAATAG
1 TATATTAATAA
4431005 TATATT-AT--
1 TATATTAATAA
4431013 T-TATTAATAA
1 TATATTAATAA
4431023 TATATTAATAA
1 TATATTAATAA
4431034 TATATTATTATAA
1 TATATTA--ATAA
*
4431047 TAT-TTATTAA
1 TATATTAATAA
4431057 TATA
1 TATA
4431061 GTGTTATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
7 4 0.08
8 3 0.06
10 9 0.19
11 22 0.46
12 3 0.06
13 7 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
TATATTAATAA
Found at i:4431083 original size:37 final size:38
Alignment explanation
Indices: 4430955--4431083 Score: 99
Period size: 37 Copynumber: 3.4 Consensus size: 38
4430945 TTATTTTTAT
**
4430955 ATTATTTATTAATATAATGTAATATTATTTTTAATATATT-
1 ATTATTTATTAATATAAT-T-AT-TTATTAATAATATATTA
* *
4430995 A-TA-TTAATAGTAT-ATTATTTATTAATAATATATTA
1 ATTATTTATTAATATAATTATTTATTAATAATATATTA
* * * *
4431030 ATAATATATTATTATAA-TATTTATTAAT-ATAGTGTTA
1 ATTATTTATTAATATAATTATTTATTAATAATA-TATTA
*
4431067 TTTATTTATTAATATAA
1 ATTATTTATTAATATAA
4431084 CATTACTTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
34 14 0.20
35 3 0.04
36 5 0.07
37 37 0.52
38 9 0.13
39 2 0.03
40 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (38 bp):
ATTATTTATTAATATAATTATTTATTAATAATATATTA
Found at i:4431093 original size:22 final size:22
Alignment explanation
Indices: 4431047--4431093 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4431037 ATTATTATAA
*** *
4431047 TATTTATTAATATAGTGTTATT
1 TATTTATTAATATAACATTACT
4431069 TATTTATTAATATAACATTACT
1 TATTTATTAATATAACATTACT
4431091 TAT
1 TAT
4431094 ATTAGCCTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (22 bp):
TATTTATTAATATAACATTACT
Found at i:4432802 original size:23 final size:23
Alignment explanation
Indices: 4432772--4432826 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
4432762 AGCTAACAAC
*
4432772 TTATTAATAGATTAGAATATTAT
1 TTATTAATAGATAAGAATATTAT
* *
4432795 TTATTAATATATAATAATATTAT
1 TTATTAATAGATAAGAATATTAT
*
4432818 TCATTAATA
1 TTATTAATA
4432827 TAATATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATTAATAGATAAGAATATTAT
Found at i:4432844 original size:18 final size:18
Alignment explanation
Indices: 4432808--4432844 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4432798 TTAATATATA
*
4432808 ATAATATTATTCATTAAT
1 ATAATATTATTCATAAAT
*
4432826 ATAATATTATTTATAAAT
1 ATAATATTATTCATAAAT
4432844 A
1 A
4432845 AAATTATACT
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATATTATTCATAAAT
Found at i:4447134 original size:17 final size:16
Alignment explanation
Indices: 4447112--4447158 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
4447102 TATAGTTTTT
*
4447112 TATTTTTAGTAACTAGC
1 TATTTTTAATAACTA-C
4447129 TATTTTTAATAACTAC
1 TATTTTTAATAACTAC
* *
4447145 CATTTTTATTAACT
1 TATTTTTAATAACT
4447159 TTCCATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (16 bp):
TATTTTTAATAACTAC
Found at i:4447149 original size:16 final size:17
Alignment explanation
Indices: 4447113--4447158 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
4447103 ATAGTTTTTT
* *
4447113 ATTTTTAGTAACTAGCT
1 ATTTTTAATAACTAGCC
4447130 ATTTTTAATAACTA-CC
1 ATTTTTAATAACTAGCC
*
4447146 ATTTTTATTAACT
1 ATTTTTAATAACT
4447159 TTCCATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (17 bp):
ATTTTTAATAACTAGCC
Found at i:4449233 original size:2 final size:2
Alignment explanation
Indices: 4449226--4449255 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4449216 ATCATACATA
4449226 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
4449256 TCTAGCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4454670 original size:216 final size:212
Alignment explanation
Indices: 4454239--4454671 Score: 462
Period size: 216 Copynumber: 2.0 Consensus size: 212
4454229 TTTATTTTAG
* * *
4454239 GTGACGTTATAATTTTATCACCAATTTAAAATTTTATCTGTCACGAAATTTTTTTGATAGATTTG
1 GTGACGTTATAATTTTATCACCAATTTAAAAATTTATCTGTCACGAAATTTTTCTAATAGATTTG
* **
4454304 AGGTGACATTATTAATTTTTGTCATAAATTGAACACTTAACTATTAATGATGTTGCAATTTCATC
66 AGGTGACATTATCAATTTTTGTCATAAATTGAACACTTAACTATTAATGACATTGCAATTTCATC
* * * * *
4454369 ACATTAATATATGGTAGTATACAACGATAATATAAATGTCACAAATTTTTACCACCAAATTTAAT
131 ACATTAATATATGGTAGTAGACAACAATAACATAAATATCACAAACTTTTACCACCAAATTTAAT
* * *
4454434 TGGTGAGATATTTTTTT
196 TGGTAAAACATTTTTTT
* * *
4454451 GTGACGTT-TAAATTTTGTCACTAATTTAAAAATTTATCTGTGACG-AATTTTTCTAATAGATTT
1 GTGACGTTAT-AATTTTATCACCAATTTAAAAATTTATCTGTCACGAAATTTTTCTAATAGATTT
* *
4454514 -AGGTGATC-TTATCAATTTTTGTCATAAA-TGTAACATTTTAGTTATCTATTAATGACATTGTA
65 GAGGTGA-CATTATCAATTTTTGTCATAAATTG-AACA-CTTA---A-CTATTAATGACATTGCA
** * * * * ** * * *
4454576 ATTTTGTCACCTTTATTTTATGGTATTAGATGACAATAACATAAATATTACAAACTTTTACTATC
123 ATTTCATCA-CATTAATATATGGTAGTAGACAACAATAACATAAATATCACAAACTTTTACCACC
* *
4454641 AATTTTATTTGGTAAAACATTTTTTT
187 AAATTTAATTGGTAAAACATTTTTTT
4454667 GTGAC
1 GTGAC
4454672 ATTTTTTTAT
Statistics
Matches: 180, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
209 2 0.01
210 29 0.16
211 21 0.12
212 39 0.22
214 1 0.01
215 21 0.12
216 67 0.37
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (212 bp):
GTGACGTTATAATTTTATCACCAATTTAAAAATTTATCTGTCACGAAATTTTTCTAATAGATTTG
AGGTGACATTATCAATTTTTGTCATAAATTGAACACTTAACTATTAATGACATTGCAATTTCATC
ACATTAATATATGGTAGTAGACAACAATAACATAAATATCACAAACTTTTACCACCAAATTTAAT
TGGTAAAACATTTTTTT
Found at i:4455000 original size:236 final size:234
Alignment explanation
Indices: 4454461--4455207 Score: 805
Period size: 236 Copynumber: 3.2 Consensus size: 234
4454451 GTGACGTTTA
* *
4454461 AATTTTGTCACTAATTTAAAAATTTATCTGTGACGAAT-TTTTCTAATAGA-TTTAGGTGAT-CT
1 AATTTTGTCACTAATTTAAAATTTTATCTGTGACGAATGTTTTCTGATAGATTTTAGGTGATGC-
* * * * **
4454523 TATCAATTTTTGTCATA-AATGTAACATTTTAGTTATCTATTAATGACATTGTAATTTTGTCACC
65 TATTAATTTTTGTCATAGATTG-AACACTTTAGTTAACTATTAATGACATTGTAATTTCATCA-C
* * * * ** * * * *
4454587 TTTATTTTATGGTATTAGATGACAATAACATAAATATTACAAACTTTTACTATCAATTTTATTTG
128 ATTAATTTAT-GTGTTATATGATGATAACATAAATATCACAAACTTTTACCACCAAATTTATTTG
* *
4454652 GT-AAAACATTTTTTTGTGACATTTTTTTATTTTAAGT--GTTAT
192 ATGAAAA-A-TTTTTTATGACATTTTTTTATTTTAAGTGAGTTAT
* * * * * * * *
4454694 AAATGTGTCACTGATTTAAAATTTTATCAGTGATGAATGTTTTCTGATAAATTTTAGGTGACGTT
1 AATTTTGTCACTAATTTAAAATTTTATCTGTGACGAATGTTTTCTGATAGATTTTAGGTGATGCT
* * *
4454759 ATTAATTTTTGTCATAGATTGAATACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTT
66 ATTAATTTTTGTCATAGATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCACATT
* *
4454824 AATTTATAGTGTTATATGATGATAACATAACTATCATAAACTTTTACCACCAAATTTATTTGATG
131 AATTTAT-GTGTTATATGATGATAACATAAATATCACAAACTTTTACCACCAAATTTATTTGATG
** * *
4454889 GGAAATTTTTTATGACATTTTTTTATCTTATGTGAGGTTAT
195 AAAAATTTTTTATGACATTTTTTTATTTTAAGTGA-GTTAT
* * * * *
4454930 AATTTTGTCACTAATTTAAATTTTTATTTGTGACAAATGTTTTTTGATAGATTTTAGGTAATGCT
1 AATTTTGTCACTAATTTAAAATTTTATCTGTGACGAATGTTTTCTGATAGATTTTAGGTGATGCT
* * *
4454995 ATTAATTTTTGTCATAGATCGAACACTTTAGTTAACTATTAATGACATTATAATTTCATCACATC
66 ATTAATTTTTGTCATAGATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCACATT
* * **
4455060 AATGTT-TGATGTTATATGATGATAACATAAATGTCACAAACTTTTATC-GTAAATTTTATTT-A
131 AAT-TTATG-TGTTATATGATGATAACATAAATATCACAAACTTTTACCACCAAA-TTTATTTGA
* * *
4455122 GTGAAAAATTTTTTATAACA-TTTTTTATTTTAGGTGACATTAT
193 -TGAAAAATTTTTTATGACATTTTTTTATTTTAAGTGA-GTTAT
* * *
4455165 AATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTT
1 AATTTTGTCACTAATTTAAAATTTTATCTGTGACGAATGTTTT
4455208 TTTGATAAAT
Statistics
Matches: 427, Mismatches: 75, Indels: 22
0.81 0.14 0.04
Matches are distributed among these distances:
233 57 0.13
234 65 0.15
235 122 0.29
236 181 0.42
237 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (234 bp):
AATTTTGTCACTAATTTAAAATTTTATCTGTGACGAATGTTTTCTGATAGATTTTAGGTGATGCT
ATTAATTTTTGTCATAGATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCACATT
AATTTATGTGTTATATGATGATAACATAAATATCACAAACTTTTACCACCAAATTTATTTGATGA
AAAATTTTTTATGACATTTTTTTATTTTAAGTGAGTTAT
Found at i:4456315 original size:23 final size:23
Alignment explanation
Indices: 4456289--4456332 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
4456279 TTTATATAAA
4456289 ATTAATTTTAATTCAAGTTTCAC
1 ATTAATTTTAATTCAAGTTTCAC
4456312 ATTAATTTTAATTCAAGTTTC
1 ATTAATTTTAATTCAAGTTTC
4456333 CCTAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (23 bp):
ATTAATTTTAATTCAAGTTTCAC
Found at i:4456598 original size:36 final size:36
Alignment explanation
Indices: 4456541--4456628 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
4456531 TTTTCATCTA
* * *
4456541 TTCTATTTTATTTGGTCTCTTTTCTGTTCTATTTTG
1 TTCTATTCTATTTGGTCTCTTTTCTATTCTATTATG
* *
4456577 TTTTATTCTGTTTGGTCTCTTTTCTATTCTATTATG
1 TTCTATTCTATTTGGTCTCTTTTCTATTCTATTATG
4456613 TTCTATTCTATTTGGT
1 TTCTATTCTATTTGGT
4456629 TGTAATCTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.10, C:0.14, G:0.11, T:0.65
Consensus pattern (36 bp):
TTCTATTCTATTTGGTCTCTTTTCTATTCTATTATG
Found at i:4459710 original size:12 final size:13
Alignment explanation
Indices: 4459693--4459721 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4459683 TTGGATCTCG
4459693 ATTTAGG-TTTTA
1 ATTTAGGATTTTA
4459705 ATTTAGGATTTTA
1 ATTTAGGATTTTA
4459718 ATTT
1 ATTT
4459722 TAGAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
ATTTAGGATTTTA
Found at i:4461784 original size:15 final size:14
Alignment explanation
Indices: 4461766--4461809 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
4461756 TGCCAAGCCT
4461766 TTTAATTATTAATTA
1 TTTAATTATT-ATTA
4461781 TTTAATTATTATTA
1 TTTAATTATTATTA
*
4461795 -TT-ATTACTATTA
1 TTTAATTATTATTA
4461807 TTT
1 TTT
4461810 TGTTTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 4 0.15
14 4 0.15
15 10 0.37
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTATTATTA
Found at i:4466343 original size:19 final size:18
Alignment explanation
Indices: 4466319--4466357 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 18
4466309 GGGGTATGGG
4466319 AAAATTGCTCAATTTTTGA
1 AAAATT-CTCAATTTTTGA
4466338 AAAATTCTCAATTTTTGA
1 AAAATTCTCAATTTTTGA
4466356 AA
1 AA
4466358 TTTTTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (18 bp):
AAAATTCTCAATTTTTGA
Found at i:4467029 original size:1 final size:1
Alignment explanation
Indices: 4467023--4467074 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
4467013 AGTAGCTTGC
* * * * *
4467023 AAAAAAAAAAAAAAAAGAAAGAAAGAAAAAAGAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4467075 TGAAAACAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:4467054 original size:11 final size:10
Alignment explanation
Indices: 4467023--4467080 Score: 71
Period size: 11 Copynumber: 5.4 Consensus size: 10
4467013 AGTAGCTTGC
*
4467023 AAAAAAAAAA
1 AAAAAAAAAG
4467033 AAAAAAGAAAG
1 AAAAAA-AAAG
4467044 AAAGAAAAAAG
1 AAA-AAAAAAG
4467055 AAAAAAAAAAG
1 -AAAAAAAAAG
4467066 AAAAAAAAATG
1 AAAAAAAAA-G
4467077 AAAA
1 AAAA
4467081 CAATAAAGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
10 15 0.35
11 22 0.51
12 6 0.14
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4467058 original size:22 final size:21
Alignment explanation
Indices: 4467023--4467080 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
4467013 AGTAGCTTGC
4467023 AAAAAAAAA-AAAAAAAGAAAG
1 AAAAAAAAAGAAAAAAA-AAAG
4467044 AAAGAAAAAAGAAAAAAAAAAG
1 AAA-AAAAAAGAAAAAAAAAAG
4467066 AAAAAAAAATGAAAA
1 AAAAAAAAA-GAAAA
4467081 CAATAAAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.26
22 18 0.53
23 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAAAAG
Found at i:4491300 original size:20 final size:20
Alignment explanation
Indices: 4491271--4491310 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4491261 AAAAAATGAT
4491271 AAAATAGAAATCATAATAAAA
1 AAAATAGAAATCATAA-AAAA
4491292 AAAAT-GAAATCATAAAAAA
1 AAAATAGAAATCATAAAAAA
4491311 TTATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAATAGAAATCATAAAAAA
Found at i:4491334 original size:16 final size:15
Alignment explanation
Indices: 4491308--4491337 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4491298 AAATCATAAA
4491308 AAATTATAAATTATT
1 AAATTATAAATTATT
4491323 AAATTAATAAATTAT
1 AAATT-ATAAATTAT
4491338 CATTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTATAAATTATT
Found at i:4491478 original size:14 final size:14
Alignment explanation
Indices: 4491459--4491527 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 14
4491449 TAAAAAATAG
*
4491459 TATATATAATATTA
1 TATATATAATACTA
4491473 TATATATAAATACTA
1 TATATAT-AATACTA
* *
4491488 AATATGTAAATACTA
1 TATATAT-AATACTA
4491503 -ATATATAATACTA
1 TATATATAATACTA
*
4491516 GATATAATAATA
1 TATAT-ATAATA
4491528 AAATAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
13 7 0.15
14 16 0.33
15 25 0.52
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (14 bp):
TATATATAATACTA
Found at i:4499318 original size:39 final size:38
Alignment explanation
Indices: 4499226--4499531 Score: 181
Period size: 39 Copynumber: 7.9 Consensus size: 38
4499216 TGTGTATCAT
*
4499226 CTTATTTTT-AA-TTGTGTGCCTTTGTGTT-AAAGGAACC
1 CTTATTTTTAAAGTTGTGTGCCTTTGTGTTGAAA-G-AGC
* * *
4499263 CTTATTTTTTATAGTTGTGTGCCTTTATATT-AAAGAGC
1 CTTA-TTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAGC
** * *
4499301 CTTTATTTTTTAAAGTTGTGTGTTTTTGTCTTGAAGGAGC
1 C-TTA-TTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAGC
* ** ** *
4499341 ATTTATTTTTAAAGTCATGTGCCTTCATGTTGAAAAAGCC
1 -CTTATTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAG-C
* * * * *
4499381 CTAATATTTAAAGTTGTGTGCCTTCGTTTTGAAAGAGT
1 CTTATTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAGC
* * * *
4499419 CTTAATTTTAAAGTTGTGTG-CTTTCGTTTTGAATGAGT
1 CTTATTTTTAAAGTTGTGTGCCTTT-GTGTTGAAAGAGC
* * ** * * *
4499457 CTTAATTTTAAAGTTGTGTGACTTCATTTTGAAGGAGT
1 CTTATTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAGC
* * * * *
4499495 CTTAACTTTTAAAGTTTTATGCCTTTTTTTTGAAAGA
1 CTT-ATTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGA
4499532 ATTCTTAATT
Statistics
Matches: 215, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
37 7 0.03
38 71 0.33
39 109 0.51
40 28 0.13
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.47
Consensus pattern (38 bp):
CTTATTTTTAAAGTTGTGTGCCTTTGTGTTGAAAGAGC
Found at i:4499445 original size:38 final size:38
Alignment explanation
Indices: 4499308--4499543 Score: 199
Period size: 39 Copynumber: 6.1 Consensus size: 38
4499298 AGCCTTTATT
* * * * *
4499308 TTTTAAAGTTGTGTGTTTTTGTCTTGAAGGAG-CATTTAT
1 TTTTAAAGTTGTGTGCTTTCGTTTTGAAAGAGTC--TTAA
** * * * * * *
4499347 TTTTAAAGTCATGTGCCTTCATGTTGAAAAAGCCCTAA
1 TTTTAAAGTTGTGTGCTTTCGTTTTGAAAGAGTCTTAA
*
4499385 TATTTAAAGTTGTGTGCCTTCGTTTTGAAAGAGTCTTAA
1 T-TTTAAAGTTGTGTGCTTTCGTTTTGAAAGAGTCTTAA
*
4499424 TTTTAAAGTTGTGTGCTTTCGTTTTGAATGAGTCTTAA
1 TTTTAAAGTTGTGTGCTTTCGTTTTGAAAGAGTCTTAA
* *
4499462 TTTTAAAGTTGTGTGAC-TTCATTTTGAAGGAGTCTTAA
1 TTTTAAAGTTGTGTG-CTTTCGTTTTGAAAGAGTCTTAA
* * * *
4499500 CTTTTAAAGTTTTATGCCTTT-TTTTTGAAAGAATTCTTAA
1 -TTTTAAAGTTGTGTG-CTTTCGTTTTGAAAG-AGTCTTAA
4499540 TTTT
1 TTTT
4499544 TTTAAATTTA
Statistics
Matches: 163, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
38 72 0.44
39 81 0.50
40 10 0.06
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (38 bp):
TTTTAAAGTTGTGTGCTTTCGTTTTGAAAGAGTCTTAA
Found at i:4499506 original size:115 final size:116
Alignment explanation
Indices: 4499308--4499543 Score: 262
Period size: 115 Copynumber: 2.0 Consensus size: 116
4499298 AGCCTTTATT
* * * *
4499308 TTTTAAAGTTGTGTGTTTTTGTCTTGAAGGAGCATTTATTTTTAAAGTCATGTGCCTTCATGTTG
1 TTTTAAAGTTGTGTGCTTTCGTCTTGAAGGAGCA-TTAATTTTAAAGTCATGTGACTTCATGTTG
*
4499373 AAAAAGCCCTAATATTTAAAGTTGTGTGCCTTCGTTTTGAAAG-AGTCTTAA
65 AAAAAGCCCTAATATTTAAAGTTGTATGCCTTCGTTTTGAAAGAAGTCTTAA
* * ** *
4499424 TTTTAAAGTTGTGTGCTTTCGTTTTGAATGAGTC-TTAATTTTAAAGTTGTGTGACTTCATTTTG
1 TTTTAAAGTTGTGTGCTTTCGTCTTGAAGGAG-CATTAATTTTAAAGTCATGTGACTTCATGTTG
** * * * ** *
4499488 AAGGAGTCTTAACT-TTTAAAGTTTTATGCCTTTTTTTTGAAAGAATTCTTAA
65 AAAAAGCCCTAA-TATTTAAAGTTGTATGCCTTCGTTTTGAAAGAAGTCTTAA
4499540 TTTT
1 TTTT
4499544 TTTAAATTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
115 58 0.59
116 40 0.40
117 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (116 bp):
TTTTAAAGTTGTGTGCTTTCGTCTTGAAGGAGCATTAATTTTAAAGTCATGTGACTTCATGTTGA
AAAAGCCCTAATATTTAAAGTTGTATGCCTTCGTTTTGAAAGAAGTCTTAA
Found at i:4500609 original size:24 final size:23
Alignment explanation
Indices: 4500582--4500727 Score: 97
Period size: 26 Copynumber: 6.2 Consensus size: 23
4500572 AATGGTTAAT
*
4500582 TTTATTTATTTATTTATGTACTTA
1 TTTATTTATTTATTTATCTA-TTA
*
4500606 TTTATTTATTTATTTA--TGTTA
1 TTTATTTATTTATTTATCTATTA
*
4500627 TAT-TTTACTTTATTTATCTA-TA
1 TTTATTTA-TTTATTTATCTATTA
* *
4500649 TATATTTATTTTATTTATCCCATTTA
1 TTTATTTA-TTTATTTAT-CTA-TTA
* *
4500675 TTTATTTATTTATTATACCTTTTTAA
1 TTTATTTATTTATT-TATC-TATT-A
*
4500701 TTTAATTATTTAATTTAT-T-TTA
1 TTTATTTATTT-ATTTATCTATTA
4500723 TTTAT
1 TTTAT
4500728 CGTATTTGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
20 4 0.04
21 13 0.13
22 11 0.11
23 16 0.16
24 19 0.19
25 9 0.09
26 24 0.24
27 3 0.03
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (23 bp):
TTTATTTATTTATTTATCTATTA
Found at i:4500638 original size:5 final size:4
Alignment explanation
Indices: 4500582--4500727 Score: 107
Period size: 4 Copynumber: 34.2 Consensus size: 4
4500572 AATGGTTAAT
* * *
4500582 TTTA TTTA TTTA TTTA TGTA CTTA TTTA TTTA TTTA TTTA TGTTA TAT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
* **
4500630 TTTA CTTTA TTTA TCTATA TATA TTTA TTTTA TTTA TCCCA TTTA TTTA
1 TTTA -TTTA TTTA T-T-TA TTTA TTTA -TTTA TTTA T-TTA TTTA TTTA
* *
4500679 TTTA TTTA TTATA CCTTT- TTAA TTTA ATTA TTTAA TTTA TTTTA TTTA
1 TTTA TTTA TT-TA --TTTA TTTA TTTA TTTA TTT-A TTTA -TTTA TTTA
4500727 T
1 T
4500728 CGTATTTGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
3 4 0.04
4 78 0.69
5 25 0.22
6 4 0.04
7 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:4500725 original size:22 final size:23
Alignment explanation
Indices: 4500670--4500726 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
4500660 TATTTATCCC
*
4500670 ATTTA-TTTATTTATTTATTATA
1 ATTTATTTTATTTAATTATTATA
** *
4500692 CCTT-TTTAATTTAATTATT-TA
1 ATTTATTTTATTTAATTATTATA
4500713 ATTTATTTTATTTA
1 ATTTATTTTATTTA
4500727 TCGTATTTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTATTTTATTTAATTATTATA
Found at i:4512203 original size:14 final size:13
Alignment explanation
Indices: 4512156--4512210 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
4512146 AATTATTAAA
4512156 AAAT-TCAAAATC
1 AAATGTCAAAATC
*
4512168 AAA-GTCAAAATT
1 AAATGTCAAAATC
*
4512180 AAAAGTCAAAGATC
1 AAATGTCAAA-ATC
4512194 AAATGTCAAAGATC
1 AAATGTCAAA-ATC
4512208 AAA
1 AAA
4512211 AAGTTAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 13 0.35
13 6 0.16
14 18 0.49
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (13 bp):
AAATGTCAAAATC
Found at i:4512965 original size:175 final size:175
Alignment explanation
Indices: 4512668--4513021 Score: 627
Period size: 175 Copynumber: 2.0 Consensus size: 175
4512658 GCGTTTGGAC
* *
4512668 AAAGTGTATGCATTGAAACCACTTCAAACAAGTTTGAAATGATAAAATAAATATGATAAAAGCAC
1 AAAGTGTATGCATTGAAACCACTTCAAACAAGTTTGAAATGATAAAATAAATATAATAAAAGAAC
**
4512733 AAATATTCAACAAATGCATGTATTTCAAATTTTCAATGATTGAAACCCAATTTATGCATGAATAG
66 AAATATTCAACAAATGCATGTATTTCAAATTTTCAATGATCCAAACCCAATTTATGCATGAATAG
4512798 TGCCAAGAACACCTTGAAACATTAAACCTTTGTCACTTTCATTCA
131 TGCCAAGAACACCTTGAAACATTAAACCTTTGTCACTTTCATTCA
*
4512843 AAAGTTTATGCATTGAAACCACTTCAAACAAGTTTGAAATGATAAAATAAATATAATAAAAGAAC
1 AAAGTGTATGCATTGAAACCACTTCAAACAAGTTTGAAATGATAAAATAAATATAATAAAAGAAC
* *
4512908 AAATATTCAACAAATGCATGTATTTCAATTTTTCAATGATCCAAACCCCATTTATGCATGAATAG
66 AAATATTCAACAAATGCATGTATTTCAAATTTTCAATGATCCAAACCCAATTTATGCATGAATAG
* *
4512973 TGCCAAGAACACCTTGAAATATTAAAGCTTTGTCACTTTCATTCA
131 TGCCAAGAACACCTTGAAACATTAAACCTTTGTCACTTTCATTCA
4513018 AAAG
1 AAAG
4513022 ACTTTAGAAC
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 170 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (175 bp):
AAAGTGTATGCATTGAAACCACTTCAAACAAGTTTGAAATGATAAAATAAATATAATAAAAGAAC
AAATATTCAACAAATGCATGTATTTCAAATTTTCAATGATCCAAACCCAATTTATGCATGAATAG
TGCCAAGAACACCTTGAAACATTAAACCTTTGTCACTTTCATTCA
Found at i:4523422 original size:10 final size:11
Alignment explanation
Indices: 4523398--4523422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4523388 GCCAATAACT
4523398 AAAACTAAAGA
1 AAAACTAAAGA
4523409 AAAACTAAAGA
1 AAAACTAAAGA
4523420 AAA
1 AAA
4523423 GAACTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACTAAAGA
Found at i:4523433 original size:12 final size:13
Alignment explanation
Indices: 4523400--4523446 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 13
4523390 CAATAACTAA
4523400 AACTAAAG-AAA-
1 AACTAAAGAAAAG
4523411 AACTAAAGAAAAG
1 AACTAAAGAAAAG
4523424 AACT-AAGAAAAG
1 AACTAAAGAAAAG
*
4523436 AA-AAAAGAAAA
1 AACTAAAGAAAA
4523447 AAAATGAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.25
12 20 0.62
13 4 0.12
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (13 bp):
AACTAAAGAAAAG
Found at i:4531317 original size:21 final size:23
Alignment explanation
Indices: 4531284--4531326 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
4531274 TAATAAATAA
*
4531284 AACTGAAGAAAAACTAAAGAAAG
1 AACTGAAGAAAAACAAAAGAAAG
*
4531307 AACT-AAG-AAAAGAAAAGAAA
1 AACTGAAGAAAAACAAAAGAAA
4531327 AAGAAGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.70, C:0.07, G:0.16, T:0.07
Consensus pattern (23 bp):
AACTGAAGAAAAACAAAAGAAAG
Found at i:4532460 original size:102 final size:100
Alignment explanation
Indices: 4532289--4532478 Score: 267
Period size: 100 Copynumber: 1.9 Consensus size: 100
4532279 AAAAAAAAAA
* * **
4532289 TTTTAAAGTTTGTTGCCTATATTTTTAGGAGTTTTTTCTAAAAAATTTTTAAAGTTTGTTGCCTA
1 TTTTAAAGTTTGTTGCCTATATTTATAAGAGCCTTTTCTAAAAAATTTTTAAAGTTTGTTGCCTA
4532354 TCTTCATAAGAA-CCCTTTTCAAATTGAGATTTCTT
66 TCTTCATAA-AAGCCCTTTTCAAATTGAGATTTCTT
* *
4532389 TTTTTAAGTTTGTTGCCTATCTTTATAAGAGCCCTTTTC-AAAAAATATTTTCAAAGTTTGTTGC
1 TTTTAAAGTTTGTTGCCTATATTTATAAGAG-CCTTTTCTAAAAAAT-TTTT-AAAGTTTGTTGC
*
4532453 CTTTCTTCATAAAAGCCCTTTTCAAA
63 CTATCTTCATAAAAGCCCTTTTCAAA
4532479 AAAAAAAACA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
100 34 0.43
101 11 0.14
102 34 0.43
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (100 bp):
TTTTAAAGTTTGTTGCCTATATTTATAAGAGCCTTTTCTAAAAAATTTTTAAAGTTTGTTGCCTA
TCTTCATAAAAGCCCTTTTCAAATTGAGATTTCTT
Found at i:4532470 original size:48 final size:46
Alignment explanation
Indices: 4532388--4532481 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 46
4532378 TGAGATTTCT
* * *
4532388 TTTTTTAAGTTTGTTGCCTATCTTTATAAGAGCCCTTTTCAAAAAA
1 TTTTTAAAGTTTGTTGCCTATCTTCATAAAAGCCCTTTTCAAAAAA
*
4532434 TATTTTCAAAGTTTGTTGCCTTTCTTCATAAAAGCCCTTTTCAAAAAA
1 T-TTTT-AAAGTTTGTTGCCTATCTTCATAAAAGCCCTTTTCAAAAAA
4532482 AAAAACATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.02
47 4 0.10
48 37 0.88
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.44
Consensus pattern (46 bp):
TTTTTAAAGTTTGTTGCCTATCTTCATAAAAGCCCTTTTCAAAAAA
Found at i:4533455 original size:15 final size:15
Alignment explanation
Indices: 4533435--4533466 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4533425 TCATAAAATC
4533435 TAAACACAAACTTCA
1 TAAACACAAACTTCA
*
4533450 TAAACACAAGCTTCA
1 TAAACACAAACTTCA
4533465 TA
1 TA
4533467 CATAGTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAACACAAACTTCA
Found at i:4538598 original size:16 final size:17
Alignment explanation
Indices: 4538561--4538601 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
4538551 AGAACTTTCT
4538561 ATTTTTAGTAACTTGCC
1 ATTTTTAGTAACTTGCC
*
4538578 ATTTTTAGTAA-TTTCC
1 ATTTTTAGTAACTTGCC
*
4538594 TTTTTTAG
1 ATTTTTAG
4538602 AAAAGTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (17 bp):
ATTTTTAGTAACTTGCC
Found at i:4538684 original size:12 final size:12
Alignment explanation
Indices: 4538667--4538700 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4538657 TTCATATGGC
**
4538667 AATTTTAGGATT
1 AATTTTAGGAAA
4538679 AATTTTAGGAAA
1 AATTTTAGGAAA
4538691 AATTTTAGGA
1 AATTTTAGGA
4538701 GAATTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (12 bp):
AATTTTAGGAAA
Found at i:4541772 original size:2 final size:2
Alignment explanation
Indices: 4541767--4541797 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4541757 AAAAAATGAA
4541767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4541798 AAACATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4543616 original size:105 final size:105
Alignment explanation
Indices: 4543468--4543667 Score: 328
Period size: 105 Copynumber: 1.9 Consensus size: 105
4543458 ATTCGTGCAT
* * * * *
4543468 ATGTATGTGCACATGTTTATATATATCACAGAAAATACAATAACCACCATTTACAAAGTTTCCAA
1 ATGTACGTGCACATGTTTAAATATATCACAGAAAATACAATAACCACCATTAAAAAAATTTCCAA
4543533 AAGAATTTATGAGAATGATTTGATTCTTCTGCATCCGTGC
66 AAGAATTTATGAGAATGATTTGATTCTTCTGCATCCGTGC
* *
4543573 ATGTACGTGCACATTTTTAAATATTTCACAGAAAATACAATAACCACCATTAAAAAAATTTCCAA
1 ATGTACGTGCACATGTTTAAATATATCACAGAAAATACAATAACCACCATTAAAAAAATTTCCAA
*
4543638 AAGAATTTATGAGAATGATTTGATTGTTCT
66 AAGAATTTATGAGAATGATTTGATTCTTCT
4543668 TACTTCAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (105 bp):
ATGTACGTGCACATGTTTAAATATATCACAGAAAATACAATAACCACCATTAAAAAAATTTCCAA
AAGAATTTATGAGAATGATTTGATTCTTCTGCATCCGTGC
Found at i:4548776 original size:13 final size:13
Alignment explanation
Indices: 4548758--4548783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4548748 TTTTTTTTTA
4548758 ATTATATTATATT
1 ATTATATTATATT
4548771 ATTATATTATATT
1 ATTATATTATATT
4548784 TATAGCCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATTATATT
Found at i:4554525 original size:21 final size:21
Alignment explanation
Indices: 4554499--4554538 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4554489 TTTGTTCAGT
*
4554499 TTTATTTGTTTATTTTGTTTG
1 TTTATTGGTTTATTTTGTTTG
*
4554520 TTTATTGGTTTTTTTTGTT
1 TTTATTGGTTTATTTTGTT
4554539 AGATAGAATT
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:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (21 bp):
TTTATTGGTTTATTTTGTTTG
Found at i:4555906 original size:18 final size:18
Alignment explanation
Indices: 4555883--4555920 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4555873 AAAAATAAAG
4555883 AAAAAT-AAAGATGAAAAA
1 AAAAATGAAAGA-GAAAAA
*
4555901 AAAAATGAATGAGAAAAA
1 AAAAATGAAAGAGAAAAA
4555919 AA
1 AA
4555921 GAAAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAGAGAAAAA
Found at i:4557483 original size:21 final size:21
Alignment explanation
Indices: 4557458--4557500 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4557448 ACAAATTGAC
*
4557458 TTTAATATTTTAATATTAAAT
1 TTTAAAATTTTAATATTAAAT
**
4557479 TTTAAAATTTTTTTATTAAAT
1 TTTAAAATTTTAATATTAAAT
4557500 T
1 T
4557501 AAAGTTTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAAAATTTTAATATTAAAT
Found at i:4559521 original size:27 final size:27
Alignment explanation
Indices: 4559491--4559548 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
4559481 AAACCATAGG
4559491 AAGAAACATGAAAAA-CAGA-GAAAAAAA
1 AAGAAA-A-GAAAAATCAGAGGAAAAAAA
**
4559518 AAGAAAAGAAAAATGTGAGGAAAAAAA
1 AAGAAAAGAAAAATCAGAGGAAAAAAA
4559545 AAGA
1 AAGA
4559549 GAAATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.22
26 3 0.11
27 18 0.67
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.05
Consensus pattern (27 bp):
AAGAAAAGAAAAATCAGAGGAAAAAAA
Found at i:4559642 original size:12 final size:11
Alignment explanation
Indices: 4559621--4559662 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
4559611 CTAGCATCTC
4559621 CATTCATTTTT
1 CATTCATTTTT
4559632 CATTGCATTTTT
1 CATT-CATTTTT
*
4559644 CA-TCATATTT
1 CATTCATTTTT
4559654 CATTCATTT
1 CATTCATTT
4559663 CTTGTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.30
11 10 0.37
12 9 0.33
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (11 bp):
CATTCATTTTT
Found at i:4560346 original size:26 final size:26
Alignment explanation
Indices: 4560316--4560367 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
4560306 CGATGTTAGG
*
4560316 ACATTAAAACAAAAATTCAAAGTTTT
1 ACATTAAAACAAAAATTCAAAATTTT
* *
4560342 ACATTTAAACCAAAATTCAAAATTTT
1 ACATTAAAACAAAAATTCAAAATTTT
4560368 CTATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (26 bp):
ACATTAAAACAAAAATTCAAAATTTT
Found at i:4560584 original size:7 final size:7
Alignment explanation
Indices: 4560572--4560700 Score: 51
Period size: 7 Copynumber: 19.3 Consensus size: 7
4560562 CCTCAAATCC
4560572 AAACCCT
1 AAACCCT
4560579 AAACCCT
1 AAACCCT
*
4560586 AAA-TCT
1 AAACCCT
*
4560592 AAACCTT
1 AAACCCT
*
4560599 AAATCGC-
1 AAA-CCCT
*
4560606 AAATCC-
1 AAACCCT
* *
4560612 AAATCTT
1 AAACCCT
4560619 AAACCCT
1 AAACCCT
*
4560626 AAATCCCA
1 AAA-CCCT
**
4560634 AAATTC-
1 AAACCCT
*
4560640 AAATCC-
1 AAACCCT
*
4560646 AAATCCT
1 AAACCCT
4560653 AAATCCC-
1 AAA-CCCT
4560660 AAACCCT
1 AAACCCT
**
4560667 -AATTCT
1 AAACCCT
4560673 AAACCCT
1 AAACCCT
4560680 AAA-CCT
1 AAACCCT
4560686 AAA-CCT
1 AAACCCT
4560692 AAACCCT
1 AAACCCT
4560699 AA
1 AA
4560701 TCTTAACCCT
Statistics
Matches: 94, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
6 41 0.44
7 44 0.47
8 9 0.10
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:4560589 original size:20 final size:20
Alignment explanation
Indices: 4560566--4560700 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 20
4560556 ATGAAACCTC
4560566 AAATCCAAACCCTAAACCCT
1 AAATCCAAACCCTAAACCCT
* * *
4560586 AAATCTAAACCTTAAATCGC-
1 AAATCCAAACCCTAAA-CCCT
* *
4560606 AAATCCAAATCTTAAACCCT
1 AAATCCAAACCCTAAACCCT
** *
4560626 AAATCCCAAA-ATTCAAATCC-
1 AAAT-CCAAACCCT-AAACCCT
4560646 AAATCCTAAATCCC-AAACCCT
1 AAATCC-AAA-CCCTAAACCCT
* *
4560667 AATTCTAAACCCTAAA-CCT
1 AAATCCAAACCCTAAACCCT
4560686 AAA-CCTAAACCCTAA
1 AAATCC-AAACCCTAA
4560701 TCTTAACCCT
Statistics
Matches: 90, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 21 0.23
20 52 0.58
21 16 0.18
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (20 bp):
AAATCCAAACCCTAAACCCT
Found at i:4560593 original size:13 final size:13
Alignment explanation
Indices: 4560577--4560694 Score: 71
Period size: 13 Copynumber: 8.9 Consensus size: 13
4560567 AATCCAAACC
4560577 CTAAACCCTAAAT
1 CTAAACCCTAAAT
*
4560590 CTAAACCTTAAAT
1 CTAAACCCTAAAT
* *
4560603 CGCAAATCC-AAAT
1 C-TAAACCCTAAAT
4560616 CTTAAACCCTAAAT
1 C-TAAACCCTAAAT
* **
4560630 CCCAAA-ATTCAAAT
1 -CTAAACCCT-AAAT
* *
4560644 CCAAATCCTAAAT
1 CTAAACCCTAAAT
* *
4560657 CCCAAACCCTAATT
1 -CTAAACCCTAAAT
*
4560671 CTAAACCCTAAAC
1 CTAAACCCTAAAT
4560684 CTAAA-CCTAAA
1 CTAAACCCTAAA
4560695 CCCTAATCTT
Statistics
Matches: 82, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
12 6 0.07
13 48 0.59
14 27 0.33
15 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (13 bp):
CTAAACCCTAAAT
Found at i:4560623 original size:27 final size:27
Alignment explanation
Indices: 4560586--4560682 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
4560576 CCTAAACCCT
* *
4560586 AAATCTAAACCTTAAATCGC-AAATCC
1 AAATCTAAACCCTAAATCCCAAAATCC
*
4560612 AAATCTTAAACCCTAAATCCCAAAATTC
1 AAATC-TAAACCCTAAATCCCAAAATCC
* * *
4560640 AAATCCAAATCCTAAATCCC-AAACCC
1 AAATCTAAACCCTAAATCCCAAAATCC
*
4560666 TAATTCTAAACCCTAAA
1 -AAATCTAAACCCTAAA
4560683 CCTAAACCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 9 0.16
27 39 0.67
28 10 0.17
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (27 bp):
AAATCTAAACCCTAAATCCCAAAATCC
Found at i:4560715 original size:26 final size:25
Alignment explanation
Indices: 4560678--4560743 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
4560668 ATTCTAAACC
* * *
4560678 CTAAACCT-AAACCTAAACCCTAAT
1 CTAACCCTAAAACCTAAACCCAAAA
*
4560702 CTTAACCCTAAAACCCTAACCCCAAAA
1 C-TAACCCTAAAA-CCTAAACCCAAAA
*
4560729 CTAACCCTCAAACCT
1 CTAACCCTAAAACCT
4560744 TAAATCAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 9 0.26
26 13 0.38
27 11 0.32
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.18
Consensus pattern (25 bp):
CTAACCCTAAAACCTAAACCCAAAA
Found at i:4561184 original size:9 final size:9
Alignment explanation
Indices: 4561172--4561218 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
4561162 GTTTTTGTTT
4561172 AAAAAAAAG
1 AAAAAAAAG
4561181 --AAAAAAG
1 AAAAAAAAG
4561188 --AAAAAA-
1 AAAAAAAAG
*
4561194 AAAGAAAAG
1 AAAAAAAAG
4561203 AAAAAAAAG
1 AAAAAAAAG
4561212 AAAAAAA
1 AAAAAAA
4561219 GTAAAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 13 0.39
8 5 0.15
9 15 0.45
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4561191 original size:5 final size:5
Alignment explanation
Indices: 4561183--4561215 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4561173 AAAAAAAGAA
*
4561183 AAAAG AAAAA AAAAG AAAAG AAAA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
4561216 AAAGTAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4561194 original size:10 final size:10
Alignment explanation
Indices: 4561172--4561218 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
4561162 GTTTTTGTTT
4561172 AAAAAAAAGA
1 AAAAAAAAGA
*
4561182 AAAAAGAAAAA
1 AAAAA-AAAGA
4561193 AAAAGAAAAG-
1 AAAA-AAAAGA
4561203 AAAAAAAAGA
1 AAAAAAAAGA
4561213 AAAAAA
1 AAAAAA
4561219 GTAAAGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.16
10 15 0.47
11 11 0.34
12 1 0.03
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:4561203 original size:22 final size:22
Alignment explanation
Indices: 4561172--4561231 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4561162 GTTTTTGTTT
4561172 AAAA-AAAAGAAAAAAGAA-AAA
1 AAAAGAAAAGAAAAAA-AAGAAA
4561193 AAAAGAAAAGAAAAAAAAGAAA
1 AAAAGAAAAGAAAAAAAAGAAA
* *
4561215 AAAAGTAAAGAAGAAAA
1 AAAAGAAAAGAAAAAAA
4561232 TGAATTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 6 0.17
22 29 0.83
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAGAAAAAAAAGAAA
Found at i:4561218 original size:17 final size:17
Alignment explanation
Indices: 4561172--4561219 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 17
4561162 GTTTTTGTTT
4561172 AAAAAAAAG-AAAAAAG
1 AAAAAAAAGAAAAAAAG
*
4561188 -AAAAAAA-AAGAAAAG
1 AAAAAAAAGAAAAAAAG
4561203 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
4561220 TAAAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 13 0.48
16 7 0.26
17 7 0.26
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:4562945 original size:35 final size:35
Alignment explanation
Indices: 4562904--4562999 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
4562894 ATAATAAGAT
* *
4562904 AATACATACATCCCATCTCATGCATCTCAATAGAC
1 AATACATATATCCCATCTCATGCATCTCAATAAAC
* * * * * * *
4562939 AATACATGTATTCCATCTCTTGTATTTTAATAAAT
1 AATACATATATCCCATCTCATGCATCTCAATAAAC
*
4562974 AATACATATATCTCATCTCATGCATC
1 AATACATATATCCCATCTCATGCATC
4563000 ATGATAGATA
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (35 bp):
AATACATATATCCCATCTCATGCATCTCAATAAAC
Found at i:4563170 original size:72 final size:72
Alignment explanation
Indices: 4563028--4563170 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 72
4563018 ATTCCTCTTG
* * * * *
4563028 ATAAATAGTACATGTATTCCATTTCATGCGCATCTTAATCGATAATACATACATTGCATCTCATC
1 ATAAATAGTACATGCATTCCATATCATGCACATCTTAATAGATAATACATACATTGCATCCCATC
*
4563093 TACATCA
66 AACATCA
* ** *
4563100 ATAAATAGTACATGCATTCCATATCATGCACATGTTAATAGATGGTACATATC-TTTCATCCCAT
1 ATAAATAGTACATGCATTCCATATCATGCACATCTTAATAGATAATACATA-CATTGCATCCCAT
*
4563164 GAACATC
65 CAACATC
4563171 TTGATATGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 58 0.98
73 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.34
Consensus pattern (72 bp):
ATAAATAGTACATGCATTCCATATCATGCACATCTTAATAGATAATACATACATTGCATCCCATC
AACATCA
Found at i:4563269 original size:70 final size:70
Alignment explanation
Indices: 4563156--4563292 Score: 229
Period size: 70 Copynumber: 2.0 Consensus size: 70
4563146 ACATATCTTT
* *
4563156 CATCCCATGAACATCTTGATATGTAGCACACCTTATTACATATCTTAAATAATGTCAACCTCATT
1 CATCCCATGAACACCTTGATAGGTAGCACACCTTATTACATATCTTAAATAATGTCAACCTCATT
4563221 AGTTC
66 AGTTC
* * *
4563226 CATCCCATGCACACCTTGATAGGTAGCCCACCTTATTACATATCTTAAATAGTGTCAACCTCATT
1 CATCCCATGAACACCTTGATAGGTAGCACACCTTATTACATATCTTAAATAATGTCAACCTCATT
4563291 AG
66 AG
4563293 GTCAGCACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (70 bp):
CATCCCATGAACACCTTGATAGGTAGCACACCTTATTACATATCTTAAATAATGTCAACCTCATT
AGTTC
Found at i:4565041 original size:8 final size:9
Alignment explanation
Indices: 4565022--4565072 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
4565012 AAGATGCATT
4565022 AAAAATGAA
1 AAAAATGAA
4565031 AAAAATGAA
1 AAAAATGAA
4565040 AAAAA-GAA
1 AAAAATGAA
4565048 GAAAAATAGAGA
1 -AAAAAT-GA-A
*
4565060 GAAAAT-AA
1 AAAAATGAA
4565068 AAAAA
1 AAAAA
4565073 AAAACCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
11 7 0.19
12 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (9 bp):
AAAAATGAA
Found at i:4565738 original size:16 final size:16
Alignment explanation
Indices: 4565692--4565744 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4565682 GGCATGCGAA
*
4565692 GAAAAA-AAAGAAAAG
1 GAAAAATAAAAAAAAG
* *
4565707 AAATAAAT-AAATAAAG
1 GAA-AAATAAAAAAAAG
4565723 GAAAAATAAAAAAAAG
1 GAAAAATAAAAAAAAG
4565739 GAAAAA
1 GAAAAA
4565745 AATTTAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.20
16 24 0.80
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (16 bp):
GAAAAATAAAAAAAAG
Found at i:4566235 original size:19 final size:20
Alignment explanation
Indices: 4566184--4566225 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4566174 ATTCAAAGGA
4566184 AAAGAAA-AAGAAGGTGAAAG
1 AAAGAAAGAA-AAGGTGAAAG
4566204 AAAGAAAGAAAAGG-GAAAG
1 AAAGAAAGAAAAGGTGAAAG
4566223 AAA
1 AAA
4566226 TGAACGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 11 0.52
21 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAGGTGAAAG
Found at i:4566669 original size:1 final size:1
Alignment explanation
Indices: 4566663--4566719 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
4566653 ATGTAATAAT
* * * * * * *
4566663 AAAAAAAAGAGAAAAAAAGAGAAAAAAAGAAAATAAAAAAAATAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4566720 GAAAGATGAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.04
Consensus pattern (1 bp):
A
Found at i:4566679 original size:10 final size:9
Alignment explanation
Indices: 4566663--4566723 Score: 68
Period size: 10 Copynumber: 6.3 Consensus size: 9
4566653 ATGTAATAAT
4566663 AAAAAAAAG
1 AAAAAAAAG
4566672 AGAAAAAAAG
1 A-AAAAAAAG
4566682 AGAAAAAAAG
1 A-AAAAAAAG
*
4566692 AAAATAAAAA
1 AAAA-AAAAG
*
4566702 AAATAAAAAA
1 AAA-AAAAAG
4566712 AAAAAAAAG
1 AAAAAAAAG
4566721 AAA
1 AAA
4566724 GATGAATATG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 12 0.26
10 34 0.72
11 1 0.02
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4571250 original size:33 final size:33
Alignment explanation
Indices: 4571213--4571289 Score: 82
Period size: 38 Copynumber: 2.2 Consensus size: 33
4571203 TGCATGTTAA
* * *
4571213 TTATGAGATAAATACCATGTATTTTATGTTGGT
1 TTATGACATAAAGACCATGTATGTTATGTTGGT
4571246 TTATGATTATACATAAAGACCATGTATGTTATGTTGGT
1 TTATG-----ACATAAAGACCATGTATGTTATGTTGGT
4571284 TTATGA
1 TTATGA
4571290 TTGTGCATGC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
33 6 0.17
38 30 0.83
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.44
Consensus pattern (33 bp):
TTATGACATAAAGACCATGTATGTTATGTTGGT
Found at i:4577552 original size:91 final size:91
Alignment explanation
Indices: 4577453--4577624 Score: 317
Period size: 91 Copynumber: 1.9 Consensus size: 91
4577443 ACCTATTTAC
*
4577453 AATGTATGACAGGTGAAATTCTTAAACTTTGGTTGTAATGGGTTCCATAGGCTAAGTGGTGGTAT
1 AATGTATGACAGGTGAAATTCCTAAACTTTGGTTGTAATGGGTTCCATAGGCTAAGTGGTGGTAT
*
4577518 AATAGTAGTCACCATAATGTATAACT
66 AATACTAGTCACCATAATGTATAACT
*
4577544 AATGTATGACAGGTGAAATTCCTAAACTTTGGTTGTAATGGGTTCTATAGGCTAAGTGGTGGTAT
1 AATGTATGACAGGTGAAATTCCTAAACTTTGGTTGTAATGGGTTCCATAGGCTAAGTGGTGGTAT
4577609 AATACTAGTCACCATA
66 AATACTAGTCACCATA
4577625 TTTCCATCTA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (91 bp):
AATGTATGACAGGTGAAATTCCTAAACTTTGGTTGTAATGGGTTCCATAGGCTAAGTGGTGGTAT
AATACTAGTCACCATAATGTATAACT
Found at i:4583153 original size:161 final size:160
Alignment explanation
Indices: 4582803--4583239 Score: 404
Period size: 161 Copynumber: 2.7 Consensus size: 160
4582793 ATAGATTATG
* * * * * *
4582803 GAAACCAAGTTCAATTATTTGGACAAGTTTAATATCATAG-ATTGAAGCCATCCAAACTATTAAA
1 GAAACCAAGTTCAATAATTCGGACAAGTTTAACATCAT-GTATTGAAACTATCAAAACTATTAAA
** * ** * * *
4582867 AGTCA-TCCAA-AAGT-TTAATTTGTATTTTTGCCTTTAAAAGGCA-AAATAGTCCCAAATAGAC
65 A--CAGAACAATAACTAACAATTTGTATTTTTACCTTT-AACGGCACAAAAAGTCCCAAATAGAC
* *
4582928 GTAAACGACAACTTTTTCACACATATCAACTATA
127 GTAAACAACAACTTTTTCACACATATCAACCATA
* * * *
4582962 GAAACCAAGTTCAATCATTCGGACAAGTTTAATATCATGTATT-AAAGCTATCCAAACTGTTAAA
1 GAAACCAAGTTCAATAATTCGGACAAGTTTAACATCATGTATTGAAA-CTATCAAAACTATTAAA
* * *
4583026 ATAGAACAATAA-TAACAATTTTGTATTTTTACCTATTAACGGCACAAAAAGTCCTAAATAGATG
65 ACAGAACAATAACTAACAA-TTTGTATTTTTACCT-TTAACGGCACAAAAAGTCCCAAATAGACG
* * * *
4583090 TAAACAATAATTTTTTCATACATATCAACCATG
128 TAAACAACAACTTTTTCACACATATCAACCATA
* * * * *
4583123 GCAACTAAGTTCAA-AATTTTGGATAAGTTTAACATCATGTATTGAAACTATTAAAACTATTAAA
1 GAAACCAAGTTCAATAA-TTCGGACAAGTTTAACATCATGTATTGAAACTATCAAAACTATTAAA
*** *
4583187 ACAGAACAATAACTGTTAATTTGCATTTTTTACCTTTTAACGGCACAAAAAGT
65 ACAGAACAATAACTAACAATTTGTA-TTTTTACC-TTTAACGGCACAAAAAGT
4583240 TTATTCATTC
Statistics
Matches: 230, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
157 1 0.00
158 7 0.03
159 59 0.26
160 21 0.09
161 110 0.48
162 31 0.13
163 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (160 bp):
GAAACCAAGTTCAATAATTCGGACAAGTTTAACATCATGTATTGAAACTATCAAAACTATTAAAA
CAGAACAATAACTAACAATTTGTATTTTTACCTTTAACGGCACAAAAAGTCCCAAATAGACGTAA
ACAACAACTTTTTCACACATATCAACCATA
Found at i:4590169 original size:490 final size:487
Alignment explanation
Indices: 4589141--4590169 Score: 1158
Period size: 491 Copynumber: 2.1 Consensus size: 487
4589131 GCATAATACA
* * * *
4589141 CCTTTAATAATTCCTTTAAATTTTAATGAAATGATTTTTTTAAGGTATTTCTAACTATAAACGCC
1 CCTTTAATAATTCC-TTAATTTTTAA-GAAA--ATTTTTTTAAGGTGTATCTAACTAAAAACGCC
* * * * *
4589206 TTTAATAATCTTATCTTCAAAATTATTTGAGGTATTTTTTTATAAAATACCTTTAATAATGGTCA
62 TTTAATAATCTCATCTTCAAAAGTATTAGAGGTAGTTTTTTATAAAACACCTTTAATAATGGTCA
* * * * *
4589271 TAATGTTTATGGACATAATTATTGAAGGCATTTTTGGCATAAAACACCTTCAATAAACAAGGTAT
127 TAATGTTTATGGACAGAATTATTAAAGACATTTTTAGCATAAAACACCTCCAATAAACAAGGTAT
*** * * * *
4589336 TGAAAAAATGGATTGAATTATTAAGGACGTTTTTTTAAAAAAATGCCTTCAATAAATTCTTTTTT
192 TGAAAAAATGGACCAAATTATTAAGGACGATTTTTAAAAAAAATGCCTTCAATAAATTATTTTTA
* * * * *
4589401 AAAATTATTTGAATTATTAAAGCCGTCTTTTAGTGAAAATACCTTCAATAACCTCGTAGTAAAAT
257 AAAATTATTTGAATTATTAAAGCCATCTTTTAATAAAAACACCTTCAATAACCTCATAGTAAAAT
* * * *
4589466 TTTAATGGGATTATTAAAGGCATTTTTTATTACAAACGTCTTCACTAATTCCCTCAAATTTTTTG
322 TTTAAGGGGATTATTAAAGGCATTATTTACTACAAACGCCTTCACTAATTCCCTCAAATTTTTTG
* * **
4589531 AAGAAATTTATTGAAAGCATTTTTTGGCATAATATGCCCTCAATAATCCCCTCCATTTTTATTTG
387 AAGAAATTTATTGAAAGCATTTTTTGACATAATACGCCCTCAATAATCCCCTCCATTTTTATCAG
* *
4589596 GGGAATATCAGTGAAGGCGATTTTTTATAAAAAACG
452 AGGAATATCAGTGAAGGCGATTTTCTATAAAAAACG
* * * * *
4589632 CCTTCAATAATCCCCTTAAATTTGAATGAGATTATTTTTTTAAGGTGTATCTAACTAAAAACG-C
1 CCTTTAATAAT-TCCTTAATTTTTAA-GA-A-AATTTTTTTAAGGTGTATCTAACTAAAAACGCC
* *
4589696 TTTCAATAATCTCATCTTCAAAAGTATTAGAGGT-GTTTTTTATAAAACGCTTTTAATAATGGTC
62 TTT-AATAATCTCATCTTCAAAAGTATTAGAGGTAGTTTTTTATAAAACACCTTTAATAATGGTC
* * * * **
4589760 ATCATGTTTATGGGCAGCATTATTAAAGACGTTTTTAGCATAAAATGCCTCCAATAAACAAGGTA
126 ATAATGTTTATGGACAGAATTATTAAAGACATTTTTAGCATAAAACACCTCCAATAAACAAGGTA
4589825 TTGAAAAAATGGACCAAATTATTGAA-GA-GATTTTTAAAAAAAATGCCTTCAATAAATTATTTT
191 TTGAAAAAATGGACCAAATTATT-AAGGACGATTTTTAAAAAAAATGCCTTCAATAAATTATTTT
* ** * * *
4589888 TAAAAATTATTTAGGATTATTAAAGGTATTTTTTAATAAAAAAACACCTTCAATTATCTCATAGT
255 TAAAAATTATTT-GAATTATTAAAGCCATCTTTTAAT--AAAAACACCTTCAATAACCTCATAGT
* * *
4589953 AAAATTTTAAGGGGATTATTGAA-G-ATATATTTAGCTACAAATGCCTTCACTAATTTCCTCAAA
317 AAAATTTTAAGGGGATTATTAAAGGCAT-TATTTA-CTACAAACGCCTTCACTAATTCCCTCAAA
* * * * * * * * *
4590016 TTTTTTGAAGGACTTTATT-AAAGTTATTTTTT-ATATAATACGCCTTTAATAATTCGCTCTATT
380 TTTTTTGAAGAAATTTATTGAAAG-CATTTTTTGACATAATACGCCCTCAATAATCCCCTCCATT
* * *
4590079 TTTATCAGAGGAATATTAGTGAAGGCGGTTTTCTACT-AAAAATG
444 TTTATCAGAGGAATATCAGTGAAGGCGATTTTCTA-TAAAAAACG
* * *
4590123 TCTTTAATAATTCACTCTAATTTTTTAGAAAATTTTATTAAAGGTGT
1 CCTTTAATAATTC-CT-TAATTTTTAAGAAAATTTT-TTTAAGGTGT
4590170 TTTTTGCATC
Statistics
Matches: 447, Mismatches: 76, Indels: 31
0.81 0.14 0.06
Matches are distributed among these distances:
489 48 0.11
490 137 0.31
491 160 0.36
492 102 0.23
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (487 bp):
CCTTTAATAATTCCTTAATTTTTAAGAAAATTTTTTTAAGGTGTATCTAACTAAAAACGCCTTTA
ATAATCTCATCTTCAAAAGTATTAGAGGTAGTTTTTTATAAAACACCTTTAATAATGGTCATAAT
GTTTATGGACAGAATTATTAAAGACATTTTTAGCATAAAACACCTCCAATAAACAAGGTATTGAA
AAAATGGACCAAATTATTAAGGACGATTTTTAAAAAAAATGCCTTCAATAAATTATTTTTAAAAA
TTATTTGAATTATTAAAGCCATCTTTTAATAAAAACACCTTCAATAACCTCATAGTAAAATTTTA
AGGGGATTATTAAAGGCATTATTTACTACAAACGCCTTCACTAATTCCCTCAAATTTTTTGAAGA
AATTTATTGAAAGCATTTTTTGACATAATACGCCCTCAATAATCCCCTCCATTTTTATCAGAGGA
ATATCAGTGAAGGCGATTTTCTATAAAAAACG
Done.