Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 96 of 240
Found at i:30115304 original size:14 final size:15
Alignment explanation
Indices: 30115279--30115323 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
30115269 AAAAGTTTAG
30115279 TGTTGAAAAATTAAA
1 TGTTGAAAAATTAAA
* *
30115294 TGTTGAAAATTTAAG
1 TGTTGAAAAATTAAA
30115309 T-TTGAAAAATTAAA
1 TGTTGAAAAATTAAA
30115323 T
1 T
30115324 AATCATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (15 bp):
TGTTGAAAAATTAAA
Found at i:30122017 original size:2 final size:2
Alignment explanation
Indices: 30122010--30122040 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
30122000 TCTATATGTA
*
30122010 TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
30122041 TGGGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:30123083 original size:26 final size:26
Alignment explanation
Indices: 30123047--30123144 Score: 126
Period size: 26 Copynumber: 3.7 Consensus size: 26
30123037 GAACACGTCA
30123047 AAAATGGAAGCCTTTGTGGCGTATCT
1 AAAATGGAAGCCTTTGTGGCGTATCT
*
30123073 AAAATGGAAGCCTTTGTGGC-AATCT
1 AAAATGGAAGCCTTTGTGGCGTATCT
* * *
30123098 AGAAAATGGAAGTCTTAGTTGCGTATCT
1 --AAAATGGAAGCCTTTGTGGCGTATCT
*
30123126 AAAATGGAAACCTTTGTGG
1 AAAATGGAAGCCTTTGTGG
30123145 TAATCTAAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.07
26 35 0.58
27 17 0.28
28 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCGTATCT
Found at i:30123127 original size:53 final size:54
Alignment explanation
Indices: 30123047--30123164 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 54
30123037 GAACACGTCA
* *
30123047 AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCAATCT-AG
1 AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
* * *
30123100 AAAATGGAAGTCTTAGTTGCGTATCTAAAATGGAAACCTTTGTGGTAATCTAAG
1 AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
*
30123154 AAAATGAAAGC
1 AAAATGGAAGC
30123165 ATTTGAGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 46 0.81
54 11 0.19
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (54 bp):
AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
Found at i:30123169 original size:28 final size:28
Alignment explanation
Indices: 30123138--30123192 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
30123128 AATGGAAACC
*
30123138 TTTGTGGTAATCTAAGAAAATGAAAGCA
1 TTTGAGGTAATCTAAGAAAATGAAAGCA
*
30123166 TTTGAGGTAATCTAAGAAAATGGAAGC
1 TTTGAGGTAATCTAAGAAAATGAAAGC
30123193 CTTCGTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (28 bp):
TTTGAGGTAATCTAAGAAAATGAAAGCA
Found at i:30133321 original size:48 final size:48
Alignment explanation
Indices: 30133235--30133330 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
30133225 TAGGTAGAGG
* *
30133235 TGACAAAGTCTAGTCCTAGAAGGGGTTACTACTCCCCCTATCATACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTCCCCCTATCATACAA
* *
30133283 TGACAAAGCCTAGTCCTAGAAGGGGTTGCCAC-CGCCCCTATCGTACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTC-CCCCTATCATACAA
30133331 ACTCCCTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (48 bp):
TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTCCCCCTATCATACAA
Found at i:30136005 original size:101 final size:101
Alignment explanation
Indices: 30135887--30136087 Score: 384
Period size: 101 Copynumber: 2.0 Consensus size: 101
30135877 TAACTTCTCA
30135887 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
1 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
* *
30135952 TTACTTTTTTTATTTACCAAAATAATACCAAAAAAG
66 TTACTTTTCTTATTTACCAAAATAATACAAAAAAAG
30135988 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
1 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
30136053 TTACTTTTCTTATTTACCAAAATAATACAAAAAAA
66 TTACTTTTCTTATTTACCAAAATAATACAAAAAAA
30136088 ACAAAAAAGT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (101 bp):
CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
TTACTTTTCTTATTTACCAAAATAATACAAAAAAAG
Found at i:30136217 original size:11 final size:11
Alignment explanation
Indices: 30136197--30136261 Score: 64
Period size: 11 Copynumber: 6.1 Consensus size: 11
30136187 GCTGGTGGGT
30136197 GGAGAAGGAAA
1 GGAGAAGGAAA
*
30136208 GGAGAGGGAAA
1 GGAGAAGGAAA
30136219 GGAGAA-GAAA
1 GGAGAAGGAAA
* *
30136229 GAAAGAAGGGAA
1 G-GAGAAGGAAA
*
30136241 -GAAAAGGAAA
1 GGAGAAGGAAA
30136251 GGAGAA-GAAA
1 GGAGAAGGAAA
30136261 G
1 G
30136262 AAAGAAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 17 0.40
11 23 0.53
12 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (11 bp):
GGAGAAGGAAA
Found at i:30136266 original size:24 final size:24
Alignment explanation
Indices: 30136239--30136317 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
30136229 GAAAGAAGGG
30136239 AAGAAAAGGAAAGGAGAAGAAAGA
1 AAGAAAAGGAAAGGAGAAGAAAGA
*
30136263 AAGAAAAAGAAAGGAGAAG-AAGA
1 AAGAAAAGGAAAGGAGAAGAAAGA
** *
30136286 AGAGGGAAGG-AAGGAAAAAGAAAGA
1 A-AGAAAAGGAAAGG-AGAAGAAAGA
30136311 AAGAAAA
1 AAGAAAA
30136318 AGGTAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 9 0.20
24 31 0.69
25 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AAGAAAAGGAAAGGAGAAGAAAGA
Found at i:30136294 original size:13 final size:13
Alignment explanation
Indices: 30136215--30136286 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 13
30136205 AAAGGAGAGG
30136215 GAAAGGAGAAGAAA
1 GAAAGGAGAAG-AA
*
30136229 GAAAGAAGGGAAGAAAA
1 GAAAG--GAGAAG--AA
30136246 GGAAAGGAGAAGAAA
1 -GAAAGGAGAAG-AA
30136261 GAAA-GA-AA-AA
1 GAAAGGAGAAGAA
30136271 GAAAGGAGAAGAA
1 GAAAGGAGAAGAA
30136284 GAA
1 GAA
30136287 GAGGGAAGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 4 0.08
13 7 0.14
14 9 0.18
15 3 0.06
16 10 0.20
17 3 0.06
18 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
GAAAGGAGAAGAA
Found at i:30136857 original size:12 final size:13
Alignment explanation
Indices: 30136827--30136877 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
30136817 TAAACCATTT
* *
30136827 CAAACATAATTTA
1 CAAAAATAATATA
*
30136840 CTAAAATAATATA
1 CAAAAATAATATA
*
30136853 -AAAAATAAAATA
1 CAAAAATAATATA
*
30136865 CGAAAATAATATA
1 CAAAAATAATATA
30136878 TTTTTATTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (13 bp):
CAAAAATAATATA
Found at i:30137165 original size:154 final size:151
Alignment explanation
Indices: 30136649--30137717 Score: 1171
Period size: 154 Copynumber: 7.0 Consensus size: 151
30136639 TTGTATTTTT
* * *
30136649 AAAAAACAAACTAAATTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
1 AAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAA-T
* *
30136714 AGAAAAT-ATGATATTTTTT-AAAGTAATAAAATGCAGAGAAAAAAATACGAACAAAGGGCAGAA
65 AGAAAATAAT-ATATTTTTTAAAAGTAATAAAATTC-GAGAAAAAAATACGAACAAAGGGCCGAA
* *
30136777 GTAA-GG-TTTTTTACTAAATTTA
128 ATAAGGGTTTTTTTACTAAATTAA
* * *
30136799 AAAAAATA-AAT-AATTAATTAAACCATTTCAAACATAATTTACTAAAATAATA-TAAAA-AATA
1 AAAAAACACACTAAATTAA-T-AA--ATTTCAAACATAATGTACTAAAATAA-AGTAAAATAATA
* * * * *
30136860 AAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTG-GGAGAAAATACGAGCAAAGGG
61 AAATA-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGG
* *
30136924 TCGAAATAAGGGTTTTTTTA--AAATTTATTT
123 CCGAAATAAGGGTTTTTTTACTAAA-TTA--A
* * *
30136954 AAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATA-TAAAATTAGAAA
1 AAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAA-AGTAAAATAATAAA
*
30137018 ATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
63 A-TAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
30137083 AATAAGGGGTTTTTTTTACTAAATTAA
127 AATAA-GGG-TTTTTTTACTAAATTAA
* * *
30137110 AAAAAACAGACTTAAA-TAATACATTTTAAACATAATGTACTAAAATAAAGTAAAATAATAAAAT
1 AAAAAACACAC-TAAATTAATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAAT
* * * * *
30137174 ACTAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATATGAGCAAAGGG-CGA
65 A-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
*
30137238 AATAAGGGTTTTTTT--TAAATTTATTT
127 AATAAGGGTTTTTTTACTAAA-TTA--A
* *
30137264 AAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 AAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAA
*
30137329 TTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCG-G-AAAAAATACGAACAAAGGGCCGAA
64 -TAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAA
30137392 ATAAGGG-TTTTTTACTAAATT-A
128 ATAAGGGTTTTTTTACTAAATTAA
* * * *
30137414 AAAAAATAGACTTAATTAATACATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAATA
1 AAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAATA
* * * * *
30137479 CGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAAATGGTCGAA
66 -GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAA
* *
30137544 ATAAGGGTTTTTTTA--AATTTATTT
128 ATAAGGGTTTTTTTACTAAATTA--A
* * *
30137568 AAAAAACACACTAAATTTATTTAAATTTCAAGCATAATGTACTAAAATAATGTAAAATAATAAAA
1 AAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAA
* *
30137633 GTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-AGGAAAAAAATACAAACAAAGGGCCGA
64 -TAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGA-GAAAAAAATACGAACAAAGGGCCGA
30137697 AATAA-GG-TTTTTTACTAAATT
127 AATAAGGGTTTTTTTACTAAATT
30137718 TTTTTGAAGT
Statistics
Matches: 782, Mismatches: 81, Indels: 108
0.81 0.08 0.11
Matches are distributed among these distances:
147 2 0.00
148 59 0.08
149 10 0.01
150 41 0.05
151 25 0.03
152 123 0.16
153 44 0.06
154 179 0.23
155 96 0.12
156 171 0.22
157 22 0.03
158 7 0.01
159 3 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (151 bp):
AAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAAAGTAAAATAATAAAATA
GAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAAATA
AGGGTTTTTTTACTAAATTAA
Found at i:30137557 original size:304 final size:305
Alignment explanation
Indices: 30136646--30137717 Score: 1702
Period size: 304 Copynumber: 3.5 Consensus size: 305
30136636 AAATTGTATT
* * *
30136646 TTTAAAAAACAAACTAAA-TTA-ATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATA
1 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
30136709 AAATTAGAAAATA-TGATATTTTTT-AAAGTAATAAAATGCAGAGAAAAAAATACGAACAAAGGG
66 AAATTAGAAAATAGT-ATATTTTTTAAAAGTAATAAAATTCAGAGAAAAAAATACGAACAAAGGG
* * * *
30136772 CAGAAGTAAGGTTTTTTACTAAATTTAAAAAAATAAATAATTAATTAA-ACCATTTCAAACATAA
130 CCGAAATAAGGTTTTTTACTAAA-TTAAAAAAAT--AGACTTAATTAATA-CATTTCAAACATAA
*
30136836 TTTACTAAAATAATA-TAAAA-AATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
191 TGTACTAAAATAA-AGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
* *
30136899 TTTGGG-AGAAAATACGAGCAAAGGGTCGAAATAAGGGTTTTTTTAAAATTTA
255 TTCGGGAAAAAAATACGAGCAAA-GGTCGAAATAAGGGTTTTTTT-AAATTTA
* * *
30136951 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATATAAAATTAGA
1 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
30137016 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-GAGAAAAAAATACGAACAAAGGGC
66 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAGAGAAAAAAATACGAACAAAGGGC
* * *
30137080 CGAAATAAGGGGTTTTTTTTACTAAATTAAAAAAAACAGACTTAAATAATACATTTTAAACATAA
131 CGAAATAA--GG--TTTTTTACTAAATT-AAAAAAATAGACTTAATTAATACATTTCAAACATAA
*
30137145 TGTACTAAAATAAAGTAAAATAATAAAATACTAAAATAATATATTTTTATTGAAAGTAATAAAAT
191 TGTACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAT
* *
30137210 TCGGGAAAAAAATATGAGCAAAGGGCGAAATAAGGGTTTTTTTTAAATTTA
256 TCGGGAAAAAAATACGAGCAAAGGTCGAAATAAGGG-TTTTTTTAAATTTA
30137261 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
30137326 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-G-G-AAAAAATACGAACAAAGGGC
66 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAGAGAAAAAAATACGAACAAAGGGC
30137388 CGAAATAAGGGTTTTTTACTAAATTAAAAAAATAGACTTAATTAATACATTTCAAACATAATGTA
131 CGAAATAA-GGTTTTTTACTAAATTAAAAAAATAGACTTAATTAATACATTTCAAACATAATGTA
30137453 CTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGG
195 CTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGG
30137518 GAAAAAAATACGAGCAAATGGTCGAAATAAGGGTTTTTTTAAATTTA
260 GAAAAAAATACGAGCAAA-GGTCGAAATAAGGGTTTTTTTAAATTTA
*
30137565 TTTAAAAAACACACTAAATTTATTTAAATTTCAAGCATAATGTACTAAAATAATGTAAAATAATA
1 TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
30137630 AAAGTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAG-GAAAAAAATACAAACAAAGGGC
66 AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAGAGAAAAAAATACGAACAAAGGGC
30137694 CGAAATAAGGTTTTTTACTAAATT
131 CGAAATAAGGTTTTTTACTAAATT
30137718 TTTTTGAAGT
Statistics
Matches: 718, Mismatches: 32, Indels: 34
0.92 0.04 0.04
Matches are distributed among these distances:
304 235 0.33
305 62 0.09
306 30 0.04
307 92 0.13
308 44 0.06
309 42 0.06
310 173 0.24
311 40 0.06
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (305 bp):
TTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAGAGAAAAAAATACGAACAAAGGGC
CGAAATAAGGTTTTTTACTAAATTAAAAAAATAGACTTAATTAATACATTTCAAACATAATGTAC
TAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGG
AAAAAAATACGAGCAAAGGTCGAAATAAGGGTTTTTTTAAATTTA
Found at i:30140559 original size:43 final size:42
Alignment explanation
Indices: 30140496--30140621 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
30140486 AGGACTCCGA
*
30140496 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
30140540 T-TGTGTTTTCCTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCATGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* *
30140582 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACG-TGGCAT
30140622 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCATGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:30141289 original size:14 final size:15
Alignment explanation
Indices: 30141270--30141301 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
30141260 TTTAATCATG
30141270 GGTTAGTATTT-TAT
1 GGTTAGTATTTATAT
30141284 GGTTAGTATTTATAT
1 GGTTAGTATTTATAT
30141299 GGT
1 GGT
30141302 AATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
GGTTAGTATTTATAT
Found at i:30141950 original size:47 final size:47
Alignment explanation
Indices: 30141553--30141922 Score: 623
Period size: 47 Copynumber: 7.9 Consensus size: 47
30141543 GAGTAAATGA
*
30141553 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAATCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30141600 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30141647 ATGTATATGTTGTCAAATTTTGATGAACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30141694 ATGTATTTGCTGTCAAATTTTGATGTACAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
30141741 ATGTACATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
30141788 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30141835 ATGTATATGCTGTCAAATTTCGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30141882 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAA
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAA
30141923 ATTTTGTATA
Statistics
Matches: 302, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 302 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:30148484 original size:43 final size:42
Alignment explanation
Indices: 30148421--30148546 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
30148411 AGAACTCCGA
*
30148421 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
30148465 T-TGTGTTTTCCTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCATGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* *
30148507 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACG-TGGCAT
30148547 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCATGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:30149217 original size:14 final size:15
Alignment explanation
Indices: 30149193--30149227 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
30149183 TACTTTAATC
30149193 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
30149208 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
30149223 ATGGT
1 ATGGT
30149228 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:30149980 original size:47 final size:47
Alignment explanation
Indices: 30149479--30149968 Score: 806
Period size: 47 Copynumber: 10.4 Consensus size: 47
30149469 GAGTAAATGA
30149479 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30149526 ATGTATATGCTGTC-GATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30149572 ATGTATATGCTGTCAAATTTTGATGTATAAATGAAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
30149619 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* **
30149666 ATGTATATGCTGTCAAATTTTGATGTATAAATATAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
30149713 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
30149760 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
30149807 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30149854 ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
30149901 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCC-AATTATAT
* *
30149947 GTATATATGCTGTCCAAATTTT
1 ATGTATATGCTGT-CAAATTTT
30149969 AGTGTGAAAA
Statistics
Matches: 418, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 56 0.13
47 358 0.86
48 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:30151698 original size:9 final size:9
Alignment explanation
Indices: 30151684--30151749 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
30151674 TTTGGTTAAA
30151684 AATTACCCG
1 AATTACCCG
30151693 AATTACCCG
1 AATTACCCG
* *
30151702 -ATTAACTG
1 AATTACCCG
*
30151710 AATTAACCG
1 AATTACCCG
**
30151719 AATTAACCAAA
1 AATT-ACC-CG
*
30151730 AATTACCCA
1 AATTACCCG
30151739 AATTACCCG
1 AATTACCCG
30151748 AA
1 AA
30151750 AATTACCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 6 0.13
9 31 0.67
10 5 0.11
11 4 0.09
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:30151712 original size:17 final size:18
Alignment explanation
Indices: 30151692--30151725 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30151682 AAAATTACCC
*
30151692 GAATTACCCG-ATTAACT
1 GAATTAACCGAATTAACT
30151709 GAATTAACCGAATTAAC
1 GAATTAACCGAATTAAC
30151726 CAAAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTAACT
Found at i:30151739 original size:11 final size:11
Alignment explanation
Indices: 30151719--30151762 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
30151709 GAATTAACCG
*
30151719 AATTAACCAAA
1 AATTACCCAAA
30151730 AATTACCC--A
1 AATTACCCAAA
*
30151739 AATTACCCGAA
1 AATTACCCAAA
30151750 AATTACCCAAA
1 AATTACCCAAA
30151761 AA
1 AA
30151763 GTTCGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.31
11 20 0.69
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:30151742 original size:20 final size:20
Alignment explanation
Indices: 30151719--30151760 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30151709 GAATTAACCG
30151719 AATTAACCAAAAATTACCCA
1 AATTAACCAAAAATTACCCA
* *
30151739 AATTACCCGAAAATTACCCA
1 AATTAACCAAAAATTACCCA
30151759 AA
1 AA
30151761 AAGTTCGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (20 bp):
AATTAACCAAAAATTACCCA
Found at i:30154286 original size:26 final size:27
Alignment explanation
Indices: 30154257--30154322 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
30154247 TAACTAACAC
* *
30154257 AATAATAATAA-TA-GTTTTATACTTAA
1 AATAATAATAACTAGGGTTT-TACTAAA
*
30154283 AATAATACTAACTAGGGTTTTACTAAA
1 AATAATAATAACTAGGGTTTTACTAAA
30154310 AATAATAACTAAC
1 AATAATAA-TAAC
30154323 AATAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.30
27 15 0.45
28 8 0.24
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (27 bp):
AATAATAATAACTAGGGTTTTACTAAA
Found at i:30154360 original size:22 final size:22
Alignment explanation
Indices: 30154316--30154361 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30154306 TAAAAATAAT
*
30154316 AACTAACAATAATATAATGTAA
1 AACTAACAATAATATAATCTAA
*
30154338 AACTAACAATCATACTAA-CTAA
1 AACTAACAATAATA-TAATCTAA
30154360 AA
1 AA
30154362 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (22 bp):
AACTAACAATAATATAATCTAA
Found at i:30156658 original size:88 final size:87
Alignment explanation
Indices: 30156437--30156893 Score: 452
Period size: 88 Copynumber: 5.0 Consensus size: 87
30156427 CCGATCCAAA
* * * *
30156437 CCCTCAAAATTCTTCAAAAAAAAGTAATTAAGCCCCTGCTCTTTTTTTCCACTCAATTGGGTACT
1 CCCTC-AAATTTTTCAAAAAAAAGAAATTAAGCCACT--ACTTTTTTT-CACTCAATTGGGTACT
* * *
30156502 TGAATTTTCAAAATGCATGAAAAAGA
62 TGAACTTTCAAAATGCATCAAAAAGG
* *
30156528 CCCTGAAATTTTTCAAAAAAAA-ACAATTAAGCCCCTACTTTTTTT-ACTCAATTGGGTACTTGA
1 CCCTCAAATTTTTCAAAAAAAAGA-AATTAAGCCACTACTTTTTTTCACTCAATTGGGTACTTGA
*
30156591 GCTTTCAAAATGCATCAAAAAGG
65 ACTTTCAAAATGCATCAAAAAGG
* * * * *
30156614 CCCTCAATTTTTTTTCAAAATAAATAAATTAAGCCACTGCTTTTTTTTTGCACTCAATTAGGTAC
1 CCCTCAA--ATTTTTCAAAAAAAAGAAATTAAGCCACTAC--TTTTTTT-CACTCAATTGGGTAC
* * *
30156679 TTGAACTTTTAAAATACATAAAAAAAAGG
61 TTGAACTTTCAAAATGCAT--CAAAAAGG
* * *
30156708 CCATCAAAATTTTCAAAAAAAAGCAATTAAGCCCCTACGTACTTTCTTTTTGCACTCAATTGGGT
1 CCCTCAAATTTTTCAAAAAAAAGAAATTAAG--CC-AC-TAC-TT-TTTTT-CACTCAATTGGGT
*
30156773 ACTTAAACTTTCAAAATGCATCAAAAAGG
59 ACTTGAACTTTCAAAATGCATCAAAAAGG
* * * **
30156802 CCCTAAAATTTTTTCAAAATAAAGCAATTAAGCC-CCCCTTTTTTTGCACTCAATTGGGTACTTG
1 CCCTCAAA-TTTTTCAAAAAAAAGAAATTAAGCCACTACTTTTTTT-CACTCAATTGGGTACTTG
*
30156866 AACTGTCAAAATGCATCAAAAAGG
64 AACTTTCAAAATGCATCAAAAAGG
30156890 CCCT
1 CCCT
30156894 TTGACCGTTA
Statistics
Matches: 312, Mismatches: 38, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
86 43 0.14
88 83 0.27
89 3 0.01
90 36 0.12
91 5 0.02
92 48 0.15
93 2 0.01
94 28 0.09
95 26 0.08
96 38 0.12
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (87 bp):
CCCTCAAATTTTTCAAAAAAAAGAAATTAAGCCACTACTTTTTTTCACTCAATTGGGTACTTGAA
CTTTCAAAATGCATCAAAAAGG
Found at i:30157290 original size:18 final size:20
Alignment explanation
Indices: 30157269--30157321 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
30157259 TGGTACGATA
30157269 AATTTTAT-ATTTT-TTACG
1 AATTTTATAATTTTCTTACG
30157287 AATTTTATAATTTTCTTACG
1 AATTTTATAATTTTCTTACG
* *
30157307 ACTTTATAAAATTTT
1 AATTT-TATAATTTT
30157322 ATAATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 9 0.30
21 8 0.27
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTATAATTTTCTTACG
Found at i:30157312 original size:19 final size:19
Alignment explanation
Indices: 30157272--30157315 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30157262 TACGATAAAT
*
30157272 TTTAT-ATTTTTTACGAAT
1 TTTATAATTTTTTACGAAC
30157290 TTTATAATTTTCTTACG-AC
1 TTTATAATTTT-TTACGAAC
30157309 TTTATAA
1 TTTATAA
30157316 AATTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTACGAAC
Found at i:30157382 original size:20 final size:22
Alignment explanation
Indices: 30157350--30157390 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30157340 TCTATATATT
30157350 TTATAATTTTTTTTAC-AATTC
1 TTATAATTTTTTTTACTAATTC
30157371 TTATAA-TTTTTTTACTAATT
1 TTATAATTTTTTTTACTAATT
30157391 TAAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATAATTTTTTTTACTAATTC
Found at i:30157553 original size:30 final size:31
Alignment explanation
Indices: 30157488--30157573 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 31
30157478 CGACTTTATA
* *
30157488 AAATTTTAT-ATTTTTTTCTATATTTCTATGT
1 AAATTTTATAATTTTTTACTA-ATTTTTATGT
30157519 --ATTTTATAATTTTTTACTAATTTTTA-GT
1 AAATTTTATAATTTTTTACTAATTTTTATGT
*
30157547 AAATTTTA-AATATTTTTA-TATTTTTTA
1 AAATTTTATAAT-TTTTTACTAATTTTTA
30157574 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.04
29 24 0.50
30 22 0.46
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
AAATTTTATAATTTTTTACTAATTTTTATGT
Found at i:30157585 original size:30 final size:29
Alignment explanation
Indices: 30157521--30157585 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
30157511 TTCTATGTAT
*
30157521 TTTATAATTTTTTACTAATTTTTAGTAAAT
1 TTTA-AATTTTTTACTAATTTTTAGTAAAA
* *
30157551 TTTAAATATTTTTA-TATTTTTTAATTAAAA
1 TTTAAAT-TTTTTACTAATTTTT-AGTAAAA
30157581 TTTAA
1 TTTAA
30157586 TAACTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTAAATTTTTTACTAATTTTTAGTAAAA
Found at i:30157587 original size:29 final size:29
Alignment explanation
Indices: 30157525--30157587 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
30157515 ATGTATTTTA
*
30157525 TAAT-TTTTTACTAATTTTTAGTAAATTT
1 TAATATTTTTACTAATTTTTAGTAAAATT
* *
30157553 TAAATATTTTTA-TATTTTTTAATTAAAATT
1 T-AATATTTTTACTAATTTTT-AGTAAAATT
30157583 TAATA
1 TAATA
30157588 ACTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 14 0.48
30 14 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
TAATATTTTTACTAATTTTTAGTAAAATT
Found at i:30163329 original size:21 final size:23
Alignment explanation
Indices: 30163296--30163338 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
30163286 ATATATATTT
*
30163296 TATATAAAGAAATATGTATATAC
1 TATATAAAGAAATACGTATATAC
*
30163319 TATAT-AA-AAATGCGTATATA
1 TATATAAAGAAATACGTATATA
30163339 AGTTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TATATAAAGAAATACGTATATAC
Found at i:30165253 original size:89 final size:89
Alignment explanation
Indices: 30164985--30166407 Score: 2013
Period size: 89 Copynumber: 16.0 Consensus size: 89
30164975 TCTGCTGCGC
* * * *
30164985 TTGATCTACTTCACGCC---A-ATGAAGACAAGGTCTG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* *
30165045 CATGGGGAGACAAGATCTG-TAGTCT
65 TATGGGAAGACAAGATCTGTTA-TCT
* * *
30165070 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTTTCTTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--CTTTC-TTCGATCTGCTTCGCCACC
* *
30165135 AGTATGGGAAGACAAGATCTATTACCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* * * * *
30165162 TTGATCTACTTCACGCCAGTACATGAAGACAATATATG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* * * *
30165226 TGTGGGGAGACAAGATTTGTTGTCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
30165251 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30165316 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
30165340 CTT-ATCTACTTCATGCTAGTACATGAAGACAGGATCTGCTTTCTTTGATCTGCTTCGCCACCAG
1 -TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAG
30165404 TATGGGAAGACAAGATCTG-TATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * *
30165428 CTGATCTACTTCACGCCAGTGCATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
30165493 AGTATGGGAAGACAAGATCTGTTATCT
63 AGTATGGGAAGACAAGATCTGTTATCT
*
30165520 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
30165585 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
30165609 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATCCGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30165674 ATGGGAAGACAAGATCTATTA-CAT
66 ATGGGAAGACAAGATCTGTTATC-T
*
30165698 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30165763 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
30165787 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* *
30165852 ATGGGAAGGCAAGACCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* **
30165876 TTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30165941 ATGGGAAGACAAGATCTGTTACCT
66 ATGGGAAGACAAGATCTGTTATCT
*
30165965 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30166030 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * * *
30166054 CTGATCTATTTCATGCCAGTACATGAAGAAAAGATCTGCTTTCTTTGATCTGCTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
** *
30166119 ATGGGAAGGTAAGACCTG-TATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
30166142 CTGATCTACTTCAAGCCAGTACATGAAGATAATATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
* *
30166207 AGTATGGGAAGACAAGATTTGTTTTCT
63 AGTATGGGAAGACAAGATCTGTTATCT
*
30166234 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
30166299 ATGGGAAGATAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
30166323 TTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCGATCTGTTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
30166388 ATGGGAAGACAAGATCTGTT
66 ATGGGAAGACAAGATCTGTT
30166408 GCTACTCTAT
Statistics
Matches: 1211, Mismatches: 104, Indels: 42
0.89 0.08 0.03
Matches are distributed among these distances:
85 17 0.01
87 1 0.00
88 78 0.06
89 865 0.71
90 19 0.02
91 75 0.06
92 154 0.13
93 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:30167673 original size:7 final size:7
Alignment explanation
Indices: 30167651--30167697 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
30167641 CCTTAGCCTC
30167651 TTCATTT
1 TTCATTT
*
30167658 TTACTTTT
1 TT-CATTT
30167666 TTCATTT
1 TTCATTT
30167673 TTCA-TT
1 TTCATTT
30167679 TTCATCTT
1 TTCAT-TT
30167687 TTCATTT
1 TTCATTT
30167694 TTCA
1 TTCA
30167698 CATCACTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 16 0.46
8 13 0.37
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
TTCATTT
Found at i:30167709 original size:21 final size:22
Alignment explanation
Indices: 30167660--30167709 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
30167650 CTTCATTTTT
**
30167660 ACTTTTTTCATTTTTCATTTTC
1 ACTTTTTTCATTTTTCATCATC
*
30167682 A-TCTTTTCATTTTTCA-CATC
1 ACTTTTTTCATTTTTCATCATC
30167702 ACTTTTTT
1 ACTTTTTT
30167710 TTGGACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (22 bp):
ACTTTTTTCATTTTTCATCATC
Found at i:30168664 original size:19 final size:19
Alignment explanation
Indices: 30168640--30168678 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30168630 GGTTTGGCAG
30168640 AAAAATCCAAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
**
30168659 AAAAATCGTAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
30168678 A
1 A
30168679 GAACATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAATCCAAAAGAATGAA
Found at i:30172909 original size:21 final size:23
Alignment explanation
Indices: 30172876--30172918 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
30172866 ATATATATTT
*
30172876 TATATAAAGAAATATGTATATAC
1 TATATAAAGAAATACGTATATAC
*
30172899 TATAT-AA-AAATGCGTATATA
1 TATATAAAGAAATACGTATATA
30172919 AGTTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TATATAAAGAAATACGTATATAC
Found at i:30175783 original size:17 final size:16
Alignment explanation
Indices: 30175753--30175797 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
30175743 ATTTTTTTAA
*
30175753 TTTAAAAGAGTTTTTGTT
1 TTTAAAA-A-TTTTTATT
30175771 TTTCAAAAATTTTTATT
1 TTT-AAAAATTTTTATT
30175788 TTTAAAAATT
1 TTTAAAAATT
30175798 ATAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 4 0.16
19 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (16 bp):
TTTAAAAATTTTTATT
Found at i:30181097 original size:6 final size:6
Alignment explanation
Indices: 30181086--30181114 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30181076 ACATAAGAAA
30181086 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
30181115 TTTTGGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:30182278 original size:14 final size:15
Alignment explanation
Indices: 30182250--30182284 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
30182240 TATTATTTTT
30182250 TATTTTTATTAAAAA
1 TATTTTTATTAAAAA
30182265 TATTTTTATTAAAAA
1 TATTTTTATTAAAAA
30182280 TATTT
1 TATTT
30182285 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTTATTAAAAA
Found at i:30182460 original size:20 final size:20
Alignment explanation
Indices: 30182417--30182462 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
30182407 GCTGCTGCCT
*
30182417 TTGTCCCTTCCACCATGGTG
1 TTGTCCCTTCCACCATGGTA
30182437 TTGTCCCTTCCACCA-GGCTA
1 TTGTCCCTTCCACCATGG-TA
30182457 TTGTCC
1 TTGTCC
30182463 TTTCAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.11, C:0.37, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTCCCTTCCACCATGGTA
Found at i:30182548 original size:11 final size:10
Alignment explanation
Indices: 30182532--30182587 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
30182522 GTATCAACTG
30182532 GAAAAGAGAAA
1 GAAAAGAG-AA
30182543 GAAAAGAG-A
1 GAAAAGAGAA
*
30182552 GAAAGGAGAA
1 GAAAAGAGAA
*
30182562 GAAGAGAAGAA
1 GAAAAG-AGAA
30182573 GAAGAAGA-AA
1 GAA-AAGAGAA
30182583 GAAAA
1 GAAAA
30182588 AAAAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 10 0.26
10 10 0.26
11 16 0.42
12 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:30182568 original size:17 final size:17
Alignment explanation
Indices: 30182541--30182585 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30182531 GGAAAAGAGA
30182541 AAGAA-AAGAG-AGAAAG
1 AAGAAGAAGAGAAG-AAG
*
30182557 GAGAAGAAGAGAAGAAG
1 AAGAAGAAGAGAAGAAG
30182574 AAGAAGAA-AGAA
1 AAGAAGAAGAGAA
30182586 AAAAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 15 0.60
18 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAGAAGAAG
Found at i:30182865 original size:21 final size:21
Alignment explanation
Indices: 30182839--30182882 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30182829 TAATTTAAAT
30182839 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
30182860 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
30182881 TT
1 TT
30182883 CGAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (21 bp):
TTGTAAGACTTCAATATTATA
Found at i:30183354 original size:38 final size:39
Alignment explanation
Indices: 30183312--30183389 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
30183302 TTTTAATCAT
30183312 ATAGTTGCTGTTAACTCATTTAA-TTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
*
30183350 ATAGTTGTTGTTAACTCATTTAATGTTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAA-GTTTTTTTATATCAAC
30183390 TTGGGGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 22 0.59
40 15 0.41
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (39 bp):
ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
Found at i:30183626 original size:58 final size:58
Alignment explanation
Indices: 30183468--30183649 Score: 212
Period size: 58 Copynumber: 3.2 Consensus size: 58
30183458 TACCGAAATG
* *
30183468 ATATGTTTTTTGTAATCGTGCCTATCTGACAGGCGCCAATCAATTTTTTATATTAACAAA
1 ATATATTTTTT-TAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAA-AAA
** * * * *
30183528 A-A-A--AATTTAATCGCGCCTATTTGACAGACGCGAATCAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
* * *
30183582 ATATATTTTTTTAATCGTGTCTATCCGACAGGCGCAAATTAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
30183640 ATAT-TTTTTT
1 ATATATTTTTT
30183650 GTTTAAATAA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
54 4 0.04
55 41 0.40
56 3 0.03
57 6 0.06
58 46 0.45
59 1 0.01
60 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (58 bp):
ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
Found at i:30183924 original size:16 final size:16
Alignment explanation
Indices: 30183903--30183941 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
30183893 TTAACTCATT
*
30183903 TAATTTTTATATAATG
1 TAATTTTTATATAATA
30183919 TAATTTTTATATAATA
1 TAATTTTTATATAATA
30183935 TAATTTT
1 TAATTTT
30183942 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:30187081 original size:20 final size:20
Alignment explanation
Indices: 30187056--30187093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30187046 ACTAGATCTG
30187056 TTAAAAAAATTTCAAAATTC
1 TTAAAAAAATTTCAAAATTC
* *
30187076 TTAAAACAATTTCGAAAT
1 TTAAAAAAATTTCAAAAT
30187094 GCAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATTTCAAAATTC
Found at i:30187584 original size:56 final size:56
Alignment explanation
Indices: 30187504--30187620 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 56
30187494 ATATTTTATT
* * * * *
30187504 AAAAGAAAAAAGTTAATATAAAAAATTTATTGACGCCTGTCAAATAGGCTCGATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
* *
30187560 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCTGTCAGATAGGCGCCATTA
1 AAAAG-AAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
30187617 AAAA
1 AAAA
30187621 AAACATACTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
56 5 0.09
57 48 0.91
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (56 bp):
AAAAGAAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
Found at i:30192579 original size:26 final size:26
Alignment explanation
Indices: 30192543--30192620 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
30192533 ACTCAGTTCC
30192543 CGAGGCAAAGCCAAAGATCCAGCTCG
1 CGAGGCAAAGCCAAAGATCCAGCTCG
*
30192569 CGAGGCAAAGCCAATGA-CCTAGCTCG
1 CGAGGCAAAGCCAAAGATCC-AGCTCG
* * ** *
30192595 CAAGGCAAGGCCGCAGATCTAGCTCG
1 CGAGGCAAAGCCAAAGATCCAGCTCG
30192621 TAGAAAGGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.28, T:0.10
Consensus pattern (26 bp):
CGAGGCAAAGCCAAAGATCCAGCTCG
Found at i:30195599 original size:109 final size:108
Alignment explanation
Indices: 30195391--30195600 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
30195381 GGTAAACGAC
* *
30195391 AAATGGAAAATGTGTATCAACTTAAATGACAAATAACAGTTTTCCCTACCCTCGATTGATCGATT
1 AAATGGAAAATGTGTATCAACTTAAACGACAAATAACAGTTTTCCCTACCCTCGATTGATCAATT
30195456 AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
66 AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
* * *
30195499 AAAT-GAAGAATGTGTATCGACTTAAACGACAAATGACAGTTTTCCCCTACCCTTGATTGA-CTA
1 AAATGGAA-AATGTGTATCAACTTAAACGACAAATAACAGTTTT-CCCTACCCTCGATTGATC-A
* *
30195562 ATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCTT
63 ATTAATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTT
30195601 CATGGATGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 3 0.03
108 37 0.40
109 52 0.57
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (108 bp):
AAATGGAAAATGTGTATCAACTTAAACGACAAATAACAGTTTTCCCTACCCTCGATTGATCAATT
AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
Found at i:30211640 original size:20 final size:20
Alignment explanation
Indices: 30211595--30211634 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30211585 TCGGGGGAAA
* *
30211595 TATTATCTTTTATTTTATTT
1 TATTTTCTTTGATTTTATTT
30211615 TATTTTCTTTGATTTTATTT
1 TATTTTCTTTGATTTTATTT
30211635 ACTTTTGAAA
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:0.05, G:0.03, T:0.75
Consensus pattern (20 bp):
TATTTTCTTTGATTTTATTT
Found at i:30212968 original size:328 final size:324
Alignment explanation
Indices: 30212375--30213030 Score: 1008
Period size: 328 Copynumber: 2.0 Consensus size: 324
30212365 ATTTAATTTC
* *
30212375 TCATTACCATGAGTTCTCCAATTCGTCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAGTCA
1 TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
* *
30212440 AGGATTACTGTATTGATGAAGGACGTGATCACATGCACGAATATATAAATACATTTATGATAATG
66 AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAATACATTTATGATAATG
* * * *
30212505 ATATTGTTGATGGCGGGCAAGGTTTTGTGATGTTGGTCGATGATGAAGCCATGCAAAGAAATTGG
131 ATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAATTGG
* * * *
30212570 AAATAATTATACAGACTAGAAAACTGGAAGTAATTAAAAGTTTGTGGGGGGTTTTGTGCTATTCA
196 AAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTATTCA
* **
30212635 TAGATACATGCATCGCATTTTCATGGTTGCT-TATATAGTTAATTGTATTTAGTGCTTTCCCTTT
261 TAGATACATGAATCGCATTTTCATGGTT-CTCTATATAAATAATTGTATTTAGTGCTTTCCCTTT
* * *
30212699 TCATTACCATGAGTTCTCCAATTCATTTAAGTGTATAAATAAAGAGATTTGTTTAATTCTAATCA
1 TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
* ** *
30212764 ATGATCACTGTATTGATGAAGGACGTAATCACATGCATTAATATATAAATAAATATATATATGAT
66 AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAAT--ACAT-T-TATGAT
* * *
30212829 AATGATATTGTTGATGACGAGCAAGGTTTTTTGATGTTGGTTGACGATGAAGCCACGTAAAGAAA
127 AATGATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAA
*
30212894 TTGGAAATAACTATGCAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTA
192 TTGGAAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTA
* *
30212959 TTCATAGATACATGAATTGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCT
257 TTCATAGATACATGAATCGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCC
30213024 TTT
322 TTT
30213027 TCAT
1 TCAT
30213031 ATTTATCAAG
Statistics
Matches: 299, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
324 105 0.35
326 3 0.01
327 3 0.01
328 188 0.63
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (324 bp):
TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAATACATTTATGATAATG
ATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAATTGG
AAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTATTCA
TAGATACATGAATCGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCCTTT
Found at i:30214490 original size:13 final size:14
Alignment explanation
Indices: 30214472--30214500 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30214462 TAAGCATTTC
30214472 TGTTTAGTTA-AAA
1 TGTTTAGTTAGAAA
30214485 TGTTTAGTTAGAAA
1 TGTTTAGTTAGAAA
30214499 TG
1 TG
30214501 AAACTGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TGTTTAGTTAGAAA
Found at i:30223135 original size:105 final size:105
Alignment explanation
Indices: 30222954--30223147 Score: 237
Period size: 105 Copynumber: 1.8 Consensus size: 105
30222944 AATGTTTAAA
** * * * **
30222954 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGATCGTAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
**
30223019 ACGTAAAACCATGGTTGGACCATGACAGTATAGATACATG
66 ACGTAAAACCATGGCAGGACCATGACAGTATAGATACATG
* * * *
30223059 TGTAAGACTATAGTTGGAATATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
* *
30223123 GATGTAAGACCATGGCAGGACCATG
66 -ACGTAAAACCATGGCAGGACCATG
30223148 GCAATGCATC
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
104 3 0.04
105 70 0.96
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
ACGTAAAACCATGGCAGGACCATGACAGTATAGATACATG
Found at i:30225863 original size:40 final size:40
Alignment explanation
Indices: 30225743--30225881 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
30225733 ACTTCGAGTT
* * * *
30225743 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCC
* * * * * * * *
30225784 GACGAGCCATTGTGTG-C-CAGT-TTACTTCGATTTAACC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
30225821 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
* *
30225861 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
30225882 CTGGTGTGTT
Statistics
Matches: 73, Mismatches: 22, Indels: 7
0.72 0.22 0.07
Matches are distributed among these distances:
37 14 0.19
38 10 0.14
39 3 0.04
40 34 0.47
41 12 0.16
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
Found at i:30227838 original size:33 final size:32
Alignment explanation
Indices: 30227801--30227916 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
30227791 AGATCAATTT
30227801 ATATTTTATGTATTATTATGTTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* **
30227834 ATATTTCATGTAACATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* * *
30227867 ATATGATT-TGTTATTA-TATTTAAGGTT-TTAAA
1 ATAT-TTTATG-TATTATTATTTAA-ATTATTTAA
30227899 ATATTTTATGTATTATTA
1 ATATTTTATGTATTATTA
30227917 ATTTTATAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
31 7 0.10
32 16 0.24
33 40 0.60
34 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (32 bp):
ATATTTTATGTATTATTATTTAAATTATTTAA
Found at i:30233572 original size:5 final size:5
Alignment explanation
Indices: 30233562--30233588 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30233552 GGTAGTTGAT
30233562 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
30233589 TTTGATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:30233620 original size:15 final size:15
Alignment explanation
Indices: 30233600--30233629 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30233590 TTGATCAAAA
30233600 TATATAATTTATTAG
1 TATATAATTTATTAG
30233615 TATATAATTTATTAG
1 TATATAATTTATTAG
30233630 GAAACTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATAATTTATTAG
Found at i:30235490 original size:20 final size:21
Alignment explanation
Indices: 30235458--30235496 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
30235448 TCAATTTTTT
30235458 AAAAAAACTTATA-TAAAATC
1 AAAAAAACTTATATTAAAATC
30235478 AAAAAAA-TATATATTAAAA
1 AAAAAAACT-TATATTAAAA
30235497 ATTATGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAAACTTATATTAAAATC
Found at i:30236198 original size:28 final size:27
Alignment explanation
Indices: 30236166--30236249 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
30236156 TCCTTTTTTC
30236166 AAATATATATAAACATTAACAAAATAAA
1 AAATATATATAAA-ATTAACAAAATAAA
* * * * *
30236194 AAATAGAAAAAAAAATAAAAAAAATAAA
1 AAATA-TATATAAAATTAACAAAATAAA
30236222 AAA-ATCATAT-AAATTATAC-AAATAAA
1 AAATAT-ATATAAAATTA-ACAAAATAAA
30236248 AA
1 AA
30236250 TTACAAAATA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
26 14 0.33
27 4 0.09
28 20 0.47
29 5 0.12
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (27 bp):
AAATATATATAAAATTAACAAAATAAA
Found at i:30236210 original size:19 final size:19
Alignment explanation
Indices: 30236186--30236225 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
30236176 AAACATTAAC
*
30236186 AAAATAAAAAATAGAAAAA
1 AAAATAAAAAAAAGAAAAA
*
30236205 AAAATAAAAAAAATAAAAA
1 AAAATAAAAAAAAGAAAAA
30236224 AA
1 AA
30236226 TCATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (19 bp):
AAAATAAAAAAAAGAAAAA
Found at i:30236226 original size:8 final size:9
Alignment explanation
Indices: 30236186--30236225 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
30236176 AAACATTAAC
30236186 AAAATAAAA
1 AAAATAAAA
30236195 AATAGA-AAAA
1 AA-A-ATAAAA
30236205 AAAATAAAA
1 AAAATAAAA
30236214 AAAATAAAA
1 AAAATAAAA
30236223 AAA
1 AAA
30236226 TCATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 19 0.68
10 7 0.25
11 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:30236956 original size:122 final size:123
Alignment explanation
Indices: 30236747--30236968 Score: 383
Period size: 122 Copynumber: 1.8 Consensus size: 123
30236737 AATTTAGAGT
* *
30236747 AATTAAAATTAAAATCGGTTGCCTCTTTGTGTGATGAGAGTGTAGCAACAATAGAGTATTCTTTA
1 AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
30236812 GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
66 GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
** *
30236870 AATTAAAATTTTAAT-GGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATATAGTATTCTTTA
1 AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
*
30236934 GTGATTTAGTGTCACAACAATATGAACACAAAATT
66 GTGATTTAGTGTCACAACAATATGAAAACAAAATT
30236969 GCTTTGCAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
122 80 0.86
123 13 0.14
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (123 bp):
AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
Found at i:30240159 original size:46 final size:46
Alignment explanation
Indices: 30240098--30240191 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
30240088 TTTTAGACAT
30240098 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
1 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
30240144 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
1 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
30240190 CA
1 CA
30240192 TTTATATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.23
Consensus pattern (46 bp):
CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
Found at i:30242467 original size:51 final size:51
Alignment explanation
Indices: 30242391--30242497 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
30242381 GCTATTAAGC
30242391 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
1 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
30242442 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
1 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
30242493 TGTTG
1 TGTTG
30242498 AGAGATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (51 bp):
TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
Found at i:30245062 original size:50 final size:50
Alignment explanation
Indices: 30244990--30245095 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
30244980 TATTGAGGTT
* * * *
30244990 ATGAGATGTCCCTCGTAAGACCATATTTAGGACATGACATTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
* * * * *
30245040 ATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
30245090 ATGAGA
1 ATGAGA
30245096 ACTCCCATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
Found at i:30245121 original size:50 final size:50
Alignment explanation
Indices: 30244998--30245121 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 50
30244988 TTATGAGATG
* * * * **
30244998 TCCCTCGTAAGACCATATTTAGGACATGACATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
* * * * *
30245048 TCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
* * *
30245098 TCCCATGTAACACCATATCTGGGA
1 TCCCACGTAAGACCATATATGGGA
30245122 TATGTCATTG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
Found at i:30254717 original size:50 final size:50
Alignment explanation
Indices: 30254597--30254888 Score: 322
Period size: 50 Copynumber: 5.9 Consensus size: 50
30254587 AATATAACAG
* * * ** * * * *
30254597 GCCAAAGCTATGTCCTAGACATAGTCTTACATGGGATGTTTCTTGTA-CT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * ** *
30254646 GCCAATGCCAT-ACCTCAGACATGGTCTTACATGGGAGTTCTCATATAGGT
1 GCCAACGCCATGTCCT-AGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * *
30254696 GACC-ATGCCATGTCCTAGACATGGTCTTAC-GGGGACCTCTCATCTTGGT
1 G-CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* *
30254745 GCCAACGCCATGTCCTAGACATTGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * * *
30254795 GCCAACGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
*
30254845 ACCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
30254889 AATCTCAATG
Statistics
Matches: 209, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.02
49 73 0.35
50 126 0.60
51 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
Found at i:30258607 original size:19 final size:19
Alignment explanation
Indices: 30258584--30258627 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30258574 TCTAATTTGA
*
30258584 AAAAAAATAGAAAATTTTAG
1 AAAAATATA-AAAATTTTAG
* *
30258604 AAAAATCTAAAAATTTTGG
1 AAAAATATAAAAATTTTAG
30258623 AAAAA
1 AAAAA
30258628 GGATCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAATTTTAG
Found at i:30259949 original size:32 final size:32
Alignment explanation
Indices: 30259881--30259990 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 32
30259871 GAATGGCAAC
* * * *
30259881 AAGCCATAAGTA-CAGTAATATGTTTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * *
30259912 AAGCCATCAGTAGTAGTGATATGATCGACATA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * * *
30259944 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
30259976 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
30259991 TCGCAGCAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
31 11 0.18
32 50 0.82
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGACACA
Found at i:30260054 original size:26 final size:26
Alignment explanation
Indices: 30259990--30260060 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
30259980 CATCAGTAGC
* *
30259990 ATCGCAGCAAAGCTACCAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
*
30260016 ATCGCAGCAAAGTTGCTAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
30260042 ATCGCAGCAAAGTTGCCAG
1 ATCGCAGCAAAGTTGCCAG
30260061 TATAGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (26 bp):
ATCGCAGCAAAGTTGCCAGCAACAGT
Found at i:30260216 original size:24 final size:23
Alignment explanation
Indices: 30260189--30260264 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
30260179 TCAGAATTAA
*
30260189 TCATTCAAATCACAGACAACTCAG
1 TCATTCAAA-CACAGACAAATCAG
*
30260213 TCATACCAAACACAGACAAATCAG
1 TCAT-TCAAACACAGACAAATCAG
* * * *
30260237 TCATTTAACCACAGACAATTCAA
1 TCATTCAAACACAGACAAATCAG
30260260 TCATT
1 TCATT
30260265 TGACGTCGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.43
24 21 0.48
25 4 0.09
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATCAG
Found at i:30260533 original size:27 final size:27
Alignment explanation
Indices: 30260276--30260525 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 27
30260266 GACGTCGAGC
* *
30260276 GTATTACGATCATTTTACTCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
* * * *
30260303 GCATTATGGTCATTTTACCCTATAGGT
1 GTATTACGGTCATTTTACCCTACAGGG
*
30260330 GTATTACGGCCATTTTACCCTACA-GG
1 GTATTACGGTCATTTTACCCTACAGGG
* *
30260356 GCATTACGGTTATTTTACCCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
30260383 GTATTATGGTCATTTTACCCTACAGGGG
1 GTATTACGGTCATTTTACCCTACA-GGG
* *
30260411 GTATTAAGGTCATTTTACCCTACAAGG
1 GTATTACGGTCATTTTACCCTACAGGG
* *
30260438 GCATTACGGTCATTTTACCCTACAAGG
1 GTATTACGGTCATTTTACCCTACAGGG
* * *
30260465 GCATTACGGTCATTTTACCTTATAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
30260492 GTATTACGGTTATTTTACCCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
30260519 GTGTTAC
1 GTATTAC
30260526 AATCATTTAA
Statistics
Matches: 192, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.11
27 144 0.75
28 26 0.14
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GTATTACGGTCATTTTACCCTACAGGG
Found at i:30275555 original size:19 final size:20
Alignment explanation
Indices: 30275508--30275557 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
30275498 CCACAAATCG
30275508 TAGTGGCATTTTAATGTTTTC
1 TAGT-GCATTTTAATGTTTTC
30275529 TAGT-CATTTTAATGTTTT-
1 TAGTGCATTTTAATGTTTTC
*
30275547 TATTGCATTTT
1 TAGTGCATTTT
30275558 CGCATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
21 4 0.15
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (20 bp):
TAGTGCATTTTAATGTTTTC
Found at i:30278396 original size:14 final size:15
Alignment explanation
Indices: 30278377--30278426 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
30278367 CCAAGCATGC
30278377 TTTAGT-ACTTTATT
1 TTTAGTCACTTTATT
30278391 TTTAGTCACATTT-TT
1 TTTAGTCAC-TTTATT
*
30278406 TCTT-GTCATTTTATT
1 T-TTAGTCACTTTATT
30278421 TTTAGT
1 TTTAGT
30278427 TTGATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 11 0.37
15 14 0.47
16 5 0.17
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (15 bp):
TTTAGTCACTTTATT
Found at i:30282444 original size:7 final size:7
Alignment explanation
Indices: 30282432--30282457 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30282422 AAATTTAAAC
30282432 ATTTTTT
1 ATTTTTT
30282439 ATTTTTT
1 ATTTTTT
30282446 ATTTTTT
1 ATTTTTT
30282453 ATTTT
1 ATTTT
30282458 GGGACTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:30286568 original size:13 final size:13
Alignment explanation
Indices: 30286550--30286574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30286540 CACTATAATA
30286550 TTATTTTTGTGTG
1 TTATTTTTGTGTG
30286563 TTATTTTTGTGT
1 TTATTTTTGTGT
30286575 TTCAGAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
TTATTTTTGTGTG
Found at i:30286824 original size:52 final size:52
Alignment explanation
Indices: 30286746--30286849 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
30286736 AATATGGAGG
*
30286746 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
30286798 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
30286850 TTTTTTTATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (52 bp):
GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
Found at i:30292784 original size:80 final size:79
Alignment explanation
Indices: 30292612--30292837 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 79
30292602 GTTAACAATA
* * * * * **
30292612 AAAATCGAATAAATTATGTTGAACGGTGGGAATAGAATTCTGAAACATAATTGTTCGATTGATTT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
* *
30292677 ATCATTGGAAATAG
66 CTCATTGGAAACAG
* * *
30292691 AAAATCAAACAAATTCTGTTGAACGATAGGAATAAAATCCTGAAACATAATTTTTTTAATTGATT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAA-TTGTTTAATTGATT
**
30292756 TCTGTTTGGAAACAG
65 TCTCATTGGAAACAG
* * * * * *
30292771 AAAATCAAACAAATTTTGTTGGACGGTAGGAATAAAATCTTGAAATAGAATTGTTTAATTAATTT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
30292836 CT
66 CT
30292838 ATTTACAAAT
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 58 0.47
80 66 0.53
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (79 bp):
AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
CTCATTGGAAACAG
Found at i:30300235 original size:708 final size:708
Alignment explanation
Indices: 30298841--30300239 Score: 1722
Period size: 708 Copynumber: 2.0 Consensus size: 708
30298831 ATCAAGTCAC
* * *
30298841 TCATCACAAAGACGAACAACATGTGGCTACTTTTACTTTTCATCAATCATGTAATGCCAATGAGA
1 TCATCACAAAGACGAACAACATGTGGCTAATTTTACTTTTCATCAACCATGTAATGCCAATGAAA
* ** * * **
30298906 GGATATCATTTACCCATGTCTCAGGCTATGAAATACGTTGTTTTAAATGATGTTACATACTACAG
66 GGATATCATTTACCCATGTCTCAGGCAATGAAATACACTATTGTAAATGACATTACATACTACAG
* *
30298971 AAGTCGTATACCCAACGCATCAACTTTCAATTCCTTTTCCATTTGAACTCAGGCTTTTACTTACA
131 AAGTCGTATACCCAACGCATCAACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTTACA
*
30299036 TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGTCACACTTT
196 TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGCCACACTTT
* * * * *
30299101 TAATCTCACAAGTGAATAAATCCATAAGAGCATTTAGGATCTCTTCTTCTTAGGTCTAGTCTCAT
261 AAATCTCACAAGTGAATAAATCCATAAAAGCATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAAT
* * *
30299166 GTACTATCAGTCCAGCTAGTCACATTCATTCATCACAAAGACAAACACCCCGTGGCCACGCATAC
326 GAACCATCAGTCCAGCTAGTCACATTCATTCATCACAAAAACAAACACCCCGTGGCCACGCATAC
* * * * *
30299231 TTTTTATCAAACATGTAATTCGAATAAAAGGATATCATTTACCCATGTCTTAGGGATTGAATTCT
391 TTTTTATCAAACATGTAATGCCAATAAAAGCATATCATTTACCCATGTCTTAGGGAATAAATTCT
* ** * * *
30299296 ATTATTGTGAATGACGTTACATATTGTAGAAGTCGTATACCCAATCCTCCAGCTTTCAATTCCTT
456 ACTATTGTGAATGACGTTACATATTACAGAAGTCGTATACCCAATCCACCAACCTTCAATTCCTT
* * * ** *
30299361 ATTTGTTTGAACTCAGGCATTTACTTACATCAATATATACGAGTCATGCATACATAGCCCGTCAT
521 ATCTATTTGAACTCAGGCATTTACTTACATCAATATATACAAGTCACACATACATAGCCAGTCAT
* * * * *
30299426 CCACTCAATATTAAGGTATGCCAAACTTTGAATGTCACAAGTGTATAAATCCATAAACGGATTTA
586 CCACTCAAGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATAAACGGATTCA
* * *
30299491 GGATATCTTCTTCTTAGGTCCAGTCTAATTTACTATCAGTCTAGCCACTCACATTCAT
651 AGATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTCTAGCCACTCACATTCAT
* * *
30299549 TCATCACAAAGACGAACGACCTGTGGC-AATGTTTACTTTTTATCAACCATGTAATGCCAATGAA
1 TCATCACAAAGACGAACAACATGTGGCTAAT-TTTACTTTTCATCAACCATGTAATGCCAATGAA
* * * * * * * *
30299613 AGGATATCGTTTACTCATGTCTC-GAGCAATGAATTCCACTATTGTGAATGGCATTACATATTGC
65 AGGATATCATTTACCCATGTCTCAG-GCAATGAAATACACTATTGTAAATGACATTACATACTAC
* * * * *
30299677 AGAAGTCGTATACCCAATGCA-CTAGCCTTCAATTCCTTATCTATTTGAACTGAGGCTTTTATTT
129 AGAAGTCGTATACCCAACGCATC-AACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTT
** * * *** * *
30299741 ACATCAATA-TATATGAGTCATGCATACGTAG-CTTGTGATCCACTCAGGATTAAGGTATGCCAT
193 ACATCAA-AGTATACAAGTCACGCATACATAGTC-TACCATCCACTCAGAATTAAGGTATGCCAC
* * *
30299804 ACTTTAAATGTCACAAGTGAATAAATCTA-AAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAG
256 ACTTTAAATCTCACAAGTGAATAAATCCATAAAA-GCATTCAGGATCTCTTCTTCTTAGGTCCAG
* * * * **
30299868 TTTAATGAACCATCAGTCTAGTTAGTCACATTCATTCATCATAAAAATGAACGA-CCCGTGGCCA
320 TCTAATGAACCATCAGTCCAGCTAGTCACATTCATTCATCACAAAAACAAAC-ACCCCGTGGCCA
** * * *
30299932 CGTTTACTTTTTATCAACCATGTAATGCCAATGAAAGCATATCATTTACCCATGTC-TCGGGTAA
384 CGCATACTTTTTATCAAACATGTAATGCCAATAAAAGCATATCATTTACCCATGTCTTAGGG-AA
* *
30299996 TAAATT-TCACTATTGTGAATGAC-TCTACATATTACAGAAGTTGTATACCCAATGCACCAACCT
448 TAAATTCT-ACTATTGTGAATGACGT-TACATATTACAGAAGTCGTATACCCAATCCACCAACCT
* * * *
30300059 TCAATTCCTTATCTATTTGAACTCA-GTATTTTACTTACTTCAGTGTATACAAGTCACACATACA
511 TCAATTCCTTATCTATTTGAACTCAGGCA-TTTACTTACATCAATATATACAAGTCACACATACA
* * * *
30300123 TAGTCAGTCATCTACTTAGGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCAT
575 TAGCCAGTCATCCACTCAAGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCAT
* * * * *
30300188 AAATGGATTCAAGATCTCTTTTTCTTGGGTCCAATCTGATCTACTATCAGTC
640 AAACGGATTCAAGATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTC
30300240 CAATCAGTCA
Statistics
Matches: 580, Mismatches: 100, Indels: 22
0.83 0.14 0.03
Matches are distributed among these distances:
707 16 0.03
708 562 0.97
709 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (708 bp):
TCATCACAAAGACGAACAACATGTGGCTAATTTTACTTTTCATCAACCATGTAATGCCAATGAAA
GGATATCATTTACCCATGTCTCAGGCAATGAAATACACTATTGTAAATGACATTACATACTACAG
AAGTCGTATACCCAACGCATCAACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTTACA
TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGCCACACTTT
AAATCTCACAAGTGAATAAATCCATAAAAGCATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAAT
GAACCATCAGTCCAGCTAGTCACATTCATTCATCACAAAAACAAACACCCCGTGGCCACGCATAC
TTTTTATCAAACATGTAATGCCAATAAAAGCATATCATTTACCCATGTCTTAGGGAATAAATTCT
ACTATTGTGAATGACGTTACATATTACAGAAGTCGTATACCCAATCCACCAACCTTCAATTCCTT
ATCTATTTGAACTCAGGCATTTACTTACATCAATATATACAAGTCACACATACATAGCCAGTCAT
CCACTCAAGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATAAACGGATTCA
AGATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTCTAGCCACTCACATTCAT
Found at i:30300251 original size:354 final size:354
Alignment explanation
Indices: 30298841--30300252 Score: 1543
Period size: 354 Copynumber: 4.0 Consensus size: 354
30298831 ATCAAGTCAC
* ** * * * * *
30298841 TCATCACAAAGACGAACAACATGTGGCTACTTTTACTTTTCATCAATCATGTAATGCCAATGAGA
1 TCATCACAAAGACGAACGACCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
* * ** * * * ** *
30298906 GGATATCATTTACCCATGTCTCAGGCT-ATGAAATACGTTGTTTTAAATGATGTTACATACTACA
66 GGATATCATTTACCCATGTCTC-GGGTAAT-AAATTCACTATTGTGAATGACATTACATATTACA
* * * * * *
30298970 GAAGTCGTATACCCAACGCATCAACTTTCAATTCCTTTTCCATTTGAACTCAGGCTTTTACTTAC
129 GAAGTCGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGATTTTACTTAC
* * * *
30299035 ATCAA-AGTATACAAGTCACGCATACATAGTCTA-CCATCCACTCAGAATTAAGGTATGTCACAC
194 ATCAATA-TATACAAGTCACGCATACATAGTCTAGTCATCCACTCAGGATTAAGGTATGCCAAAC
* * * * *
30299098 TTTTAATCTCACAAGTGAATAAATCCATAAGA-GCATTTAGGATCTCTTCTTCTTAGGTCTAGTC
258 TTTGAATGTCACAAGTGAATAAATCCATAA-ATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTC
* *
30299162 TCATGTACTATCAGTCC-AGCTAGTCACATTCAT
322 TAATGTACTATCAGTCCAATC-AGTCACATTCAT
* ** * * * *
30299195 TCATCACAAAGACAAAC-ACCCCGTGGCCACGCATACTTTTTATCAAACATGTAATTCGAATAAA
1 TCATCACAAAGACGAACGA-CCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAA
* * * * * **
30299259 AGGATATCATTTACCCATGTCTTAGGG-ATTGAATTCTATTATTGTGAATGACGTTACATATTGT
65 AGGATATCATTTACCCATGTC-TCGGGTAATAAATTC-ACTATTGTGAATGACATTACATATTAC
* * * * * *
30299323 AGAAGTCGTATACCCAATCCTCCAGCTTTCAATTCCTTATTTGTTTGAACTCAGGCA-TTTACTT
128 AGAAGTCGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGG-ATTTTACTT
* * ** **
30299387 ACATCAATATATACGAGTCATGCATACATAG-CCCGTCATCCACTCAATATTAAGGTATGCCAAA
192 ACATCAATATATACAAGTCACGCATACATAGTCTAGTCATCCACTCAGGATTAAGGTATGCCAAA
* * * *
30299451 CTTTGAATGTCACAAGTGTATAAATCCATAAACGGATTTAGGATATCTTCTTCTTAGGTCCAGTC
257 CTTTGAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTC
* * ** *
30299516 TAATTTACTATCAGTCTAGCCACTCACATTCAT
322 TAATGTACTATCAGTCCAATCAGTCACATTCAT
* * *
30299549 TCATCACAAAGACGAACGACCTGTGGCAATGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
1 TCATCACAAAGACGAACGACCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
* * * * * * *
30299614 GGATATCGTTTACTCATGTCTCGAGCAATGAATTCCACTATTGTGAATGGCATTACATATTGCAG
66 GGATATCATTTACCCATGTCTCGGGTAATAAATT-CACTATTGTGAATGACATTACATATTACAG
* * * * *
30299679 AAGTCGTATACCCAATGCACTAGCCTTCAATTCCTTATCTATTTGAACTGAGGCTTTTATTTACA
130 AAGTCGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGATTTTACTTACA
** * * * * *
30299744 TCAATATATATGAGTCATGCATACGTAG-CTTGTGATCCACTCAGGATTAAGGTATGCCATACTT
195 TCAATATATACAAGTCACGCATACATAGTCTAGTCATCCACTCAGGATTAAGGTATGCCAAACTT
* * * *
30299808 TAAATGTCACAAGTGAATAAATCTAAAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTTTAA
260 TGAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAA
* * * * *
30299873 TGAACCATCAGTCTAGTTAGTCACATTCAT
325 TGTACTATCAGTCCAATCAGTCACATTCAT
* * *
30299903 TCATCATAAAAATGAACGACCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
1 TCATCACAAAGACGAACGACCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
*
30299968 GCATATCATTTACCCATGTCTCGGGTAATAAATTTCACTATTGTGAATGAC-TCTACATATTACA
66 GGATATCATTTACCCATGTCTCGGGTAATAAA-TTCACTATTGTGAATGACAT-TACATATTACA
* *
30300032 GAAGTTGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGTATTTTACTTAC
129 GAAGTCGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGATTTTACTTAC
* * * * * * *
30300097 TTCAGTGTATACAAGTCACACATACATAGTC-AGTCATCTACTTAGGATTAAGGTATGCCAAAAT
194 ATCAATATATACAAGTCACGCATACATAGTCTAGTCATCCACTCAGGATTAAGGTATGCCAAACT
* * * * * *
30300161 TTGAATGTCACAAGTGAATAAACCCATAAATGGATTCAAGATCTCTTTTTCTTGGGTCCAATCTG
259 TTGAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTA
*
30300226 ATCTACTATCAGTCCAATCAGTCACAT
324 ATGTACTATCAGTCCAATCAGTCACAT
30300253 CTAAGTCTCT
Statistics
Matches: 884, Mismatches: 158, Indels: 32
0.82 0.15 0.03
Matches are distributed among these distances:
353 11 0.01
354 865 0.98
355 8 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (354 bp):
TCATCACAAAGACGAACGACCCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
GGATATCATTTACCCATGTCTCGGGTAATAAATTCACTATTGTGAATGACATTACATATTACAGA
AGTCGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGATTTTACTTACAT
CAATATATACAAGTCACGCATACATAGTCTAGTCATCCACTCAGGATTAAGGTATGCCAAACTTT
GAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAAT
GTACTATCAGTCCAATCAGTCACATTCAT
Found at i:30301482 original size:15 final size:15
Alignment explanation
Indices: 30301462--30301490 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30301452 TGTGGCAAAG
30301462 TTTGATATGTCATAA
1 TTTGATATGTCATAA
30301477 TTTGATATGTCATA
1 TTTGATATGTCATA
30301491 GTTTTTCGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTGATATGTCATAA
Found at i:30301834 original size:21 final size:19
Alignment explanation
Indices: 30301788--30301835 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
30301778 ACACGCATTG
30301788 CCTGTGTTACAACACACAC
1 CCTGTGTTACAACACACAC
*
30301807 CTTGTGTTGAC-ACACAGCAGC
1 CCTGTGTT-ACAACACA-CA-C
30301828 CCTGTGTT
1 CCTGTGTT
30301836 CATCCATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 12 0.50
20 4 0.17
21 8 0.33
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (19 bp):
CCTGTGTTACAACACACAC
Found at i:30314099 original size:15 final size:15
Alignment explanation
Indices: 30314079--30314107 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30314069 TGTGGGAGAG
30314079 TTTGATATGTCATAA
1 TTTGATATGTCATAA
30314094 TTTGATATGTCATA
1 TTTGATATGTCATA
30314108 GTTTTTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTGATATGTCATAA
Found at i:30319295 original size:9 final size:9
Alignment explanation
Indices: 30319278--30319314 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30319268 TGAGTTTTCG
30319278 AATTCGAAT
1 AATTCGAAT
*
30319287 AACTCGAAT
1 AATTCGAAT
*
30319296 AATTTGAAT
1 AATTCGAAT
30319305 AATTCGAAT
1 AATTCGAAT
30319314 A
1 A
30319315 TCAAACTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30336717 original size:109 final size:109
Alignment explanation
Indices: 30336583--30336977 Score: 605
Period size: 110 Copynumber: 3.6 Consensus size: 109
30336573 GTCAATCGAG
* * * * * * *
30336583 AAATCGAAACCCAACACATTAGGGCACG-TTTATC-AGATTTCTAAACGTAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA-ATTTCCAAACGCAAAACATTGCCTTAT
* * *
30336646 TTTGAAATTTTTTTAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTT-AAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
30336692 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTAT
*
30336757 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
30336802 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
*
30336867 TTTAAATTTTTTAAAAGGATATTAAGTCATTTGGTTGAACGAGAA
65 TTTAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * *
30336912 AAATCGACACCCAGCACCTTAGGGCATATTTTCTCGAATTTCCAAACGCAAAATATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
30336977 T
66 T
30336978 AGGAAAAAAG
Statistics
Matches: 266, Mismatches: 16, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
109 50 0.19
110 188 0.71
111 28 0.11
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:30337576 original size:20 final size:20
Alignment explanation
Indices: 30337512--30337577 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
30337502 TGTATGCATA
* *
30337512 TATGTAAAAATTTAAGATGTA
1 TATGTAAAAATATAA-ATGTG
* * * *
30337533 TATAT-AAATTATATATGAG
1 TATGTAAAAATATAAATGTG
*
30337552 AATGTAAAAATATAAATGTG
1 TATGTAAAAATATAAATGTG
30337572 TATGTA
1 TATGTA
30337578 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
19 6 0.19
20 22 0.69
21 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (20 bp):
TATGTAAAAATATAAATGTG
Found at i:30338666 original size:14 final size:14
Alignment explanation
Indices: 30338647--30338690 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
30338637 AAATAGTTAG
30338647 AAGAGAAAAAAATA
1 AAGAGAAAAAAATA
30338661 AAGAGAAAAAAA-A
1 AAGAGAAAAAAATA
*
30338674 AAGAAAAAGAAAATA
1 AAGAGAAA-AAAATA
30338689 AA
1 AA
30338691 TATACCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 16 0.59
15 3 0.11
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (14 bp):
AAGAGAAAAAAATA
Found at i:30338674 original size:17 final size:17
Alignment explanation
Indices: 30338652--30338686 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30338642 GTTAGAAGAG
* *
30338652 AAAAAAATAAAGAGAAA
1 AAAAAAAGAAAAAGAAA
30338669 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
30338686 A
1 A
30338687 TAAATATACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:30343720 original size:43 final size:42
Alignment explanation
Indices: 30343672--30343798 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 42
30343662 AGGGTAAATC
30343672 CAACAACCCAAGATTACCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTA-CTTCTCCTCTTTTTAAATTCTTTTTT
30343715 CAACAACCCAAGATTATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAG---ATTA-CTTCTCCTCTTTTTAAATTCTTTTTT
*
30343761 CAACAACCCAAGATTA----TCCTCTTTTTAAATTTTTTTTT
1 CAACAACCCAAGATTACTTCTCCTCTTTTTAAATTCTTTTTT
30343799 TCTAAGATAA
Statistics
Matches: 79, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
38 21 0.27
43 16 0.20
46 42 0.53
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.46
Consensus pattern (42 bp):
CAACAACCCAAGATTACTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:30343750 original size:46 final size:46
Alignment explanation
Indices: 30343672--30343777 Score: 182
Period size: 46 Copynumber: 2.4 Consensus size: 46
30343662 AGGGTAAATC
30343672 CAACAACCCAAG---ATTACCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATTACCTTCTCCTCTTTTTAAATTCTTTTTT
*
30343715 CAACAACCCAAGATTATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATTACCTTCTCCTCTTTTTAAATTCTTTTTT
30343761 CAACAACCCAAGATTAT
1 CAACAACCCAAGATTAT
30343778 CCTCTTTTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
43 12 0.20
46 47 0.80
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (46 bp):
CAACAACCCAAGATTATTACCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:30355205 original size:15 final size:15
Alignment explanation
Indices: 30355185--30355218 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
30355175 AATGTTACAA
30355185 TTTTCACTTTGATAC
1 TTTTCACTTTGATAC
30355200 TTTTCACTTTGATAC
1 TTTTCACTTTGATAC
30355215 TTTT
1 TTTT
30355219 ATCATGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (15 bp):
TTTTCACTTTGATAC
Found at i:30356047 original size:20 final size:20
Alignment explanation
Indices: 30356022--30356064 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30356012 GGGGAGGAGT
* *
30356022 TAACATGTACCCATGATACA
1 TAACATCTACCAATGATACA
*
30356042 TAACATCTATCAATGATACA
1 TAACATCTACCAATGATACA
30356062 TAA
1 TAA
30356065 GTATTAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (20 bp):
TAACATCTACCAATGATACA
Found at i:30364119 original size:15 final size:15
Alignment explanation
Indices: 30364095--30364125 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30364085 GTAAGATGAA
30364095 ATTTTAAATTTTGTT
1 ATTTTAAATTTTGTT
*
30364110 ATTTTTAATTTTGTT
1 ATTTTAAATTTTGTT
30364125 A
1 A
30364126 AATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
ATTTTAAATTTTGTT
Found at i:30364131 original size:15 final size:15
Alignment explanation
Indices: 30364101--30364134 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30364091 TGAAATTTTA
**
30364101 AATTTTGTTATTTTT
1 AATTTTGTTAAATTT
30364116 AATTTTGTTAAATTT
1 AATTTTGTTAAATTT
30364131 AATT
1 AATT
30364135 AATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
AATTTTGTTAAATTT
Found at i:30366065 original size:16 final size:17
Alignment explanation
Indices: 30366034--30366067 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
30366024 CCCCGATGAG
30366034 ACGATTGATGTATTTTTT
1 ACGATTGA-GTATTTTTT
30366052 ACGATTGA-TATTTTTT
1 ACGATTGAGTATTTTTT
30366068 TTCTAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (17 bp):
ACGATTGAGTATTTTTT
Found at i:30366069 original size:18 final size:18
Alignment explanation
Indices: 30366034--30366068 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30366024 CCCCGATGAG
*
30366034 ACGATTGATGTATTTTTT
1 ACGATTGATATATTTTTT
30366052 ACGATTGATAT-TTTTTT
1 ACGATTGATATATTTTTT
30366069 TCTAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (18 bp):
ACGATTGATATATTTTTT
Found at i:30372204 original size:44 final size:44
Alignment explanation
Indices: 30372115--30372205 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
30372105 CGCTATATTG
*
30372115 GAATAGAGGCGTAATAGCAAATTAATTGTTTGGTTGAATGTAATA
1 GAATAGAGGCGTAATAG-AAATTAATTGTTTGGTTGAATGGAATA
* **
30372160 GAATAGAGGCGTAATAG-TATTCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCGTAATAGAAATTAAT-TGTTTGGTTGAATGGAATA
30372204 GA
1 GA
30372206 GGTGTAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 4 0.10
44 20 0.49
45 17 0.41
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (44 bp):
GAATAGAGGCGTAATAGAAATTAATTGTTTGGTTGAATGGAATA
Found at i:30372391 original size:14 final size:15
Alignment explanation
Indices: 30372352--30372393 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30372342 TTTTAACATA
*
30372352 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30372367 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30372381 A-TATAATTTAATA
1 ATTATAATTAAATA
30372394 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30372502 original size:16 final size:16
Alignment explanation
Indices: 30372458--30372504 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
30372448 TACAATAAAA
*
30372458 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
30372474 TATTATT-AAATATAT
1 TATAATTAAAATATAT
30372489 TATAATTAAAATATAT
1 TATAATTAAAATATAT
30372505 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:30372624 original size:18 final size:17
Alignment explanation
Indices: 30372603--30372637 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30372593 TTATTATTAA
*
30372603 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30372621 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30372638 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30372702 original size:22 final size:24
Alignment explanation
Indices: 30372657--30372703 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
30372647 TCAATATTCT
30372657 TATATGAACTTACTAAAATCATAA
1 TATATGAACTTACTAAAATCATAA
30372681 TATATGATAC-TA-TAAAAT-ATAA
1 TATATGA-ACTTACTAAAATCATAA
30372703 T
1 T
30372704 TTGAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 9 0.41
25 2 0.09
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
TATATGAACTTACTAAAATCATAA
Found at i:30372767 original size:120 final size:120
Alignment explanation
Indices: 30372343--30372758 Score: 717
Period size: 120 Copynumber: 3.5 Consensus size: 120
30372333 TTAATCATAT
30372343 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
30372408 CAATATTCTTATATGAGTTTACTCAAATCATAATATATGATACAATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
30372463 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
30372528 TAATATTCTTAAATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
30372583 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
30372648 CAATATTCTTATATGAACTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* * *
30372703 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
30372759 TAAAATAATT
Statistics
Matches: 282, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 280 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:30372809 original size:47 final size:45
Alignment explanation
Indices: 30372740--30373162 Score: 258
Period size: 47 Copynumber: 9.3 Consensus size: 45
30372730 TTAATTAAAA
*
30372740 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATT-TAA-TAATAAATTTTCT
* * **
30372787 TATATGAATTTGTATAATTTAAAATAATTATTATAA-AATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATT-TAATAATAA-ATTTTCT
* * *
30372832 TA-AT-AATAATATATAATTTCATAAA-ATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
30372878 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* * *
30372923 TA-AT-AATGATATATAATTTCATAAA-ATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
30372969 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* *
30373014 TA-AT-AATGATATATAATTTCATAAA-AATCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
30373060 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* * *
30373105 TA-AT-AATGATATATAATTTCATAAA-ATTCTTAATAATAAATGTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
30373151 TATATGAATTTA
1 TATATGAATTTA
30373163 CTAAAATCAT
Statistics
Matches: 293, Mismatches: 40, Indels: 86
0.70 0.10 0.21
Matches are distributed among these distances:
43 12 0.04
44 77 0.26
45 47 0.16
46 45 0.15
47 96 0.33
48 16 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (45 bp):
TATATGAATTTATATAATTTAAAATAATTTAATAATAAATTTTCT
Found at i:30372845 original size:18 final size:18
Alignment explanation
Indices: 30372819--30372855 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30372809 AATAATTATT
30372819 ATAAAATATAATTTAATA
1 ATAAAATATAATTTAATA
* *
30372837 ATAATATATAATTTCATA
1 ATAAAATATAATTTAATA
30372855 A
1 A
30372856 AATTCTTGAT
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:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAATATAATTTAATA
Found at i:30372869 original size:91 final size:91
Alignment explanation
Indices: 30372774--30373162 Score: 715
Period size: 91 Copynumber: 4.3 Consensus size: 91
30372764 TAATTATAAC
* * *
30372774 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATAAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30372839 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
30372865 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
30372930 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
30372956 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30373021 GATATATAATTTCATAAAAATCTTGA
66 GATATATAATTTCATAAAATTCTTGA
30373047 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30373112 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
30373138 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
30373163 CTAAAATCAT
Statistics
Matches: 290, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 290 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:30381350 original size:21 final size:20
Alignment explanation
Indices: 30381326--30381366 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30381316 AAAAATATTA
30381326 TGAAAAAATATTGGTTCAAAC
1 TGAAAAAATATT-GTTCAAAC
**
30381347 TGAATCAATATTGTTCAAAC
1 TGAAAAAATATTGTTCAAAC
30381367 ATTACACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
TGAAAAAATATTGTTCAAAC
Found at i:30382012 original size:187 final size:187
Alignment explanation
Indices: 30381697--30382071 Score: 651
Period size: 187 Copynumber: 2.0 Consensus size: 187
30381687 GCAAAAATCC
* * * *
30381697 AAAATTTATGGGCCAAGTTCTTTGATAAATTCCATCCAGAATTAGACCAAAAACACATATACAAA
1 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
* * *
30381762 ATAATCTATTTCTTTTCAAATTTGTGTATTTCTTGGATTTTTTCCTAGAATTATGCTTATGAACA
66 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
30381827 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
131 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
*
30381884 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCTAGAATCAGACCAAAAACACATACACAAA
1 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
30381949 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
66 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
* * *
30382014 AGATTCATACATGAGAATCTTATTGTTAGTTCAAAATTTTAGAAGGAAATGGTGGGA
131 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
30382071 A
1 A
30382072 TCCTATTGTA
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
187 177 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (187 bp):
AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
Found at i:30382882 original size:22 final size:22
Alignment explanation
Indices: 30382854--30382930 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
30382844 CCAAAAAATT
30382854 ATCTCCTAAATTTTAGCATCTA
1 ATCTCCTAAATTTTAGCATCTA
** * * *
30382876 ATCTCCT-AATTAAACCAAAACATT
1 ATCTCCTAAATTTTAGC--ATC-TA
*
30382900 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAATTTTAGCATCTA
30382922 ATCTCCTAA
1 ATCTCCTAA
30382931 TTAAAAGAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 6 0.15
22 17 0.43
23 4 0.10
24 8 0.20
25 5 0.12
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAATTTTAGCATCTA
Found at i:30382891 original size:46 final size:46
Alignment explanation
Indices: 30382841--30382935 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
30382831 ACAAAGATAG
*
30382841 AAACCAAAAAATTATCTCCTAAATTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
30382887 AAACCAAAACATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
30382933 AAA
1 AAA
30382936 AGAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (46 bp):
AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:30386880 original size:46 final size:46
Alignment explanation
Indices: 30386829--30386923 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
30386819 ACAAAGATAG
*
30386829 AAACCAAAAAATTATCTCCTAAATTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
* *
30386875 AAACCAAAACATTTTCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
30386921 AAA
1 AAA
30386924 AGAAAAGAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:30391983 original size:23 final size:21
Alignment explanation
Indices: 30391957--30391998 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
30391947 AATGCAATAT
30391957 TAAAAATGCTAACTAAAATGTCA
1 TAAAAATGC-AAC-AAAATGTCA
30391980 TAAAAATGCAACAAAATGT
1 TAAAAATGCAACAAAATGT
30391999 TACGTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAAATGCAACAAAATGTCA
Found at i:30394972 original size:32 final size:32
Alignment explanation
Indices: 30394935--30394997 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
30394925 TATAATAAAG
*
30394935 TAGTTAGACTAATGTCGTTATAAAAGTTGAGA
1 TAGTTAAACTAATGTCGTTATAAAAGTTGAGA
30394967 TAGTTAAACTAATGTCGTTATAAAAGTTGAG
1 TAGTTAAACTAATGTCGTTATAAAAGTTGAG
30394998 GTACCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (32 bp):
TAGTTAAACTAATGTCGTTATAAAAGTTGAGA
Found at i:30395913 original size:123 final size:122
Alignment explanation
Indices: 30395593--30395966 Score: 550
Period size: 122 Copynumber: 3.0 Consensus size: 122
30395583 TTAGGGTTTT
* * * * *
30395593 TAGGTCTTGGAAAAAATAATTTTGAGTTGATGTTTCTAATCAAATATTATAAAATCGCTTCTAGC
1 TAGGTCAT-GAAAAAATAATTTT--TTTGAAGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
* * *
30395658 AGGATGCTATTTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAG
63 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
30395718 TAGGTCATGGAAAAATAATTTTTTTGAAGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
1 TAGGTCATGAAAAAATAATTTTTTTGAAGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
* * *
30395783 ATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCGTAGAGGCGCTTTTGCTACAG
66 ATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
30395840 TCGGTCATGAAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAG
1 TAGGTCATGAAA-AAATAATTTTTTTGAAGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAG
*
30395905 GATGCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
65 GATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
30395964 TAG
1 TAG
30395967 CATGTTTGGG
Statistics
Matches: 225, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
122 100 0.44
123 72 0.32
124 46 0.20
125 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (122 bp):
TAGGTCATGAAAAAATAATTTTTTTGAAGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:30399181 original size:116 final size:116
Alignment explanation
Indices: 30398977--30399220 Score: 400
Period size: 116 Copynumber: 2.1 Consensus size: 116
30398967 TAAGTTTGTG
*
30398977 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
* * ** * *
30399042 TTTTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATGTA
66 TTGTCAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
*
30399093 AAATTAGTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
30399157 TTGTCAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTCAGTACCA-GAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
30399209 AAATTATTAATT
1 AAATTATTAATT
30399221 TAGTTTAGGG
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
115 39 0.33
116 79 0.67
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTCAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:30399246 original size:23 final size:23
Alignment explanation
Indices: 30399214--30399539 Score: 255
Period size: 23 Copynumber: 14.2 Consensus size: 23
30399204 AAGTAAAATT
* *
30399214 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
30399237 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
30399260 ATTTAATTAGATTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*** *
30399283 AGTT-AAGGGGGTCAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* **
30399306 AGT---TTAGGGTTTAAAGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
30399328 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
30399351 ATTTAATTAGGTTAGTGTTTTTAA
1 ATTAAATTAGGTTAGGGTTTTT-A
30399375 ATT-AATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
30399397 ATTTAATTAAGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
** *
30399420 AGTTTAGGGTTTTTAAGTTTAGGG-TTTTA
1 A--TTA----AATT-AGGTTAGGGTTTTTA
30399449 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
30399472 AGT---TTAGGGTTTAGAGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
30399494 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
30399517 ATT--ATTA-GTTA-GGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
30399536 ATTA
1 ATTA
30399540 GGGTTTTTAA
Statistics
Matches: 247, Mismatches: 34, Indels: 47
0.75 0.10 0.14
Matches are distributed among these distances:
19 11 0.04
20 7 0.03
21 8 0.03
22 37 0.15
23 148 0.60
24 10 0.04
25 8 0.03
27 3 0.01
29 8 0.03
30 7 0.03
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.50
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:30399278 original size:46 final size:45
Alignment explanation
Indices: 30399215--30399731 Score: 269
Period size: 45 Copynumber: 11.5 Consensus size: 45
30399205 AGTAAAATTA
*
30399215 TTAATTTAGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
1 TTAA-TTAGATTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAT
*** *
30399262 TTAATTAGATTAGGGTTTTTAAGTTAAGGGGGTCAGGGTTTTTAAGT
1 TTAATTAGATTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-T
** * **
30399309 TT-A-GGGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGATTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAT
* *
30399353 TTAATTAGGTTAGTGTTTTTAAATTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGATTAGGGTTTTT-AATTAATTAGGTTAGGGTTTTTAAT
* * * * *
30399399 TTAATTA-AGTTAGGGTTTTTAAGT--TTAGGGTTTTTAAGTTTAGGGTTTTAA
1 TTAATTAGA-TTAGGGTTTTTAATTAATTA-GG---TTAGGGTT----TTTAAT
* * *
30399450 TTAAATTAGGTTAGGGTTTTTAAGT--TTAGGGTTTAGAGTTTTTAAT
1 TTA-ATTAGATTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAAT
* *
30399496 TAAATTAGGTTAGGGTTTTTAATT-ATTA-GTTA-GG-------T
1 TTAATTAGATTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAAT
30399531 TT--TTA-ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 TTAATTAGATTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAA-T
** * *
30399575 TT-A-GGGTTTAAGG-TTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 TTAATTAGATTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAA-T
* * * * *
30399619 TT-A-GAGTTTAGGGTTTTTAAGTTAATCAGGTTAGTGTTTTTAAG
1 TTAATTAGATTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAT
*** ** *
30399663 TTAAGGGGGCTAGGGTTTTTAAGT--TTAGGGTTTAGGGTTTTTAAT
1 TTAATTAGATTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAAT
* *
30399708 TAAATTAGGTTAGGGTTTTTAATT
1 TTAATTAGATTAGGGTTTTTAATT
30399732 TAAGGGTATT
Statistics
Matches: 373, Mismatches: 60, Indels: 76
0.73 0.12 0.15
Matches are distributed among these distances:
32 15 0.04
33 3 0.01
34 4 0.01
35 6 0.02
36 2 0.01
42 1 0.00
43 8 0.02
44 55 0.15
45 115 0.31
46 109 0.29
47 17 0.05
50 6 0.02
51 7 0.02
52 25 0.07
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (45 bp):
TTAATTAGATTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAAT
Found at i:30399483 original size:15 final size:15
Alignment explanation
Indices: 30399403--30399447 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
30399393 TTTAATTTAA
30399403 TTAAG-TTAGGGTTT
1 TTAAGTTTAGGGTTT
30399417 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
30399432 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
30399447 T
1 T
30399448 AATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TTAAGTTTAGGGTTT
Done.