Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 118 of 190
Found at i:18512368 original size:41 final size:39
Alignment explanation
Indices: 18512297--18512378 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 39
18512287 ACTATTAATA
* * *
18512297 TAATATATTAATAAATAATATTATATTAATAAATAATATT
1 TAATATATTAATAAATAATATAAAAATAATAAATAAT-TT
18512337 TAATATATTAATAAAATAATATAAAAATAATAAATAATTT
1 TAATATATTAAT-AAATAATATAAAAATAATAAATAATTT
18512377 TA
1 TA
18512379 TTTTAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 16 0.42
41 22 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (39 bp):
TAATATATTAATAAATAATATAAAAATAATAAATAATTT
Found at i:18512453 original size:17 final size:16
Alignment explanation
Indices: 18512405--18512461 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
18512395 ATTAACATAA
*
18512405 TATTTT-AATATTAAA
1 TATTTTAAATATTAAT
18512420 TATTATTAAA-ATATAAT
1 TATT-TTAAATAT-TAAT
18512437 TATTTGTAAATATTAAT
1 TATTT-TAAATATTAAT
*
18512454 AATTTTAA
1 TATTTTAA
18512462 TAATAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.11
16 8 0.23
17 21 0.60
18 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTTAAATATTAAT
Found at i:18512472 original size:16 final size:16
Alignment explanation
Indices: 18512362--18512477 Score: 62
Period size: 16 Copynumber: 7.1 Consensus size: 16
18512352 ATAATATAAA
18512362 AATAATAAATAATTTT
1 AATAATAAATAATTTT
** *
18512378 -ATTTTAATTATATTTAT
1 AATAATAAATA-ATTT-T
* *
18512395 ATTAACATAAT-ATTTT
1 AATAATA-AATAATTTT
*
18512411 AATATTAAAT-ATTATT
1 AATAATAAATAATT-TT
*
18512427 AA-AATATAATTATTTGT
1 AATAATA-AATAATTT-T
*
18512444 AA-ATATTAATAATTTT
1 AATA-ATAAATAATTTT
18512460 AATAATAAATAATTTT
1 AATAATAAATAATTTT
18512476 AA
1 AA
18512478 CATGCTTTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
15 16 0.21
16 33 0.44
17 20 0.27
18 4 0.05
19 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
AATAATAAATAATTTT
Found at i:18514025 original size:36 final size:37
Alignment explanation
Indices: 18513950--18514025 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 37
18513940 TAAATACCTA
***
18513950 AAAATATTATAAATAAAAATAATTCTAAAGAATTTTT
1 AAAATATTATAAATAAAAATAATTCTAAAGAAAAATT
**
18513987 AAAATATTA-AAATAAAAATTCTT-TCAAAGAAAAATT
1 AAAATATTATAAATAAAAATAATTCT-AAAGAAAAATT
18514023 AAA
1 AAA
18514026 TTAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
35 1 0.03
36 23 0.70
37 9 0.27
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (37 bp):
AAAATATTATAAATAAAAATAATTCTAAAGAAAAATT
Found at i:18515869 original size:132 final size:131
Alignment explanation
Indices: 18515681--18515941 Score: 378
Period size: 132 Copynumber: 2.0 Consensus size: 131
18515671 ATATATAAGA
* * * ** * *
18515681 AAAATAGCTAAAATTGAAAAAAAAAAAGTAACGTAAAGAGTGAGAAAAAATGTAAAATAAGTATG
1 AAAATAGATAAAATTGAAAAAAAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATATC
* * * * *
18515746 ATTAGGTCTAAAAATGGATAACAAGTGTCCTAACACACTACGAAAAAATTGTTATAATTCTAAAG
66 ATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAAG
18515811 G
131 G
* *
18515812 AAAATAGATAAAATTGAAAAACAAATAAGTAATGTAAAAAGCGAGAAAAAACATAAAATAAATAT
1 AAAATAGATAAAATTGAAAAA-AAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATAT
*
18515877 CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAGCTATTATAATTCTAAA
65 CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAA
18515942 TGTAATTAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
131 20 0.18
132 94 0.82
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (131 bp):
AAAATAGATAAAATTGAAAAAAAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATATC
ATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAAG
G
Found at i:18516244 original size:230 final size:234
Alignment explanation
Indices: 18515908--18516489 Score: 582
Period size: 234 Copynumber: 2.5 Consensus size: 234
18515898 AAAAGTATCC
* * * * * * *
18515908 TAACACACTAAGAAAA-AGCTATTATAATTCTAAATGTAATTAAAGGTAATAACAATCATTAAAT
1 TAACACACTAAGAAAATA-TTATGACAATTCTAAATGTAATGAAAAGTAAAAACAATCATAAAAT
* ** *
18515972 AAATTATTGTAATGTAAATAATTAAGTT-ACCAAT-ATAAAATTTTAATTAATTATA-T-T-TAA
65 ATATTATTGTAAAATAAATAATTATGTTGA-CAATGATAAAATTTTAATTAATTATATTATGTAA
* * * *
18516032 ACATATATGAAAATAGCTA-AAATTTACAAAA-TAAGTTGGTAACATAAACAAGTAAAAAGAAAT
129 ACATATAAGAAAATAGCTAGAAA-TTA-AAAAGTAAATTGGTAACATAAACAAATAAAAACAAAT
* * * * *
18516095 GTAAAATTAGTAACATTT-AGCGTAAAATGAGTATAAATTGTTG
192 ATAAAATTAGTAACATTTGA-CATAAAATGAGTAAAAAGTGTTA
* * * *
18516138 TAATACACTAA-AAAGA-ATTATGACAATTTTAAATGTAATGGAAAGTAAGAACAATCATAATAA
1 TAACACACTAAGAAA-ATATTATGACAATTCTAAATGTAATGAAAAGTAAAAACAATCATAA-AA
* * *
18516201 TATATTATTGTAACATAAATAATTATTTTGGCAATGA-AAAATTTTAATTAATTATTATTATGTA
64 TATATTATTGTAAAATAAATAATTATGTTGACAATGATAAAATTTTAATTAATTA-TATTATGTA
* * * * * *
18516265 AATATCTAAGAAAATAGTTAGAAATTAAAAAGTAAATTGGTAGCATAAACAAATGAGAACAAATA
128 AACATATAAGAAAATAGCTAGAAATTAAAAAGTAAATTGGTAACATAAACAAATAAAAACAAATA
* * *
18516330 TAACATTAGTATCATTTGACATAAAATGGGTAAAAAGTGTTA
193 TAAAATTAGTAACATTTGACATAAAATGAGTAAAAAGTGTTA
* * * * * *
18516372 TCACACATTAAGAAAATATTATGATAATTCTAAACAG-AATGAAAAGTAAAAACAACCTTAAGAA
1 TAACACACTAAGAAAATATTATGACAATTCTAAA-TGTAATGAAAAGTAAAAACAATCATAA-AA
*
18516436 GATATTATTGTAAAATAAATAATTATGTTGACAA-GATAAAA-TTTAATTAATTAT
64 TATATTATTGTAAAATAAATAATTATGTTGACAATGATAAAATTTTAATTAATTAT
18516490 TGTTCTACTA
Statistics
Matches: 288, Mismatches: 49, Indels: 27
0.79 0.13 0.07
Matches are distributed among these distances:
229 37 0.13
230 59 0.20
231 3 0.01
232 1 0.00
233 6 0.02
234 103 0.36
235 78 0.27
236 1 0.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (234 bp):
TAACACACTAAGAAAATATTATGACAATTCTAAATGTAATGAAAAGTAAAAACAATCATAAAATA
TATTATTGTAAAATAAATAATTATGTTGACAATGATAAAATTTTAATTAATTATATTATGTAAAC
ATATAAGAAAATAGCTAGAAATTAAAAAGTAAATTGGTAACATAAACAAATAAAAACAAATATAA
AATTAGTAACATTTGACATAAAATGAGTAAAAAGTGTTA
Found at i:18517089 original size:21 final size:22
Alignment explanation
Indices: 18517046--18517092 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
18517036 GGTAAAAATT
*
18517046 GATCGATCCCCTTCCTGTAAGG
1 GATCGATCCCCTTCATGTAAGG
*
18517068 GATCGATCCCC-TCATTTAAGG
1 GATCGATCCCCTTCATGTAAGG
18517089 GATC
1 GATC
18517093 AATCACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (22 bp):
GATCGATCCCCTTCATGTAAGG
Found at i:18525735 original size:21 final size:21
Alignment explanation
Indices: 18525706--18525764 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18525696 TTTTTTAGAA
18525706 AAGGGATCGATCCCCTCACAT
1 AAGGGATCGATCCCCTCACAT
* * **
18525727 -AGAGGATCGATCACCTAAGGT
1 AAG-GGATCGATCCCCTCACAT
18525748 AAGGGATCGATCCCCTC
1 AAGGGATCGATCCCCTC
18525765 TTAAAAGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (21 bp):
AAGGGATCGATCCCCTCACAT
Found at i:18531344 original size:240 final size:238
Alignment explanation
Indices: 18530271--18531599 Score: 830
Period size: 236 Copynumber: 5.6 Consensus size: 238
18530261 AAAATCATTA
* * * * *
18530271 TAATATAAATAATTATGTTGACAAT-GTAAAATTTT-TTCTAAATATTAATATT-TAAATATATA
1 TAATATAAATAATTAT-ATGATAATAG-AAAATTTTAAT-TAATTATT-ATTTTGTAAATATATA
** * * * *
18530333 A-AGAAAATAGGTAAAAATTGAAAAAA-AAATAGGTAATGT-AAAAAGTGAG-AAAAATGTAAAA
62 AGA-AAAATATATAGAAATT-AAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAA
* * ** * * * * *
18530394 TTAGTATAATTTGGCCTTAAATGGGTAAAAAGTATTGTAACACACTAAGAAAAAAGTTATGACAA
125 TTAATATCATTTGGAGTAAAATGGATAAAAAGTGTCGTAACACACTAAG-AAAAAGTTATGATAA
* * * * * * ** *
18530459 TTCTAAGCT-TAAT-TAAGGTAAGAACAATTATAAAAAGA-A--ATTATTG
189 TTTTAA-ATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
* * *
18530505 TAATGTAAATAATTA-A-GTAGTCAAAATAAAATTTTAATTAATTATT-TTTTGTAAATATATAT
1 TAATATAAATAATTATATG-A-T-AATAGAAAATTTTAATTAATTATTATTTTGTAAATATATA-
* * * * ** *
18530567 A-AAAAGATA-ACTAAAAATTAAAAAACATATTGGTAA-AGTAAACAAGCAAGAAAAAACATAAA
62 AGAAAA-ATATA-TAGAAATTAAAAAATAAATTGGTAATA-TAAAAAAGTGAGAAAAAATATAAA
* * * * ** * * * * *
18530629 ATTAGTATAATTTTGTA-TAAAATGGGTATGAATTGTCATAATACGCTAA-AAAGGAGTTATGAT
124 ATTAATATCA-TTTGGAGTAAAATGGATAAAAAGTGTCGTAACACACTAAGAAA-AAGTTATGAT
* * * * * *
18530692 AATTTTAAATGTAATAAAAATTAAGAATAACAATAATAATATATTA--A-TG
187 AATTTTAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
* * * *
18530741 TAATGTAAATAATTATATTAGCAAT-GTAAAATTTTAATTAATTATTATTTTGTAAATATCTAAG
1 TAATATAAATAATTATATGA-TAATAG-AAAATTTTAATTAATTATTATTTTGTAAATATATAAG
* * ** * *
18530805 AAAAATATATAGAAATTAAAAAATAAATTGATAATGTAAATGAGTGAGAACAAACATAAAATTAA
64 AAAAATATATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAATTAA
* * * * * * * *
18530870 TACCATTTGGTGTAAAATAGG-TAAAAAATATCATAACACATTAAAAAAAAGTTATGGTAATTTT
129 TATCATTTGGAGTAAAAT-GGATAAAAAGTGTCGTAACACACTAAGAAAAAGTTATGATAATTTT
* * * * ** *
18530934 AAA-CATAATGAATAGTCAAAACAACCAT-AGGA-AGA-TATTATTG
193 AAATGA-AATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
* * * *
18530977 TAA-AGTAAAT-ATTATGTTGATAATATAAAATTTTAATTAATTATTGTTCTTTTAAATATATAA
1 TAATA-TAAATAATTAT-ATGATAATAGAAAATTTTAATTAATTATTATT-TTGTAAATATATAA
* * * * * * * *
18531040 GAAAAATATCTAAAAATTGAAAAACAAATTGGTAACATAAACAAGTGAGAAATAATAAAAAATTA
63 GAAAAATATATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAATTA
* ** * * *
18531105 TTATCATTTGGAGTAAAATGGATAAAAAGTGTCGTAACGTACTAAGAAAAAGTTATAACAATTCT
128 ATATCATTTGGAGTAAAATGGATAAAAAGTGTCGTAACACACTAAGAAAAAGTTATGATAATTTT
18531170 AAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
193 AAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
* ** *
18531216 TAATATAAATAATTATAATGATAATAGAAAATTTTATTTAATTATTATTATTGTCTATAAATAAG
1 TAATATAAATAATTAT-ATGATAATAGAAAATTTTAATTAATTATTATT-TTGTAAATATATAAG
* * * *
18531281 AAAAATAGATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTAAAAAAAAATGTAAAATTAA
64 AAAAATATATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAATTAA
* * ** *
18531346 TATCATTT-GACGTAAAATAGATAAAAAGTGTTGTAACACACTAAGAAAGCGCTATGATAATTTT
129 TATCATTTGGA-GTAAAATGGATAAAAAGTGTCGTAACACACTAAGAAAAAGTTATGATAATTTT
* * *** *** * *
18531410 AAACGTAATGGGAAGTAAAAACAATTGT-AATA-AGA-TATTATTG
193 AAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
* * * * * * * *
18531453 TAATGTAAATATTTAAGAAGAGAATAAAAAAATTTTAATTAATTATTGTTTTTATAAATATATAA
1 TAATATAAATAATT-ATATGATAAT-AGAAAATTTTAATTAATTATT-ATTTTGTAAATATATAA
* * * * * *
18531518 GAAAAATAGCTA-ATAATTTAAAAAACAAATAGGTAATGTAAACAAGT----AAAAATATAAAAT
63 GAAAAATA--TATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAAT
** * *
18531578 TTGTATCATTTAGCGTAAAATG
126 TAATATCATTTGGAGTAAAATG
18531600 AGTAAGAAAG
Statistics
Matches: 853, Mismatches: 190, Indels: 103
0.74 0.17 0.09
Matches are distributed among these distances:
231 1 0.00
232 4 0.00
233 21 0.02
234 59 0.07
235 93 0.11
236 349 0.41
237 62 0.07
238 42 0.05
239 53 0.06
240 169 0.20
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (238 bp):
TAATATAAATAATTATATGATAATAGAAAATTTTAATTAATTATTATTTTGTAAATATATAAGAA
AAATATATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTGAGAAAAAATATAAAATTAATA
TCATTTGGAGTAAAATGGATAAAAAGTGTCGTAACACACTAAGAAAAAGTTATGATAATTTTAAA
TGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTG
Found at i:18531447 original size:476 final size:466
Alignment explanation
Indices: 18530204--18531576 Score: 1360
Period size: 472 Copynumber: 2.9 Consensus size: 466
18530194 GATATAATAC
* * * *
18530204 ACTAAAAAAGAGTTATGACAATTCTAAACGTAATAAAATGTAAGAATAATCGTAAAAA-A-A--A
1 ACTAAAAAA-AGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTA
* * * *
18530265 TCATTATAATATAAATAATTATGTTGACAATGTAAAATTTT-TTCTAAATATTAATATT-TAAAT
65 T-ATTGTAATATAAATAATTAT-ATGACAATGTAAAATTTTATT-TAATTATTATTATTGTAAAT
* * * * *
18530328 ATATAA-AGAAAATAGGTAAAAATTGAAAAAA-AAATAGGTAATGT-AAAAAGTGAGAAAAATGT
127 ATATAAGA-AAAATAGATAGAAATT-AAAAAATAAATTGGTAATGTAAAAAAGTAAAAAAAATGT
* * * * *
18530390 AAAATTAGTATAATTTGGCCTTAAATGGGTAAAAAGTATTGTAACACACTAAGAAAAAAGTTATG
190 AAAATTAATATCATTTGGCGTAAAATAGGTAAAAAGTATTGTAACACACTAAG-AAAAAGTTATG
* * * * * * * *
18530455 ACAATTCTAAGCTTAATTAAGGTAAGAACAATTATAAAAAGAAATTATTGTAATGTAAATAATTA
254 ATAATTTTAAACATAATGAAAGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAAT-ATTA
* *
18530520 AGTAG-TCAAAATAAAATTTTAATTAATTATT-TTTTGTAAATATATATA-AAAAGATAACTAAA
318 AGTAGAT-AATATAAAATTTTAATTAATTATTGTTTTTTAAATATATA-AGAAAA-ATAACTAAA
* * * * * *
18530582 AATTAAAAAACATATTGGTAAAGTAAACAAGCAAGAAAAAACATAAAATTAGTATAATTTTGTAT
380 AATTAAAAAACAAATTGGTAAA-TAAACAAG-TAGAAATAATAAAAAATTAGTATAATTTTGGAT
* ** *
18530647 AAAATGGGTATGAATTGTCATAAT
443 AAAATGGATAAAAAGTGTCATAAT
* * * * * *
18530671 ACGCTAAAAAGGAGTTATGATAATTTTAAATGTAATAAAAATTAAGAATAACAATAATAATATAT
1 A--CTAAAAA-AAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATAT
* * *
18530736 TA-A-TGTAATGTAAATAATTATATTAGCAATGTAAAATTTTAATTAATTATTATT-TTGTAAAT
63 TATATTGTAATATAAATAATTATATGA-CAATGTAAAATTTTATTTAATTATTATTATTGTAAAT
* * * ** * * **
18530798 ATCTAAGAAAAATATATAGAAATTAAAAAATAAATTGATAATGTAAATGAGTGAGAACAAACATA
127 ATATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGT-AAAAAAAATGTA
* * * ** * * *
18530863 AAATTAATACCATTTGGTGTAAAATAGGTAAAAAATATCATAACACATTAAAAAAAAGTTATGGT
191 AAATTAATATCATTTGGCGTAAAATAGGTAAAAAGTATTGTAACACACTAAGAAAAAGTTATGAT
* ** ** * *
18530928 AATTTTAAACATAATGAATAGTCAAAACAACCATAGGAAGATATTATTGTAAAGTAAATATTATG
256 AATTTTAAACATAATGAA-AGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATATTAAG
* *
18530993 TTGATAATATAAAATTTTAATTAATTATTGTTCTTTTAAATATATAAGAAAAATATCTAAAAATT
320 TAGATAATATAAAATTTTAATTAATTATTGTT-TTTTAAATATATAAGAAAAATAACTAAAAATT
* * *
18531058 GAAAAACAAATTGGTAACATAAACAAGTGAGAAATAATAAAAAATTATTATCA-TTTGGAGTAAA
384 AAAAAACAAATTGGTAA-ATAAACAAGT-AGAAATAATAAAAAATTAGTATAATTTTGGA-TAAA
*
18531122 ATGGATAAAAAGTGTCGTAACGT
446 ATGGATAAAAAGTGTCATAA--T
* * * *
18531145 ACTAAGAAAAAGTTATAACAATTCTAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTA
1 ACTAA-AAAAAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTA
* **
18531210 TTATTGTAATATAAATAATTATAATGATAATAG-AAAATTTTATTTAATTATTATTATTGTCTAT
65 -TATTGTAATATAAATAATTAT-ATGACAAT-GTAAAATTTTATTTAATTATTATTATTGTAAAT
* *
18531274 AAATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTAAAAAAAAATGTA
127 ATATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGT-AAAAAAAATGTA
* * * ** *
18531339 AAATTAATATCATTTGACGTAAAATAGATAAAAAGTGTTGTAACACACTAAGAAAGCGCTATGAT
191 AAATTAATATCATTTGGCGTAAAATAGGTAAAAAGTATTGTAACACACTAAGAAAAAGTTATGAT
* * * *
18531404 AATTTTAAACGTAATGGGAAGTAAAAACAATTGTAATAAGATATTATTGTAATGTAAATATTTAA
256 AATTTTAAACATAAT-GAAAGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATA-TTAA
* * * *
18531469 GAAGAGAATAAAAAAATTTTAATTAATTATTGTTTTTATAAATATATAAGAAAAATAGCTAATAA
319 GTAGATAAT-ATAAAATTTTAATTAATTATTGTTTTT-TAAATATATAAGAAAAATAACTAA-AA
* * * *
18531534 TTTAAAAAACAAATAGGTAATGTAAACAAGTAAAAAT-ATAAAA
381 ATTAAAAAACAAATTGGTAA-ATAAACAAGTAGAAATAATAAAA
18531577 TTTGTATCAT
Statistics
Matches: 730, Mismatches: 140, Indels: 62
0.78 0.15 0.07
Matches are distributed among these distances:
467 1 0.00
469 56 0.08
470 74 0.10
471 69 0.09
472 204 0.28
473 21 0.03
474 3 0.00
475 41 0.06
476 162 0.22
477 20 0.03
478 51 0.07
479 28 0.04
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (466 bp):
ACTAAAAAAAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTAT
ATTGTAATATAAATAATTATATGACAATGTAAAATTTTATTTAATTATTATTATTGTAAATATAT
AAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGTAAAAAAAATGTAAAATT
AATATCATTTGGCGTAAAATAGGTAAAAAGTATTGTAACACACTAAGAAAAAGTTATGATAATTT
TAAACATAATGAAAGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATATTAAGTAGATA
ATATAAAATTTTAATTAATTATTGTTTTTTAAATATATAAGAAAAATAACTAAAAATTAAAAAAC
AAATTGGTAAATAAACAAGTAGAAATAATAAAAAATTAGTATAATTTTGGATAAAATGGATAAAA
AGTGTCATAAT
Found at i:18531819 original size:214 final size:214
Alignment explanation
Indices: 18531424--18531819 Score: 518
Period size: 214 Copynumber: 1.9 Consensus size: 214
18531414 GTAATGGGAA
* * ** *
18531424 GTAAAAACAATTGTAATAAGATATTATTGTAATGTAAATATTTAAGAAGAGAATAAAAAAATTTT
1 GTAAAAACAATTGTAAGAAAATATTATTGTAACATAAATAATTAAGAAGAGAATAAAAAAATTTT
* *
18531489 AATTAATTATTGTTTTTATAAATATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAGGTAA
66 AATTAATTATTGTTTTTATAAATATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAAGCAA
** * * *
18531554 TGTAAACAAGTAAAAATATAAAATTTGTATCATTTAGCGTAAAATGAGTAAGAAAGAGTTATGCA
131 CATAAAAAAGGAAAAATATAAAATTTATATCATTTAGCGTAAAATGAGTAAGAAAGAGTTATGCA
18531619 ATTCTAAATGTAATAAAAG
196 ATTCTAAATGTAATAAAAG
* *
18531638 GTAAGAAA-AATTGTAAGAAAATATTATTGTAACATAAATAATTAAGTAA-ATAAT-ATAAAATT
1 GTAA-AAACAATTGTAAGAAAATATTATTGTAACATAAATAATTAAG-AAGAGAATAAAAAAATT
* *
18531700 TTAATTGATT-TTAGTTTTTATAAATATATAATAAAAATAGCTAA-AA-TTAAAAAACAAATAAG
64 TTAATTAATTATT-GTTTTTATAAATATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAAG
* *
18531762 CAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTT-GCTGTAAAATGAGTAAG
128 CAACAT-AAAAA-AG-GAAAAATATAAAATTTATATCATTTAGC-GTAAAATGAGTAAG
18531820 TGTCGTAATA
Statistics
Matches: 157, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
211 18 0.11
212 8 0.05
213 50 0.32
214 76 0.48
215 5 0.03
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (214 bp):
GTAAAAACAATTGTAAGAAAATATTATTGTAACATAAATAATTAAGAAGAGAATAAAAAAATTTT
AATTAATTATTGTTTTTATAAATATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAAGCAA
CATAAAAAAGGAAAAATATAAAATTTATATCATTTAGCGTAAAATGAGTAAGAAAGAGTTATGCA
ATTCTAAATGTAATAAAAG
Found at i:18532076 original size:683 final size:683
Alignment explanation
Indices: 18530968--18532284 Score: 1415
Period size: 683 Copynumber: 1.9 Consensus size: 683
18530958 CCATAGGAAG
* **
18530968 ATATTATTGTAAAGTAAATATTATGTTGATAATATAAAATTTTAATTAATTATTGTTCTTTTAAA
1 ATATTATTGTAAAGTAAATATTAAGTAAATAATATAAAATTTTAATTAATTATTGTTCTTTTAAA
* * ** * * *
18531033 TATATAAGAAAAATATCTAAAAATTGAAAAACAAATTGGTAACATAAACAAGTGAGAAATAATAA
66 TATATAAGAAAAATAGCTAAAAATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAATAATAA
* **
18531098 AAAATTATTATCATTTGGAGTAAAATGGATAAAAAGTGTCGTAACGTACTAAGAAAAAGTTATAA
131 AAAATTATTATCATTTGCAGTAAAATGGAT--AAAGTGTCGTAACACACTAAGAAAAAGTTATAA
*
18531163 CAATTCTAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTGTAATATAAATAA
194 CAATTCCAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTGTAATATAAATAA
* * * * ** *
18531228 TTATAATGATAATAGAAAATTTTATTTAATTATTATTATTGTCTATAAATAAGAAAAATAGATAG
259 TTATAATGATAATAGAAAACTTCAATTAATTATTATTACTGTAAATAAATAAGAAAAATAGATAC
* **
18531293 AAATTAAAAAATAAATTGGTAATATAAAAAAGTAAAAAAAAATGTAAAATTAATATCATTTGACG
324 AAATT-AAAAACAAATAAGTAATATAAAAAAGTAAAAAAAAATGTAAAATTAATATCATTTGACG
* ** * * * ***
18531358 TAAAATAGATAAAAAGTGTTGTAACACACTAAGAAAGCGCTATGATAATTTTAAACGTAATGGGA
388 TAAAATAGATAAAAAGTATTGTAACACACTAAGAAAAAGCTATAACAATTCTAAACGTAATAAAA
* * * ** *
18531423 AGTAAAAACAATTGTAATAAGATATTATTGTAATGTAAATATTTAAGAAGAGAATAA-A-AAAAT
453 AGTAAAAACAATTGCAATAACATATTATTATAACATAAATAATTAAGAA-AG--TAACATAAAAT
* * *
18531486 TTTAATTAATTATTGTTTTTATAAATATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAGG
515 TTTAATTAATTATTATTTTTATAAATATAT-A-AAAAAT---TAA-AAATTAAAAAACAAATAGA
** ** *
18531551 TAATGTAAACAAGTAA-A-AA-TATAAAATTTGTATCATTTAGCGTAAAATGAGTAAGAAAGAGT
574 TAACATAAACAAAAAATAGAAGTATAAAATTTGTATCATTTAACGTAAAATGAGTAAGAAAGAGT
18531613 TATGCAATTCTAAATGTAATAAAAGGTAAGAAAAATTGTAAGAAA
639 TATGCAATTCTAAATGTAATAAAAGGTAAGAAAAATTGTAAGAAA
*
18531658 ATATTATTGTAACA-TAAATAATTAAGTAAATAATATAAAATTTTAATTGATT-TTAGTT-TTTA
1 ATATTATTGTAA-AGTAAAT-ATTAAGTAAATAATATAAAATTTTAATTAATTATT-GTTCTTT-
*
18531720 TAAATATATAATAAAAATAGCT-AAAATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAA-A
62 TAAATATATAAGAAAAATAGCTAAAAATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAATA
** * * *
18531783 ATGTAAAATT-TATATTATTTGCTGTAAAAT-GAGT-AAGTGTCGTAATACACTATA-AAAAAGT
127 ATAAAAAATTAT-TATCATTTGCAGTAAAATGGA-TAAAGTGTCGTAACACACTA-AGAAAAAGT
* * * * *** *
18531844 TATAATAATTCCAAATGTAATCAAAAGTAAGAACAATTGTAAAAA-A-A-TATTATTGTAATTTA
189 TATAACAATTCCAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTGTAATATA
* * * *
18531906 AATAATTA-AGT-ATCCAAT-GTAAAACTTCAATTAATTATTGTTGCTGTAAATATATAA-ATAA
254 AATAATTATAATGAT--AATAG-AAAACTTCAATTAATTATTATTACTGTAAATAAATAAGA-AA
* * * * * **
18531967 AATAGCTACAAATT-AAAACAAATAAGTAA-ACTAAACAAGT-GAGAAAAATAGTAAATTTTGTA
315 AATAGATACAAATTAAAAACAAATAAGTAATA-TAAAAAAGTAAAAAAAAAT-GTAAAATTAATA
* ** * *
18532029 TTATTTGGTGTAATATA-AGTAAAAAGTATTGTAACATACATTAAGAAAAAGCTATAACAATTCT
378 TCATTTGACGTAAAATAGA-TAAAAAGTATTGTAAC--ACACTAAGAAAAAGCTATAACAATTCT
* * * *
18532093 AAACTTAATAAAAAGTAAGAATAATTGCAATAACATATTATTATAACATAAATAATTAAGTAAGT
440 AAACGTAATAAAAAGTAAAAACAATTGCAATAACATATTATTATAACATAAATAATTAAGAAAGT
* * * *
18532158 AACATAAATTTTTAATTAATTATTATTTTTGTAGATATATAAAAAATTAAAAATTAAAAAATAAA
505 AACATAAAATTTTAATTAATTATTATTTTTATAAATATATAAAAAATTAAAAATTAAAAAACAAA
*
18532223 TAGATAACATAGACAAAAAATAGGAAGTATAAAATTTGTATCATTTAACGTAAAATGAGTAA
570 TAGATAACATAAACAAAAAATA-GAAGTATAAAATTTGTATCATTTAACGTAAAATGAGTAA
18532285 AAAATGTCAT
Statistics
Matches: 518, Mismatches: 87, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
676 27 0.05
677 4 0.01
679 2 0.00
680 52 0.10
681 61 0.12
682 37 0.07
683 137 0.26
684 1 0.00
685 1 0.00
686 59 0.11
687 1 0.00
688 3 0.01
689 25 0.05
690 56 0.11
691 52 0.10
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (683 bp):
ATATTATTGTAAAGTAAATATTAAGTAAATAATATAAAATTTTAATTAATTATTGTTCTTTTAAA
TATATAAGAAAAATAGCTAAAAATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAATAATAA
AAAATTATTATCATTTGCAGTAAAATGGATAAAGTGTCGTAACACACTAAGAAAAAGTTATAACA
ATTCCAAATGAAATAAAAAGTAAAAACAACCATAAAAATATATTATTATTGTAATATAAATAATT
ATAATGATAATAGAAAACTTCAATTAATTATTATTACTGTAAATAAATAAGAAAAATAGATACAA
ATTAAAAACAAATAAGTAATATAAAAAAGTAAAAAAAAATGTAAAATTAATATCATTTGACGTAA
AATAGATAAAAAGTATTGTAACACACTAAGAAAAAGCTATAACAATTCTAAACGTAATAAAAAGT
AAAAACAATTGCAATAACATATTATTATAACATAAATAATTAAGAAAGTAACATAAAATTTTAAT
TAATTATTATTTTTATAAATATATAAAAAATTAAAAATTAAAAAACAAATAGATAACATAAACAA
AAAATAGAAGTATAAAATTTGTATCATTTAACGTAAAATGAGTAAGAAAGAGTTATGCAATTCTA
AATGTAATAAAAGGTAAGAAAAATTGTAAGAAA
Found at i:18532177 original size:237 final size:232
Alignment explanation
Indices: 18531617--18532200 Score: 651
Period size: 232 Copynumber: 2.5 Consensus size: 232
18531607 AAGAGTTATG
* *
18531617 CAATTCTAAATGTAATAAAAGGTAAGAAAAATTGTAAGAAAATATTATTGTAACATAAATAATTA
1 CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
* *
18531682 AGTAAATAATATAAAATTTTAATTGATT-TTAGTTTTTATAAATATAT-AATAAAAATAGCTAAA
66 AGTAAATAATATAAAATTTTAATTAATTATT-GTTTTTGTAAATATATAAATAAAAATAGCTAAA
*
18531745 ATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAA
130 ATT-AAAAACAAATAAGAAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAA
* * *
18531810 AATGAGTAAGTGTCGTAATACACTATAAAAAAGTTATAA
194 AATAAGTAAGTATCGTAATACACTATAAAAAAGCTATAA
* * * * **
18531849 TAATTCCAAATGTAATCAAAAGTAAGAACAATTGTAAAAAAATATTATTGTAATTTAAATAATTA
1 CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
*** * * * **
18531914 AGTATCCAATGTAAAACTTCAATTAATTATTGTTGCTGTAAATATATAAAT-AAAATAGCTACAA
66 AGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAATAAAAATAGCTA-AA
* * * * *
18531978 ATT-AAAACAAATAAGTAAAC-TAAACAAGTGAGAAAAATAGTAAATTTTGTATTATTTGGTGTA
130 ATTAAAAACAAATAAG-AAACATAAAAAAGAGAGAAAAAT-GTAAAATTTATATTATTTGCTGTA
* * *
18532041 ATATAAGTAAAAAGTATTGTAACATACATTA-AGAAAAAGCTATAA
193 AAATAAGT---AAGTATCGT-A-ATACACTATA-AAAAAGCTATAA
* * * * *
18532086 CAATTCTAAACT-TAATAAAAAGTAAGAATAATTGCAATAACATATTATTATAACATAAATAATT
1 CAATTCTAAA-TGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATT
* * * * *
18532150 AAGTAAGTAACATAAATTTTTAATTAATTATTATTTTTGTAGATATATAAA
65 AAGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAA
18532201 AAATTAAAAA
Statistics
Matches: 288, Mismatches: 52, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
231 28 0.10
232 131 0.45
233 10 0.03
235 7 0.02
236 2 0.01
237 109 0.38
238 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (232 bp):
CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
AGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAATAAAAATAGCTAAAA
TTAAAAACAAATAAGAAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAAAA
TAAGTAAGTATCGTAATACACTATAAAAAAGCTATAA
Found at i:18533052 original size:14 final size:14
Alignment explanation
Indices: 18533033--18533074 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18533023 ACTAAAAACA
18533033 AAAATCATACAAAT
1 AAAATCATACAAAT
18533047 AAAATCATA-AAAT
1 AAAATCATACAAAT
* *
18533060 -ATATAATACAAAT
1 AAAATCATACAAAT
18533073 AA
1 AA
18533075 CTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATCATACAAAT
Found at i:18533303 original size:15 final size:14
Alignment explanation
Indices: 18533246--18533335 Score: 62
Period size: 14 Copynumber: 6.5 Consensus size: 14
18533236 TAGGTAAGTC
*
18533246 TATTTTCTTTTTTTT
1 TATTTT-TTTTTTAT
18533261 TATTTTTTTTTGTAT
1 TATTTTTTTTT-TAT
***
18533276 T-TTACATTTTTA-
1 TATTTTTTTTTTAT
*
18533288 T-TTTTATTTTTAT
1 TATTTTTTTTTTAT
*
18533301 TATTGTTTTTTTAT
1 TATTTTTTTTTTAT
*
18533315 ATATTTTTTTCTT-T
1 -TATTTTTTTTTTAT
18533329 TATTTTT
1 TATTTTT
18533336 ATCTTAGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
12 10 0.16
13 10 0.16
14 22 0.36
15 19 0.31
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.80
Consensus pattern (14 bp):
TATTTTTTTTTTAT
Found at i:18533310 original size:25 final size:25
Alignment explanation
Indices: 18533256--18533324 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 25
18533246 TATTTTCTTT
18533256 TTTTTTATTTTTTTTTGTATTTTAC
1 TTTTTTATTTTTTTTTGTATTTTAC
* **
18533281 ATTTTTATTTTTATTTT-TATTATTGT
1 TTTTTTATTTTT-TTTTGTATT-TTAC
18533307 TTTTTTATATATTTTTTT
1 TTTTTTAT-T-TTTTTTT
18533325 CTTTTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.42
26 13 0.36
27 5 0.14
28 3 0.08
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (25 bp):
TTTTTTATTTTTTTTTGTATTTTAC
Found at i:18533340 original size:13 final size:12
Alignment explanation
Indices: 18533253--18533337 Score: 68
Period size: 12 Copynumber: 7.0 Consensus size: 12
18533243 GTCTATTTTC
18533253 TTTT-TTTTTAT
1 TTTTATTTTTAT
18533264 TTTT-TTTTGTAT
1 TTTTATTTT-TAT
*
18533276 TTTACATTTTTAT
1 TTT-TATTTTTAT
18533289 TTTTATTTTTAT
1 TTTTATTTTTAT
* *
18533301 TATTGTTTTT-T
1 TTTTATTTTTAT
* *
18533312 TATATATTTTTTT
1 T-TTTATTTTTAT
18533325 CTTTTATTTTTAT
1 -TTTTATTTTTAT
18533338 CTTAGGTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
11 10 0.17
12 28 0.47
13 16 0.27
14 5 0.08
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:18534277 original size:4 final size:4
Alignment explanation
Indices: 18534268--18534306 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
18534258 GCTCTAGGTT
* *
18534268 TTTA TTTA TTTA TTTA TTTA CTTA TTTA TTCA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18534307 TTATTATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:18534380 original size:32 final size:34
Alignment explanation
Indices: 18534336--18534418 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 34
18534326 ATTTAATATT
*
18534336 CTTTTATCTTTATTTTATTCTTA-TTTTTGTTTT-A
1 CTTTTAT-TTTATTTTATT-TTATTTTTTATTTTCA
18534370 CTTTT-TTTTA-TTT-TTTTATTTTTTATTTTCA
1 CTTTTATTTTATTTTATTTTATTTTTTATTTTCA
*
18534401 CTTTTATTTTGTTTTATT
1 CTTTTATTTTATTTTATT
18534419 ATTTTGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
29 3 0.07
30 11 0.26
31 9 0.21
32 8 0.19
33 4 0.10
34 7 0.17
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (34 bp):
CTTTTATTTTATTTTATTTTATTTTTTATTTTCA
Found at i:18534424 original size:13 final size:13
Alignment explanation
Indices: 18534404--18534428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18534394 ATTTTCACTT
18534404 TTATTTTGTTTTA
1 TTATTTTGTTTTA
18534417 TTATTTTGTTTT
1 TTATTTTGTTTT
18534429 CTTTAAATAA
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:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
TTATTTTGTTTTA
Found at i:18534428 original size:5 final size:5
Alignment explanation
Indices: 18534323--18534418 Score: 61
Period size: 5 Copynumber: 18.2 Consensus size: 5
18534313 TTAGATTAGG
* * * *
18534323 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTAT TCTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT T-TTA-T TTTAT TTTA-T
* *
18534372 TTT-T TTTAT TTT-T TTATTT TTTAT TTTCACT TTTAT TTTGT TTTAT
1 TTTAT TTTAT TTTAT TT-TAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
18534418 T
1 T
18534419 ATTTTGTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
4 7 0.10
5 39 0.55
6 19 0.27
7 6 0.08
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:18534613 original size:31 final size:31
Alignment explanation
Indices: 18534577--18534639 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
18534567 TGGGGAGAAA
18534577 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
1 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
*
18534608 TTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
18534639 T
1 T
18534640 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (31 bp):
TTGAAAGTATCAAATTTCCTTAAAAATAAAT
Found at i:18534677 original size:88 final size:90
Alignment explanation
Indices: 18534517--18534694 Score: 218
Period size: 88 Copynumber: 2.0 Consensus size: 90
18534507 TGAGAAAAAG
* * *** * *
18534517 TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCCAAAAAAATATTTTTGGGGAGAAATTGAA
1 TTGAAAGTATCAATTTTCCTCAAAAATAAAG-TTAAAAAAAAAAGATTTTTGAGGAGAAATTGAA
*
18534582 AGTATCAAATTTCCTTAAAAATAAAT
65 AGTATCAAATTTCCTCAAAAATAAAT
*
18534608 TTGAAAGTATCAATTTTCCTTAAAAATAAA-TTAAAAAAAAAAGA-TTTTGAGGA-AAAGTTGAA
1 TTGAAAGTATCAATTTTCCTCAAAAATAAAGTTAAAAAAAAAAGATTTTTGAGGAGAAA-TTGAA
* *
18534670 AGTATCAATTTTCCTCAAAATTAAA
65 AGTATCAAATTTCCTCAAAAATAAA
18534695 ATTTTCAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
87 3 0.04
88 35 0.47
89 10 0.13
91 27 0.36
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (90 bp):
TTGAAAGTATCAATTTTCCTCAAAAATAAAGTTAAAAAAAAAAGATTTTTGAGGAGAAATTGAAA
GTATCAAATTTCCTCAAAAATAAAT
Found at i:18534803 original size:63 final size:61
Alignment explanation
Indices: 18534608--18534804 Score: 262
Period size: 60 Copynumber: 3.3 Consensus size: 61
18534598 AAAAATAAAT
* * * *
18534608 TTGAAAGTATCAATTTTCCTTAAAAATAAA--TT-AAAAAAAAAAGATTTTGAGG-AAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
*
18534665 TTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC--AAAAAAAATATTTTTGGGAAAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATT-AAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
*
18534725 TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAACAAAAATATTTTTAGGAAAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATTAAA-TTTTCAAAAA-AAAAATATTTTTAGGAAAAAG
*
18534788 TTGAAAGTATTAATTTT
1 TTGAAAGTATCAATTTT
18534805 TCCTGCACAA
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
57 25 0.20
58 3 0.02
59 18 0.15
60 38 0.31
62 3 0.02
63 36 0.29
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (61 bp):
TTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
Found at i:18539101 original size:46 final size:46
Alignment explanation
Indices: 18539026--18539127 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
18539016 TCTTTTTTTC
* * * * *
18539026 TTTTTTTTTTGAAATAAGAAATAAATCAAATTTATAACAAAA-TTT
1 TTTTTTTTTTCAAACAAAAAATAAATCAAATTTAAAACAAAACATT
*
18539071 TTTTTTTTTTCAAACAAAAAGATAAGTCAAATTTAAAACAAAACATT
1 TTTTTTTTTTCAAACAAAAA-ATAAATCAAATTTAAAACAAAACATT
*
18539118 TTTTATTTTT
1 TTTTTTTTTT
18539128 GGAACAAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 17 0.35
46 20 0.42
47 11 0.23
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (46 bp):
TTTTTTTTTTCAAACAAAAAATAAATCAAATTTAAAACAAAACATT
Found at i:18539425 original size:21 final size:21
Alignment explanation
Indices: 18539383--18539427 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18539373 AAATGCCTGA
*
18539383 AATGTATGATATAAAATGATG
1 AATGTATGAAATAAAATGATG
*
18539404 AATGTATGACAATATAAT-ATG
1 AATGTATGA-AATAAAATGATG
18539425 AAT
1 AAT
18539428 AAAGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGTATGAAATAAAATGATG
Found at i:18539561 original size:19 final size:20
Alignment explanation
Indices: 18539533--18539574 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
18539523 TTAGGTTAGA
*
18539533 GTTAGAGTTTTAGGTTTTGG
1 GTTAGAGTTTTAGGGTTTGG
18539553 GTTAG-GTTTTAGGGTTTGG
1 GTTAGAGTTTTAGGGTTTGG
18539572 GTT
1 GTT
18539575 TATGGCTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (20 bp):
GTTAGAGTTTTAGGGTTTGG
Found at i:18539590 original size:6 final size:6
Alignment explanation
Indices: 18539520--18539611 Score: 53
Period size: 6 Copynumber: 14.3 Consensus size: 6
18539510 GGGCGTTTGG
* * *
18539520 GGTTTA GG-TTA GAG-TTA GAGTTTTA GGTTTT GGGTTA GGTTTTA GGGTTTG
1 GGTTTA GGTTTA G-GTTTA G-G-TTTA GGTTTA GGTTTA GG-TTTA -GGTTTA
* *
18539571 GGTTTA TGGCTTA GGTTTA GAGTTTA AGTTTA GGGTTTA GG
1 GGTTTA -GGTTTA GGTTTA G-GTTTA GGTTTA -GGTTTA GG
18539612 GCTTGGGTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 36 0.53
7 22 0.32
8 6 0.09
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (6 bp):
GGTTTA
Found at i:18539608 original size:7 final size:7
Alignment explanation
Indices: 18539541--18539676 Score: 72
Period size: 7 Copynumber: 20.4 Consensus size: 7
18539531 GAGTTAGAGT
18539541 TTTA-GG
1 TTTAGGG
*
18539547 TTTTGGG
1 TTTAGGG
*
18539554 -TTAGGT
1 TTTAGGG
18539560 TTTAGGG
1 TTTAGGG
18539567 TTT-GGG
1 TTTAGGG
*
18539573 TTTATGG
1 TTTAGGG
*
18539580 CTTA-GG
1 TTTAGGG
*
18539586 TTTAGAG
1 TTTAGGG
*
18539593 TTTA-AG
1 TTTAGGG
18539599 TTTAGGG
1 TTTAGGG
18539606 TTTAGGG
1 TTTAGGG
*
18539613 CTT-GGG
1 TTTAGGG
* *
18539619 TTTATGA
1 TTTAGGG
* * *
18539626 TTCAAGA
1 TTTAGGG
18539633 TTTA-GG
1 TTTAGGG
* *
18539639 TTT-TGA
1 TTTAGGG
18539645 TTTAGGGG
1 TTTA-GGG
18539653 TTTAGGG
1 TTTAGGG
*
18539660 TTTAGGT
1 TTTAGGG
18539667 TTTAGGG
1 TTTAGGG
18539674 TTT
1 TTT
18539677 TGATTTAGGA
Statistics
Matches: 99, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
6 37 0.37
7 57 0.58
8 5 0.05
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:18539641 original size:33 final size:33
Alignment explanation
Indices: 18539566--18539638 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
18539556 AGGTTTTAGG
* *
18539566 GTTT-GGGTTTATGGCTTAGGTTTAGAGTTTAA
1 GTTTAGGGTTTAGGGCTTAGGTTTAGAGTTCAA
*
18539598 GTTTAGGGTTTAGGGCTTGGGTTTATGA-TTCAA
1 GTTTAGGGTTTAGGGCTTAGGTTTA-GAGTTCAA
18539631 GATTTAGG
1 G-TTTAGG
18539639 TTTTGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 4 0.11
33 23 0.66
34 8 0.23
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (33 bp):
GTTTAGGGTTTAGGGCTTAGGTTTAGAGTTCAA
Found at i:18541716 original size:21 final size:21
Alignment explanation
Indices: 18541685--18541732 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
18541675 AATCATGCCG
*
18541685 TCGAT-CCTTCCATGAGGGGA
1 TCGATCCCTTCCATGAGGAGA
18541705 TCGATCCCTTCCATGAGGAGA
1 TCGATCCCTTCCATGAGGAGA
18541726 TCGATCC
1 TCGATCC
18541733 TGTTAGTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (21 bp):
TCGATCCCTTCCATGAGGAGA
Found at i:18543986 original size:23 final size:23
Alignment explanation
Indices: 18543960--18544003 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
18543950 TTTCTTAGTT
18543960 TTATATATAAAGTTTAATCTAAG
1 TTATATATAAAGTTTAATCTAAG
18543983 TTATATATAAAGTTTAATCTA
1 TTATATATAAAGTTTAATCTA
18544004 TCACTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (23 bp):
TTATATATAAAGTTTAATCTAAG
Found at i:18544656 original size:24 final size:23
Alignment explanation
Indices: 18544629--18544673 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
18544619 TTGAAATATT
18544629 ATTTGATTCTTTTATTT-TTTATGA
1 ATTTGA-T-TTTTATTTATTTATGA
18544653 ATTTGATTTTTATTTATTTAT
1 ATTTGATTTTTATTTATTTAT
18544674 TATAAGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (23 bp):
ATTTGATTTTTATTTATTTATGA
Found at i:18545144 original size:26 final size:28
Alignment explanation
Indices: 18545109--18545189 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
18545099 AATTTTACTT
*
18545109 TTAAATAATATTA-TATTAATAATATTATA
1 TTAAATAATA-TACTATTAAT-ATAATATA
18545138 TTAAATAATATACTATTAATATAATATA
1 TTAAATAATATACTATTAATATAATATA
*
18545166 TT-AATAA-ATAATATT-ATATTAATA
1 TTAAATAATATACTATTAATA-TAATA
18545190 AATAATATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
25 3 0.06
26 12 0.25
27 5 0.10
28 11 0.23
29 17 0.35
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAAATAATATACTATTAATATAATATA
Found at i:18545166 original size:18 final size:15
Alignment explanation
Indices: 18545109--18545288 Score: 117
Period size: 14 Copynumber: 11.9 Consensus size: 15
18545099 AATTTTACTT
18545109 TTAAATAATATTATA
1 TTAAATAATATTATA
18545124 TT-AATAATATTATA
1 TTAAATAATATTATA
18545138 TTAAATAATA-TACTA
1 TTAAATAATATTA-TA
18545153 TTAATATAATA-TATTA
1 TTAA-ATAATATTA-TA
*
18545169 ATAAATAATATTATA
1 TTAAATAATATTATA
*
18545184 TT-AATAA-ATAATA
1 TTAAATAATATTATA
*
18545197 TTTAAT-ATATTA-A
1 TTAAATAATATTATA
* *
18545210 TAAAATAATATAAAAATA
1 TTAAATAATAT---TATA
*
18545228 ATAAATAAT-TTAT-
1 TTAAATAATATTATA
* *
18545241 TTTAATTATATTTATA
1 TTAAATAATA-TTATA
18545257 TTAACATAATATTTTAATA
1 TTAA-ATAATA--TT-ATA
*
18545276 TTAAATATTATTA
1 TTAAATAATATTA
18545289 AAATATAATT
Statistics
Matches: 131, Mismatches: 17, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
13 19 0.15
14 33 0.25
15 29 0.22
16 20 0.15
17 7 0.05
18 16 0.12
19 7 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAATAATATTATA
Found at i:18545174 original size:31 final size:31
Alignment explanation
Indices: 18545110--18545260 Score: 108
Period size: 31 Copynumber: 5.0 Consensus size: 31
18545100 ATTTTACTTT
*
18545110 TAAATAATATTATATT-A-ATAATAT-TATAT
1 TAAATAATATTATATTAATATAATATAT-TAA
18545139 TAAATAATA-TACTATTAATATAATATATTAA
1 TAAATAATATTA-TATTAATATAATATATTAA
18545170 TAAATAATATTATATTAATA-AATAATATTTAA
1 TAAATAATATTATATTAATATAAT-ATA-TTAA
* * *
18545202 TATATTAATA--A-AATAATATAA-A-AATAA
1 TA-AATAATATTATATTAATATAATATATTAA
* *
18545229 TAAATAAT-TTATTTTAATTATATTTATATTAA
1 TAAATAATATTATATTAA-TATA-ATATATTAA
18545261 CATAATATTT
Statistics
Matches: 97, Mismatches: 9, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
26 5 0.05
27 6 0.06
28 6 0.06
29 18 0.19
30 10 0.10
31 33 0.34
32 13 0.13
33 6 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
TAAATAATATTATATTAATATAATATATTAA
Found at i:18545205 original size:22 final size:21
Alignment explanation
Indices: 18545120--18545236 Score: 90
Period size: 18 Copynumber: 5.8 Consensus size: 21
18545110 TAAATAATAT
*
18545120 TATATTAATAATATTATATTAA
1 TATATTAATAA-ATAATATTAA
* *
18545142 -ATAAT-ATACTATTAATA-TAA
1 TATATTAATA--AATAATATTAA
18545162 TATATTAATAAATAATA-T--
1 TATATTAATAAATAATATTAA
18545180 TATATTAATAAATAATATTTAA
1 TATATTAATAAATAATA-TTAA
18545202 TATATTAATAAAATAATA-TAA
1 TATATTAAT-AAATAATATTAA
*
18545223 -A-AATAATAAATAAT
1 TATATTAATAAATAAT
18545237 TTATTTTAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
18 24 0.30
19 5 0.06
20 15 0.19
21 15 0.19
22 13 0.16
23 8 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATTAATAAATAATATTAA
Found at i:18545222 original size:5 final size:5
Alignment explanation
Indices: 18545113--18545222 Score: 50
Period size: 5 Copynumber: 21.8 Consensus size: 5
18545103 TTACTTTTAA
* * * *
18545113 ATAAT ATTAT ATTA- ATAAT ATTAT ATTAA- ATAAT ATACT ATTAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT A-TAAT ATAAT
* * * *
18545163 ATATT AATAA- ATAAT ATTAT ATTAAT A-AAT A-ATAT TTAAT ATATT
1 ATAAT -ATAAT ATAAT ATAAT A-TAAT ATAAT ATA-AT ATAAT ATAAT
*
18545208 AATAAA ATAAT ATAA
1 -ATAAT ATAAT ATAA
18545223 AAATAATAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
4 15 0.19
5 47 0.59
6 17 0.22
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:18545314 original size:17 final size:16
Alignment explanation
Indices: 18545266--18545322 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
18545256 ATTAACATAA
*
18545266 TATTTT-AATATTAAA
1 TATTTTAAATATTAAT
18545281 TATTATTAAA-ATATAAT
1 TATT-TTAAATAT-TAAT
18545298 TATTTGTAAATATTAAT
1 TATTT-TAAATATTAAT
*
18545315 AATTTTAA
1 TATTTTAA
18545323 TAATAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.11
16 8 0.23
17 21 0.60
18 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTTAAATATTAAT
Found at i:18545333 original size:16 final size:15
Alignment explanation
Indices: 18545267--18545338 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 15
18545257 TTAACATAAT
*
18545267 ATTTTAATATTAAAT-
1 ATTTTAA-AATAAATA
*
18545282 ATTATTAAAATATAATT
1 ATT-TTAAAATA-AATA
*
18545299 ATTTGTAAATATTAATA
1 ATTT-TAAA-ATAAATA
18545316 ATTTTAATAATAAATA
1 ATTTTAA-AATAAATA
18545332 ATTTTAA
1 ATTTTAA
18545339 CATGCTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
15 6 0.13
16 24 0.51
17 15 0.32
18 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
ATTTTAAAATAAATA
Found at i:18547476 original size:16 final size:16
Alignment explanation
Indices: 18547455--18547489 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
18547445 TCTTCTTAAA
18547455 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
18547471 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
18547487 ATT
1 ATT
18547490 TTCAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATAATTATTTTAT
Found at i:18547587 original size:31 final size:32
Alignment explanation
Indices: 18547552--18547614 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
18547542 TTTTTAATAC
18547552 TTTATACAT-AATTTAAT-TTTTTTGT-TTTTCT
1 TTTAT-CATGAATTTAATATTTTTT-TATTTTCT
*
18547583 TTTATTATGAATTTAATATTTTTTTATTTTCT
1 TTTATCATGAATTTAATATTTTTTTATTTTCT
18547615 AATTCAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 2 0.07
31 14 0.50
32 12 0.43
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTATCATGAATTTAATATTTTTTTATTTTCT
Found at i:18548728 original size:132 final size:132
Alignment explanation
Indices: 18548559--18548820 Score: 380
Period size: 132 Copynumber: 2.0 Consensus size: 132
18548549 ATATATAAGA
* * * ** *
18548559 AAAATAGCTAAAATTGAAAAAAAAAAAAGTAACGTAAAGAGTGAGAAAAAATGTAAAATAAGTAT
1 AAAATAGATAAAATTGAAAAAAAAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATAT
* * * * * *
18548624 GATTAGGTCTAAAAATGGATAACAAGTGTCCTAACACACTACGAAAAAATTGTTATAATTCTAAA
66 CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAA
18548689 GG
131 GG
* * *
18548691 AAAATAGATAAAATTGAAAAACAAATAAGTAATGTAAAAAGCGAGAAAAAACATAAAATAAATAT
1 AAAATAGATAAAATTGAAAAAAAAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATAT
*
18548756 CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAGCTATTATAATTCTAAA
66 CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAA
18548821 TGTAATTAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 114 1.00
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (132 bp):
AAAATAGATAAAATTGAAAAAAAAAAAAGTAACGTAAAAAGCGAGAAAAAACATAAAATAAATAT
CATTAGGTCTAAAAATGGATAAAAAGTATCCTAACACACTAAGAAAAAACTATTATAATTCTAAA
GG
Found at i:18549945 original size:21 final size:21
Alignment explanation
Indices: 18549900--18549941 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18549890 GGTAAAAATT
*
18549900 GATCGATCCCCTTCCTGTAAG
1 GATCGATCCCCTTCATGTAAG
*
18549921 GATCGATCCCC-TCATTTAAG
1 GATCGATCCCCTTCATGTAAG
18549941 G
1 G
18549942 GATCAATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (21 bp):
GATCGATCCCCTTCATGTAAG
Found at i:18550133 original size:21 final size:21
Alignment explanation
Indices: 18550109--18550160 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
18550099 ACCCAGAAAA
18550109 GGGATCGATCCCCTCACATAG
1 GGGATCGATCCCCTCACATAG
*
18550130 GGGATCAATCCCCTCACATAG
1 GGGATCGATCCCCTCACATAG
18550151 GGGATCGATC
1 GGGATCGATC
18550161 ACCTAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (21 bp):
GGGATCGATCCCCTCACATAG
Found at i:18556131 original size:73 final size:73
Alignment explanation
Indices: 18555998--18556174 Score: 198
Period size: 73 Copynumber: 2.4 Consensus size: 73
18555988 TAGGGAACCA
* * * ** * *
18555998 ATCGATCCC-CTTTGGATAAGATTGATCGGGTGTAAAGGCAGTAGCCAATTTCGTTGAACCCAGG
1 ATCGATCCCTCTTGGGACAAGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCACTAAACCCAAG
18556062 CAA-AATCG
66 -AAGAATCG
* *
18556070 ATCGATCCCTCTTGGGACAAGATCGATTGGGTGTGAAGGCAGTAGCCAATTTCACTAAACCCAAG
1 ATCGATCCCTCTTGGGACAAGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCACTAAACCCAAG
18556135 AAGAATCG
66 AAGAATCG
* * * *
18556143 ATTGATCCCCTCTT-TGACAGGATTGATCGGGT
1 ATCGAT-CCCTCTTGGGACAAGATCGATCGGGT
18556175 ATTCAACCAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
72 11 0.12
73 70 0.80
74 7 0.08
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (73 bp):
ATCGATCCCTCTTGGGACAAGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCACTAAACCCAAG
AAGAATCG
Found at i:18557841 original size:15 final size:15
Alignment explanation
Indices: 18557808--18557841 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18557798 TTTTATTCTC
*
18557808 TTGTGGCTTGTGACT
1 TTGTGGCTTGTGACA
*
18557823 TTGTGGCTTGTGGCA
1 TTGTGGCTTGTGACA
18557838 TTGT
1 TTGT
18557842 TGTGTGGTTT
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:0.06, C:0.12, G:0.35, T:0.47
Consensus pattern (15 bp):
TTGTGGCTTGTGACA
Found at i:18557976 original size:18 final size:18
Alignment explanation
Indices: 18557953--18557990 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18557943 AGAAATATTG
*
18557953 GTATGAAAATTTGATGAT
1 GTATGAAAATCTGATGAT
18557971 GTATGAAAATCTGATGAT
1 GTATGAAAATCTGATGAT
18557989 GT
1 GT
18557991 TTTGATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (18 bp):
GTATGAAAATCTGATGAT
Found at i:18558630 original size:21 final size:20
Alignment explanation
Indices: 18558601--18558659 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
18558591 TTTTCCAGAA
18558601 AAGGGATCGATCCCCTCA-C
1 AAGGGATCGATCCCCTCAGC
* *
18558620 ATAGAGGATCGATCACCTAAGGC
1 A-AG-GGATCGATCCCCTCA-GC
18558643 AAGGGATCGATCCCCTC
1 AAGGGATCGATCCCCTC
18558660 TTAAAAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 25 0.78
22 2 0.06
23 2 0.06
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGGATCGATCCCCTCAGC
Found at i:18559529 original size:13 final size:13
Alignment explanation
Indices: 18559513--18559542 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18559503 TATTCCAAGT
18559513 CTTTAAGCTAACA
1 CTTTAAGCTAACA
*
18559526 CTTTGAGCTAACA
1 CTTTAAGCTAACA
18559539 CTTT
1 CTTT
18559543 TTACTGACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (13 bp):
CTTTAAGCTAACA
Found at i:18562381 original size:47 final size:47
Alignment explanation
Indices: 18562270--18562404 Score: 114
Period size: 47 Copynumber: 2.9 Consensus size: 47
18562260 TTCGGGGACT
** *
18562270 ATCAGTTAAGGGGACAT-AGCAGCAATAGAA-TGGCTTTCATGAATTGA
1 ATCAGTTAACAGGACATGA-CAGCAACA-AACTGGCTTTCATGAATTGA
* * * * *
18562317 TTCATTTAACAGGACATGGCATCAACAAACTGGCTTTCATGATTTGA
1 ATCAGTTAACAGGACATGACAGCAACAAACTGGCTTTCATGAATTGA
* * * *
18562364 ATCGGTTAA-AGGTACATGACAGCAACAGAGTAGCTTTCATG
1 ATCAGTTAACAGG-ACATGACAGCAACAAACTGGCTTTCATG
18562405 GTGGAAAAGC
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
46 5 0.07
47 64 0.93
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (47 bp):
ATCAGTTAACAGGACATGACAGCAACAAACTGGCTTTCATGAATTGA
Found at i:18563528 original size:236 final size:234
Alignment explanation
Indices: 18563107--18564473 Score: 894
Period size: 236 Copynumber: 5.8 Consensus size: 234
18563097 GTGATATAAT
* * * * *
18563107 ACACTAAGAAAGAGTTATGACAATTCTAAACGTAATAAAATGTAAGAATAATCGTAAAAA-AAAT
1 ACACTAAGAAAAAGTTATGACAATTCTAAACTTAATAAAA-GTAAGAACAACCATAAAAAGAAAT
* * * * * * ** * * *
18563171 CATTATAATATAAATAATTATGTTGACAATGTAAAATTTT-TTCTAAATATTAATATT-TAAATA
65 TATTGTAATGTAAATAATTAAGTAGTCAAAATAAAATTTTAAT-TAATTATT-ATTTTGTAAATA
* * ** * *
18563234 TATAAAGAAAATAGCTAAAAATTGAAAAAAAAAAAAGGTAATGTAAA-AAGTGAGAAAAATGTAA
128 TATAAAGAAAATAACTAAAAATT-AAAAAACAAATTGGTAAAGTAAACAAGTAAGAAAAATGTAA
* * * * * *
18563298 AATTAGTATAATTTGGCCTTAAATGGGTAAAAAGTATTGTAAC
192 AATTAATATCATTTGGCGTAAAATGGGTAAAAAGTGTCGTAAC
* * **
18563341 ACACTAAGAAAAAAGTTATGACAATTCTAAGCTTAATTAAAGGTAAGAACAATTATAAAAAGAAA
1 ACACTAAG-AAAAAGTTATGACAATTCTAAACTTAA-TAAAAGTAAGAACAACCATAAAAAGAAA
18563406 TTATTGTAATGTAAATAATTAAGTAGTCAAAATAAAATTTTAATTAATTATT-TTTTGTAAATAT
64 TTATTGTAATGTAAATAATTAAGTAGTCAAAATAAAATTTTAATTAATTATTATTTTGTAAATAT
* * **
18563470 ATATAA-AAAGATAACTAAAAATTAAAAAACATATTGGTAAAGTAAACAAGCAAGAAAAAACATA
129 ATA-AAGAAA-ATAACTAAAAATTAAAAAACAAATTGGTAAAGTAAACAAGTAAG-AAAAATGTA
* * * ** ** * * *
18563534 AAATTAGTATAATTTTGTATAAAATGGGTATGAATTGTCATAAT
191 AAATTAATATCATTTGGCGTAAAATGGGTAAAAAGTGTCGTAAC
* * * * * * * * *
18563578 ACGCTAA-AAAAGAGTTATGATAATTTTAAA-TGTAATAAAAATTAAGAATAACAATAATAATAT
1 ACACTAAGAAAA-AGTTATGACAATTCTAAACT-TAAT-AAAAGTAAGAACAACCATAAAAAGAA
* * ** *
18563641 ATTAATGTAATGTAAATAATTATATTAG-CAATGTAAAATTTTAATTAATTATTGTTTTGTAAAT
63 ATTATTGTAATGTAAATAATTA-AGTAGTCAAAATAAAATTTTAATTAATTATTATTTTGTAAAT
* * * * * ** *
18563705 ATCT-AAGAAAAATATA-TAGAAATTAAAAAATAAATTGATAATGTAAATGAGTGAA-AACAAAC
127 ATATAAAG-AAAATA-ACTAAAAATTAAAAAACAAATTGGTAAAGTAAACAAGT-AAGAA-AAAT
* * * * * *
18563767 GTAAAATTAATACCATTTGGTGTAAAATAGGTAAAAAATATCATAAC
188 GTAAAATTAATATCATTTGGCGTAAAATGGGTAAAAAGTGTCGTAAC
* * ** * * * ** *
18563814 ACATTAAAAAAAAGTTATGGTAATTTTAAACATAATGAATAGTCAA-AACAACCATAGGAAGATA
1 ACACTAAGAAAAAGTTATGACAATTCTAAACTTAAT-AAAAGT-AAGAACAACCATAAAAAGAAA
* * * * * *
18563878 TTATTGTAAAGTAAAT-ATTATGTTGAT-AATATAAAATTTTAATTAATTATTGTTCTTTTAAAT
64 TTATTGTAATGTAAATAATTAAGTAG-TCAAAATAAAATTTTAATTAATTATTATT-TTGTAAAT
* * * *
18563941 ATAT-AAGAAAAATATCTAAAAATTGAAAAACAAATTGGTAACA-TAAACAAGTGAGAAATAATA
127 ATATAAAG-AAAATAACTAAAAATTAAAAAACAAATTGGTAA-AGTAAACAAGTAAGAAA-AATG
* * * *
18564004 AAAAATTATTATCATTTGGAGTAAAATGGATAAAAAGTGTCGTAAC
189 TAAAATTAATATCATTTGGCGTAAAATGGGTAAAAAGTGTCGTAAC
** * * *
18564050 GTACTAAGAAAAAGTTATAACAATTCTAAA-TGAAATAAAAAGTAAGAACAACCATAAAAATATA
1 ACACTAAGAAAAAGTTATGACAATTCTAAACT-TAAT-AAAAGTAAGAACAACCATAAAAAGA-A
* * * * *
18564114 TTATTATTGTAATATAAATAATT-A-TAATGATAATAGAAAATTTAATTTAATTATTATTATTGT
63 --ATTATTGTAATGTAAATAATTAAGTAGTCAAAATA-AAATTTTAA-TTAATTATTATT-TTGT
** * * * * *
18564177 CTATAAAT-AAGAAAAATAGA-TAGAAATTAAAAAATAAATTGGTAATA-TAAAAAAGTAAAAAA
123 AAATATATAAAG-AAAATA-ACTAAAAATTAAAAAACAAATTGGTAA-AGTAAACAAGTAAGAAA
* * *
18564239 AATGTAAAATTAATATCATTTGACGTAAAATAGATAAAAAGTG-CTGTAAC
185 AATGTAAAATTAATATCATTTGGCGTAAAATGGGTAAAAAGTGTC-GTAAC
** * * * * ** * *** * *
18564289 ACACTAAGAAAGTGCTATGATAATTTTAAACGTAATGGGAAGTAAAAACAATTGTAATAAGATAT
1 ACACTAAGAAAAAGTTATGACAATTCTAAACTTAAT-AAAAGTAAGAACAACCATAAAAAGAAAT
* * ** * * *
18564354 TATTGTAATGTAAATATTTAAGAAGAGAATAAAAAAATTTTAATTAATTATTGTTTTTTATAA-A
65 TATTGTAATGTAAATAATTAAGTAGTCAA-AATAAAATTTTAATTAATTATTATTTTGTA-AATA
* * * *
18564418 TATATAAGAAAAATAGCTAATAATTTAAAAAACAAATAGGTAATGTAAACAAGTAA
128 TATA-AAG-AAAATAACTAA-AAATTAAAAAACAAATTGGTAAAGTAAACAAGTAA
18564474 AAATATTATC
Statistics
Matches: 883, Mismatches: 200, Indels: 95
0.75 0.17 0.08
Matches are distributed among these distances:
234 13 0.01
235 115 0.13
236 430 0.49
237 90 0.10
238 29 0.03
239 139 0.16
240 67 0.08
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (234 bp):
ACACTAAGAAAAAGTTATGACAATTCTAAACTTAATAAAAGTAAGAACAACCATAAAAAGAAATT
ATTGTAATGTAAATAATTAAGTAGTCAAAATAAAATTTTAATTAATTATTATTTTGTAAATATAT
AAAGAAAATAACTAAAAATTAAAAAACAAATTGGTAAAGTAAACAAGTAAGAAAAATGTAAAATT
AATATCATTTGGCGTAAAATGGGTAAAAAGTGTCGTAAC
Found at i:18564339 original size:475 final size:467
Alignment explanation
Indices: 18563109--18564473 Score: 1353
Period size: 472 Copynumber: 2.9 Consensus size: 467
18563099 GATATAATAC
* * * * *
18563109 ACTAAGAAAGAGTTATGACAATTCTAAACGTAATAAAATGTAAGAATAATCGTAAAAA-A-A--A
1 ACTAAGAAAAAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTA
* * * * *
18563170 TCATTATAATATAAATAATTATGTTGACAATGTAAAATTT-TTTCTAAATATTAATATT-TAAAT
66 T-ATTGTAATATAAATAATTAT-ATGACAATGTAAAATTTAATT-TAATTATTATTATTGTAAAT
* * * ** * *
18563233 ATATAA-AGAAAATAGCTAAAAATTGAAAAAAAAAAAAGGTAATGT-AAAAAGTGAGAAAAATGT
128 ATATAAGA-AAAATAGATAGAAATT-AAAAAATAAATTGGTAATGTAAAAAAGTAAAAAAAATGT
* * * * *
18563296 AAAATTAGTATAATTTGGCCTTAAATGGGTAAAAAGTATTGTAACACACTAAGAAAAAAGTTATG
191 AAAATTAATATCATTTGGCGTAAAATAGGTAAAAAGTA-TGTAACACACTAAG-AAAAAGTTATG
* * * * * * *
18563361 ACAATTCTAAGCTTAATTAAAGGTAAGAACAATTATAAAAAGAAATTATTGTAATGTAAATAATT
254 ATAATTTTAAACATAATGAAA-GTAAAAACAATTATAAAAAGATATTATTGTAATGTAAAT-ATT
* *
18563426 AAGTAG-TCAAAATAAAATTTTAATTAATTATT-TTTTGTAAATATATATA-AAAAGATAACTAA
317 AAGTAGAT-AATATAAAATTTTAATTAATTATTGTTTTTTAAATATATA-AGAAAA-ATAACTAA
* * * *
18563488 AAATTAAAAAACATATTGGTAAAGTAAACAAGCAAGAAAAAACATAAAATTAGTATAATTTTGTA
379 AAATTAAAAAACAAATTGGTAAA-TAAACAAGTAAGAAAAAACAAAAAATTAGTATAATTTTGGA
* ** *
18563553 TAAAATGGGTATGAATTGTCATAAT
443 TAAAATGGATAAAAAGTGTCATAAT
* * * * *
18563578 ACGCTAA-AAAAGAGTTATGATAATTTTAAATGTAATAAAAATTAAGAATAACAATAATAATATA
1 A--CTAAGAAAA-AGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATA
* * *
18563642 TTA-A-TGTAATGTAAATAATTATATTAGCAATGTAAAATTTTAA-TTAATTATTGTT-TTGTAA
63 TTATATTGTAATATAAATAATTATATGA-CAATGTAAAA-TTTAATTTAATTATTATTATTGTAA
* * * ** * *
18563703 ATATCTAAGAAAAATATATAGAAATTAAAAAATAAATTGATAATGTAAATGAGTGAAAACAAACG
126 ATATATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGT-AAAAAAAATG
* * * * * *
18563768 TAAAATTAATACCATTTGGTGTAAAATAGGTAAAAAATATCATAACACATTAAAAAAAAGTTATG
190 TAAAATTAATATCATTTGGCGTAAAATAGGTAAAAAGTAT-GTAACACACTAAGAAAAAGTTATG
* * ** ** *
18563833 GTAATTTTAAACATAATGAATAGTCAAAACAACCATAGGAAGATATTATTGTAAAGTAAATATTA
254 ATAATTTTAAACATAATGAA-AGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATATTA
* * *
18563898 TGTTGATAATATAAAATTTTAATTAATTATTGTTCTTTTAAATATATAAGAAAAATATCTAAAAA
318 AGTAGATAATATAAAATTTTAATTAATTATTGTT-TTTTAAATATATAAGAAAAATAACTAAAAA
* * * * * *
18563963 TTGAAAAACAAATTGGTAACATAAACAAGTGAGAAATAATAAAAAATTATTATCA-TTTGGAGTA
382 TTAAAAAACAAATTGGTAA-ATAAACAAGTAAGAAAAAACAAAAAATTAGTATAATTTTGGA-TA
*
18564027 AAATGGATAAAAAGTGTCGTAACGT
445 AAATGGATAAAAAGTGTCATAA--T
* * *
18564052 ACTAAGAAAAAGTTATAACAATTCTAAATGAAATAAAAAGTAAGAACAACCATAAAAATATATTA
1 ACTAAGAAAAAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTA
* **
18564117 TTATTGTAATATAAATAATTATAATGATAATAG-AAAATTTAATTTAATTATTATTATTGTCTAT
66 -TATTGTAATATAAATAATTAT-ATGACAAT-GTAAAATTTAATTTAATTATTATTATTGTAAAT
* *
18564181 AAATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATATAAAAAAGTAAAAAAAATGTAA
128 ATATAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGTAAAAAAAATGTAA
* * * ** *
18564246 AATTAATATCATTTGACGTAAAATAGATAAAAAGTGCTGTAACACACTAAGAAAGTGCTATGATA
193 AATTAATATCATTTGGCGTAAAATAGGTAAAAAGT-ATGTAACACACTAAGAAAAAGTTATGATA
* * * *
18564311 ATTTTAAACGTAATGGGAAGTAAAAACAATTGTAATAAGATATTATTGTAATGTAAATATTTAAG
257 ATTTTAAACATAAT-GAAAGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATA-TTAAG
* * * *
18564376 AAGAGAATAAAAAAATTTTAATTAATTATTGTTTTTTATAAATATATAAGAAAAATAGCTAATAA
320 TAGATAAT-ATAAAATTTTAATTAATTATTG-TTTTT-TAAATATATAAGAAAAATAACTAA-AA
* * *
18564441 TTTAAAAAACAAATAGGTAATGTAAACAAGTAA
381 ATTAAAAAACAAATTGGTAA-ATAAACAAGTAA
18564474 AAATATTATC
Statistics
Matches: 723, Mismatches: 134, Indels: 68
0.78 0.14 0.07
Matches are distributed among these distances:
469 1 0.00
470 3 0.00
471 98 0.14
472 248 0.34
473 76 0.11
474 8 0.01
475 144 0.20
476 67 0.09
477 24 0.03
478 25 0.03
479 29 0.04
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (467 bp):
ACTAAGAAAAAGTTATGACAATTCTAAATGTAATAAAAAGTAAGAATAACCATAAAAATATATTA
TATTGTAATATAAATAATTATATGACAATGTAAAATTTAATTTAATTATTATTATTGTAAATATA
TAAGAAAAATAGATAGAAATTAAAAAATAAATTGGTAATGTAAAAAAGTAAAAAAAATGTAAAAT
TAATATCATTTGGCGTAAAATAGGTAAAAAGTATGTAACACACTAAGAAAAAGTTATGATAATTT
TAAACATAATGAAAGTAAAAACAATTATAAAAAGATATTATTGTAATGTAAATATTAAGTAGATA
ATATAAAATTTTAATTAATTATTGTTTTTTAAATATATAAGAAAAATAACTAAAAATTAAAAAAC
AAATTGGTAAATAAACAAGTAAGAAAAAACAAAAAATTAGTATAATTTTGGATAAAATGGATAAA
AAGTGTCATAAT
Found at i:18565076 original size:237 final size:232
Alignment explanation
Indices: 18564516--18565099 Score: 642
Period size: 232 Copynumber: 2.5 Consensus size: 232
18564506 AAGAGTTATG
* *
18564516 CAATTCTAAATGTAATAAAAGGTAAGAAAAATTGTAAGAAAATATTATTGTAACATAAATAATTA
1 CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
* *
18564581 AGTAAATAATATAAAATTTTAATTGATT-TTAGTTTTTATAAATATAT-AATAAAAATAGCTAAA
66 AGTAAATAATATAAAATTTTAATTAATTATT-GTTTTTGTAAATATATAAATAAAAATAGCTAAA
*
18564644 ATTAAAAAACAAATAAGCAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAA
130 ATT-AAAAACAAATAAGAAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAA
* * *
18564709 AATGAGTAAGTGCTGTAATACACTATAAAAAAGTTATAA
194 AATAAGTAAGTACTGTAATACACTATAAAAAAGCTATAA
* * * * **
18564748 TAATTCCAAATGTAATCAAAAGTAAGAACAATTGTAAAAAAATATTATTGTAATTTAAATAATTA
1 CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
*** * * * **
18564813 AGTATCCAATGTAAAACTTCAATTAATTATTGTTGCTGTAAATATATAAAT-AAAATAGCTACAA
66 AGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAATAAAAATAGCTA-AA
* * * * *
18564877 ATT-AAAACAAATAAGTAAAC-TAAACAAGTGAGAAAAATAGTAAATTTTGTATTATTTGGTGTA
130 ATTAAAAACAAATAAG-AAACATAAAAAAGAGAGAAAAAT-GTAAAATTTATATTATTTGCTGTA
* * *
18564940 ATATAAGTAAAAAGTATTGTAACATACATTA-AGAAAAAGCTATAA
193 AAATAAGT---AAGTACTGT-A-ATACACTATA-AAAAAGCTATAA
* * * * * *
18564985 CAATTCTAAACT-TAATAAAAAGTAAGAATAATTGCAATAACATATTATTATAACGTAAATAATT
1 CAATTCTAAA-TGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATT
* * * * *
18565049 AAGTAAGTAACATAAATTTTTAATTAATTATTATTTTTGTAGATATATAAA
65 AAGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAA
18565100 AAATTAAAAA
Statistics
Matches: 288, Mismatches: 52, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
231 28 0.10
232 131 0.45
233 10 0.03
235 7 0.02
236 2 0.01
237 109 0.38
238 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (232 bp):
CAATTCTAAATGTAATAAAAAGTAAGAAAAATTGTAAAAAAATATTATTGTAACATAAATAATTA
AGTAAATAATATAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAATAAAAATAGCTAAAA
TTAAAAACAAATAAGAAACATAAAAAAGAGAGAAAAATGTAAAATTTATATTATTTGCTGTAAAA
TAAGTAAGTACTGTAATACACTATAAAAAAGCTATAA
Found at i:18565938 original size:14 final size:14
Alignment explanation
Indices: 18565919--18565960 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18565909 ACTAAAAACA
18565919 AAAATCATACAAAT
1 AAAATCATACAAAT
18565933 AAAATCATA-AAAT
1 AAAATCATACAAAT
* *
18565946 -ATATAATACAAAT
1 AAAATCATACAAAT
18565959 AA
1 AA
18565961 CTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATCATACAAAT
Found at i:18566194 original size:21 final size:23
Alignment explanation
Indices: 18566165--18566219 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
18566155 TATTTTACAT
18566165 TTTTATTTTTAT-TATTTTATT-
1 TTTTATTTTTATATATTTTATTC
* *
18566186 GTTT-TTTTTATATATTTTTTTC
1 TTTTATTTTTATATATTTTATTC
18566208 TTTTATTTTTAT
1 TTTTATTTTTAT
18566220 CTTAGGTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 3 0.11
23 7 0.25
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTATTTTTATATATTTTATTC
Found at i:18566196 original size:17 final size:17
Alignment explanation
Indices: 18566170--18566216 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
18566160 TACATTTTTA
*
18566170 TTTTTATTATTTTATTG
1 TTTTTTTTATTTTATTG
* *
18566187 TTTTTTTTA-TATATTT
1 TTTTTTTTATTTTATTG
18566203 TTTTCTTTTATTTT
1 TTTT-TTTTATTTT
18566217 TATCTTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.38
17 13 0.54
18 2 0.08
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTTTATTG
Found at i:18566214 original size:13 final size:13
Alignment explanation
Indices: 18566165--18566222 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
18566155 TATTTTACAT
*
18566165 TTTTATTTTTATTA
1 TTTTATTTTT-TTC
*
18566179 TTTTATTGTTTTTT
1 TTTTATT-TTTTTC
18566193 TTATATATTTTTTTC
1 TT-T-TATTTTTTTC
*
18566208 TTTTATTTTTATC
1 TTTTATTTTTTTC
18566221 TT
1 TT
18566223 AGGTATTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.29
14 12 0.32
15 11 0.29
16 4 0.11
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTTC
Found at i:18566376 original size:8 final size:8
Alignment explanation
Indices: 18566341--18566380 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
18566331 TTATCTGTTA
18566341 ATTTTTTG
1 ATTTTTTG
*
18566349 ATTTATTTA
1 ATTT-TTTG
18566358 ATTTATTTG
1 ATTT-TTTG
18566367 ATTTTTTG
1 ATTTTTTG
18566375 ATTTTT
1 ATTTTT
18566381 ATTTCGACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (8 bp):
ATTTTTTG
Found at i:18567143 original size:4 final size:4
Alignment explanation
Indices: 18567134--18567172 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
18567124 GCTCTAGGTT
* *
18567134 TTTA TTTA TTTA TTTA TTTA CTTA TTTA TTCA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18567173 TATTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:18567202 original size:32 final size:32
Alignment explanation
Indices: 18567155--18567243 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
18567145 ATTTATTTAC
18567155 TTATTTATTCATTTATTTTATTATTAGATTAGG-T
1 TTATTTA-TC-TTTATTTTATTATTA-ATTAGGTT
* * *
18567189 TTATTTATCTTTATTTTATTCTTATTTTGGTT
1 TTATTTATCTTTATTTTATTATTAATTAGGTT
*
18567221 TTACTTT-TCTTTATTTTTTTATT
1 TTA-TTTATCTTTATTTTATTATT
18567244 TTTTATTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 4 0.08
32 32 0.67
33 5 0.10
34 7 0.15
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.70
Consensus pattern (32 bp):
TTATTTATCTTTATTTTATTATTAATTAGGTT
Found at i:18567213 original size:6 final size:5
Alignment explanation
Indices: 18567188--18567272 Score: 50
Period size: 5 Copynumber: 16.2 Consensus size: 5
18567178 TTAGATTAGG
* *
18567188 TTTA- TTTAT CTTTAT TTTAT TCTTAT TTTGGT TTTACT TTT-C TTTAT
1 TTTAT TTTAT -TTTAT TTTAT T-TTAT TTT-AT TTTA-T TTTAT TTTAT
* *
18567235 TTT-T TTATTT TTTAT TTTCACT TTTAT TTTGT TTTAT T
1 TTTAT TT-TAT TTTAT TTT-A-T TTTAT TTTAT TTTAT T
18567273 ATTTGTTTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
4 10 0.16
5 27 0.42
6 23 0.36
7 4 0.06
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:18567463 original size:31 final size:31
Alignment explanation
Indices: 18567428--18567490 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
18567418 TGGGGAGAAA
18567428 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
1 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
*
18567459 TTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTGAAAGTATCAAATTTCCTTAAAAATAAAT
18567490 T
1 T
18567491 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (31 bp):
TTGAAAGTATCAAATTTCCTTAAAAATAAAT
Found at i:18567534 original size:88 final size:90
Alignment explanation
Indices: 18567369--18567545 Score: 216
Period size: 88 Copynumber: 2.0 Consensus size: 90
18567359 TGAGAAAAAG
* * **** * *
18567369 TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCCAAAAAATATTTTTGGGGAGAAATTGAAA
1 TTGAAAGTATCAATTTTCCTCAAAAATAAAGTTAAAAAAAAAAGATTTTTGAGGAGAAATTGAAA
*
18567434 GTATCAAATTTCCTTAAAAATAAAT
66 GTATCAAATTTCCTCAAAAATAAAT
*
18567459 TTGAAAGTATCAATTTTCCTTAAAAATAAA-TTAAAAAAAAAAGA-TTTTGAGGA-AAAGTTGAA
1 TTGAAAGTATCAATTTTCCTCAAAAATAAAGTTAAAAAAAAAAGATTTTTGAGGAGAAA-TTGAA
* *
18567521 AGTATCAATTTTCCTCAAAATTAAA
65 AGTATCAAATTTCCTCAAAAATAAA
18567546 ATTTTCAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
87 3 0.04
88 35 0.47
89 9 0.12
90 27 0.36
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (90 bp):
TTGAAAGTATCAATTTTCCTCAAAAATAAAGTTAAAAAAAAAAGATTTTTGAGGAGAAATTGAAA
GTATCAAATTTCCTCAAAAATAAAT
Found at i:18567654 original size:63 final size:61
Alignment explanation
Indices: 18567459--18567655 Score: 262
Period size: 60 Copynumber: 3.3 Consensus size: 61
18567449 AAAAATAAAT
* * * *
18567459 TTGAAAGTATCAATTTTCCTTAAAAATAAA--TT-AAAAAAAAAAGATTTTGAGG-AAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
*
18567516 TTGAAAGTATCAATTTTCCTCAAAATTAAAATTTTC--AAAAAAAATATTTTTGGGAAAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATT-AAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
*
18567576 TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAACAAAAATATTTTTAGGAAAAAG
1 TTGAAAGTATCAATTTTCCTCAAAATTAAA-TTTTCAAAAA-AAAAATATTTTTAGGAAAAAG
*
18567639 TTGAAAGTATTAATTTT
1 TTGAAAGTATCAATTTT
18567656 TCCTGCACAA
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
57 25 0.20
58 3 0.02
59 18 0.15
60 38 0.31
62 3 0.02
63 36 0.29
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (61 bp):
TTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAAAAATATTTTTAGGAAAAAG
Found at i:18578074 original size:8 final size:8
Alignment explanation
Indices: 18578061--18578123 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
18578051 ACTATGCTTG
18578061 AAAAAAAT
1 AAAAAAAT
18578069 AAAAAAAT
1 AAAAAAAT
*
18578077 GAAAAAAT
1 AAAAAAAT
*
18578085 GAAAAAAT
1 AAAAAAAT
*
18578093 GAAAAAAT
1 AAAAAAAT
18578101 AAAAAAAT
1 AAAAAAAT
* * *
18578109 GAGAAAAG
1 AAAAAAAT
18578117 AAAAAAA
1 AAAAAAA
18578124 GTGAATGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:18578083 original size:16 final size:16
Alignment explanation
Indices: 18578062--18578128 Score: 98
Period size: 16 Copynumber: 4.1 Consensus size: 16
18578052 CTATGCTTGA
18578062 AAAAAATAAAAAAATG
1 AAAAAATAAAAAAATG
*
18578078 AAAAAATGAAAAAATG
1 AAAAAATAAAAAAATG
18578094 AAAAAATAAAAAAATG
1 AAAAAATAAAAAAATG
* *
18578110 AGAAAAGAAAAAAAGTG
1 AAAAAATAAAAAAA-TG
18578127 AA
1 AA
18578129 TGAAAAAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
16 42 0.93
17 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:18578097 original size:24 final size:24
Alignment explanation
Indices: 18578062--18578122 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
18578052 CTATGCTTGA
* *
18578062 AAAAAATAAAAAAATGAAAAAATG
1 AAAAAATGAAAAAATAAAAAAATG
18578086 AAAAAATGAAAAAATAAAAAAATG
1 AAAAAATGAAAAAATAAAAAAATG
*
18578110 AGAAAA-GAAAAAA
1 AAAAAATGAAAAAA
18578123 AGTGAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (24 bp):
AAAAAATGAAAAAATAAAAAAATG
Found at i:18579210 original size:41 final size:41
Alignment explanation
Indices: 18579134--18579432 Score: 348
Period size: 42 Copynumber: 7.1 Consensus size: 41
18579124 ATGACTGTCA
* *
18579134 AGGAGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
18579176 ATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
18579217 ATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
18579258 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * *
18579300 AGGAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * *** *
18579342 AGGAGCCATTTATTTTTCCAAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
18579384 AGGAGTC-ATTTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAA
1 AGGAG-CAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
18579427 AGGAGC
1 AGGAGC
18579433 TTTGATCAAA
Statistics
Matches: 237, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
41 79 0.33
42 127 0.54
43 30 0.13
44 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:18579643 original size:6 final size:6
Alignment explanation
Indices: 18579615--18579684 Score: 59
Period size: 6 Copynumber: 11.2 Consensus size: 6
18579605 TCTATTTTCT
* * * * *
18579615 TTTTTT TTTTGTA TTTTACA TTTTTA TTTTTA TTATTA TTATTA TTTATA
1 TTTTTA TTTT-TA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
18579665 TTTTTT TCTTTTA TTTTTA T
1 TTTTTA T-TTTTA TTTTTA T
18579685 CTTAGGTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
6 37 0.71
7 15 0.29
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:18579801 original size:22 final size:20
Alignment explanation
Indices: 18579776--18579824 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18579766 AGATTATATG
*
18579776 TTATCTGTTATTTAATTTTAAT
1 TTATCTGTTAATT--TTTTAAT
* *
18579798 TTATTTGTTAATTTTTTGAT
1 TTATCTGTTAATTTTTTAAT
18579818 TTATCTG
1 TTATCTG
18579825 ATTTATTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.52
22 11 0.48
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.65
Consensus pattern (20 bp):
TTATCTGTTAATTTTTTAAT
Found at i:18579840 original size:9 final size:9
Alignment explanation
Indices: 18579808--18579840 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18579798 TTATTTGTTA
18579808 ATTT-TTTG
1 ATTTATTTG
*
18579816 ATTTATCTG
1 ATTTATTTG
18579825 ATTTATTTG
1 ATTTATTTG
18579834 ATTTATT
1 ATTTATT
18579841 CGACTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (9 bp):
ATTTATTTG
Found at i:18580689 original size:130 final size:130
Alignment explanation
Indices: 18580456--18580718 Score: 481
Period size: 130 Copynumber: 2.0 Consensus size: 130
18580446 TCGTTTTTGC
*
18580456 GTTAAATAACACAGAGGATCCGCGCATTTTGTTAAGATCCGACCTGACCCGAGCGTCGACCCACT
1 GTTAAATAACACAGAGGATCCGCGCATTTTGTTAAGATCCGACCCGACCCGAGCGTCGACCCACT
**
18580521 TTTTGACCCGTGCATGATCTGCCTCCTCGAGCCGTTAGCAGAGCCTAGCCGACCTTTCAAGCCGT
66 TTTTGACCCACGCATGATCTGCCTCCTCGAGCCGTTAGCAGAGCCTAGCCGACCTTTCAAGCCGT
*
18580586 GTTAAATAACACAGAGGATCCGTGCATTTTGTTAAGATCCGACCCGACCCGAGCGTCGACCCACT
1 GTTAAATAACACAGAGGATCCGCGCATTTTGTTAAGATCCGACCCGACCCGAGCGTCGACCCACT
*
18580651 TTTTGACCCACGCATGATCTGCCTCCTCGAGCCGTTAGCCGAGCCTAGCCGACCTTTCAAGCCGT
66 TTTTGACCCACGCATGATCTGCCTCCTCGAGCCGTTAGCAGAGCCTAGCCGACCTTTCAAGCCGT
18580716 GTT
1 GTT
18580719 CTCCTAGCCG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (130 bp):
GTTAAATAACACAGAGGATCCGCGCATTTTGTTAAGATCCGACCCGACCCGAGCGTCGACCCACT
TTTTGACCCACGCATGATCTGCCTCCTCGAGCCGTTAGCAGAGCCTAGCCGACCTTTCAAGCCGT
Found at i:18580859 original size:6 final size:5
Alignment explanation
Indices: 18580837--18580928 Score: 57
Period size: 5 Copynumber: 17.8 Consensus size: 5
18580827 ATTTAATATC
* *
18580837 TTTTA TCTTTA TTTTA TTCTTA TTTTTG TTTTA CTTTT- CTTTA TTTT-
1 TTTTA T-TTTA TTTTA TT-TTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
* *
18580884 TTTATT TTTTA TTTTCA CTTTTA TTTTG TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
18580929 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
3 3 0.04
4 6 0.09
5 35 0.51
6 19 0.28
7 6 0.09
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:18580923 original size:32 final size:31
Alignment explanation
Indices: 18580836--18580923 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 31
18580826 TATTTAATAT
* *
18580836 CTTTTATCTTTATTTTATTCTTATTTTTGTTTTA
1 CTTTTAT-TTT-TTTTATTATT-TTTTTGTTTCA
*
18580870 CTTTTCTTTATTTTT-TTATTTTTTAT-TTTCA
1 CTTTTATTT-TTTTTATTATTTTTT-TGTTTCA
18580901 CTTTTATTTTGTTTTATTATTTT
1 CTTTTATTTT-TTTTATTATTTT
18580924 ATTTTCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
30 1 0.02
31 20 0.43
32 12 0.26
33 6 0.13
34 7 0.15
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (31 bp):
CTTTTATTTTTTTTATTATTTTTTTGTTTCA
Found at i:18581007 original size:60 final size:58
Alignment explanation
Indices: 18580943--18582050 Score: 1167
Period size: 60 Copynumber: 18.7 Consensus size: 58
18580933 AAATAAAATC
** *
18580943 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTT
* * * *
18581003 CAAAAAAATATTTTTAGGGAGAAGTTAAAAGTATCAATTTCCCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
18581061 CAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTT
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* * * * *
18581121 AAGAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAAGTTT
1 CA-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAAT-AAATTTT
* * *
18581181 CCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAATTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * ** *
18581239 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 C--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* * * * *
18581300 CCAAAAAAAAATTTTTGGGGAGAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAATTTT
1 -CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * * *
18581359 CAAAAAAGGTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAAGTTTT
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* * ** *
18581420 CAAAAAAAT-TTTTCGGGGAGAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTT
*
18581479 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
18581537 CAAAAAAGGTTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAATTTT
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * ** *
18581596 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 C--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
*
18581657 CCAAAAAAATATTTTTGGGG---TGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 -CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * * *
18581713 CAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTG
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* *
18581774 C-AAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
18581831 CAAAAAAAAAGATTTTT-AGGAAAAGTTGAAAGTATCAGTTTTTCTTAAAGATAAATTTT
1 C--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*** ** *
18581890 C--AAAGGGA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* * * *
18581946 CAAAAACAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 C---AA-AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTTT
*
18582009 CACAAAAAA-ATATTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 CA-AAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
18582051 TCTTGCACAA
Statistics
Matches: 891, Mismatches: 116, Indels: 82
0.82 0.11 0.08
Matches are distributed among these distances:
54 4 0.00
55 43 0.05
56 18 0.02
57 32 0.04
58 43 0.05
59 326 0.37
60 337 0.38
61 39 0.04
62 6 0.01
63 43 0.05
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:18581087 original size:59 final size:58
Alignment explanation
Indices: 18580943--18582050 Score: 1171
Period size: 59 Copynumber: 18.7 Consensus size: 58
18580933 AAATAAAATC
* ** *
18580943 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTT
* * *
18581003 CAAAAAAATATTTTT-AGGGAGAAGTTAAAAGTATCAATTTCCCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*
18581061 CAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTT
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* * * *
18581121 AAGAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAAGTTT
1 CA-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAAT-AAATTTT
* * * *
18581181 CCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* ** *
18581239 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 C--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* * * * * *
18581300 CCAAAAAAAAATTTTTGGGGAGAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAATTTT
1 -CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
18581359 CAAAAAAGGTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAAGTTTT
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* * * ** *
18581420 CAAAAAAAT-TTTTCGGGGAGAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTT
18581479 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * *
18581537 CAAAAAAGGTTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAATTTT
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* ** *
18581596 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 C--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
**
18581657 CCAAAAAAATATTTTTG-GG--GTGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 -CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
18581713 CAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTG
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* * *
18581774 C-AAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * *
18581831 CAAAAAAAAAGATTTTT-AGGAAAAGTTGAAAGTATCAGTTTTTCTTAAAGATAAATTTT
1 C--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*** * ** *
18581890 C--AAAGGGA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
* *
18581946 CAAAAACAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 C---AA-AAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTT--
*
18582010 A
58 T
*
18582011 CAAAAAAATATTTTAG-GGAAAAGTTGAAAGTATCAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
18582051 TCTTGCACAA
Statistics
Matches: 888, Mismatches: 115, Indels: 90
0.81 0.11 0.08
Matches are distributed among these distances:
54 4 0.00
55 43 0.05
56 16 0.02
57 34 0.04
58 43 0.05
59 326 0.37
60 323 0.36
61 49 0.06
62 8 0.01
63 41 0.05
65 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:18581091 original size:119 final size:116
Alignment explanation
Indices: 18580943--18582050 Score: 1229
Period size: 119 Copynumber: 9.4 Consensus size: 116
18580933 AAATAAAATC
** *
18580943 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTCAAAA
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTTCAAAA
* * * *
18581008 AAATATTTTT-AGGGAGAAGTTAAAAGTATCAATTTCCCTTAAAAATAAATTTT
64 AAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTT
* * *
18581061 CAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAGAA
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCA-AA
* *
18581126 AAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAAGTTT
63 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATT-AAATTTT
* * *
18581181 CCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAATTTTCAAAAAA
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAA
* **
18581246 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
64 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAA-TTTT
* * * * *
18581300 CCAAAAAAAAATTTTTGGGGAGAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAATTTTCAAAAA
1 -CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
* * * *
18581365 AGGTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAAGTTTT
65 A-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATT-AAA-TTTT
* * ** *
18581420 CAAAAAAAT-TTTTCGGGGAGAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTCAAAA
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA--TTTTCAAAA
*
18581484 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
64 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTT
* * * * *
18581537 CAAAAAAGGTTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAA
1 CAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAA
* **
18581602 AAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
63 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAA-TTTT
*
18581657 CCAAAAAAATATTTTTGGGG---TGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
1 -CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
* * * *
18581719 AGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTG
65 A-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATT-AAA-TTTT
* *
18581774 C-AAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAA
* * *
18581838 AAAGATTTTT-AGGAAAAGTTGAAAGTATCAGTTTTTCTTAAAGA-TAAATTTT
64 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA-ATTAAATTTT
*** ** *
18581890 C--AAAGGGA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAA
1 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC---AA
* *
18581952 CAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAGCTTTC
62 -AAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAA-ATTTT
*
18582009 CACAAAAAA-ATATTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 CA-AAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
18582051 TCTTGCACAA
Statistics
Matches: 858, Mismatches: 93, Indels: 73
0.84 0.09 0.07
Matches are distributed among these distances:
114 38 0.04
115 31 0.04
116 49 0.06
117 72 0.08
118 163 0.19
119 359 0.42
120 106 0.12
121 8 0.01
122 3 0.00
123 29 0.03
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (116 bp):
CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAATTTT
Found at i:18583538 original size:2 final size:2
Alignment explanation
Indices: 18583531--18583563 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18583521 TCTGGTAAGG
18583531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18583564 ACAATGTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18587950 original size:234 final size:234
Alignment explanation
Indices: 18587531--18588360 Score: 964
Period size: 242 Copynumber: 3.5 Consensus size: 234
18587521 ATTTGGTGGG
* ** *
18587531 AATTTTTTGGTGACATTTTTTATTTTAGGCGACATTATAATTTTGTTTCTAATTTAAAATTTTAT
1 AATTTTTT-GTGACATTTTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAATTTTAT
* **
18587596 CTATGATGAATTTTTTCTGATAAATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAACACT
65 CTATGATGAATTTTTTCTGATAGATTTTAGGTGACATTATTAATTTTTGTCACAAATTGAACACT
* * * * * * * * *
18587661 TTAATTAACTCTTAATGATATTACAATTTCATCATGTTAATTTATGGTATTATATGATGATAACA
130 TTAGTTAATTATTAATGATATTGCAATTTCATCACGTAAATATATGGTGTTATATGACGATAACA
* *
18587726 TAAATATCACAAACTTTTATCGCCAAATTTATTTTG-TGAA
195 TAAATGTCACAAACTTTTATCACCAAATTTA-TTTGATGAA
* *
18587766 AATTTTTTGTGACATTTTTTATTTTAGGTGACGTTATAATTTTGTCACCAATTTAAAATTTTATT
1 AATTTTTTGTGACATTTTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAATTTTATC
* * * * * *
18587831 TGTGATGAATTTTTTCTTATAGATTTTAGGTGACATTATTGATTTTTATCACAAATTGAATAGTT
66 TATGATGAATTTTTTCTGATAGATTTTAGGTGACATTATTAATTTTTGTCACAAATTGAACACTT
* *
18587896 TAGTTAATTATTAATGACATTGCAATTTCATCACGTAAATATATAGTGTTATATGACGATAACAT
131 TAGTTAATTATTAATGATATTGCAATTTCATCACGTAAATATATGGTGTTATATGACGATAACAT
* *
18587961 AAATGTGACAAACTTTTACCACCAAATTTATTTGATGAGCA
196 AAATGTCACAAACTTTTATCACCAAATTTATTTGATGA--A
* * * * * *
18588002 ATTTTTTTATGATTTTTTTATTTTTTATTTTAGGTGACATTATAGTTTTATCACCAATTTAAAGT
1 AATTTTTTGTGA------CATTTTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAAT
* * * * **
18588067 GTTATTTGTGA-GAATTTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTG
60 TTTATCTATGATGAA-TTTTTTCTGATAGATTTTAGGTGACATTATTAATTTTTGTCACAAATTG
* * * * * * *
18588131 AACACTTTAGTTAATTATGAATGATGTTGCAATTTCGTCACATCAATGTATGGTGTTATATGACA
124 AACACTTTAGTTAATTATTAATGATATTGCAATTTCATCACGTAAATATATGGTGTTATATGACG
* * *
18588196 ATAACATAAATGTCACAAATTTTTATCTCCAAATTTATTTGATGGGA
189 ATAACATAAATGTCACAAACTTTTATCACCAAATTTATTTGAT-GAA
** * *
18588243 AATGTTTTTGTGACATTTTTTTATTTTAGGTGATGTTAAAATTTTG-CAACCAATTTAAAGTTTT
1 AAT-TTTTTGTGACA-TTTTTTATTTTAGGTGACATTATAATTTTGTC-ACCAATTTAAAATTTT
** * *
18588307 ATCTATGACAAATGTTTTCTGATAGATTTTAGGTGACATTATGAATTTTTGTCA
63 ATCTATGATGAATTTTTTCTGATAGATTTTAGGTGACATTATTAATTTTTGTCA
18588361 TAGAACACTT
Statistics
Matches: 504, Mismatches: 76, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
233 4 0.01
234 190 0.38
235 8 0.02
236 13 0.03
237 83 0.16
238 2 0.00
241 6 0.01
242 197 0.39
243 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (234 bp):
AATTTTTTGTGACATTTTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAATTTTATC
TATGATGAATTTTTTCTGATAGATTTTAGGTGACATTATTAATTTTTGTCACAAATTGAACACTT
TAGTTAATTATTAATGATATTGCAATTTCATCACGTAAATATATGGTGTTATATGACGATAACAT
AAATGTCACAAACTTTTATCACCAAATTTATTTGATGAA
Found at i:18590813 original size:13 final size:14
Alignment explanation
Indices: 18590764--18590803 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
18590754 ATTTTAAAAT
18590764 TTTAAAAATTTTAA
1 TTTAAAAATTTTAA
18590778 TTTAAAAATTTTAA
1 TTTAAAAATTTTAA
18590792 TTTAAAAATTTT
1 TTTAAAAATTTT
18590804 GTTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAAAATTTTAA
Found at i:18590835 original size:18 final size:16
Alignment explanation
Indices: 18590806--18590854 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
18590796 AAAATTTTGT
*
18590806 TAAAAAATATTTTAAG
1 TAAAAAATATTTTAAA
18590822 TAAAAAATGAATTTTAAA
1 TAAAAAAT--ATTTTAAA
18590840 TAAAATAA-ATTTTAA
1 TAAAA-AATATTTTAA
18590855 CTACATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 15 0.52
18 12 0.41
19 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
TAAAAAATATTTTAAA
Found at i:18592777 original size:13 final size:13
Alignment explanation
Indices: 18592759--18592787 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18592749 GTTAGCTTTC
18592759 TATCATTACTTGA
1 TATCATTACTTGA
18592772 TATCATTACTTGA
1 TATCATTACTTGA
18592785 TAT
1 TAT
18592788 GAAGAGCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (13 bp):
TATCATTACTTGA
Found at i:18600774 original size:20 final size:20
Alignment explanation
Indices: 18600737--18600775 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18600727 ATGTAACTTC
* **
18600737 TAAATCAAAACCTTAAACCT
1 TAAACCAAAACCCAAAACCT
18600757 TAAACCAAAACCCAAAACC
1 TAAACCAAAACCCAAAACC
18600776 CAAACCCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (20 bp):
TAAACCAAAACCCAAAACCT
Found at i:18600780 original size:6 final size:7
Alignment explanation
Indices: 18600744--18600795 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
18600734 TTCTAAATCA
*
18600744 AAACCTT
1 AAACCCT
*
18600751 AAACCTT
1 AAACCCT
*
18600758 AAA-CCA
1 AAACCCT
*
18600764 AAACCCA
1 AAACCCT
18600771 AAACCC-
1 AAACCCT
18600777 AAACCCT
1 AAACCCT
18600784 AAACCCT
1 AAACCCT
18600791 AAACC
1 AAACC
18600796 ACATCTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:18600789 original size:13 final size:13
Alignment explanation
Indices: 18600751--18600795 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
18600741 TCAAAACCTT
* *
18600751 AAACCTTAAACCA
1 AAACCCTAAACCC
*
18600764 AAACCCAAAACCC
1 AAACCCTAAACCC
18600777 AAACCCTAAACCC
1 AAACCCTAAACCC
18600790 TAAACC
1 -AAACC
18600796 ACATCTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:18601118 original size:26 final size:26
Alignment explanation
Indices: 18601089--18601138 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18601079 AAACCATAAC
*
18601089 CCAAACTAACCTCAAACCCTAAAATT
1 CCAAACTAACCCCAAACCCTAAAATT
*
18601115 CCAATCTAACCCCAAACCCTAAAA
1 CCAAACTAACCCCAAACCCTAAAA
18601139 ACCAACCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (26 bp):
CCAAACTAACCCCAAACCCTAAAATT
Found at i:18603263 original size:20 final size:18
Alignment explanation
Indices: 18603238--18603275 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
18603228 TTTTGCATGA
18603238 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
18603258 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
18603276 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:18603344 original size:23 final size:22
Alignment explanation
Indices: 18603287--18603348 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
18603277 TGCCTAATAT
* *
18603287 ATTTGTTTGCATGATTA-ATAT
1 ATTTGATTGCATGATTATATAA
*
18603308 ATTT-ATTTGTATGATTATATTAA
1 ATTTGA-TTGCATGATTATA-TAA
18603331 ATTTGATTGCATGATTAT
1 ATTTGATTGCATGATTAT
18603349 TAATATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
23 17 0.52
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (22 bp):
ATTTGATTGCATGATTATATAA
Found at i:18603363 original size:24 final size:24
Alignment explanation
Indices: 18603300--18603396 Score: 106
Period size: 24 Copynumber: 4.1 Consensus size: 24
18603290 TGTTTGCATG
* *
18603300 ATTAATATATTTATTTGTATGATT
1 ATTAATATATTTAATTGCATGATT
* * *
18603324 A-TATTAAATTTGATTGCATGATT
1 ATTAATATATTTAATTGCATGATT
* *
18603347 ATTAATATATTTAATTGCTTAATT
1 ATTAATATATTTAATTGCATGATT
* *
18603371 ATTAATATATTTATTTGCATGGTT
1 ATTAATATATTTAATTGCATGATT
18603395 AT
1 AT
18603397 ATATTTAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 18 0.31
24 40 0.69
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTAATATATTTAATTGCATGATT
Found at i:18603411 original size:20 final size:20
Alignment explanation
Indices: 18603375--18603416 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18603365 TTAATTATTA
* *
18603375 ATATATTTATTTGCATGGTT
1 ATATATTTAATTACATGGTT
*
18603395 ATATATTTAATTACATGTTT
1 ATATATTTAATTACATGGTT
18603415 AT
1 AT
18603417 TTGCATGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
ATATATTTAATTACATGGTT
Found at i:18603497 original size:20 final size:23
Alignment explanation
Indices: 18603446--18603497 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 23
18603436 GCATATTTTA
* *
18603446 CATGGTTTATATATTATTATTTG
1 CATGATTTATATATTATTAATTG
18603469 CATGA-TTATATA-T-TTAATTG
1 CATGATTTATATATTATTAATTG
18603489 CAT-ATTTAT
1 CATGATTTAT
18603498 TTGCATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 1 0.04
22 7 0.27
23 4 0.15
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (23 bp):
CATGATTTATATATTATTAATTG
Found at i:18603515 original size:55 final size:55
Alignment explanation
Indices: 18603413--18603595 Score: 220
Period size: 55 Copynumber: 3.5 Consensus size: 55
18603403 AATTACATGT
*
18603413 TTATTTGCATGA-T-TAT-TTTAATTGCATA--T-TTTACATGGTTTATATATTA
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTA
*
18603462 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTT
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTA
* * * * * * *
18603517 TTATTTACTTGATTATATATTTAATTGCATGTTTAATTGCAT-ATTT-TACATTG
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTA
*
18603570 TTAATTGCATGATTATATATTTAATT
1 TTATTTGCATGATTATATATTTAATT
18603596 ATGTAATTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 12 0.10
50 1 0.01
51 3 0.03
52 12 0.10
53 28 0.24
54 4 0.03
55 56 0.48
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (55 bp):
TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTATATATTA
Found at i:18603701 original size:24 final size:23
Alignment explanation
Indices: 18603674--18603726 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
18603664 ATTTATTTAT
*
18603674 TATTATTAG-TATTGCATGATATGA
1 TATTATT-GTTATTGCATGAT-TAA
*
18603698 TATTAATGTTATTGCATGATTAA
1 TATTATTGTTATTGCATGATTAA
18603721 TATTAT
1 TATTAT
18603727 ATTTGAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (23 bp):
TATTATTGTTATTGCATGATTAA
Found at i:18606880 original size:20 final size:21
Alignment explanation
Indices: 18606834--18606880 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
18606824 ATGGCTACTT
*
18606834 ACAAAGTTAAGGACATGGTAG
1 ACAAAGTTAAGGACATGGAAG
*
18606855 AAAAAGTTGAA-GA-ATGGAAG
1 ACAAAGTT-AAGGACATGGAAG
18606875 ACAAAG
1 ACAAAG
18606881 GTGCCACCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 11 0.50
21 9 0.41
22 2 0.09
ACGTcount: A:0.51, C:0.06, G:0.28, T:0.15
Consensus pattern (21 bp):
ACAAAGTTAAGGACATGGAAG
Found at i:18609816 original size:20 final size:20
Alignment explanation
Indices: 18609787--18609824 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18609777 AAATAATGTG
18609787 AAAAAAAAAG-CAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
18609806 AAAACAAAAAGCCAAAAAA
1 AAAA-AAAAAGCCAAAAAA
18609825 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.82, C:0.13, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:18611032 original size:22 final size:21
Alignment explanation
Indices: 18610981--18611033 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
18610971 AAATCTTTGG
*
18610981 TTCATGCATTCATTGTATGCA
1 TTCATGCATTCATCGTATGCA
* *
18611002 TACATTGCATTCATCGTATTCA
1 TTCA-TGCATTCATCGTATGCA
18611024 TCTCATGCAT
1 T-TCATGCAT
18611034 CATGCATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.81
23 2 0.08
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (21 bp):
TTCATGCATTCATCGTATGCA
Found at i:18611353 original size:42 final size:42
Alignment explanation
Indices: 18611307--18611520 Score: 270
Period size: 42 Copynumber: 5.1 Consensus size: 42
18611297 ATGATCTCAC
* *
18611307 TTTATTTTCCAAAAGTTTCAAAGTCTCAGTTGT-GAGGAGCAT
1 TTTATTTT-CAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
* * *
18611349 TTTATTTTTC-AAAGTTTTAAAGCCTTAGTTGTGGGGGAGTAT
1 TTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
* *
18611391 TTTATTTTTCAAAAGTTCCAAAGCCTCAGTTATGGGGGAGCAT
1 TTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
* * * *
18611434 ATTATTTTCAAAATTTTCAAAGCCTTAATTGTGGGGGAGCAT
1 TTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
* *
18611476 TTTGTTTTCAAAAGTTTCAAAGCCTCATTTGTGGGGGAGCAT
1 TTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
18611518 TTT
1 TTT
18611521 TCAAAAAAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 19 0.13
42 95 0.64
43 34 0.23
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (42 bp):
TTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCAT
Found at i:18611406 original size:84 final size:85
Alignment explanation
Indices: 18611307--18611520 Score: 299
Period size: 84 Copynumber: 2.5 Consensus size: 85
18611297 ATGATCTCAC
* * * *
18611307 TTTATTTTCCAAAAGTTTCAAAGTCTCAGTTGT-GAGGAGCATTTTATTTTTCAAAGTTTT-AAA
1 TTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTA-TTTTCAAAATTTTCAAA
* *
18611370 GCCTTAGTTGTGGGGGAGTAT
65 GCCTTAATTGTGGGGGAGCAT
* * *
18611391 TTTATTTTTCAAAAGTTCCAAAGCCTCAGTTATGGGGGAGCATATTATTTTCAAAATTTTCAAAG
1 TTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTCAAAATTTTCAAAG
18611456 CCTTAATTGTGGGGGAGCAT
66 CCTTAATTGTGGGGGAGCAT
* *
18611476 TTT-GTTTTCAAAAGTTTCAAAGCCTCATTTGTGGGGGAGCATTTT
1 TTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTT
18611521 TCAAAAAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 78 0.68
85 36 0.32
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (85 bp):
TTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTCAAAATTTTCAAAG
CCTTAATTGTGGGGGAGCAT
Found at i:18612584 original size:24 final size:24
Alignment explanation
Indices: 18612470--18612585 Score: 107
Period size: 24 Copynumber: 5.0 Consensus size: 24
18612460 TTCATTTGCC
*
18612470 TAATATATTTGTTTGCATG---AT
1 TAATATATTTATTTGCATGATTAT
*
18612491 TAATATATTTATTTGTATGATTA-
1 TAATATATTTATTTGCATGATTAT
* ** *
18612514 TATTGA-ATTTGGTTACATGATTAT
1 TAAT-ATATTTATTTGCATGATTAT
* * *
18612538 TAATATATTTAATTGCTTAATTAT
1 TAATATATTTATTTGCATGATTAT
18612562 TAATATATTTATTTGCATGATTAT
1 TAATATATTTATTTGCATGATTAT
18612586 ATATTTAATT
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
21 17 0.23
23 17 0.23
24 39 0.53
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:18612589 original size:20 final size:20
Alignment explanation
Indices: 18612472--18612782 Score: 96
Period size: 20 Copynumber: 15.6 Consensus size: 20
18612462 CATTTGCCTA
*
18612472 ATATATTTGTTTGCATGATT
1 ATATATTTATTTGCATGATT
*
18612492 AATATATTTATTTGTATGATT
1 -ATATATTTATTTGCATGATT
** *
18612513 ATATTGAATTTGGTTACATGATTATT
1 ATA-T--ATTTATTTGCATG---ATT
* *
18612539 AATATATTTAATTGCTTAATTATT
1 -ATATATTTATTTGC---ATGATT
18612563 AATATATTTATTTGCATGA-T
1 -ATATATTTATTTGCATGATT
18612583 -TATA--TATTT--A--ATT
1 ATATATTTATTTGCATGATT
*
18612596 ATATGTTTATTTGCATGA-T
1 ATATATTTATTTGCATGATT
18612615 -TATA--TATTT--A--ATT
1 ATATATTTATTTGCATGATT
*
18612628 ATATGTTTATTTGCATGATT
1 ATATATTTATTTGCATGATT
* * *
18612648 ATTTAATTGCATATTTTGAATGGTTT
1 ATAT-ATT---TA-TTTGCAT-GATT
18612674 ATATATTATTATTTGCATGATT
1 ATATA-T-TTATTTGCATGATT
*
18612696 ATATATTTAATTGC------
1 ATATATTTATTTGCATGATT
*
18612710 --ATATTTATTTGCATGGTTT
1 ATATATTTATTTGCAT-GATT
18612729 ATATATTTTTATTTGCATGATT
1 ATATA--TTTATTTGCATGATT
*
18612751 ATATATTTAATTGCATGATT
1 ATATATTTATTTGCATGATT
18612771 AT-TAATTTATTT
1 ATAT-ATTTATTT
18612783 ATTTGTGTGT
Statistics
Matches: 217, Mismatches: 27, Indels: 93
0.64 0.08 0.28
Matches are distributed among these distances:
12 13 0.06
13 2 0.01
14 8 0.04
16 20 0.09
18 9 0.04
19 2 0.01
20 41 0.19
21 28 0.13
22 16 0.07
23 26 0.12
24 28 0.13
25 7 0.03
26 11 0.05
27 6 0.03
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (20 bp):
ATATATTTATTTGCATGATT
Found at i:18612606 original size:44 final size:45
Alignment explanation
Indices: 18612470--18612606 Score: 109
Period size: 44 Copynumber: 3.0 Consensus size: 45
18612460 TTCATTTGCC
* * *
18612470 TAATATATTTGTTTGCATGATTAATATATTTATTTGTATGATTATAT
1 TAATATATTTATTTGCATGATTAATATATTTAATTATATG-TT-TAT
* ** ** * * **
18612517 TGAATTTGGTTACATG-ATTATTAATATATTTAATTGCT-TAATTAT
1 T-AATATATTTATTTGCATGATTAATATATTTAATT-ATATGTTTAT
18612562 TAATATATTTATTTGCATGATT-ATATATTTAATTATATGTTTAT
1 TAATATATTTATTTGCATGATTAATATATTTAATTATATGTTTAT
18612606 T
1 T
18612607 TGCATGATTA
Statistics
Matches: 66, Mismatches: 20, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
43 1 0.02
44 27 0.41
45 9 0.14
46 1 0.02
47 19 0.29
48 9 0.14
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (45 bp):
TAATATATTTATTTGCATGATTAATATATTTAATTATATGTTTAT
Found at i:18612610 original size:32 final size:32
Alignment explanation
Indices: 18612564--18612649 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
18612554 TTAATTATTA
*
18612564 ATATATTTATTTGCATGATTATATATTTAATT
1 ATATGTTTATTTGCATGATTATATATTTAATT
18612596 ATATGTTTATTTGCATGATTATATATTTAATT
1 ATATGTTTATTTGCATGATTATATATTTAATT
18612628 ATATGTTTATTTGCATGATTAT
1 ATATGTTTATTTGCATGATTAT
18612650 TTAATTGCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (32 bp):
ATATGTTTATTTGCATGATTATATATTTAATT
Found at i:18612773 original size:55 final size:54
Alignment explanation
Indices: 18612627--18612773 Score: 207
Period size: 55 Copynumber: 2.8 Consensus size: 54
18612617 TATATTTAAT
*
18612627 TATATGTTTATTTGCATG---AT-TATTTAATTGCATA-T-TTTGAATGGTTTA
1 TATATTTTTATTTGCATGATTATATATTTAATTGCATATTATTTGAATGGTTTA
* *
18612675 TATATTATTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGTTTA
1 TATATTTTTATTTGCATGATTATATATTTAATTGCATA-TTATTTGAATGGTTTA
18612730 TATATTTTTATTTGCATGATTATATATTTAATTGCATGATTATT
1 TATATTTTTATTTGCATGATTATATATTTAATTGCAT-ATTATT
18612774 AATTTATTTA
Statistics
Matches: 87, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
48 16 0.18
51 2 0.02
52 14 0.16
54 1 0.01
55 53 0.61
56 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.55
Consensus pattern (54 bp):
TATATTTTTATTTGCATGATTATATATTTAATTGCATATTATTTGAATGGTTTA
Found at i:18615585 original size:12 final size:12
Alignment explanation
Indices: 18615568--18615597 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
18615558 ATTTTATTAA
18615568 ATTTTATTTTAT
1 ATTTTATTTTAT
18615580 ATTTTATTTTAT
1 ATTTTATTTTAT
18615592 AGTTTT
1 A-TTTT
18615598 CTTCTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
ATTTTATTTTAT
Found at i:18615653 original size:4 final size:4
Alignment explanation
Indices: 18615640--18615682 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
18615630 AAAATATTTT
*
18615640 TAAA -AAA TAAA TAAA TAACA TAAA -ACA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA
18615683 AACCATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 5 0.15
4 25 0.74
5 4 0.12
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:18615675 original size:28 final size:27
Alignment explanation
Indices: 18615640--18615692 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
18615630 AAAATATTTT
18615640 TAAAAAATAAATAAATAA-CATAAAACA
1 TAAAAAATAAATAAA-AACCATAAAACA
18615667 TAAATAAATAAATAAAAACCATAAAA
1 TAAA-AAATAAATAAAAACCATAAAA
18615693 ACAAATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.19
Consensus pattern (27 bp):
TAAAAAATAAATAAAAACCATAAAACA
Found at i:18615685 original size:20 final size:21
Alignment explanation
Indices: 18615640--18615691 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
18615630 AAAATATTTT
18615640 TAAAAA-ATAAATAAATAACA
1 TAAAAACATAAATAAATAACA
18615660 T-AAAACATAAATAAATAA-A
1 TAAAAACATAAATAAATAACA
18615679 TAAAAACCATAAA
1 TAAAAA-CATAAA
18615692 AACAAATACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 17 0.59
21 6 0.21
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAAACATAAATAAATAACA
Found at i:18619826 original size:22 final size:22
Alignment explanation
Indices: 18619796--18619848 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
18619786 ATTGAAAGGC
18619796 TGATGTGGCATTGTTAAATGAAA
1 TGAT-TGGCATTGTTAAATGAAA
* *
18619819 TGATTGGCATTTTTAAATGAGA
1 TGATTGGCATTGTTAAATGAAA
18619841 TGATTGGC
1 TGATTGGC
18619849 TAAATGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (22 bp):
TGATTGGCATTGTTAAATGAAA
Found at i:18620074 original size:22 final size:22
Alignment explanation
Indices: 18620017--18620075 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
18620007 TACTCTCCAA
* *
18620017 ATTTTATTAAAGTTTTATTTTAT
1 ATTTT-TTAAAATTTTATTTAAT
* *
18620040 ATTTTTTATAATTTTCTTTAAT
1 ATTTTTTAAAATTTTATTTAAT
18620062 -TTTTCTTAAAATTT
1 ATTTT-TTAAAATTT
18620076 AATCATGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 5 0.17
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTTTTAAAATTTTATTTAAT
Found at i:18620129 original size:25 final size:25
Alignment explanation
Indices: 18620098--18620169 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
18620088 TACTTTTAAA
18620098 AAATAAATAAATAACAAAAAAAATT
1 AAATAAATAAATAACAAAAAAAATT
*
18620123 AAATAAATAAA-ATCCATAAAAACAATT
1 AAATAAATAAATA-ACA-AAAAA-AATT
18620150 -AA-AAATAAAT-ACAAAAAAAA
1 AAATAAATAAATAACAAAAAAAA
18620170 AGAACTAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.05
23 5 0.12
24 3 0.07
25 20 0.49
26 7 0.17
27 4 0.10
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (25 bp):
AAATAAATAAATAACAAAAAAAATT
Found at i:18627130 original size:390 final size:389
Alignment explanation
Indices: 18626404--18627174 Score: 1272
Period size: 390 Copynumber: 2.0 Consensus size: 389
18626394 CCGGGATAAA
* *
18626404 AGTATGCCCCAAAAAATGGTGCTTATTGTGATTATGCACCTTGAGATTCTAGTATGCGGACTTTT
1 AGTATGCCCCAAAAAATGGTGCTTATTGTGATTATGCACCTTGAGATCCTAGTATGCGGACTTCT
**
18626469 TCCACTTTTTTCAAAATCTTTAGCATTTTCATTATCTGTGCCATATCTTTTCTTATTTCATCTTG
66 TCCACTTTTTTCAAAATCTTTAGCATTTTCATTATCTACGCCATATCTTTTCTTATTTCATCTTG
* * * *
18626534 AGCCTTTTCCATTTTCTCAATTTGGCTATGTTGTTCTGGCTCGATGAGTGACAAATAGATTACCT
131 AGCCTTCTCCATTTTCTCAATTTGGCTATGTTGTTCTAGCTCGATGAATGACAAATAAATTACCT
* * * ** *
18626599 TAATGATCATGCTCTTGAACCTTTATTGTTACATTTATCAAATTAAGATGATGTCTAACTATGAT
196 TAACGATCATGCTCTTAAACCTTTACTACTACAATTATCAAATTAAGATGATGTCTAACTATGAT
* * *
18626664 TTTATGCAAATAGAAAAGATTTATATAAGTGATTGGATGCATTGAATGCTATCACATAATAAGAA
261 TTTATGCAAACAGAAAAGACTTATATAAGTGATTGGATGCATTGAATACTATCACATAATAAGAA
18626729 AGAGACAAAAATCTTTAATTAAAAAAATTATTCAAAATATCCAAACATTTCTAAAAATCCTATAT
326 AGAGACAAAAATCTTTAATT-AAAAAATTATTCAAAATATCCAAACATTTCTAAAAATCCTATAT
* * * *
18626794 AGTATGTCCCAAAAAGTGGTGCTTATTGTGATTATGCACCTTGAGATCCTAGTATGTGGGCTTCT
1 AGTATGCCCCAAAAAATGGTGCTTATTGTGATTATGCACCTTGAGATCCTAGTATGCGGACTTCT
* *
18626859 TCCACTTTTTTCAAAATTTTTAGTATTTTCATTATCTACGCCATATCTTTTCTTATTTCATCTTG
66 TCCACTTTTTTCAAAATCTTTAGCATTTTCATTATCTACGCCATATCTTTTCTTATTTCATCTTG
*
18626924 AGCCTTCTCCATTTTCTCAATTTGGCTATGTTGTTCTAGCTCTATGAATGACAAATAAATTACCT
131 AGCCTTCTCCATTTTCTCAATTTGGCTATGTTGTTCTAGCTCGATGAATGACAAATAAATTACCT
* * * *
18626989 TGACGATCATGCTTTTAAACCTTTACTACTACAATTATCGAATTAGGATGATGTCTAACTATGAT
196 TAACGATCATGCTCTTAAACCTTTACTACTACAATTATCAAATTAAGATGATGTCTAACTATGAT
*
18627054 TTTATGCAAACAGAAAAGACTTATATGAGTGATTGGATGCATTGAATACTATCACATAATAAGAA
261 TTTATGCAAACAGAAAAGACTTATATAAGTGATTGGATGCATTGAATACTATCACATAATAAGAA
18627119 AGAGACAAAAATCTTTAATTAAAAAATTATTCAAAATATCCAAACATTTCTAAAAA
326 AGAGACAAAAATCTTTAATTAAAAAATTATTCAAAATATCCAAACATTTCTAAAAA
18627175 AATCCTAAAA
Statistics
Matches: 352, Mismatches: 29, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
389 36 0.10
390 316 0.90
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (389 bp):
AGTATGCCCCAAAAAATGGTGCTTATTGTGATTATGCACCTTGAGATCCTAGTATGCGGACTTCT
TCCACTTTTTTCAAAATCTTTAGCATTTTCATTATCTACGCCATATCTTTTCTTATTTCATCTTG
AGCCTTCTCCATTTTCTCAATTTGGCTATGTTGTTCTAGCTCGATGAATGACAAATAAATTACCT
TAACGATCATGCTCTTAAACCTTTACTACTACAATTATCAAATTAAGATGATGTCTAACTATGAT
TTTATGCAAACAGAAAAGACTTATATAAGTGATTGGATGCATTGAATACTATCACATAATAAGAA
AGAGACAAAAATCTTTAATTAAAAAATTATTCAAAATATCCAAACATTTCTAAAAATCCTATAT
Found at i:18630170 original size:20 final size:19
Alignment explanation
Indices: 18630155--18630213 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
18630145 TTTAAAAAAT
18630155 AAATAAATAACATAAAACAA
1 AAATAAATAA-ATAAAACAA
*
18630175 AAATAAATAAATAAAACCA
1 AAATAAATAAATAAAACAA
* *
18630194 TAA-AAACAAATAAAAACAA
1 AAATAAATAAAT-AAAACAA
18630213 A
1 A
18630214 TACCAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 7 0.21
19 16 0.48
20 10 0.30
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAATAAATAAAACAA
Found at i:18630214 original size:28 final size:27
Alignment explanation
Indices: 18630148--18630215 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
18630138 AAAATGCTTT
18630148 AAAAAATAAATAAATAACATAAAACAA
1 AAAAAATAAATAAATAACATAAAACAA
*
18630175 AAATAAATAAATAAA-ACCATAAAAACAA
1 AAA-AAATAAATAAATAACAT-AAAACAA
*
18630203 ATAAAAACAAATA
1 A-AAAAATAAATA
18630216 CCAAATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 7 0.19
28 27 0.75
29 2 0.06
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (27 bp):
AAAAAATAAATAAATAACATAAAACAA
Found at i:18631273 original size:23 final size:23
Alignment explanation
Indices: 18631247--18631291 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18631237 CTAACCTGAT
18631247 AATAAAAGAAAT-AAAGATAAATC
1 AATAAAA-AAATCAAAGATAAATC
*
18631270 AATAAAAAAATCCAAGATAAAT
1 AATAAAAAAATCAAAGATAAAT
18631292 AAAACTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (23 bp):
AATAAAAAAATCAAAGATAAATC
Found at i:18637641 original size:16 final size:16
Alignment explanation
Indices: 18637622--18637652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18637612 TTGGAAAAAG
18637622 AAAACAAAATTTTGAA
1 AAAACAAAATTTTGAA
*
18637638 AAAAGAAAATTTTGA
1 AAAACAAAATTTTGA
18637653 TTTGAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAACAAAATTTTGAA
Found at i:18642085 original size:16 final size:16
Alignment explanation
Indices: 18642066--18642100 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18642056 TTTCATAACA
*
18642066 TATCTTTAAGAATTGG
1 TATCTTTAACAATTGG
*
18642082 TATCTTTAACATTTGG
1 TATCTTTAACAATTGG
18642098 TAT
1 TAT
18642101 GAGCTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (16 bp):
TATCTTTAACAATTGG
Found at i:18642492 original size:2 final size:2
Alignment explanation
Indices: 18642487--18642517 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18642477 TACATATATA
18642487 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
18642518 TTATGCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:18644101 original size:33 final size:33
Alignment explanation
Indices: 18644050--18644115 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
18644040 TGTACTTAAA
*
18644050 GGGGATTAGAGAGCAAGAGGTGTGGTATCCTTTT
1 GGGGATTAGAGAGCAAGAGGTGAGGTAT-CTTTT
*
18644084 GGGG-TTAGAGAGTAAGAGGTGAGGTATCTTTT
1 GGGGATTAGAGAGCAAGAGGTGAGGTATCTTTT
18644116 CGAGAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.17
33 21 0.70
34 4 0.13
ACGTcount: A:0.24, C:0.06, G:0.39, T:0.30
Consensus pattern (33 bp):
GGGGATTAGAGAGCAAGAGGTGAGGTATCTTTT
Found at i:18651657 original size:367 final size:367
Alignment explanation
Indices: 18650979--18651713 Score: 1389
Period size: 367 Copynumber: 2.0 Consensus size: 367
18650969 TTCATTGATC
18650979 TCCAAGGTTAGATGTTATTTGGTTCATCTTTAATTATCTGTGTTCTTGCTTTGTTCTTCAAATTT
1 TCCAAGGTTAGATGTTATTTGGTTCATCTTTAATTATCTGTGTTCTTGCTTTGTTCTTCAAATTT
* *
18651044 TGAATGTTTTTTATTTAATTTTTACGAATAATATGTTGTTTTGGTAGCTTGTTTGGTAATATTTA
66 TGAATGTTTTTTATTTAATCTTTACGAATAAAATGTTGTTTTGGTAGCTTGTTTGGTAATATTTA
*
18651109 TGTTTGTTTGCATGAATTTTCAAAAGGTAAAAAAAAATGGTGGAGCATATTTTAAGAATTTAAAA
131 TGTTTGTTTGCATGAATTTTCAAAAGATAAAAAAAAATGGTGGAGCATATTTTAAGAATTTAAAA
18651174 ACTTTCTTGTTTGATCCATTTGCATCACATTTTCACATGCACATCTAGTTTGCAATATAGTTTTT
196 ACTTTCTTGTTTGATCCATTTGCATCACATTTTCACATGCACATCTAGTTTGCAATATAGTTTTT
18651239 AAAATGCCATATTTATAATTAGTTTATTCCTTAGTCATGCATTTTTCATGCATCAATATTTACAT
261 AAAATGCCATATTTATAATTAGTTTATTCCTTAGTCATGCATTTTTCATGCATCAATATTTACAT
18651304 TATTACGAATAGCATTCTTGTAATTTATTTTTATCACATGTA
326 TATTACGAATAGCATTCTTGTAATTTATTTTTATCACATGTA
*
18651346 TCCATGGTTAGATGTTATTTGGTTCATCTTTAATTATCTGTGTTCTTGCTTTGTTCTTCAAATTT
1 TCCAAGGTTAGATGTTATTTGGTTCATCTTTAATTATCTGTGTTCTTGCTTTGTTCTTCAAATTT
* * *
18651411 TGAATGTTTTTTATTTAATCTTTATGAATAAAATGTTGTTTTGGTAGCTTGTTTGGTAGTTTTTA
66 TGAATGTTTTTTATTTAATCTTTACGAATAAAATGTTGTTTTGGTAGCTTGTTTGGTAATATTTA
*
18651476 TGTTTGTTTGCATGAATTTTCAAAAGATAAAAAAAAATGGTGGAGCATGTTTTAAGAATTTAAAA
131 TGTTTGTTTGCATGAATTTTCAAAAGATAAAAAAAAATGGTGGAGCATATTTTAAGAATTTAAAA
*
18651541 ACTTTCTTGTTTGATTCATTTGCATCACATTTTCACATGCACATCTAGTTTGCAATATAGTTTTT
196 ACTTTCTTGTTTGATCCATTTGCATCACATTTTCACATGCACATCTAGTTTGCAATATAGTTTTT
18651606 AAAATGCCATATTTATAATTAGTTTATTCCTTAGTCATGCATTTTTCATGCATCAATATTTACAT
261 AAAATGCCATATTTATAATTAGTTTATTCCTTAGTCATGCATTTTTCATGCATCAATATTTACAT
18651671 TATTACGAATAGCATTCTTGTAATTTATTTTTATCACATGTA
326 TATTACGAATAGCATTCTTGTAATTTATTTTTATCACATGTA
18651713 T
1 T
18651714 AATTCCTTGA
Statistics
Matches: 359, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
367 359 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (367 bp):
TCCAAGGTTAGATGTTATTTGGTTCATCTTTAATTATCTGTGTTCTTGCTTTGTTCTTCAAATTT
TGAATGTTTTTTATTTAATCTTTACGAATAAAATGTTGTTTTGGTAGCTTGTTTGGTAATATTTA
TGTTTGTTTGCATGAATTTTCAAAAGATAAAAAAAAATGGTGGAGCATATTTTAAGAATTTAAAA
ACTTTCTTGTTTGATCCATTTGCATCACATTTTCACATGCACATCTAGTTTGCAATATAGTTTTT
AAAATGCCATATTTATAATTAGTTTATTCCTTAGTCATGCATTTTTCATGCATCAATATTTACAT
TATTACGAATAGCATTCTTGTAATTTATTTTTATCACATGTA
Done.