Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 63 of 117
Found at i:13829106 original size:19 final size:19
Alignment explanation
Indices: 13829082--13829119 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13829072 GGAATCCTAC
*
13829082 CCTATTAATTTTGGTAATA
1 CCTATTAATTTTGATAATA
13829101 CCTATTAATTTTGATAATA
1 CCTATTAATTTTGATAATA
13829120 TCCATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
CCTATTAATTTTGATAATA
Found at i:13829711 original size:26 final size:25
Alignment explanation
Indices: 13829665--13829716 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
13829655 ATTTGTTTAT
* *
13829665 TATTCATAAATAGTTTTATTTATATA
1 TATTCATAAACAGTTTCATTTA-ATA
13829691 TATTCATAAACA-TATTCATTTAATA
1 TATTCATAAACAGT-TTCATTTAATA
13829716 T
1 T
13829717 TCACAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
TATTCATAAACAGTTTCATTTAATA
Found at i:13831118 original size:19 final size:18
Alignment explanation
Indices: 13831090--13831128 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13831080 ACGAAATTCT
* *
13831090 ATTAATTTAATTTTATAA
1 ATTAATTTAAATTTAAAA
13831108 ATTATATTTAAATTTAAAA
1 ATTA-ATTTAAATTTAAAA
13831127 AT
1 AT
13831129 ATTGAGCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATTTAAATTTAAAA
Found at i:13834384 original size:18 final size:18
Alignment explanation
Indices: 13834361--13834418 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
13834351 AAATCTGTTG
* *
13834361 ATGCTAGCTATGTCGGTA
1 ATGCTAACTATGTCGATA
13834379 ATGCTAACTATGTCGATA
1 ATGCTAACTATGTCGATA
**
13834397 ATGCTATTTA-GTCGATA
1 ATGCTAACTATGTCGATA
13834414 ATGCT
1 ATGCT
13834419 TCAAATTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (18 bp):
ATGCTAACTATGTCGATA
Found at i:13837862 original size:59 final size:60
Alignment explanation
Indices: 13837799--13837943 Score: 181
Period size: 59 Copynumber: 2.5 Consensus size: 60
13837789 AAATATATAA
* *
13837799 CCAAAAACCAAACAAATTTCATCAAATATAA-AACCAACAAAAACTTAACAAATTGGT-AT
1 CCAAAAACCAAACAAATTTCAACAAATA-AATAACCAACAAAAACTCAACAAATTGGTAAT
* * ** *
13837858 CCAAAACCCAAATAAATTTCAACAAATAAATAAGTAACAAAAACTCAACACATTGGTAAT
1 CCAAAAACCAAACAAATTTCAACAAATAAATAACCAACAAAAACTCAACAAATTGGTAAT
13837918 -C-AAAACCTAAACAAATTTCAACAAAT
1 CCAAAAACC-AAACAAATTTCAACAAAT
13837944 TTATAAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 7 0.09
59 65 0.88
60 2 0.03
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.20
Consensus pattern (60 bp):
CCAAAAACCAAACAAATTTCAACAAATAAATAACCAACAAAAACTCAACAAATTGGTAAT
Found at i:13841528 original size:13 final size:12
Alignment explanation
Indices: 13841497--13841521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13841487 ATCAGTTTGG
13841497 AGTTTTTATTAA
1 AGTTTTTATTAA
13841509 AGTTTTTATTAA
1 AGTTTTTATTAA
13841521 A
1 A
13841522 TCATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
AGTTTTTATTAA
Found at i:13842260 original size:65 final size:65
Alignment explanation
Indices: 13842084--13842281 Score: 229
Period size: 65 Copynumber: 3.0 Consensus size: 65
13842074 CTTACGACAT
* * * * * *
13842084 TTTGTTGAAAATAAATGCCTT-AATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGC
1 TTTGTTTAATATAAATGCCTTAAAT-GAGTGAATATAAGAATTGAAAAAAACTTTCAATTATGGC
13842148 A
65 A
* * * * **
13842149 TTTGTTTAATATCAATGCCTTAATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTG
1 TTTGTTTAATATAAATGCCTTAAATGAGTGAATATAAGAATTGAAAAAAACTTTCAATTATGGCA
*
13842214 TTTGTTTAATATAAATGCCTTAAATGAGTGAATATATA-AATTGAAAAAAAAACTTTCATTTATG
1 TTTGTTTAATATAAATGCCTTAAATGAGTGAATATA-AGAATTG--AAAAAAACTTTCAATTATG
13842278 GCA
63 GCA
13842281 T
1 T
13842282 GCAATTGATA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
65 89 0.80
66 3 0.03
67 19 0.17
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (65 bp):
TTTGTTTAATATAAATGCCTTAAATGAGTGAATATAAGAATTGAAAAAAACTTTCAATTATGGCA
Found at i:13842511 original size:65 final size:65
Alignment explanation
Indices: 13842407--13842583 Score: 232
Period size: 65 Copynumber: 2.7 Consensus size: 65
13842397 CTTACGACAT
* * * *
13842407 TTTGTTGAAAATAAATGCCTTAATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCA
1 TTTGTTTAATATAAATGCCTTAATTGAGTGAATATAAGAAATGAAAAGAACTTTCAAGTATGGCA
* * * *
13842472 TTTGTTTAATATCAATGCCTTAATTGAGTGAATATAAG-AATGGAAAATAACTTTCAATTATGGT
1 TTTGTTTAATATAAATGCCTTAATTGAGTGAATATAAGAAAT-GAAAAGAACTTTCAAGTATGGC
*
13842536 G
65 A
*
13842537 TTTGTTTAATATAAATGCCTTAAATGAGTGAATATATA-AAATGAAAA
1 TTTGTTTAATATAAATGCCTTAATTGAGTGAATATA-AGAAATGAAAA
13842584 AAAAACTTTC
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
64 3 0.03
65 91 0.93
66 4 0.04
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (65 bp):
TTTGTTTAATATAAATGCCTTAATTGAGTGAATATAAGAAATGAAAAGAACTTTCAAGTATGGCA
Found at i:13842629 original size:323 final size:323
Alignment explanation
Indices: 13842041--13842690 Score: 1282
Period size: 323 Copynumber: 2.0 Consensus size: 323
13842031 GTTTAATTGC
13842041 ACATTATGCCATAATTGGCTTTTAAAAAAAATACTTACGACATTTTGTTGAAAATAAATGCCTTA
1 ACATTATGCCATAATTGGCTTTTAAAAAAAATACTTACGACATTTTGTTGAAAATAAATGCCTTA
13842106 ATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCATTTGTTTAATATCAATGCCTTA
66 ATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCATTTGTTTAATATCAATGCCTTA
13842171 ATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTGTTTGTTTAATATAAATGCCTTA
131 ATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTGTTTGTTTAATATAAATGCCTTA
*
13842236 AATGAGTGAATATATAAATTGAAAAAAAAACTTTCATTTATGGCATGCAATTGATATAAACTCCT
196 AATGAGTGAATATATAAAATGAAAAAAAAACTTTCATTTATGGCATGCAATTGATATAAACTCCT
13842301 TAATTAAGTGAATACTTTTACTCAATTATGGCATCTATGGGAAGAAATGCCATAATTGAACCA
261 TAATTAAGTGAATACTTTTACTCAATTATGGCATCTATGGGAAGAAATGCCATAATTGAACCA
13842364 ACATTATGCCATAATTGGCTTTTAAAAAAAATACTTACGACATTTTGTTGAAAATAAATGCCTTA
1 ACATTATGCCATAATTGGCTTTTAAAAAAAATACTTACGACATTTTGTTGAAAATAAATGCCTTA
13842429 ATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCATTTGTTTAATATCAATGCCTTA
66 ATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCATTTGTTTAATATCAATGCCTTA
13842494 ATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTGTTTGTTTAATATAAATGCCTTA
131 ATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTGTTTGTTTAATATAAATGCCTTA
13842559 AATGAGTGAATATATAAAATGAAAAAAAAACTTTCATTTATGGCATGCAATTGATATAAACTCCT
196 AATGAGTGAATATATAAAATGAAAAAAAAACTTTCATTTATGGCATGCAATTGATATAAACTCCT
*
13842624 TAATTAAGTGAATACTTTTACTCAATTATGGCATCTATGGGAAGAAATGCCATAATTGAGCCA
261 TAATTAAGTGAATACTTTTACTCAATTATGGCATCTATGGGAAGAAATGCCATAATTGAACCA
13842687 ACAT
1 ACAT
13842691 AAAAATTTAA
Statistics
Matches: 325, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
323 325 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (323 bp):
ACATTATGCCATAATTGGCTTTTAAAAAAAATACTTACGACATTTTGTTGAAAATAAATGCCTTA
ATAGAGTGAATATAAGAAATGAGAAGAACTTTCAAGTATGGCATTTGTTTAATATCAATGCCTTA
ATTGAGTGAATATAAGAATGGAAAATAACTTTCAATTATGGTGTTTGTTTAATATAAATGCCTTA
AATGAGTGAATATATAAAATGAAAAAAAAACTTTCATTTATGGCATGCAATTGATATAAACTCCT
TAATTAAGTGAATACTTTTACTCAATTATGGCATCTATGGGAAGAAATGCCATAATTGAACCA
Found at i:13864594 original size:34 final size:33
Alignment explanation
Indices: 13864556--13864644 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 33
13864546 AGAAATGTTG
13864556 CTAATTTAGCAGCATTTGTATT-AGAAAAATGCCA
1 CTAATTTAG-AGCATTTGTATTGA-AAAAATGCCA
13864590 CTAATTTA-ATGACATTTGTATTGAAAAAATGCCA
1 CTAATTTAGA-G-CATTTGTATTGAAAAAATGCCA
13864624 CTAATTTAGTAGCATTTGTAT
1 CTAATTTAG-AGCATTTGTAT
13864645 CATAAAACAT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 45 0.90
35 2 0.04
36 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (33 bp):
CTAATTTAGAGCATTTGTATTGAAAAAATGCCA
Found at i:13866437 original size:161 final size:161
Alignment explanation
Indices: 13866067--13867122 Score: 1096
Period size: 161 Copynumber: 6.6 Consensus size: 161
13866057 CATTTTAGCC
* **
13866067 TTTCACACATATCAATCATG-G-AAACCAAATTCAATCATTTGGACAAGTTTAATATCATGTATT
1 TTTCACACATATCAA-C-TGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATT
* * * * * *
13866130 AAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAACTTTGTATTTTTGCCTTTTAA-CG-G
64 GAAGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCA
*
13866193 T---AAGTCCTAAACAGAGGTAAACAACAACTT
129 TAAAAAGTCCTAAACAGATGTAAACAACAACTT
* * *
13866223 TTTCACATATATCAATTGTGAAAACCAAGTTCAATCATTTAAAAAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
* * * * * * ***
13866288 AGCTATCCAAACTGTTAAAATAGAACAACAACAACAAATTTGTATTTTTTCCTTTTAACAACCCG
66 AGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCATA
* * * *
13866353 AAAATTCTTAAACAAAGGTAAACAACAACTT
131 AAAAGTCCTAAACAGATGTAAACAACAACTT
* * * *
13866384 TTTCACATATATCAACTGTGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
* * * * ** *
13866449 AGCCATCCAAATTGTTAAAATAGAATC-ATAAAAGTAAATTTGTATTTTTACCTTTTAACGGTAG
66 AGCTATCCAAACTGTTAAAATAGAA-CAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCA-
* * * * * *
13866513 T-AATAGTCCTAAATAAATATAAACGATAACTT
129 TAAAAAGTCCTAAACAGATGTAAACAACAACTT
* * ** *
13866545 TTTCACATATATCAACTAT-AAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTAA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
* * * *
13866609 AGCTATCCAAACTGTTAAAACAAAACAATAATATCAAATTTGCA-TTTTACCTTTTAATAGCATA
66 AGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCATA
* * *
13866673 AAAAGTCCTACACAGATGTAAA-AATTAGCTT
131 AAAAGTCCTAAACAGATGTAAACAA-CAACTT
* * * *
13866704 TTTCACACATATCAACTGTGGAAACCAAGTTCAATTA-TTATGACAAGTTTAATACCATGTATTG
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTA-AACAAGTTTAATATCATGTATTG
** * * * * * * *
13866768 AAGCTATGTAAACTATTAAGATAGAACAATAATAACAAATTTGAATGTTTGCCTTTTCATAGCAT
65 AAGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCAT
* * * * *
13866833 AAAAAGTCTTAAACATACGTAAACGATAACTT
130 AAAAAGTCCTAAACAGATGTAAACAACAACTT
* * *
13866865 TTTCACACATATCAACTGTGAAAACCAAGTTTAATCATTTAGACAAGTTTAATATCATATATT-A
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
* * *
13866929 GAGCTATCCAAACTGTTAAATTAGAACAATAATAGCAAATTTGTATTTTTACCTATTAATGGCAT
66 -AGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCAT
* *
13866994 AAAAAGTCATAAATAGATGTAAACAACAACTT
130 AAAAAGTCCTAAACAGATGTAAACAACAACTT
* * * * * * ** * *
13867026 TTTCATACATATCAACTATGGAAACTAAGTTTAATAATTTGGATAAGTTTAATATCATATATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
* * * *
13867091 AACTATCAAAACTATTAAAATAGAATAATAAT
66 AGCTATCCAAACTGTTAAAATAGAACAATAAT
13867123 TATAAATTTA
Statistics
Matches: 754, Mismatches: 127, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
154 2 0.00
155 1 0.00
156 105 0.14
158 2 0.00
159 56 0.07
160 148 0.20
161 434 0.58
162 6 0.01
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAAACAAGTTTAATATCATGTATTGA
AGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAATAGCATA
AAAAGTCCTAAACAGATGTAAACAACAACTT
Found at i:13866807 original size:481 final size:477
Alignment explanation
Indices: 13866067--13867136 Score: 1267
Period size: 481 Copynumber: 2.2 Consensus size: 477
13866057 CATTTTAGCC
* *
13866067 TTTCACACATATCAA-TCATGGAAACCAAATTCAATCATTTGGACAAGTTTAATATCATGTATTA
1 TTTCACACATATCAACT-ATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTA
* * * * * *
13866131 AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAACTTTGTATTTTTGCCTTTTAACGGTAA
65 AAGCTATCCAAACTGTTAAAACAGAACAATAATATCAAATTTGCA-TTTTACCTTTTAAAGATAA
* *
13866196 GTCCTAAACAGAGGTAAACAACAACTTTTTCACATATATCAATTGTGAAAACCAAGTTCAATCAT
129 GTCCTAAACAGAGGTAAACAACAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCAT
* *
13866261 TTAAAAAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAACAACAACAACAAA
194 TTAAAAAAGTTTAATACCATGTATTGAAGCTATCCAAACTATTAAAATAGAACAACAACAACAAA
* * * * * * *
13866326 TTTGTATTTTTTCCTTTTAACAACCCGAAAATTCTTAAACAAAGGTAAACAACAACTTTTTCACA
259 TTTGAATGTTTGCCTTTTAACAACACAAAAAGTCTTAAACAAACGTAAACAACAACTTTTTCACA
* * *
13866391 TATATCAACTGTGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATT-GAAGCCAT
324 CATATCAACTGTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATATATTAG-AGCCAT
* * * * *
13866455 CCAAATTGTTAAAATAGAATC-ATAAAAGTAAATTTGTATTTTTACCTTTTAACGGTAGT-AATA
388 CCAAACTGTTAAAATAGAA-CAATAAAAGCAAATTTGTATTTTTACCTATTAACGGCA-TAAAAA
* * *
13866518 GTCCTAAATAAATATAAACGATAACTT
451 GTCATAAATAAATATAAACAACAACTT
* * *
13866545 TTTCACATATATCAACTAT-AAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTAA
1 TTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAA
*
13866609 AGCTATCCAAACTGTTAAAACAAAACAATAATATCAAATTTGCATTTTACCTTTTAATAGCATAA
66 AGCTATCCAAACTGTTAAAACAGAACAATAATATCAAATTTGCATTTTACCTTTTAA-AG-AT--
* * * * *
13866674 AAAGTCCTACACAGATGTAAA-AATTAGCTTTTTCACACATATCAACTGTGGAAACCAAGTTCAA
127 -AAGTCCTAAACAGAGGTAAACAA-CAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAA
* * * ** * * *
13866738 TTA-TTATGACAAGTTTAATACCATGTATTGAAGCTATGTAAACTATTAAGATAGAACAATAATA
190 TCATTTA-AAAAAGTTTAATACCATGTATTGAAGCTATCCAAACTATTAAAATAGAACAACAACA
* * * * * * *
13866802 ACAAATTTGAATGTTTGCCTTTTCATAGCATAAAAAGTCTTAAACATACGTAAACGATAACTTTT
254 ACAAATTTGAATGTTTGCCTTTTAACAACACAAAAAGTCTTAAACAAACGTAAACAACAACTTTT
* * * *
13866867 TCACACATATCAACTGTGAAAACCAAGTTTAATCATTTAGACAAGTTTAATATCATATATTAGAG
319 TCACACATATCAACTGTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATATATTAGAG
* * * *
13866932 CTATCCAAACTGTTAAATTAGAACAATAATAGCAAATTTGTATTTTTACCTATTAATGGCATAAA
384 CCATCCAAACTGTTAAAATAGAACAATAAAAGCAAATTTGTATTTTTACCTATTAACGGCATAAA
* *
13866997 AAGTCATAAATAGATGTAAACAACAACTT
449 AAGTCATAAATAAATATAAACAACAACTT
* * * * * * *
13867026 TTTCATACATATCAACTATGGAAACTAAGTTTAATAATTTGGATAAGTTTAATATCATATATTGA
1 TTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATT-A
* * * * *
13867091 AA-CTATCAAAACTATTAAAATAGAATAATAATTAT-AAATTTACATT
65 AAGCTATCCAAACTGTTAAAACAGAACAATAA-TATCAAATTTGCATT
13867137 ATTATCTTGT
Statistics
Matches: 498, Mismatches: 80, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
476 12 0.02
477 82 0.16
478 17 0.03
479 1 0.00
480 7 0.01
481 303 0.61
482 70 0.14
483 6 0.01
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (477 bp):
TTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAA
AGCTATCCAAACTGTTAAAACAGAACAATAATATCAAATTTGCATTTTACCTTTTAAAGATAAGT
CCTAAACAGAGGTAAACAACAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTT
AAAAAAGTTTAATACCATGTATTGAAGCTATCCAAACTATTAAAATAGAACAACAACAACAAATT
TGAATGTTTGCCTTTTAACAACACAAAAAGTCTTAAACAAACGTAAACAACAACTTTTTCACACA
TATCAACTGTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATATATTAGAGCCATCCA
AACTGTTAAAATAGAACAATAAAAGCAAATTTGTATTTTTACCTATTAACGGCATAAAAAGTCAT
AAATAAATATAAACAACAACTT
Found at i:13867161 original size:161 final size:159
Alignment explanation
Indices: 13866067--13867245 Score: 1054
Period size: 161 Copynumber: 7.4 Consensus size: 159
13866057 CATTTTAGCC
* *
13866067 TTTCACACATATCAATCATG-G-AAACCAAATTCAATCATTTGGACAAGTTTAATATCATGTATT
1 TTTCACACATATCAA-C-TGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATT
* * * *
13866130 AAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAACTTTGTATTTTTGCCTTTTAACGG--
64 GAAGCTATCCAAACTGTTAAAATAGAACAATAATA-CAAATTTGTA-TTTTACCTTTTAACGGCA
*
13866193 T---AAGTCCTAAACAGAGGTAAACAACAACTT
127 TAAAAAGTCCTAAACAGATGTAAACAACAACTT
* * * *
13866223 TTTCACATATATCAATTGTGAAAACCAAGTTCAATCATTTAAAAAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
* * * ** ***
13866288 AGCTATCCAAACTGTTAAAATAGAACAACAACAACAAATTTGTATTTTTTCCTTTTAACAACCCG
66 AGCTATCCAAACTGTTAAAATAGAACAATAA-TACAAATTTGTA-TTTTACCTTTTAACGGCATA
* * * *
13866353 AAAATTCTTAAACAAAGGTAAACAACAACTT
129 AAAAGTCCTAAACAGATGTAAACAACAACTT
* * * * *
13866384 TTTCACATATATCAACTGTGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
* * * * *
13866449 AGCCATCCAAATTGTTAAAATAGAATC-ATAAAAGTAAATTTGTATTTTTACCTTTTAACGGTAG
66 AGCTATCCAAACTGTTAAAATAGAA-CAATAATA-CAAATTTGTA-TTTTACCTTTTAACGGCA-
* * * * * *
13866513 T-AATAGTCCTAAATAAATATAAACGATAACTT
127 TAAAAAGTCCTAAACAGATGTAAACAACAACTT
* * * *
13866545 TTTCACATATATCAACTAT-AAAACCAAGTTCAATCA-TTCGAACAAGTTTAATATCATGTATTA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAG-ACAAGTTTAATATCATGTATTG
* * * **
13866608 AAGCTATCCAAACTGTTAAAACAAAACAATAATATCAAATTTGCATTTTACCTTTTAATAGCATA
65 AAGCTATCCAAACTGTTAAAATAGAACAATAATA-CAAATTTGTATTTTACCTTTTAACGGCATA
* * *
13866673 AAAAGTCCTACACAGATGTAAA-AATTAGCTT
129 AAAAGTCCTAAACAGATGTAAACAA-CAACTT
* * *
13866704 TTTCACACATATCAACTGTGGAAACCAAGTTCAATTA-TTATGACAAGTTTAATACCATGTATTG
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTA-GACAAGTTTAATATCATGTATTG
** * * * * * **
13866768 AAGCTATGTAAACTATTAAGATAGAACAATAATAACAAATTTGAATGTTTGCCTTTTCATAGCAT
65 AAGCTATCCAAACTGTTAAAATAGAACAATAAT-ACAAATTTGTAT-TTTACCTTTTAACGGCAT
* * * * *
13866833 AAAAAGTCTTAAACATACGTAAACGATAACTT
128 AAAAAGTCCTAAACAGATGTAAACAACAACTT
* *
13866865 TTTCACACATATCAACTGTGAAAACCAAGTTTAATCATTTAGACAAGTTTAATATCATATATT-A
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
* * *
13866929 GAGCTATCCAAACTGTTAAATTAGAACAATAATAGCAAATTTGTATTTTTACCTATTAATGGCAT
66 -AGCTATCCAAACTGTTAAAATAGAACAATAATA-CAAATTTGTA-TTTTACCTTTTAACGGCAT
* *
13866994 AAAAAGTCATAAATAGATGTAAACAACAACTT
128 AAAAAGTCCTAAACAGATGTAAACAACAACTT
* * * * * * * * *
13867026 TTTCATACATATCAACTATGGAAACTAAGTTTAATAATTTGGATAAGTTTAATATCATATATTGA
1 TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
* * * * * ** * * * *
13867091 AACTATCAAAACTATTAAAATAGAATAATAATTATAAATTTACATTATTATCTTGTAACGGTACA
66 AGCTATCCAAACTGTTAAAATAGAACAATAA-TACAAATTTGTATT-TTACCTTTTAACGGCATA
** ** *** *
13867156 AAAAGTTGTAAACAGACATAAATTGCAAATT
129 AAAAGTCCTAAACAGATGTAAACAACAACTT
*** * ** ** *
13867187 ACGACACATATATCAACAATGAAAACCAAGTTCAATCATTCGGATAAGTTTAATATCAT
1 -TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCAT
13867246 AAACTTACTA
Statistics
Matches: 847, Mismatches: 148, Indels: 50
0.81 0.14 0.05
Matches are distributed among these distances:
154 2 0.00
155 1 0.00
156 105 0.12
157 1 0.00
158 2 0.00
159 56 0.07
160 151 0.18
161 473 0.56
162 56 0.07
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (159 bp):
TTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
AGCTATCCAAACTGTTAAAATAGAACAATAATACAAATTTGTATTTTACCTTTTAACGGCATAAA
AAGTCCTAAACAGATGTAAACAACAACTT
Found at i:13868350 original size:13 final size:13
Alignment explanation
Indices: 13868321--13868364 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
13868311 ATAAAAGTGA
*
13868321 ATATATAAAAAAAC
1 ATATAT-AAAGAAC
*
13868335 ATATGTAAAGAAC
1 ATATATAAAGAAC
13868348 ATATATAAAGAAC
1 ATATATAAAGAAC
13868361 ATAT
1 ATAT
13868365 CGATTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:13872178 original size:12 final size:12
Alignment explanation
Indices: 13872161--13872186 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13872151 AGCACACTTC
13872161 AAACATGGGCAT
1 AAACATGGGCAT
13872173 AAACATGGGCAT
1 AAACATGGGCAT
13872185 AA
1 AA
13872187 TATTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (12 bp):
AAACATGGGCAT
Found at i:13873788 original size:62 final size:60
Alignment explanation
Indices: 13873494--13873836 Score: 174
Period size: 62 Copynumber: 5.5 Consensus size: 60
13873484 TTTTTTTTAT
* * * * ** *
13873494 TAAAAACGCATTCAATAATCTTCTCTAATTTTTAAAAAAAAATTATTGAAGGCATTTTTTAC
1 TAAAAACACCTTCAATAATC-CCTTTAATTTTTTTAAAAAAATTATTGAAGGCGTTTTTT-C
* * * * * *
13873556 AAAAAAAACACTTTCAATAATCCCCTCT-ATTTTTTTAAATTAAATTATTGAA-GCTGTTTCTTG
1 --TAAAAACACCTTCAATAAT-CCCTTTAATTTTTTTAAA-AAAATTATTGAAGGC-GTTTTTTC
** ** * * ** * **
13873619 TAGAAAATGCCTTCAATAATTCCC-TCCATTTTTATCAAAGGATTATTCAAGGTATTTTCTGTC
1 TA-AAAACACCTTCAATAA-TCCCTTTAATTTTTTTAAAAAAATTATTGAAGGCGTTTT-T-TC
** * * * *
13873682 -AAAAACATTTTCAATAATCCCTTTAA-ATTTTGACAATGAGATTATTGAAGGCGTTTTTTAC
1 TAAAAACACCTTCAATAATCCCTTTAATTTTTTTA-AA-AAAATTATTGAAGGCGTTTTTT-C
* * * * *
13873743 TAAAAATACCTTCAATAATCCTCTTTAATTTTTTTAAAAAAATTATTAAAGGTGATTTTTG
1 TAAAAACACCTTCAATAATCC-CTTTAATTTTTTTAAAAAAATTATTGAAGGCGTTTTTTC
* *
13873804 TAGAAAACACCTTCAATAATCCCCTTCATTTTT
1 TA-AAAACACCTTCAATAATCCCTTTAATTTTT
13873837 ATCGAGGGAT
Statistics
Matches: 207, Mismatches: 55, Indels: 37
0.69 0.18 0.12
Matches are distributed among these distances:
60 8 0.04
61 41 0.20
62 95 0.46
63 21 0.10
64 41 0.20
65 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (60 bp):
TAAAAACACCTTCAATAATCCCTTTAATTTTTTTAAAAAAATTATTGAAGGCGTTTTTTC
Found at i:13874180 original size:62 final size:61
Alignment explanation
Indices: 13874103--13874408 Score: 197
Period size: 62 Copynumber: 4.9 Consensus size: 61
13874093 TTTTTACAAA
* * * * *
13874103 AAAATACCTTCAATAATTTTATTTAAAAATTCAGAACGAATTATTGAAGGCATTTTTAGTTT
1 AAAATACCTTTAATAATCTCATTTAAAAATTTAGAA-GAATTATTGAAGGCATTTTTAGTTG
* * * * * * * *
13874165 AAAATACTTTTAATAATCCCA-TGAAAATTTTAAAAAGAAATTATTAAAGGCATTTTTTTGTAG
1 AAAATACCTTTAATAATCTCATTTAAAAATTT-AGAAG-AATTATTGAAGGCA-TTTTTAGTTG
* *
13874228 AAAATGCCTTTAATAATCTCCTTTAAAAATTTTAGAA-AATTATTGAAGGCATTTTTAGTTG
1 AAAATACCTTTAATAATCTCATTTAAAAA-TTTAGAAGAATTATTGAAGGCATTTTTAGTTG
* * * * * *
13874289 CAAAAAAATAGCTTTAATAATTTCTTTTAAAATTTTTA-AACAGATTGTTGAAGGCATTTTTAGT
1 ----AAAATACCTTTAATAATCTCATTTAAAA-ATTTAGAAGA-ATTATTGAAGGCATTTTTAGT
**
13874353 CA
60 TG
** * * * * *
13874355 AAAACGCCTTCAATAATCTCCTCGTCAAAACTTA-AAGAGATTATTGAAGGCATT
1 AAAATACCTTTAATAATCTCAT-TTAAAAATTTAGAAGA-ATTATTGAAGGCATT
13874409 ATTTTTTGTA
Statistics
Matches: 188, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
61 16 0.09
62 82 0.44
63 28 0.15
64 10 0.05
65 32 0.17
66 20 0.11
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (61 bp):
AAAATACCTTTAATAATCTCATTTAAAAATTTAGAAGAATTATTGAAGGCATTTTTAGTTG
Found at i:13876547 original size:21 final size:21
Alignment explanation
Indices: 13876523--13876567 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13876513 ATTCACTTAA
* * * *
13876523 TATTTATTTGTTTTTTATATT
1 TATTAATTTGGTTTTAATACT
13876544 TATTAATTTGGTTTTAATACT
1 TATTAATTTGGTTTTAATACT
13876565 TAT
1 TAT
13876568 ATTTCATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTAATTTGGTTTTAATACT
Found at i:13878354 original size:63 final size:64
Alignment explanation
Indices: 13878274--13878493 Score: 273
Period size: 63 Copynumber: 3.4 Consensus size: 64
13878264 ATTGAATGCT
* *
13878274 AAAAATGCCTTTAATAATCCACTCAATAAATTTTTATGAAGGATTATTGAA-GTATTTTTTGTC
1 AAAAACGCCTTTAATAATCCACTCAATAAATTTTTATGAAAGATTATTGAAGGTATTTTTTGTC
* * *
13878337 AAAAACGCATTTAATAATCTACTCAATAAATTTTTATGAAAGATTATTGAAGGTATTTTTGGTC
1 AAAAACGCCTTTAATAATCCACTCAATAAATTTTTATGAAAGATTATTGAAGGTATTTTTTGTC
* * * * * *
13878401 AAAAACGTCTTTAAT-ATTCTCTCTACAAATTTTTTTGAATAGATTATTGAAGGTATTTTTTGTC
1 AAAAACGCCTTTAATAATCCACTCAATAAATTTTTATGAA-AGATTATTGAAGGTATTTTTTGTC
* * *
13878465 AGAAAATGCCTTGAATAACCCCACTCAAT
1 A-AAAACGCCTTTAATAA-TCCACTCAAT
13878494 TTTTGTAAGG
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
63 65 0.50
64 48 0.37
65 11 0.08
66 1 0.01
67 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (64 bp):
AAAAACGCCTTTAATAATCCACTCAATAAATTTTTATGAAAGATTATTGAAGGTATTTTTTGTC
Found at i:13881805 original size:20 final size:20
Alignment explanation
Indices: 13881782--13881827 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13881772 TTTTTAAAAA
*
13881782 TTTAAAAAATTTT-TAATTT
1 TTTAAAAAATTTTCTAGTTT
* *
13881801 TTTTAGAAATTTTCTAGTTT
1 TTTAAAAAATTTTCTAGTTT
13881821 TTTAAAA
1 TTTAAAA
13881828 TATGAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTAAAAAATTTTCTAGTTT
Found at i:13881847 original size:25 final size:26
Alignment explanation
Indices: 13881819--13881874 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
13881809 ATTTTCTAGT
13881819 TTTTTAAAATATGAAA-ATTTTTT-AA
1 TTTTTAAAATA-GAAACATTTTTTGAA
*
13881844 TTTTTTAAATAGAAATCATTTTTTGAA
1 TTTTTAAAATAGAAA-CATTTTTTGAA
13881871 TTTT
1 TTTT
13881875 ATGTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 10 0.37
26 7 0.26
27 6 0.22
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTTTAAAATAGAAACATTTTTTGAA
Found at i:13881864 original size:26 final size:26
Alignment explanation
Indices: 13881807--13881874 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
13881797 ATTTTTTTAG
* *
13881807 AAATTTTCTAGTTTTTTAAAATATGA
1 AAATTTTTTAATTTTTTAAAATATGA
13881833 AAATTTTTTAATTTTTT-AAATA-GA
1 AAATTTTTTAATTTTTTAAAATATGA
13881857 AATCATTTTTTGAATTTT
1 AA--ATTTTTT-AATTTT
13881875 ATGTTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.11
25 5 0.14
26 22 0.59
27 6 0.16
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (26 bp):
AAATTTTTTAATTTTTTAAAATATGA
Found at i:13881963 original size:20 final size:19
Alignment explanation
Indices: 13881940--13881998 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
13881930 ACTTTTTAGA
13881940 ATTTTTATAAAATTTTCTAT
1 ATTTTTATAAAATTTT-TAT
13881960 ATTTTT-TAAAATTTTTAT
1 ATTTTTATAAAATTTTTAT
* *
13881978 GTATTTTAT-AAATTTATAT
1 AT-TTTTATAAAATTTTTAT
13881997 AT
1 AT
13881999 ATATTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 4 0.12
19 23 0.68
20 7 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTATAAAATTTTTAT
Found at i:13881964 original size:19 final size:19
Alignment explanation
Indices: 13881932--13881989 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
13881922 TGTTTTTAAC
*
13881932 TTTTTAGAATTTTTATAAAA
1 TTTTTAGTA-TTTTATAAAA
*
13881952 TTTTCTA-TATTTTTTAAAA
1 TTTT-TAGTATTTTATAAAA
13881971 TTTTTATGTATTTTATAAA
1 TTTTTA-GTATTTTATAAA
13881990 TTTATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 15 0.47
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTAGTATTTTATAAAA
Found at i:13883519 original size:24 final size:24
Alignment explanation
Indices: 13883471--13883518 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13883461 TATGTCAGAA
*
13883471 AATTTTATATTTTGTAAAAATTTT
1 AATTTTATATTTTATAAAAATTTT
13883495 AATTTTAT-TTTTATATAATAATTT
1 AATTTTATATTTTATA-AA-AATTT
13883519 ATATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
AATTTTATATTTTATAAAAATTTT
Found at i:13884133 original size:19 final size:19
Alignment explanation
Indices: 13884111--13884174 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
13884101 TTTTTAGAAT
*
13884111 TTTTATAAAATTTTCTATA
1 TTTTATAAAATTTTATATA
* *
13884130 TTTTTTAAATATTTTATGTA
1 TTTTATAAA-ATTTTATATA
* *
13884150 TTTTAGAAATTTTTATATA
1 TTTTATAAAATTTTATATA
13884169 TATTTA
1 T-TTTA
13884175 ATATTTAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATTTTATATA
Found at i:13884180 original size:19 final size:17
Alignment explanation
Indices: 13884118--13884180 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 17
13884108 AATTTTTATA
*
13884118 AAATTTTCTATATTTTTT
1 AAATTTT-TATATATTTT
*
13884136 AAATATTTTATGTATTTT
1 AAAT-TTTTATATATTTT
13884154 AGAAATTTTTATATATATTT
1 --AAATTTTTATATAT-TTT
13884174 AATATTT
1 AA-ATTT
13884181 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.38
19 16 0.43
20 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (17 bp):
AAATTTTTATATATTTT
Found at i:13892241 original size:22 final size:21
Alignment explanation
Indices: 13892215--13892280 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
13892205 TTATATTTTA
*
13892215 AATTATTAGATCTAATAAAATT
1 AATTATTAGA-ATAATAAAATT
*
13892237 AATTATTATAATAATAAAATT
1 AATTATTAGAATAATAAAATT
* * *
13892258 AAATATTATAATGATAAAATT
1 AATTATTAGAATAATAAAATT
13892279 AA
1 AA
13892281 AATTAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 31 0.77
22 9 0.22
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (21 bp):
AATTATTAGAATAATAAAATT
Found at i:13892253 original size:21 final size:21
Alignment explanation
Indices: 13892227--13892285 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
13892217 TTATTAGATC
*
13892227 TAATAAAATTAATTATTATAA
1 TAATAAAATTAAATATTATAA
13892248 TAATAAAATTAAATATTATAA
1 TAATAAAATTAAATATTATAA
*
13892269 TGATAAAATTAAA-ATTA
1 TAATAAAATTAAATATTA
13892286 ATTATGAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATAAAATTAAATATTATAA
Found at i:13893977 original size:21 final size:21
Alignment explanation
Indices: 13893926--13893977 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
13893916 AATTTTAATT
* **
13893926 TTATTGTTATAATAATTAATC
1 TTATTATTATAATAACAAATC
* *
13893947 TTACTATTATAATAACAAATG
1 TTATTATTATAATAACAAATC
*
13893968 TTATTTTTAT
1 TTATTATTAT
13893978 TTTTAATCTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (21 bp):
TTATTATTATAATAACAAATC
Found at i:13894070 original size:19 final size:18
Alignment explanation
Indices: 13894034--13894073 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13894024 TTTAATTTTA
**
13894034 TTACTATAATAATTAATC
1 TTACTATAATAACAAATC
13894052 TTACTTATAATAACAAATC
1 TTAC-TATAATAACAAATC
13894071 TTA
1 TTA
13894074 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
TTACTATAATAACAAATC
Found at i:13894091 original size:103 final size:104
Alignment explanation
Indices: 13893883--13894092 Score: 368
Period size: 105 Copynumber: 2.0 Consensus size: 104
13893873 ATCACAATCG
**
13893883 ATACATTTATATCTAACTATATATCTCATAAATAATTTTAATTTTATTGTTATAATAATTAATCT
1 ATACATTTATATCTAACTATATATCTCATAAATAATTTTAATTTTATTACTATAATAATTAATCT
*
13893948 TACTATTATAATAACAAATGTTATTTTTATTTTTAATCTT
66 TAC-ATTATAATAACAAATCTTATTTTTATTTTTAATCTT
*
13893988 ATACGTTTATATCTAACTATATATCTCATAAATAATTTTAATTTTATTACTATAATAATTAATCT
1 ATACATTTATATCTAACTATATATCTCATAAATAATTTTAATTTTATTACTATAATAATTAATCT
13894053 TAC-TTATAATAACAAATCTTATTTTTATTTTTAATCTT
66 TACATTATAATAACAAATCTTATTTTTATTTTTAATCTT
13894091 AT
1 AT
13894093 CTGACTTTCT
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 36 0.36
105 65 0.64
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (104 bp):
ATACATTTATATCTAACTATATATCTCATAAATAATTTTAATTTTATTACTATAATAATTAATCT
TACATTATAATAACAAATCTTATTTTTATTTTTAATCTT
Found at i:13912248 original size:39 final size:40
Alignment explanation
Indices: 13912181--13912263 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
13912171 TATTTTTTCT
* *
13912181 TTTTTTTGAAACAAAAAATAAATCAAATTTAAAATAAAAA
1 TTTTTTTGAAACAAAAAACAAATCAAATTTAAAACAAAAA
* *
13912221 GTTTTTTT-AAAC-AAAACCAAATTAAATTTAAAACAAAAA
1 -TTTTTTTGAAACAAAAAACAAATCAAATTTAAAACAAAAA
13912260 TTTT
1 TTTT
13912264 ATTATTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.11
39 23 0.61
40 4 0.11
41 7 0.18
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.35
Consensus pattern (40 bp):
TTTTTTTGAAACAAAAAACAAATCAAATTTAAAACAAAAA
Found at i:13912744 original size:20 final size:20
Alignment explanation
Indices: 13912690--13912795 Score: 85
Period size: 20 Copynumber: 5.2 Consensus size: 20
13912680 CTCTAGGTTA
13912690 AGTTTAAGGTTGTAGGGTTTA-
1 AGTTTAAGGTT-TA-GGTTTAG
* *
13912711 AGTTTTAGGGTTAGGTTTAG
1 AGTTTAAGGTTTAGGTTTAG
*
13912731 AGTTCAAGGTTTAGGTTTAG
1 AGTTTAAGGTTTAGGTTTAG
*
13912751 -GTTT-AGAGTTTAAGGTGTAG
1 AGTTTAAG-GTTT-AGGTTTAG
*
13912771 GGTTT-AGGTTTAGGGTTTAG
1 AGTTTAAGGTTTA-GGTTTAG
*
13912791 TGTTT
1 AGTTT
13912796 GGACTTAGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.03
19 14 0.20
20 40 0.56
21 15 0.21
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (20 bp):
AGTTTAAGGTTTAGGTTTAG
Found at i:13912750 original size:26 final size:26
Alignment explanation
Indices: 13912691--13912789 Score: 117
Period size: 26 Copynumber: 3.7 Consensus size: 26
13912681 TCTAGGTTAA
* *
13912691 GTTTAAGGTTGTAGGGTTTAAGTTTTAG
1 GTTT-AGGTT-TAGAGTTTAAGGTTTAG
* *
13912719 GGTTAGGTTTAGAGTTCAAGGTTTAG
1 GTTTAGGTTTAGAGTTTAAGGTTTAG
*
13912745 GTTTAGGTTTAGAGTTTAAGGTGTAGG
1 GTTTAGGTTTAGAGTTTAAGGTTTA-G
*
13912772 GTTTAGGTTTAGGGTTTA
1 GTTTAGGTTTAGAGTTTA
13912790 GTGTTTGGAC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 36 0.58
27 23 0.37
28 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.43
Consensus pattern (26 bp):
GTTTAGGTTTAGAGTTTAAGGTTTAG
Found at i:13912782 original size:6 final size:6
Alignment explanation
Indices: 13912691--13912795 Score: 75
Period size: 7 Copynumber: 15.7 Consensus size: 6
13912681 TCTAGGTTAA
* * *
13912691 GTTTAAG GTTGTAGG GTTTAAG TTTTAG GGTTAG GTTTAG AGTTCAAG
1 GTTT-AG GTT-TA-G GTTT-AG GTTTAG GTTTAG GTTTAG -GTT-TAG
*
13912739 GTTTAG GTTTAG GTTTAG AGTTTAAG GTGTAGG GTTTAG GTTTAGG GTTTAG
1 GTTTAG GTTTAG GTTTAG -GTTT-AG GTTTA-G GTTTAG GTTTA-G GTTTAG
13912791 TGTTT
1 -GTTT
13912796 GGACTTAGGA
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
6 33 0.41
7 37 0.46
8 10 0.12
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (6 bp):
GTTTAG
Found at i:13912841 original size:14 final size:13
Alignment explanation
Indices: 13912811--13912935 Score: 60
Period size: 14 Copynumber: 9.4 Consensus size: 13
13912801 TAGGATTAAA
13912811 GGTTTGGATTT-G
1 GGTTTGGATTTAG
13912823 AGGTTTGGGATTTAG
1 -GGTTT-GGATTTAG
*
13912838 GGTTTTTGATTTA-
1 GG-TTTGGATTTAG
**
13912851 GGTTTTAATTT-G
1 GGTTTGGATTTAG
* **
13912863 AGATTTAAAATTTAG
1 -GGTTT-GGATTTAG
13912878 GGTTTGGAATTTAG
1 GGTTTGG-ATTTAG
* * *
13912892 GTTTTTGA-TTAT
1 GGTTTGGATTTAG
*
13912904 GGTTGGGAGTTTAG
1 GGTTTGGA-TTTAG
*
13912918 GGTTTGGATTTGG
1 GGTTTGGATTTAG
13912931 GGTTT
1 GGTTT
13912936 CAAGTTTGGG
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
12 16 0.19
13 21 0.24
14 44 0.51
15 5 0.06
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (13 bp):
GGTTTGGATTTAG
Found at i:13912916 original size:26 final size:26
Alignment explanation
Indices: 13912878--13912927 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13912868 TAAAATTTAG
* * *
13912878 GGTTTGGAATTTAGGTTTTTGATTAT
1 GGTTGGGAATTTAGGGTTTGGATTAT
*
13912904 GGTTGGGAGTTTAGGGTTTGGATT
1 GGTTGGGAATTTAGGGTTTGGATT
13912928 TGGGGTTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (26 bp):
GGTTGGGAATTTAGGGTTTGGATTAT
Found at i:13915173 original size:20 final size:20
Alignment explanation
Indices: 13915130--13915174 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13915120 TGTTTTATGC
* *
13915130 AATTTTGACTTTGTTTGACT
1 AATTTTGACTTTGTTTAACA
13915150 AATTTTGACTTTG-TTAATCA
1 AATTTTGACTTTGTTTAA-CA
13915170 AATTT
1 AATTT
13915175 GACCAGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (20 bp):
AATTTTGACTTTGTTTAACA
Found at i:13915990 original size:9 final size:10
Alignment explanation
Indices: 13915963--13916095 Score: 111
Period size: 10 Copynumber: 13.7 Consensus size: 10
13915953 TCATTAAAAG
13915963 AAAAATTC-A
1 AAAAATTCTA
*
13915972 TAACAATTCT-
1 -AAAAATTCTA
13915982 AAAAATTCTA
1 AAAAATTCTA
*
13915992 AAAAATT-TT
1 AAAAATTCTA
* *
13916001 AACAATTATA
1 AAAAATTCTA
13916011 AAAAATT-TA
1 AAAAATTCTA
13916020 AAAAATT-TAA
1 AAAAATTCT-A
13916030 AAAAATT-TAA
1 AAAAATTCT-A
13916040 AAAAATT-TA
1 AAAAATTCTA
13916049 AAAAATT-TA
1 AAAAATTCTA
13916058 AAAAATTCTA
1 AAAAATTCTA
* *
13916068 AAGAATTCTT
1 AAAAATTCTA
*
13916078 CAAAATTCTA
1 AAAAATTCTA
13916088 AAATAATT
1 AAA-AATT
13916096 TTTTAAAAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
9 42 0.40
10 59 0.56
11 4 0.04
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:13915995 original size:28 final size:28
Alignment explanation
Indices: 13915963--13916055 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 28
13915953 TCATTAAAAG
*
13915963 AAAAATTCATAACAATTCT-AAAAATTCTA
1 AAAAATT-ATAACAATTATAAAAAATT-TA
*
13915992 AAAAATTTTAACAATTATAAAAAATTTA
1 AAAAATTATAACAATTATAAAAAATTTA
* *
13916020 AAAAATTTAAAAAAATT-TAAAAAAATTTA
1 AAAAA-TTATAACAATTAT-AAAAAATTTA
13916049 AAAAATT
1 AAAAATT
13916056 TAAAAAATTC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
28 19 0.34
29 37 0.66
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAATTATAACAATTATAAAAAATTTA
Found at i:13915998 original size:19 final size:19
Alignment explanation
Indices: 13915982--13916096 Score: 126
Period size: 19 Copynumber: 5.9 Consensus size: 19
13915972 TAACAATTCT
*
13915982 AAAAATTCTAAAAAATTTT
1 AAAAATTCTAAAAAATTTA
* *
13916001 AACAATTATAAAAAATTTA
1 AAAAATTCTAAAAAATTTA
13916020 AAAAATT-TAAAAAAATTTAA
1 AAAAATTCT-AAAAAATTT-A
13916040 AAAAATT-TAAAAAATTTA
1 AAAAATTCTAAAAAATTTA
* *
13916058 AAAAATTCTAAAGAATTCTT
1 AAAAATTCTAAAAAATT-TA
*
13916078 CAAAATTCTAAAATAATTT
1 AAAAATTCTAAAA-AATTT
13916097 TTTAAAAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
18 9 0.11
19 48 0.58
20 22 0.27
21 4 0.05
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATTCTAAAAAATTTA
Found at i:13916076 original size:10 final size:9
Alignment explanation
Indices: 13915982--13916074 Score: 114
Period size: 10 Copynumber: 9.8 Consensus size: 9
13915972 TAACAATTCT
13915982 AAAAATTCTA
1 AAAAATT-TA
*
13915992 AAAAATTTT
1 AAAAATTTA
*
13916001 AACAATTATA
1 AAAAATT-TA
13916011 AAAAATTTA
1 AAAAATTTA
13916020 AAAAATTTAA
1 AAAAATTT-A
13916030 AAAAATTTAA
1 AAAAATTT-A
13916040 AAAAATTTA
1 AAAAATTTA
13916049 AAAAATTTA
1 AAAAATTTA
13916058 AAAAATTCTA
1 AAAAATT-TA
*
13916068 AAGAATT
1 AAAAATT
13916075 CTTCAAAATT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
9 34 0.45
10 41 0.55
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTTA
Found at i:13920842 original size:17 final size:17
Alignment explanation
Indices: 13920820--13920852 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13920810 TCTAAATTTT
13920820 TTGAGATGTTTAAGAAC
1 TTGAGATGTTTAAGAAC
13920837 TTGAGATGTTTAAGAA
1 TTGAGATGTTTAAGAA
13920853 GCTACGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (17 bp):
TTGAGATGTTTAAGAAC
Found at i:13927686 original size:39 final size:40
Alignment explanation
Indices: 13927613--13927689 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
13927603 TCATATGTAC
* *
13927613 CTAGGGTTGACTAACAAATGGGTCCAACAAAAGTGAAATG
1 CTAGGGTTAACTAACAAATAGGTCCAACAAAAGTGAAATG
* **
13927653 CTAGGGTTAACTAATAAA-AGGTCCATTAAAAGTGAAA
1 CTAGGGTTAACTAACAAATAGGTCCAACAAAAGTGAAA
13927690 GGTTGTGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 16 0.50
40 16 0.50
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (40 bp):
CTAGGGTTAACTAACAAATAGGTCCAACAAAAGTGAAATG
Found at i:13931638 original size:17 final size:19
Alignment explanation
Indices: 13931598--13931642 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
13931588 ATAATATCAT
13931598 ATCATGCAATATATATAAA
1 ATCATGCAATATATATAAA
*
13931617 ATCATGCAATA-ATA-ATA
1 ATCATGCAATATATATAAA
13931634 ATCATGCAA
1 ATCATGCAA
13931643 ATAAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
18 3 0.12
19 11 0.44
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (19 bp):
ATCATGCAATATATATAAA
Found at i:13931649 original size:19 final size:18
Alignment explanation
Indices: 13931598--13931649 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
13931588 ATAATATCAT
*
13931598 ATCATGCAATATATATAAA
1 ATCATGCAA-ATAAATAAA
13931617 ATCATGC-AAT-AATAATA
1 ATCATGCAAATAAATAA-A
13931634 ATCATGCAAATAAATA
1 ATCATGCAAATAAATA
13931650 TATTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 4 0.14
17 10 0.34
18 4 0.14
19 11 0.38
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.29
Consensus pattern (18 bp):
ATCATGCAAATAAATAAA
Found at i:13931729 original size:20 final size:20
Alignment explanation
Indices: 13931704--13932132 Score: 323
Period size: 20 Copynumber: 21.1 Consensus size: 20
13931694 TGCAAATGGA
* *
13931704 CATGCAATTAAACATATACT
1 CATGCAATTAAATATATAAT
* *
13931724 CATGCAATTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
13931745 CATGCCATTAAATATCTAAT
1 CATGCAATTAAATATATAAT
* *
13931765 CATGCAATTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
*
13931786 CATGCAATTAAATATATGAT
1 CATGCAATTAAATATATAAT
*
13931806 TATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
13931826 TATGCAATTAAATATATAAAT
1 CATGCAATTAAATATAT-AAT
** *
13931847 TGTGCAATTAAATAAATAAT
1 CATGCAATTAAATATATAAT
* *
13931867 CATGTAATTAGATATATAAT
1 CATGCAATTAAATATATAAT
* *
13931887 TATGCAATTAAATAAATAAAT
1 CATGCAATTAAATATAT-AAT
* *
13931908 CACGTAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* * *
13931928 TATGCAATTAACAGCATA-AAA
1 CATGCAATTAA-A-TATATAAT
*
13931949 CATGCAATTAGATATATAAT
1 CATGCAATTAAATATATAAT
* *
13931969 CATGCAATTATATATA-AAG
1 CATGCAATTAAATATATAAT
13931988 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
** * *
13932008 TGTGCAACTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
13932029 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* * *
13932049 CATGCAAGTAGCAATA-AAAAA
1 CATGCAATTA--AATATATAAT
* * *
13932070 CATGCAAATAAATATATTAC
1 CATGCAATTAAATATATAAT
*
13932090 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* * *
13932111 CATGAAAATAAATGTATAAT
1 CATGCAATTAAATATATAAT
13932131 CA
1 CA
13932133 ATCATAATAT
Statistics
Matches: 324, Mismatches: 64, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
19 24 0.07
20 174 0.54
21 119 0.37
22 7 0.02
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:13931754 original size:21 final size:21
Alignment explanation
Indices: 13931724--13931796 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
13931714 AACATATACT
13931724 CATGCAATTAACAATGTAAAA
1 CATGCAATTAACAATGTAAAA
* * *
13931745 CATGCCATTAA-ATATCT-AAT
1 CATGCAATTAACA-ATGTAAAA
13931765 CATGCAATTAACAATGTAAAA
1 CATGCAATTAACAATGTAAAA
13931786 CATGCAATTAA
1 CATGCAATTAA
13931797 ATATATGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (21 bp):
CATGCAATTAACAATGTAAAA
Found at i:13931768 original size:41 final size:41
Alignment explanation
Indices: 13931703--13932132 Score: 426
Period size: 41 Copynumber: 10.6 Consensus size: 41
13931693 ATGCAAATGG
* * *
13931703 ACATGCAATTAAACATATACTCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
13931744 ACATGCCATTAAATATCTAATCATGCAATTAACAATGTAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
13931785 ACATGCAATTAAATATATGATTATGCAATT-A-AATATATAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATA-AA
** **
13931825 TTATGCAATTAAATATATAAATTGTGCAATT-A-AATA-AATA
1 ACATGCAATTAAATATAT-AATCATGCAATTAACAATATAA-A
* * * *
13931865 ATCATGTAATTAGATATATAATTATGCAATTAA-ATAAATAAA
1 A-CATGCAATTAAATATATAATCATGCAATTAACA-ATATAAA
* * * * **
13931907 TCACGTAATTAAATATATAATTATGCAATTAACAGCATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* *
13931948 ACATGCAATTAGATATATAATCATGCAATT-A-TATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* ** *
13931987 GCATGCAATTAAATATATAATTGTGCAACTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
13932028 ACATGCAATTAAATATATAATCATGCAAGTAGCAATAAAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
13932069 ACATGCAAATAAATATATTACCATGCAATTAACAATATAAA
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
* * *
13932110 ACATGAAAATAAATGTATAATCA
1 ACATGCAATTAAATATATAATCA
13932133 ATCATAATAT
Statistics
Matches: 325, Mismatches: 54, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
39 36 0.11
40 34 0.10
41 249 0.77
42 4 0.01
43 2 0.01
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (41 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAAA
Found at i:13931816 original size:61 final size:60
Alignment explanation
Indices: 13931705--13932055 Score: 325
Period size: 61 Copynumber: 5.8 Consensus size: 60
13931695 GCAAATGGAC
* * * * * *
13931705 ATGCAATTAAACATAT-ACTCATGCAATTAACA-ATGTAAAACATGCCATTAAATATCTAATC
1 ATGCAATTAAA-ATATAAATCATGCAATTAA-ATATAT-AATCATGCAATTAAATATATAATT
* * * *
13931766 ATGCAATTAACAATGTAAAACATGCAATTAAATATATGATTATGCAATTAAATATATAATT
1 ATGCAATTAA-AATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATATAATT
** * * *
13931827 ATGCAATTAAATATATAAATTGTGCAATTAAATAAATAATCATGTAATTAGATATATAATT
1 ATGCAATTAAA-ATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATATAATT
* * * * * **
13931888 ATGCAATTAAATAAATAAATCACGTAATTAAATATATAATTATGCAATTAACAGCATA-AAAC
1 ATGCAATTAAA-ATATAAATCATGCAATTAAATATATAATCATGCAATTAA-A-TATATAATT
* * *
13931950 ATGCAATT-AGATATATAATCATGCAATTATATATA-AAGCATGCAATTAAATATATAATT
1 ATGCAATTAAAATATA-AATCATGCAATTAAATATATAATCATGCAATTAAATATATAATT
* * *
13932009 GTGCAACTAACAATATAAAACATGCAATTAAATATATAATCATGCAA
1 ATGCAATTAA-AATATAAATCATGCAATTAAATATATAATCATGCAA
13932056 GTAGCAATAA
Statistics
Matches: 232, Mismatches: 47, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
58 3 0.01
59 9 0.04
60 35 0.15
61 155 0.67
62 27 0.12
63 3 0.01
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (60 bp):
ATGCAATTAAAATATAAATCATGCAATTAAATATATAATCATGCAATTAAATATATAATT
Found at i:13931831 original size:102 final size:100
Alignment explanation
Indices: 13931705--13932108 Score: 334
Period size: 102 Copynumber: 4.0 Consensus size: 100
13931695 GCAAATGGAC
* * * * * *
13931705 ATGCAATTAAACATATACTCATGCAATTAACAATGTAAAACATGCCATTAAATATCTAATCATGC
1 ATGCAATTAAATATATAATTATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
* *
13931770 AATTAACAATGTAAAACATGCAATTAAATATATGATT
66 AATT-A-AATATAAAACATGCAATTAAATATATAATT
*** *
13931807 ATGCAATTAAATATATAATTATGCAATTAA-ATATATAAATTGTGCAATTAAATAAATAATCATG
1 ATGCAATTAAATATATAATTATGCAATTAACA-ATATAAAACATGCAATTAAATATATAATCATG
* * ** * *
13931871 TAATTAGATATATAATTATGCAATTAAATAAATAAATC
65 CAATTAAATATA-AAACATGCAATTAAATATAT-AATT
* * ** *
13931909 ACGTAATTAAATATATAATTATGCAATTAACAGCATAAAACATGCAATTAGATATATAATCATGC
1 ATGCAATTAAATATATAATTATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
* *
13931974 AATTATATATAAAGCATGCAATTAAATATATAATT
66 AATTAAATATAAAACATGCAATTAAATATATAATT
* * ** * * * *
13932009 GTGCAACTAACA-ATATAAAACATGCAATT-A-AATATATAATCATGCAAGTAGCAATA-AAAAA
1 ATGCAATTAA-ATATAT-AATTATGCAATTAACAATATA-AAACATGCAATTA--AATATATAAT
* * *
13932070 CATGCAAATAAATATATTACCATGCAATTAACA-ATATAA
61 CATGCAATTAAATATA-AAACATGCAATTAA-ATATATAA
13932109 AACATGAAAA
Statistics
Matches: 241, Mismatches: 50, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
99 4 0.02
100 29 0.12
101 64 0.27
102 142 0.59
103 2 0.01
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (100 bp):
ATGCAATTAAATATATAATTATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
AATTAAATATAAAACATGCAATTAAATATATAATT
Found at i:13932075 original size:21 final size:20
Alignment explanation
Indices: 13932010--13932076 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
13932000 TATATAATTG
*
13932010 TGCAACTAACAATATAAAACA
1 TGCAACT-ACAATAAAAAACA
* * *
13932031 TGCAATTA-AATATATAATCA
1 TGCAACTACAATA-AAAAACA
*
13932051 TGCAAGTAGCAATAAAAAACA
1 TGCAACTA-CAATAAAAAACA
13932072 TGCAA
1 TGCAA
13932077 ATAAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 4 0.11
20 12 0.33
21 16 0.44
22 4 0.11
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (20 bp):
TGCAACTACAATAAAAAACA
Found at i:13932720 original size:6 final size:6
Alignment explanation
Indices: 13932701--13932789 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
13932691 AAATTAACCA
* * * * *
13932701 AAAACT AAAA-T AAAATT AAAATC AAAA-T CAAACT AAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * *
13932747 AAAATT AAAGTT AAAA-T CAAATT AAAATC AAAATT AAACTT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
13932790 GATAAGATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
5 12 0.18
6 54 0.82
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:13932721 original size:17 final size:17
Alignment explanation
Indices: 13932707--13932780 Score: 94
Period size: 17 Copynumber: 4.3 Consensus size: 17
13932697 ACCAAAAACT
13932707 AAAATAAAATTAAAATC
1 AAAATAAAATTAAAATC
* *
13932724 AAAATCAAACTAAAATC
1 AAAATAAAATTAAAATC
* *
13932741 AAAATTAAAATTAAAGTT
1 AAAA-TAAAATTAAAATC
*
13932759 AAAATCAAATTAAAATC
1 AAAATAAAATTAAAATC
13932776 AAAAT
1 AAAAT
13932781 TAAACTTAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 34 0.72
18 13 0.28
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.24
Consensus pattern (17 bp):
AAAATAAAATTAAAATC
Found at i:13932750 original size:35 final size:35
Alignment explanation
Indices: 13932707--13932789 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
13932697 ACCAAAAACT
13932707 AAAA-TAAAATTAAAATCAAAATCAAACTAAAATC
1 AAAATTAAAATTAAAATCAAAATCAAACTAAAATC
* * *
13932741 AAAATTAAAATTAAAGTTAAAATCAAATTAAAATC
1 AAAATTAAAATTAAAATCAAAATCAAACTAAAATC
*
13932776 AAAATTAAACTTAA
1 AAAATTAAAATTAA
13932790 GATAAGATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 4 0.09
35 40 0.91
ACGTcount: A:0.65, C:0.08, G:0.01, T:0.25
Consensus pattern (35 bp):
AAAATTAAAATTAAAATCAAAATCAAACTAAAATC
Found at i:13933100 original size:42 final size:42
Alignment explanation
Indices: 13933037--13933138 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 42
13933027 GAATGTTTCT
* * *
13933037 TTTGAAAAATAAAATGCTCCCCTACAATTGAGGCTTTAGAAC
1 TTTGGAAAATAAAATGCTCCCCCACAACTGAGGCTTTAGAAC
* *
13933079 TTTGGAAAATAAAATGCTCCCCCACAACTGAGGTTTTGGAAC
1 TTTGGAAAATAAAATGCTCCCCCACAACTGAGGCTTTAGAAC
13933121 TTT-GACAAATAAAATGCT
1 TTTGGA-AAATAAAATGCT
13933139 TATTCTTACC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (42 bp):
TTTGGAAAATAAAATGCTCCCCCACAACTGAGGCTTTAGAAC
Found at i:13944867 original size:16 final size:16
Alignment explanation
Indices: 13944846--13944891 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
13944836 ATGCAAAAAT
13944846 TATCATGCCTAGATAA
1 TATCATGCCTAGATAA
13944862 TATCATG--TA-ATAA
1 TATCATGCCTAGATAA
13944875 TATCATGCCTAGATAA
1 TATCATGCCTAGATAA
13944891 T
1 T
13944892 GCTAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.41
14 2 0.07
15 2 0.07
16 12 0.44
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (16 bp):
TATCATGCCTAGATAA
Found at i:13945267 original size:36 final size:34
Alignment explanation
Indices: 13945187--13945273 Score: 106
Period size: 32 Copynumber: 2.6 Consensus size: 34
13945177 TAATAATAAT
13945187 CATGCAAATAAATATATTAATAATCATACAATCA
1 CATGCAAATAAATATATTAATAATCATACAATCA
* * *
13945221 CA--CAAATAAATAAATTAATAATCATGCAAATGGA
1 CATGCAAATAAATATATTAATAATCATAC-AAT-CA
*
13945255 CATGCAATTAAATATATTA
1 CATGCAAATAAATATATTA
13945274 TCATGCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 23 0.52
33 3 0.07
34 5 0.11
36 13 0.30
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.29
Consensus pattern (34 bp):
CATGCAAATAAATATATTAATAATCATACAATCA
Found at i:13945280 original size:20 final size:20
Alignment explanation
Indices: 13945255--13945706 Score: 377
Period size: 20 Copynumber: 22.1 Consensus size: 20
13945245 TGCAAATGGA
*
13945255 CATGCAATTAAATATATTAT
1 CATGCAATTAAATATATAAT
* *
13945275 CATGCAATT-AATAATGTAAAA
1 CATGCAATTAAAT-ATAT-AAT
*
13945296 CATGGC-ATTAAATATCTAAT
1 CAT-GCAATTAAATATATAAT
* *
13945316 CATGCAATTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
*
13945337 CATGCAATTAAATATATGAT
1 CATGCAATTAAATATATAAT
13945357 CATGCAATTACATATATATATATAT
1 CATGCAATT--A-A-ATATATA-AT
*
13945382 CATGCAATAAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
13945402 CATGCAATTAGATATATACT
1 CATGCAATTAAATATATAAT
*
13945422 TATGCAATTAAATATATAAAT
1 CATGCAATTAAATATAT-AAT
13945443 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
13945463 CATGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
13945484 CATGCAATGAGATATATAAT
1 CATGCAATTAAATATATAAT
*
13945504 TATGCAATTAAATATATAAAT
1 CATGCAATTAAATATAT-AAT
*
13945525 CATGCAATTAAATACATAAT
1 CATGCAATTAAATATATAAT
* *
13945545 CATGTAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
*
13945566 CATACAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
13945586 CATGCAATTAACA-A-A-AA-
1 CATGCAATTAA-ATATATAAT
* * *
13945603 AATTCAATTAAATATATTAT
1 CATGCAATTAAATATATAAT
*
13945623 CATGCAATTAACAGTATA-AAA
1 CATGCAATTAA-A-TATATAAT
* * *
13945644 GATGCAAATAAATATATTAT
1 CATGCAATTAAATATATAAT
*
13945664 CATGCAATT-AATAATATAAAA
1 CATGCAATTAAAT-ATAT-AAT
* *
13945685 CATGCAAATAAATGTATAAT
1 CATGCAATTAAATATATAAT
13945705 CA
1 CA
13945707 ATCATAATAT
Statistics
Matches: 347, Mismatches: 53, Indels: 64
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.00
17 10 0.03
18 3 0.01
19 14 0.04
20 161 0.46
21 126 0.36
22 14 0.04
23 2 0.01
24 6 0.02
25 10 0.03
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:13945299 original size:41 final size:41
Alignment explanation
Indices: 13945255--13945596 Score: 287
Period size: 41 Copynumber: 8.3 Consensus size: 41
13945245 TGCAAATGGA
* * *
13945255 CATGCAATTAAATATATTATCATGCAATTAATAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAATAATATAAAT
* * * *
13945296 CATGGC-ATTAAATATCTAATCATGCAATTAACAATGTAAAA
1 CAT-GCAATTAAATATATAATCATGCAATTAATAATATAAAT
*
13945337 CATGCAATTAAATATATGATCATGCAATTACATATATATATATAT
1 CATGCAATTAAATATATAATCATGCAATTA-ATA-ATATA-A-AT
* *
13945382 CATGCAATAAAATATATAATCATGCAATTAGAT-ATAT-ACT
1 CATGCAATTAAATATATAATCATGCAATTA-ATAATATAAAT
*
13945422 TATGCAATTAAATATATAAATCATGCAATT-A-AATATATAAT
1 CATGCAATTAAATATAT-AATCATGCAATTAATAATATA-AAT
* *
13945463 CATGCAATTAACA-ATATAAAACATGCAATGAGAT-ATAT-AAT
1 CATGCAATTAA-ATATAT-AATCATGCAATTA-ATAATATAAAT
* *
13945504 TATGCAATTAAATATATAAATCATGCAATT-A-AATACATAAT
1 CATGCAATTAAATATAT-AATCATGCAATTAATAATATA-AAT
* * *
13945545 CATGTAATTAACA-ATATAAAACATACAATT-A-AATATATAAT
1 CATGCAATTAA-ATATAT-AATCATGCAATTAATAATATA-AAT
13945586 CATGCAATTAA
1 CATGCAATTAA
13945597 CAAAAAAATT
Statistics
Matches: 254, Mismatches: 28, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
39 9 0.04
40 19 0.07
41 175 0.69
42 6 0.02
43 13 0.05
44 1 0.00
45 31 0.12
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (41 bp):
CATGCAATTAAATATATAATCATGCAATTAATAATATAAAT
Found at i:13945305 original size:21 final size:21
Alignment explanation
Indices: 13945278--13945348 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
13945268 ATATTATCAT
13945278 GCAATTAATAATGTAAAACATG
1 GCAATTAA-AATGTAAAACATG
* *
13945300 GC-ATTAAATATCT-AATCAT-
1 GCAATTAAA-ATGTAAAACATG
13945319 GCAATTAACAATGTAAAACAT-
1 GCAATTAA-AATGTAAAACATG
13945340 GCAATTAAA
1 GCAATTAAA
13945349 TATATGATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.05
20 15 0.37
21 22 0.54
22 2 0.05
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (21 bp):
GCAATTAAAATGTAAAACATG
Found at i:13945497 original size:82 final size:82
Alignment explanation
Indices: 13945255--13945706 Score: 430
Period size: 82 Copynumber: 5.5 Consensus size: 82
13945245 TGCAAATGGA
* * * *
13945255 CATGCAATTAAATATAT-TATCATGCAATT-AATAATGTAAAACATGGC-ATT-A-AATATCTAA
1 CATGCAATTAAATATATAAATCATGCAATTAAAT-ATAT-AATCAT-GCAATTAACAATAT-AAA
* * *
13945315 TCATGCAATTAACA-ATGTAAAA
62 ACATGCAATTAA-ATATAT-AAT
*
13945337 CATGCAATTAAATATAT-GATCATGCAATTACATATATATATATATCATGCAA-TAA-AATATAT
1 CATGCAATTAAATATATAAATCATGCAATT--A-A-ATATATA-ATCATGCAATTAACAATATA-
* * *
13945399 AATCATGCAATTAGATATATACT
60 AAACATGCAATTAAATATATAAT
*
13945422 TATGCAATTAAATATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
1 CATGCAATTAAATATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
* *
13945487 GCAATGAGATATATAAT
66 GCAATTAAATATATAAT
* * *
13945504 TATGCAATTAAATATATAAATCATGCAATTAAATACATAATCATGTAATTAACAATATAAAACAT
1 CATGCAATTAAATATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
*
13945569 ACAATTAAATATATAAT
66 GCAATTAAATATATAAT
* * * *
13945586 CATGCAATTAACA-A-A-AAA--ATTCAATTAAATATATTATCATGCAATTAACAGTATAAAAGA
1 CATGCAATTAA-ATATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACA
* *
13945646 TGCAAATAAATATATTAT
65 TGCAATTAAATATATAAT
* * *
13945664 CATGCAATT-AATAATATAAAACATGCAAATAAATGTATAATCA
1 CATGCAATTAAAT-ATATAAATCATGCAATTAAATATATAATCA
13945707 ATCATAATAT
Statistics
Matches: 318, Mismatches: 32, Indels: 40
0.82 0.08 0.10
Matches are distributed among these distances:
76 1 0.00
77 1 0.00
78 61 0.19
79 1 0.00
80 6 0.02
81 10 0.03
82 163 0.51
83 8 0.03
84 1 0.00
85 22 0.07
86 42 0.13
87 2 0.01
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (82 bp):
CATGCAATTAAATATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
GCAATTAAATATATAAT
Found at i:13945597 original size:41 final size:41
Alignment explanation
Indices: 13945372--13945706 Score: 389
Period size: 41 Copynumber: 8.3 Consensus size: 41
13945362 AATTACATAT
* *
13945372 ATATATATATCATGCAA-TAA-AATATATAATCATGCAATTAG
1 ATATATA-ATCATGCAATTAACAATATA-AAACATGCAATTAA
* * *
13945413 ATATATACTTATGCAATTAA-ATATATAAATCATGCAATTAA
1 ATATATAATCATGCAATTAACA-ATATAAAACATGCAATTAA
* *
13945454 ATATATAATCATGCAATTAACAATATAAAACATGCAATGAG
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
* *
13945495 ATATATAATTATGCAATTAA-ATATATAAATCATGCAATTAA
1 ATATATAATCATGCAATTAACA-ATATAAAACATGCAATTAA
* * *
13945536 ATACATAATCATGTAATTAACAATATAAAACATACAATTAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
*
13945577 ATATATAATCATGCAATTAAC-A-A-AAAA-ATTCAATTAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
* * * *
13945614 ATATATTATCATGCAATTAACAGTATAAAAGATGCAAATAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
* * *
13945655 ATATATTATCATGCAATTAATAATATAAAACATGCAAATAA
1 ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
*
13945696 ATGTATAATCA
1 ATATATAATCA
13945707 ATCATAATAT
Statistics
Matches: 256, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
37 29 0.11
38 4 0.02
39 2 0.01
40 13 0.05
41 201 0.79
42 7 0.03
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (41 bp):
ATATATAATCATGCAATTAACAATATAAAACATGCAATTAA
Found at i:13946271 original size:6 final size:6
Alignment explanation
Indices: 13946262--13946364 Score: 79
Period size: 6 Copynumber: 17.8 Consensus size: 6
13946252 CTTTTAACCA
* * * * * *
13946262 AAAATT AAAA-A AAAACT AAAA-T AAAATC AAAA-T AAAAAT CAAACT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * * *
13946307 AAAATT AAAACT AAAAAT AAAGTT AAAA-T CAAATT AAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
13946354 AAAATT AAAAT
1 AAAATT AAAAT
13946365 AAGATTTTCA
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
5 17 0.22
6 59 0.78
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.22
Consensus pattern (6 bp):
AAAATT
Found at i:13946300 original size:12 final size:12
Alignment explanation
Indices: 13946261--13946366 Score: 80
Period size: 11 Copynumber: 9.2 Consensus size: 12
13946251 TCTTTTAACC
*
13946261 AAAAATTAAAA-
1 AAAAATCAAAAT
13946272 AAAAA-CTAAAAT
1 AAAAATC-AAAAT
13946284 -AAAATCAAAAT
1 AAAAATCAAAAT
*
13946295 AAAAATCAAACT
1 AAAAATCAAAAT
*
13946307 -AAAATTAAAACT
1 AAAAATCAAAA-T
*
13946319 AAAAAT-AAAGT
1 AAAAATCAAAAT
*
13946330 TAAAATC-AAAT
1 AAAAATCAAAAT
*
13946341 TAAAATCAAAAT
1 AAAAATCAAAAT
* *
13946353 TAAAATTAAAAT
1 AAAAATCAAAAT
13946365 AA
1 AA
13946367 GATTTTCAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
11 42 0.54
12 31 0.40
13 5 0.06
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.22
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:13946335 original size:35 final size:35
Alignment explanation
Indices: 13946296--13946362 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
13946286 AATCAAAATA
*
13946296 AAAATCAAACTAAAATTAAAACTAAAAATAAAGTT
1 AAAATCAAACTAAAATCAAAACTAAAAATAAAGTT
* * *
13946331 AAAATCAAATTAAAATCAAAATTAAAATTAAA
1 AAAATCAAACTAAAATCAAAACTAAAAATAAA
13946363 ATAAGATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.24
Consensus pattern (35 bp):
AAAATCAAACTAAAATCAAAACTAAAAATAAAGTT
Found at i:13947680 original size:13 final size:13
Alignment explanation
Indices: 13947648--13947793 Score: 121
Period size: 13 Copynumber: 10.9 Consensus size: 13
13947638 TTTCACCTAA
*
13947648 GGTTTCAAACTTTGG
1 GGTTTC-AA-TTTAG
13947663 GGTTTCAATTTAG
1 GGTTTCAATTTAG
**
13947676 GGTTTTTATTTAG
1 GGTTTCAATTTAG
* *
13947689 AGATTCAATTTTAG
1 GGTTTCAA-TTTAG
* *
13947703 GGTTTCGATTTAA
1 GGTTTCAATTTAG
* *
13947716 GGTTTTAATTTAA
1 GGTTTCAATTTAG
*
13947729 GGTTTCAGTTTAG
1 GGTTTCAATTTAG
*
13947742 GATTTCAATTTAG
1 GGTTTCAATTTAG
*
13947755 GGTTTTAATTTTAG
1 GGTTTCAA-TTTAG
* *
13947769 GGTCTCAATGTAG
1 GGTTTCAATTTAG
*
13947782 GGTTTCAGTTTA
1 GGTTTCAATTTA
13947794 AATTTTAAGG
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
13 74 0.72
14 23 0.22
15 6 0.06
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (13 bp):
GGTTTCAATTTAG
Found at i:13947720 original size:53 final size:54
Alignment explanation
Indices: 13947663--13947793 Score: 137
Period size: 53 Copynumber: 2.5 Consensus size: 54
13947653 CAAACTTTGG
* *
13947663 GGTTTCAATTTAGGGTTTTTA-TTTAGAGA-TTCAATTTTAGGGTTTCGA-TTTAA
1 GGTTTCAATTTAGGGTTTTCAGTTTAG-GATTTCAA-TTTAGGGTTTCAATTTTAA
* * * *
13947716 GGTTTTAATTTAAGG-TTTCAGTTTAGGATTTCAATTTAGGGTTTTAATTTTAG
1 GGTTTCAATTTAGGGTTTTCAGTTTAGGATTTCAATTTAGGGTTTCAATTTTAA
* *
13947769 GGTCTCAATGTAGGG-TTTCAGTTTA
1 GGTTTCAATTTAGGGTTTTCAGTTTA
13947794 AATTTTAAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
52 17 0.26
53 48 0.74
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (54 bp):
GGTTTCAATTTAGGGTTTTCAGTTTAGGATTTCAATTTAGGGTTTCAATTTTAA
Found at i:13947776 original size:27 final size:26
Alignment explanation
Indices: 13947662--13947786 Score: 115
Period size: 27 Copynumber: 4.7 Consensus size: 26
13947652 TCAAACTTTG
*
13947662 GGGTTTCAATTTAGGGTTTTTATTTA
1 GGGTTTCAATTTAGGGTTTTAATTTA
* * **
13947688 GAGATTCAATTTTAGGGTTTCGATTTA
1 GGGTTTCAA-TTTAGGGTTTTAATTTA
* * * * *
13947715 AGGTTTTAATTTAAGGTTTCAGTTTA
1 GGGTTTCAATTTAGGGTTTTAATTTA
*
13947741 GGATTTCAATTTAGGGTTTTAATTTTA
1 GGGTTTCAATTTAGGGTTTTAA-TTTA
* *
13947768 GGGTCTCAATGTAGGGTTT
1 GGGTTTCAATTTAGGGTTT
13947787 CAGTTTAAAT
Statistics
Matches: 77, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
26 37 0.48
27 40 0.52
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (26 bp):
GGGTTTCAATTTAGGGTTTTAATTTA
Found at i:13952348 original size:45 final size:45
Alignment explanation
Indices: 13952298--13952391 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
13952288 ATTAGCTTGT
13952298 ATATGGGAAAACTTGTTATTTGCCAGTAGAGTTAGAGCATAAGGC
1 ATATGGGAAAACTTGTTATTTGCCAGTAGAGTTAGAGCATAAGGC
13952343 ATATGGGAAAACTTGTTATTTGCCAGTAGAGTTAGAGCATAAGGC
1 ATATGGGAAAACTTGTTATTTGCCAGTAGAGTTAGAGCATAAGGC
13952388 ATAT
1 ATAT
13952392 TAGGCTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (45 bp):
ATATGGGAAAACTTGTTATTTGCCAGTAGAGTTAGAGCATAAGGC
Found at i:13958773 original size:52 final size:53
Alignment explanation
Indices: 13958712--13958816 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
13958702 ATGCTCATGT
13958712 GGTCAAAATGCTTGATTTG-AAATGCTTAAATGATTTATTTCTTAATTTTTGA
1 GGTCAAAATGCTTGATTTGAAAATGCTTAAATGATTTATTTCTTAATTTTTGA
* *
13958764 GGTCAAAATGCTTGATTTGAAAATGCTTAAATTATTTATTTCTTTATTTTTGA
1 GGTCAAAATGCTTGATTTGAAAATGCTTAAATGATTTATTTCTTAATTTTTGA
13958817 AATAGTTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 19 0.38
53 31 0.62
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (53 bp):
GGTCAAAATGCTTGATTTGAAAATGCTTAAATGATTTATTTCTTAATTTTTGA
Found at i:13960637 original size:16 final size:16
Alignment explanation
Indices: 13960616--13960647 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13960606 TTGTGATAAC
13960616 ATATCTTTAACAATTG
1 ATATCTTTAACAATTG
13960632 ATATCTTTAACAATTG
1 ATATCTTTAACAATTG
13960648 GTATGAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
ATATCTTTAACAATTG
Found at i:13961606 original size:13 final size:14
Alignment explanation
Indices: 13961578--13961606 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13961568 TTAAACAAAA
13961578 CTTTTTTTTATGTT
1 CTTTTTTTTATGTT
13961592 CTTTTTTTTAT-TT
1 CTTTTTTTTATGTT
13961605 CT
1 CT
13961607 CAAATCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.79
Consensus pattern (14 bp):
CTTTTTTTTATGTT
Found at i:13963245 original size:609 final size:609
Alignment explanation
Indices: 13962078--13963297 Score: 2118
Period size: 609 Copynumber: 2.0 Consensus size: 609
13962068 GTTTTATAAC
* * * * *
13962078 TCAAGATATGATCAAATTAATGAGTAGAGTGTAAAATAGGAGACAACTAGAGATATTGTTCATCT
1 TCAAGATATGATCAAATTAATGAGTACAGTGCAAAAAAGGAGACAACTAGAGATACTGTTCATCC
**
13962143 AAAATCATTCTCTATATAAAATCTAGCTAAACCAATCGATTGGGTACCAAAACCAATTGATCCCC
66 AAAATCATTCTCTATATAAAATCTAGCTAAACCAATCGATTGGGTACCAAAACCAATCAATCCCC
13962208 TCAACTGTAATGGTAAAAAATTGAGTGAAATTCAAGAACTAATCGATCTCCTATCAAAACCAATC
131 TCAACTGTAATGGTAAAAAATTGAGTGAAATTCAAGAACTAATCGATCTCCTATCAAAACCAATC
*
13962273 AATCTTTTCATCCCAAACAAGCTTCAATGTCTAGTTTCAAAGAAGAAAGTCATGTGTTTCATTCC
196 AATCTTTTCATCCCAAACAAGCTTCAATGTCTAGTTTCAAAGAAGAAAATCATGTGTTTCATTCC
* *
13962338 CTAAGCTTCTCTAATGGCTAGTACCTCAATTTTTCTATAAATTGGGTACTCTAACACAGTAAGAA
261 CTAAGCTTCTCTAATGGCTAGTACCTCAATTCTTCTATAAATTGGGTACTCCAACACAGTAAGAA
* *
13962403 AGTTGAAGAAACAAGAGAGTAAGCACCAACAAAGTCATACTTTCATCTTCTCACAGAAGTCAAGA
326 AGTTGAAGAAACAAGAGAGCAAGCACCAACAAAGTCATACTTTCATCTTCTCAAAGAAGTCAAGA
*
13962468 GTTTTAGTGCGAAAATTCCATATTTGTTGTATCCAAGCCATCTTTGTTGTATTAATTCATCAATA
391 GTTTTAGTGCGAAAATTCCATATTTGTTGTATCCAAGCCATCTTTGTTGTATTAATTCATCAACA
*
13962533 TCCATGTACTTCATTATGCAAACACTTAGCCTTTAAGAGATGTTCCAGTTTGCATATCAATTAAG
456 TCCATGTACTTCATTATGCAAACACTTAGCCTTTAAGAGATATTCCAGTTTGCATATCAATTAAG
* * * *
13962598 TGATTTTGTAATTAAGAGATGAGGTATCTTTTTGTATTTGTGAGATTGAGTGGTTGCTACTTAAC
521 TGATTTTATAATTAAGAGATGAGGTATCCTTCTGTATTTGTGAGATTGAGAGGTTGCTACTTAAC
13962663 CTAGAAAATAAAAAGTGTTAGATT
586 CTAGAAAATAAAAAGTGTTAGATT
13962687 TCAAGATATGATCAAATTAATGAGTACAGTGCAAAAAAGGAGACAACTAGAGATACTGTTCATCC
1 TCAAGATATGATCAAATTAATGAGTACAGTGCAAAAAAGGAGACAACTAGAGATACTGTTCATCC
*
13962752 AAAATCATTCTCTATCTAAAATCTAGCTAAACCAATCGATTGGGTACCAAAACCAATCAATCCCC
66 AAAATCATTCTCTATATAAAATCTAGCTAAACCAATCGATTGGGTACCAAAACCAATCAATCCCC
* *
13962817 TCAATTGTAATGGTAAAAAATTGAGTGAAATTCAAGAACTAATCGATCTCTTATCAAAACCAATC
131 TCAACTGTAATGGTAAAAAATTGAGTGAAATTCAAGAACTAATCGATCTCCTATCAAAACCAATC
* * *
13962882 GATCTTTTCATCCCAAACAAGCTTCAATGTTTAGTTTCAAAGAAGAAAATCATGTGTTTTCATTT
196 AATCTTTTCATCCCAAACAAGCTTCAATGTCTAGTTTCAAAGAAGAAAATCATGTG-TTTCATTC
* *
13962947 CCTAAGCTTCTCTAATGGCTAGTACCTCAATTCTTCTATAAATTGGGTATTCCAACATAGTAAGA
260 CCTAAGCTTCTCTAATGGCTAGTACCTCAATTCTTCTATAAATTGGGTACTCCAACACAGTAAGA
* *
13963012 AGGTTGAAGAAATAAGAGAGCAAGCACCAAC-AAGTCATACTTTCATCTTCTCAAAGAAGTCAAG
325 AAGTTGAAGAAACAAGAGAGCAAGCACCAACAAAGTCATACTTTCATCTTCTCAAAGAAGTCAAG
*
13963076 AGTTTTAGTGTGAAAATTCCATATTTGTTGTATCCAAGCCATCTTTGTTGTATTAATTCATCAAC
390 AGTTTTAGTGCGAAAATTCCATATTTGTTGTATCCAAGCCATCTTTGTTGTATTAATTCATCAAC
* * * *
13963141 ATCCATGTACTTCATTATGCAAATACTTAGCCTTTAAGAGATATTCTAGTTTGCATTTCAATTGA
455 ATCCATGTACTTCATTATGCAAACACTTAGCCTTTAAGAGATATTCCAGTTTGCATATCAATTAA
13963206 GTGATTTTATAATTAAGAGATGAGGTATCCTTCTGTATTTGTGAGATTGAGAGGTTGCTACTTAA
520 GTGATTTTATAATTAAGAGATGAGGTATCCTTCTGTATTTGTGAGATTGAGAGGTTGCTACTTAA
*
13963271 CCTAGAAAATAGAAAGTGTTAGATT
585 CCTAGAAAATAAAAAGTGTTAGATT
13963296 TC
1 TC
13963298 TATCTAAGCC
Statistics
Matches: 576, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
609 480 0.83
610 96 0.17
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (609 bp):
TCAAGATATGATCAAATTAATGAGTACAGTGCAAAAAAGGAGACAACTAGAGATACTGTTCATCC
AAAATCATTCTCTATATAAAATCTAGCTAAACCAATCGATTGGGTACCAAAACCAATCAATCCCC
TCAACTGTAATGGTAAAAAATTGAGTGAAATTCAAGAACTAATCGATCTCCTATCAAAACCAATC
AATCTTTTCATCCCAAACAAGCTTCAATGTCTAGTTTCAAAGAAGAAAATCATGTGTTTCATTCC
CTAAGCTTCTCTAATGGCTAGTACCTCAATTCTTCTATAAATTGGGTACTCCAACACAGTAAGAA
AGTTGAAGAAACAAGAGAGCAAGCACCAACAAAGTCATACTTTCATCTTCTCAAAGAAGTCAAGA
GTTTTAGTGCGAAAATTCCATATTTGTTGTATCCAAGCCATCTTTGTTGTATTAATTCATCAACA
TCCATGTACTTCATTATGCAAACACTTAGCCTTTAAGAGATATTCCAGTTTGCATATCAATTAAG
TGATTTTATAATTAAGAGATGAGGTATCCTTCTGTATTTGTGAGATTGAGAGGTTGCTACTTAAC
CTAGAAAATAAAAAGTGTTAGATT
Found at i:13966512 original size:55 final size:55
Alignment explanation
Indices: 13966431--13966534 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
13966421 TATTTCTTTC
* ** * *
13966431 TTTTTCTCTTTTTTTTTTTTGAAACAAGAAATAAATCAAATTTAAAACAAAACTT
1 TTTTTCTCTTTTTTTCTTTAAAAACAAAAAAAAAATCAAATTTAAAACAAAACTT
13966486 TTTTTCTCTTTTTTTCTTTAAAAACAAAAAAAAAATCAAATTTAAAACA
1 TTTTTCTCTTTTTTTCTTTAAAAACAAAAAAAAAATCAAATTTAAAACA
13966535 TTTTTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (55 bp):
TTTTTCTCTTTTTTTCTTTAAAAACAAAAAAAAAATCAAATTTAAAACAAAACTT
Found at i:13966993 original size:13 final size:13
Alignment explanation
Indices: 13966951--13967018 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
13966941 GGGTCTAGGC
*
13966951 TAGGATTAGGGTT
1 TAGGATTAAGGTT
*
13966964 TAAAGGTTTAAGGTT
1 T--AGGATTAAGGTT
*
13966979 TAGGATTAAGTTT
1 TAGGATTAAGGTT
*
13966992 TAGGATTAGGGTT
1 TAGGATTAAGGTT
* *
13967005 TAGGGTTAGGGTT
1 TAGGATTAAGGTT
13967018 T
1 T
13967019 GGTGGCGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
13 35 0.76
15 11 0.24
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (13 bp):
TAGGATTAAGGTT
Found at i:13974522 original size:33 final size:32
Alignment explanation
Indices: 13974463--13974526 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
13974453 GTCGTGCCAT
*
13974463 TTTATTTTTTATAGGTTTTTTTTAGTATTTTG
1 TTTATTTTTTATAGGTGTTTTTTAGTATTTTG
* *
13974495 TTTATTTATTTTTATGTGTTTTTTAGTATTTT
1 TTTATTT-TTTATAGGTGTTTTTTAGTATTTT
13974527 TTCTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (32 bp):
TTTATTTTTTATAGGTGTTTTTTAGTATTTTG
Found at i:13978849 original size:11 final size:11
Alignment explanation
Indices: 13978833--13978881 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
13978823 TCTCAAAGAT
13978833 AGAAAAAAAAG
1 AGAAAAAAAAG
13978844 AGAAAAGAAAAG
1 AGAAAA-AAAAG
* *
13978856 -CAAAACAAAG
1 AGAAAAAAAAG
13978866 -GAAAAAAAA-
1 AGAAAAAAAAG
13978875 AGAAAAA
1 AGAAAAA
13978882 TGAATACCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 17 0.53
11 10 0.31
12 5 0.16
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:13978860 original size:21 final size:19
Alignment explanation
Indices: 13978836--13978881 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
13978826 CAAAGATAGA
*
13978836 AAAAAAAGAGAAAAGAAAAG
1 AAAAAAAG-GAAAAAAAAAG
13978856 CAAAACAAAGGAAAAAAAAAG
1 -AAAA-AAAGGAAAAAAAAAG
13978877 AAAAA
1 AAAAA
13978882 TGAATACCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 14 0.61
22 4 0.17
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAGGAAAAAAAAAG
Found at i:13979275 original size:14 final size:13
Alignment explanation
Indices: 13979234--13979283 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
13979224 AGAATGAAGG
13979234 AAAGAAAAAATGAA
1 AAAG-AAAAATGAA
13979248 AAA-AAAATAGTGAA
1 AAAGAAAA-A-TGAA
13979262 AAAGAGAAAATG-A
1 AAAGA-AAAATGAA
13979275 AAAGAAAAA
1 AAAGAAAAA
13979284 AAATGAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.25
13 7 0.22
14 12 0.38
15 2 0.06
16 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAGAAAAATGAA
Found at i:13979285 original size:14 final size:13
Alignment explanation
Indices: 13979238--13979301 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 13
13979228 TGAAGGAAAG
13979238 AAAAAATGAAAAA
1 AAAAAATGAAAAA
*
13979251 AAAATAGTGAAAAA
1 AAAA-AATGAAAAA
*
13979265 GAGAAAATGAAAAGAA
1 -AAAAAATG-AAA-AA
13979281 AAAAAATGAGAAAA
1 AAAAAATGA-AAAA
13979295 TAAAAAA
1 -AAAAAA
13979302 AAGATAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.10
14 14 0.34
15 21 0.51
16 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (13 bp):
AAAAAATGAAAAA
Found at i:13979286 original size:23 final size:23
Alignment explanation
Indices: 13979260--13979339 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
13979250 AAAAATAGTG
13979260 AAAAAGAGAAAATGAAAAGAAAA
1 AAAAAGAGAAAATGAAAAGAAAA
*
13979283 AAAATGAGAAAAT-AAAA-AAAA
1 AAAAAGAGAAAATGAAAAGAAAA
* * *
13979304 GATAAAGATAAAA-GATAAGAAAA
1 -AAAAAGAGAAAATGAAAAGAAAA
*
13979327 AAGAAAGATAAAA
1 AA-AAAGAGAAAA
13979340 GATAAAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.09
22 17 0.36
23 26 0.55
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAAAGAGAAAATGAAAAGAAAA
Found at i:13979299 original size:17 final size:16
Alignment explanation
Indices: 13979273--13979316 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
13979263 AAGAGAAAAT
*
13979273 GAAAAGAAAAAAAATGA
1 GAAAATAAAAAAAA-GA
13979290 GAAAATAAAAAAAAGA
1 GAAAATAAAAAAAAGA
*
13979306 TAAAGATAAAA
1 GAAA-ATAAAA
13979317 GATAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
GAAAATAAAAAAAAGA
Found at i:13979299 original size:28 final size:28
Alignment explanation
Indices: 13979234--13979294 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
13979224 AGAATGAAGG
* * *
13979234 AAAGAAAAAATGAAAAAAAAATAGTGAA
1 AAAGAGAAAATGAAAAAAAAAAAATGAA
13979262 AAAGAGAAAATGAAAAGAAAAAAAATGAGA
1 AAAGAGAAAATGAAAA-AAAAAAAATGA-A
13979292 AAA
1 AAA
13979295 TAAAAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.54
29 9 0.32
30 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.08
Consensus pattern (28 bp):
AAAGAGAAAATGAAAAAAAAAAAATGAA
Found at i:13979316 original size:13 final size:13
Alignment explanation
Indices: 13979300--13979345 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
13979290 GAAAATAAAA
13979300 AAAAGATAAAGAT
1 AAAAGATAAAGAT
13979313 AAAAGAT-AAGA-
1 AAAAGATAAAGAT
*
13979324 AAAA-AGAAAGAT
1 AAAAGATAAAGAT
13979336 AAAAGATAAA
1 AAAAGATAAA
13979346 AAAGAGCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 8 0.29
12 8 0.29
13 11 0.39
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (13 bp):
AAAAGATAAAGAT
Found at i:13979317 original size:39 final size:40
Alignment explanation
Indices: 13979260--13979339 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 40
13979250 AAAAATAGTG
13979260 AAAAAGAGAAAATGAAAAGA-AA-AAAAATGAGAAA-ATAAA
1 AAAAAGAGAAAATGAAAAGATAAGAAAAA--AGAAAGATAAA
*
13979299 AAAAAGATAAAGAT-AAAAGATAAGAAAAAAGAAAGATAAA
1 AAAAAGAGAAA-ATGAAAAGATAAGAAAAAAGAAAGATAAA
13979339 A
1 A
13979340 GATAAAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
39 21 0.58
40 10 0.28
41 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (40 bp):
AAAAAGAGAAAATGAAAAGATAAGAAAAAAGAAAGATAAA
Found at i:13979328 original size:45 final size:45
Alignment explanation
Indices: 13979262--13979350 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 45
13979252 AAATAGTGAA
*
13979262 AAAGAGAAAATGAAAAGAAAAA-AAATGAGAAAATAAAAAAAAGAT
1 AAAGAGAAAATGAAAAGAAAAAGAAA-GAGAAAAGAAAAAAAAGAT
* * * *
13979307 AAAGATAAAA-GATAAGAAAAAAGAAAGATAAAAGATAAAAAAGA
1 AAAGAGAAAATGAAAAG-AAAAAGAAAGAGAAAAGAAAAAAAAGA
13979351 GCGAAAAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 5 0.14
45 29 0.78
46 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (45 bp):
AAAGAGAAAATGAAAAGAAAAAGAAAGAGAAAAGAAAAAAAAGAT
Found at i:13979340 original size:23 final size:23
Alignment explanation
Indices: 13979294--13979348 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 23
13979284 AAATGAGAAA
13979294 ATAAAAAAAAGATAAAGATAAAAG
1 ATAAAAAAAAGA-AAAGATAAAAG
13979318 ATAAGAAAAAAG-AAAGATAAAAG
1 ATAA-AAAAAAGAAAAGATAAAAG
13979341 ATAAAAAA
1 ATAAAAAA
13979349 GAGCGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.13
23 15 0.50
24 4 0.13
25 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (23 bp):
ATAAAAAAAAGAAAAGATAAAAG
Found at i:13979349 original size:16 final size:16
Alignment explanation
Indices: 13979274--13979350 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
13979264 AGAGAAAATG
*
13979274 AAAAGAAAAAAAATGAG
1 AAAAGAAAAAAAA-GAT
*
13979291 AAAATAAAAAAAAGAT
1 AAAAGAAAAAAAAGAT
*
13979307 -AAAG--ATAAAAGAT
1 AAAAGAAAAAAAAGAT
*
13979320 AAGAA-AAAAGAAAGAT
1 AA-AAGAAAAAAAAGAT
*
13979336 AAAAGATAAAAAAGA
1 AAAAGAAAAAAAAGA
13979351 GCGAAAAGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
13 8 0.17
14 1 0.02
15 7 0.15
16 19 0.40
17 12 0.26
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAT
Found at i:13980559 original size:21 final size:21
Alignment explanation
Indices: 13980533--13980656 Score: 90
Period size: 21 Copynumber: 6.0 Consensus size: 21
13980523 ATTTTTGAGT
13980533 TCTCAAATGAAAATCTTTGAA
1 TCTCAAATGAAAATCTTTGAA
*
13980554 TCTCAAAT-AAGAATATTTGAA
1 TCTCAAATGAA-AATCTTTGAA
* *
13980575 TTTCAAATGAAAATCTTTAAA
1 TCTCAAATGAAAATCTTTGAA
* ** ** *
13980596 TTTTGAATGTGAATCTTCGAA
1 TCTCAAATGAAAATCTTTGAA
* * *
13980617 -CTCAAATGAGAATATTTGAC
1 TCTCAAATGAAAATCTTTGAA
* * *
13980637 TTTCAAATGACAATTTTTGA
1 TCTCAAATGAAAATCTTTGA
13980657 GGTGCGAAAC
Statistics
Matches: 80, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.19
21 63 0.79
22 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
TCTCAAATGAAAATCTTTGAA
Found at i:13980708 original size:20 final size:20
Alignment explanation
Indices: 13980679--13980755 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
13980669 AAAATTTGTC
* *
13980679 GAATGTGAATCTTCGAACTT
1 GAATGAGAATCTTTGAACTT
* *
13980699 AAATGAGAATCTTTGAATTTT
1 GAATGAGAATCTTTGAA-CTT
*
13980720 GAATGTGAATCTTTGAACTT
1 GAATGAGAATCTTTGAACTT
*
13980740 GAATAAGAATCTTTGA
1 GAATGAGAATCTTTGA
13980756 GGCGTGAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (20 bp):
GAATGAGAATCTTTGAACTT
Found at i:13980833 original size:21 final size:21
Alignment explanation
Indices: 13980795--13980835 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13980785 AATATTCGAA
* *
13980795 TTCAAATGAGAATCTTTGAGT
1 TTCAAATAAGAATATTTGAGT
*
13980816 TTCAAATAAGGATATTTGAG
1 TTCAAATAAGAATATTTGAG
13980836 GTATAAACCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
TTCAAATAAGAATATTTGAGT
Found at i:13980834 original size:99 final size:99
Alignment explanation
Indices: 13980652--13980834 Score: 235
Period size: 99 Copynumber: 1.8 Consensus size: 99
13980642 AATGACAATT
* * *
13980652 TTTGAGGTGCGAAACCTAAAATTTGTCGAATGTGAATCTTCGAACTTAAATGAGAATCTTTGAAT
1 TTTGAGGCGCGAAACCTAAAATTTGTCAAATGTGAATATTCGAACTTAAATGAGAATCTTTGAAT
** ** *
13980717 TTTGAATGTGAATCTTTGAACTTGAATAAGAATC
66 TTCAAATAAGAATATTTGAACTTGAATAAGAATC
*
13980751 TTTGAGGCGTGAAA-CTCAAAATTTGTCAAATGTGAATATTCGAA-TTCAAATGAGAATCTTTGA
1 TTTGAGGCGCGAAACCT-AAAATTTGTCAAATGTGAATATTCGAACTT-AAATGAGAATCTTTGA
* *
13980814 GTTTCAAATAAGGATATTTGA
64 ATTTCAAATAAGAATATTTGA
13980835 GGTATAAACC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
98 4 0.06
99 67 0.94
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (99 bp):
TTTGAGGCGCGAAACCTAAAATTTGTCAAATGTGAATATTCGAACTTAAATGAGAATCTTTGAAT
TTCAAATAAGAATATTTGAACTTGAATAAGAATC
Found at i:13981350 original size:44 final size:44
Alignment explanation
Indices: 13981273--13981882 Score: 687
Period size: 44 Copynumber: 14.1 Consensus size: 44
13981263 ATTGCCAAGA
* **
13981273 AGCATTTTA-TTTT-CTAAAGTTGTGGTTGTCTCTATTTAGAAA
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
13981315 AGCATTTTATTTTTCCTAAAGTTGTGTTTGCCTCTATTTGGAAG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
13981359 AGCATTTTATTTTTCCTAAAGTTGTAGTTGCCTCTGTTCAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
** *
13981403 AGTCA-TTTATTTTT-C-AAAGTTACGGTTGCCTCTATTTATAGG
1 AG-CATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
13981445 AGCATTTTA--TTTCCTAAAGTTATGGTTGCCTTTATTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
13981487 AGCATTTTATTTTTCCTAAATTTGTGGTTACCTTTATTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
13981531 AGCATTTTA--TTTCCTAAAGTTGTGGTTGACTTTATTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
13981573 AGCATTTTATTTTTCCTAAATTTGTGGTTGCCTCTATTTAGAGA
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
13981617 AGCATTTTATATTTT-C-AAAGTTGTGGTTGCGGTTACCTCTATTTAGAGG
1 AGCATTTTAT-TTTTCCTAAAGTTGTGGTT---G---CCTCTATTTAGAGG
* *
13981666 AGCATTTTA-TTTTCC-AAAGTTGTGGTTGCCTCTAATTAGATG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
*
13981708 AGCATTTTATTTTTTCTAAAGTTGTGGTTGCCTCTATTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* ** *
13981752 AGCAATTTATTTTTTTTAAAGTTGTGGTTGCCTCTGTTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* * * * *
13981796 AACAATTTATTTTTCC-AAAGTTGT-GATGCCTCTGTTTAGAAG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
* * * * *
13981838 AGTATTTTATTTTTTC-AAAGTCGTTG-AGCCTCTATTTAGAGG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
13981880 AGC
1 AGC
13981883 TTTGTTTACC
Statistics
Matches: 494, Mismatches: 53, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
40 3 0.01
41 3 0.01
42 179 0.36
43 30 0.06
44 232 0.47
45 7 0.01
46 1 0.00
47 4 0.01
48 13 0.03
49 22 0.04
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.45
Consensus pattern (44 bp):
AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGG
Found at i:13981432 original size:86 final size:86
Alignment explanation
Indices: 13981273--13981882 Score: 650
Period size: 86 Copynumber: 7.0 Consensus size: 86
13981263 ATTGCCAAGA
* **
13981273 AGCATTTTA-TTTT-CTAAAGTTGTGGTTGTCTCTATTTAGAAAAGCATTTTATTTTTCCTAAAG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATTTTT-C-AAAG
* * *
13981336 TTGTGTTTGCCTCTATTTGGAAG
64 TTGTGGTTGCCTCTATTTAGAGG
* * *
13981359 AGCATTTTATTTTTCCTAAAGTTGTAGTTGCCTCTGTTCAGAGGAGTCA-TTTATTTTTCAAAGT
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAG-CATTTTATTTTTCAAAGT
** *
13981423 TACGGTTGCCTCTATTTATAGG
65 TGTGGTTGCCTCTATTTAGAGG
* * *
13981445 AGCATTTTA--TTTCCTAAAGTTATGGTTGCCTTTATTTAGAGGAGCATTTTATTTTTCCTAAAT
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATTTTT-C-AAAG
* *
13981508 TTGTGGTTACCTTTATTTAGAGG
64 TTGTGGTTGCCTCTATTTAGAGG
* * *
13981531 AGCATTTTA--TTTCCTAAAGTTGTGGTTGACTTTATTTAGAGGAGCATTTTATTTTTCCTAAAT
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATTTTT-C-AAAG
*
13981594 TTGTGGTTGCCTCTATTTAGAGA
64 TTGTGGTTGCCTCTATTTAGAGG
*
13981617 AGCATTTTATATTTT-C-AAAGTTGTGGTTGCGGTTACCTCTATTTAGAGGAGCATTTTATTTTC
1 AGCATTTTAT-TTTTCCTAAAGTTGTGGTT---G---CCTCTATTTAGAGGAGCATTTTATTTTT
* *
13981680 CAAAGTTGTGGTTGCCTCTAATTAGATG
59 CAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
13981708 AGCATTTTATTTTTTCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTTTAAAG
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGC-ATTT-TATTTTTCAAAG
*
13981773 TTGTGGTTGCCTCTGTTTAGAGG
64 TTGTGGTTGCCTCTATTTAGAGG
* * * * * *
13981796 AACAATTTATTTTTCC-AAAGTTGT-GATGCCTCTGTTTAGAAGAGTATTTTATTTTTTCAAAGT
1 AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTA-TTTTTCAAAGT
* * *
13981859 CGTTG-AGCCTCTATTTAGAGG
65 TGTGGTTGCCTCTATTTAGAGG
13981880 AGC
1 AGC
13981883 TTTGTTTACC
Statistics
Matches: 449, Mismatches: 55, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
83 2 0.00
84 56 0.12
85 18 0.04
86 184 0.41
87 29 0.06
88 77 0.17
89 6 0.01
90 5 0.01
91 34 0.08
92 13 0.03
93 25 0.06
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.45
Consensus pattern (86 bp):
AGCATTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTT
GTGGTTGCCTCTATTTAGAGG
Found at i:13983004 original size:12 final size:11
Alignment explanation
Indices: 13982989--13983063 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 11
13982979 CGTTTTTTTT
13982989 TTTTGTTTTAGG
1 TTTT-TTTTAGG
*
13983001 TTTTTTTAAGG
1 TTTTTTTTAGG
*
13983012 TTTTTTTTAGTC
1 TTTTTTTTAG-G
13983024 TTTTTTTTA--
1 TTTTTTTTAGG
*
13983033 TTTATTTTTATG
1 TTT-TTTTTAGG
*
13983045 TGTTTTTTA-G
1 TTTTTTTTAGG
13983055 TATTTTTTT
1 T-TTTTTTT
13983064 TCTTCATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
9 3 0.06
10 8 0.15
11 27 0.51
12 15 0.28
ACGTcount: A:0.12, C:0.01, G:0.12, T:0.75
Consensus pattern (11 bp):
TTTTTTTTAGG
Found at i:13983280 original size:16 final size:16
Alignment explanation
Indices: 13983255--13983289 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13983245 ATTTATTTTC
13983255 AAACAAAAAAATATAA
1 AAACAAAAAAATATAA
*
13983271 AAACATAAAAATATAA
1 AAACAAAAAAATATAA
13983287 AAA
1 AAA
13983290 TGTTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (16 bp):
AAACAAAAAAATATAA
Found at i:13983290 original size:8 final size:8
Alignment explanation
Indices: 13983261--13983290 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13983251 TTTCAAACAA
13983261 AAAAATAT
1 AAAAATAT
*
13983269 AAAAACAT
1 AAAAATAT
13983277 AAAAATAT
1 AAAAATAT
13983285 AAAAAT
1 AAAAAT
13983291 GTTGAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAATAT
Found at i:13985648 original size:185 final size:186
Alignment explanation
Indices: 13985167--13986004 Score: 1013
Period size: 185 Copynumber: 4.5 Consensus size: 186
13985157 TTTCTACTAA
* * * * * * ** *
13985167 AAACGCTTTCAATAATTT-TTCTTTAAAAATTGTTTGGGATTATTAAAGGCATCTTCCGGTGGAA
1 AAACGCCTTCAATAATTTCCTC-TT-ATAATT-TTTGAGATTATTAAAAGCGTCTTCTAGTGAAA
* * * * * *
13985231 AATGCCTTCAATTTTTTACAGCTCAAATTTTAAGACGTTTAGTCAAGGCATTTATTCTAGAAAAA
63 AATGCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAA
* * *
13985296 TGCCTTCACTAATTCCTTCTAATTTATGTACATAATTATTGAAGGCGTTTTTTTCAAAAT
128 TGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTG-TTTTTTCAAAAC
* * *
13985356 AAACACCTTCAATAATTTCCTTTTATAATTTTTGAGATTATT-AAAGACATCTTCTAGTGAAAAA
1 AAACGCCTTCAATAATTTCCTCTTATAATTTTTGAGATTATTAAAAG-CGTCTTCTAGTGAAAAA
* *
13985420 TGCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAATAGTG
65 TGCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAATG
* * * *
13985485 CTTTCACTAATTCCTTCTAATTTATGTACATAATTATTGATGGTGTTTTTTCAAAAA
130 CCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTGTTTTTTCAAAAC
* * * * *
13985542 AAATGCCTTCAAT-ATTTCCTCTTATAATTTTTGAGATTATTAAAAGCGTCTTTTGGTGGAAAAC
1 AAACGCCTTCAATAATTTCCTCTTATAATTTTTGAGATTATTAAAAGCGTCTTCTAGTGAAAAAT
** * * * * * *
13985606 GTTTTCAATATTTCGTAACTCAAATTTTAATATGGTTAGTGAAGGCGTTTATTCTAGAACAACGC
66 GCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAATGC
* * * *
13985671 ATTCACTAATTCTTTCTAATTTACGTACATAATTATT-ATAGGT-ATTTGTCAAAAC
131 CTTCACTAATTCCTTCTAATTTACGTACATAATTATTGA-AGGTGTTTTTTCAAAAC
* * * *
13985726 AAATGCCTTCAATAATTTTCTCTTATAATTTTTGGGATTATTAAAAGCGTCTTCCAGTGAAAAAT
1 AAACGCCTTCAATAATTTCCTCTTATAATTTTTGAGATTATTAAAAGCGTCTTCTAGTGAAAAAT
* *
13985791 GCCTTCAATATTTCACAGCTCAAACTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAATGC
66 GCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAATGC
* * * * *
13985856 CTTCACTAATTCTTTTTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAAC
131 CTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTGTTTTTTCAAAAC
* * * * * *
13985912 AAACGCATTCAATAATTTTCTCTTATAATTTTTGGGATTATT-AAAGACATCTTCCAATGAAAAA
1 AAACGCCTTCAATAATTTCCTCTTATAATTTTTGAGATTATTAAAAG-CGTCTTCTAGTGAAAAA
*
13985976 TGCCTTCAATATTTCACAGCTCAAATTTT
65 TGCCTTCAATATTTCATAGCTCAAATTTT
13986005 CTCTTATAAT
Statistics
Matches: 567, Mismatches: 74, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
184 23 0.04
185 274 0.48
186 121 0.21
187 125 0.22
188 5 0.01
189 18 0.03
190 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (186 bp):
AAACGCCTTCAATAATTTCCTCTTATAATTTTTGAGATTATTAAAAGCGTCTTCTAGTGAAAAAT
GCCTTCAATATTTCATAGCTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAACAATGC
CTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTGTTTTTTCAAAAC
Found at i:13986057 original size:74 final size:74
Alignment explanation
Indices: 13985925--13986078 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 74
13985915 CGCATTCAAT
* *** *
13985925 AATTTTCTCTTATAATTTTTGGGATTATTAAAGACATCTTCCAATGAAAAATGCCTTCAATATTT
1 AATTTTCTCTTATAATTTTTCGGATTATTAAAGACATCTTCCAATGAAAAACAACTTCAATATTC
*
13985990 CACAGCTCA
66 CACAACTCA
*** * * * *
13985999 AATTTTCTCTTATAATTTTTCGGATTATTAAAGGTGTTTTCTAGTGGAAAACAACTTCAATATTC
1 AATTTTCTCTTATAATTTTTCGGATTATTAAAGACATCTTCCAATGAAAAACAACTTCAATATTC
13986064 CACAACTCA
66 CACAACTCA
13986073 AATTTT
1 AATTTT
13986079 AAGACGGTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (74 bp):
AATTTTCTCTTATAATTTTTCGGATTATTAAAGACATCTTCCAATGAAAAACAACTTCAATATTC
CACAACTCA
Found at i:13986767 original size:13 final size:14
Alignment explanation
Indices: 13986749--13986794 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
13986739 AATTATATGT
13986749 TGAATGGTGTTTG-
1 TGAATGGTGTTTGC
13986762 TGAAT-G-GTTTGC
1 TGAATGGTGTTTGC
13986774 TGAATGGTGTTT-C
1 TGAATGGTGTTTGC
*
13986787 TGAGTGGT
1 TGAATGGT
13986795 TTCCTAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 5 0.17
12 6 0.21
13 14 0.48
14 4 0.14
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (14 bp):
TGAATGGTGTTTGC
Found at i:13986777 original size:25 final size:25
Alignment explanation
Indices: 13986749--13986796 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13986739 AATTATATGT
*
13986749 TGAATGGTGTTTGTGAATGGTTTGC
1 TGAATGGTGTTTCTGAATGGTTTGC
*
13986774 TGAATGGTGTTTCTGAGTGGTTT
1 TGAATGGTGTTTCTGAATGGTTT
13986797 CCTAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.04, G:0.35, T:0.46
Consensus pattern (25 bp):
TGAATGGTGTTTCTGAATGGTTTGC
Found at i:13986807 original size:25 final size:25
Alignment explanation
Indices: 13986754--13986808 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
13986744 TATGTTGAAT
* * * *
13986754 GGTGTTTGTGAATGGTTTGCTGAAT
1 GGTGTTTCTGAATGGTTTCCTAAAG
*
13986779 GGTGTTTCTGAGTGGTTTCCTAAAG
1 GGTGTTTCTGAATGGTTTCCTAAAG
13986804 GGTGT
1 GGTGT
13986809 GTCTAAGCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.15, C:0.07, G:0.36, T:0.42
Consensus pattern (25 bp):
GGTGTTTCTGAATGGTTTCCTAAAG
Found at i:13992656 original size:26 final size:25
Alignment explanation
Indices: 13992619--13992674 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
13992609 TCTTGAGAAT
*
13992619 TAAACGATTATATTCACGAATATATA
1 TAAACGAATATATTCACGAATA-ATA
*
13992645 TAAACGAATATATTTACGAATAATA
1 TAAACGAATATATTCACGAATAATA
*
13992670 AAAAC
1 TAAAC
13992675 ACTAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (25 bp):
TAAACGAATATATTCACGAATAATA
Found at i:13993257 original size:19 final size:19
Alignment explanation
Indices: 13993235--13993294 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
13993225 TTGTTTATGC
13993235 ATAACATAAATAAATACGA
1 ATAACATAAATAAATACGA
* * * *
13993254 ATAATATAGATATACACGA
1 ATAACATAAATAAATACGA
* *
13993273 ATAGACATGACT-AATACGA
1 ATA-ACATAAATAAATACGA
13993292 ATA
1 ATA
13993295 TATACGAAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (19 bp):
ATAACATAAATAAATACGA
Found at i:13993288 original size:29 final size:29
Alignment explanation
Indices: 13993255--13993325 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
13993245 TAAATACGAA
*
13993255 TAATATAG-ATATACACGAATAGACATGAC
1 TAATA-AGAATATACACGAAAAGACATGAC
* * *
13993284 TAATACGAATATATACGAAAAGACATGAT
1 TAATAAGAATATACACGAAAAGACATGAC
* *
13993313 TAACATGAATATA
1 TAATAAGAATATA
13993326 TACAAAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (29 bp):
TAATAAGAATATACACGAAAAGACATGAC
Found at i:13993326 original size:29 final size:29
Alignment explanation
Indices: 13993263--13993333 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
13993253 AATAATATAG
* * *
13993263 ATATACACGAATAGACATGACTAATACGA
1 ATATATACGAAAAGACATGACTAACACGA
* *
13993292 ATATATACGAAAAGACATGATTAACATGA
1 ATATATACGAAAAGACATGACTAACACGA
*
13993321 ATATATACAAAAA
1 ATATATACGAAAA
13993334 CACAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.23
Consensus pattern (29 bp):
ATATATACGAAAAGACATGACTAACACGA
Found at i:13993493 original size:28 final size:30
Alignment explanation
Indices: 13993462--13993527 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
13993452 TTAATATGTA
13993462 TTTAATATATATGT-AT-A-TATATTCAAAT
1 TTTAATATATATGTCATAACTATATT-AAAT
* *
13993490 TTTAATATATATTTCATAACTATATTAATT
1 TTTAATATATATGTCATAACTATATTAAAT
13993520 TTTAATAT
1 TTTAATAT
13993528 CAAATTTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 13 0.39
29 2 0.06
30 12 0.36
31 6 0.18
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTAATATATATGTCATAACTATATTAAAT
Found at i:13994530 original size:21 final size:21
Alignment explanation
Indices: 13994505--13994544 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13994495 TAAATTTTAT
*
13994505 ACATTT-AATTTATATAATTAG
1 ACATTTCAATCTAT-TAATTAG
13994526 ACATTTCAATCTATTAATT
1 ACATTTCAATCTATTAATT
13994545 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
ACATTTCAATCTATTAATTAG
Found at i:13994563 original size:19 final size:21
Alignment explanation
Indices: 13994539--13994584 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
13994529 TTTCAATCTA
*
13994539 TTAATTTTAATTT-TTTA-TT
1 TTAATTTTAATTTAATTATTT
13994558 TTAATTTTAATTTAATTATTT
1 TTAATTTTAATTTAATTATTT
13994579 TTAATT
1 TTAATT
13994585 AAAAATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 3 0.12
21 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAATTTTAATTTAATTATTT
Found at i:13998419 original size:22 final size:22
Alignment explanation
Indices: 13998362--13998433 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
13998352 TTATGTGCTT
*
13998362 TAATAAAGA-GGACAAACAACTA
1 TAATAAA-ATGGACAAATAACTA
* * *
13998384 TAACAAAATAGACAAATAACTT
1 TAATAAAATGGACAAATAACTA
* * *
13998406 TAATAGAATGGACACATAACTC
1 TAATAAAATGGACAAATAACTA
13998428 TAATAA
1 TAATAA
13998434 CATTAATAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.56, C:0.14, G:0.10, T:0.21
Consensus pattern (22 bp):
TAATAAAATGGACAAATAACTA
Found at i:14000072 original size:29 final size:29
Alignment explanation
Indices: 14000040--14000119 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
14000030 TGTGTTTTTG
14000040 TATATATTCTTGTTAGTCGTGTCTATTCA
1 TATATATTCTTGTTAGTCGTGTCTATTCA
* * * *
14000069 TATATATCCATGTTAGTCGTATTTATTCA
1 TATATATTCTTGTTAGTCGTGTCTATTCA
* *
14000098 TGTATA-TCTGTGTTATTCGTGT
1 TATATATTCT-TGTTAGTCGTGT
14000120 TATGTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.51
Consensus pattern (29 bp):
TATATATTCTTGTTAGTCGTGTCTATTCA
Found at i:14000731 original size:31 final size:31
Alignment explanation
Indices: 14000696--14000838 Score: 108
Period size: 31 Copynumber: 4.7 Consensus size: 31
14000686 TTAATAATGC
*
14000696 AAATCAAT-ATCAATAATCATGCAAATAAATA
1 AAATCAATAAT-AAAAATCATGCAAATAAATA
* *
14000727 AAATCTATAATAAAAATCATGCAACTAAAT-
1 AAATCAATAATAAAAATCATGCAAATAAATA
*
14000757 --ATC-ATAAT-AAAAT-AT-CAAATTAATA
1 AAATCAATAATAAAAATCATGCAAATAAATA
*
14000782 AATATC-ATAATAAAAATCATGCTAATAAA-A
1 AA-ATCAATAATAAAAATCATGCAAATAAATA
*
14000812 TAATGCAATAAATATAATAATCATGCA
1 AAAT-CAAT-AATA-AA-AATCATGCA
14000839 TGTAATCATG
Statistics
Matches: 90, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
24 7 0.08
25 2 0.02
26 5 0.06
27 5 0.06
28 11 0.12
29 7 0.08
30 5 0.06
31 32 0.36
32 6 0.07
33 2 0.02
34 8 0.09
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (31 bp):
AAATCAATAATAAAAATCATGCAAATAAATA
Found at i:14000742 original size:13 final size:12
Alignment explanation
Indices: 14000726--14000801 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 12
14000716 GCAAATAAAT
14000726 AAAATCTATAATA
1 AAAATC-ATAATA
14000739 AAAATCATGCAACTA
1 AAAATCAT--AA-TA
*
14000754 AATATCATAATA
1 AAAATCATAATA
14000766 AAATATCAAATTAATA
1 AAA-ATC--A-TAATA
*
14000782 AATATCATAATA
1 AAAATCATAATA
14000794 AAAATCAT
1 AAAATCAT
14000802 GCTAATAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
12 18 0.35
13 12 0.23
14 2 0.04
15 13 0.25
16 7 0.13
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.29
Consensus pattern (12 bp):
AAAATCATAATA
Found at i:14000807 original size:15 final size:15
Alignment explanation
Indices: 14000789--14000829 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
14000779 ATAAATATCA
*
14000789 TAATAAAAATCATGC
1 TAATAAAAATAATGC
14000804 TAAT-AAAATAATGC
1 TAATAAAAATAATGC
*
14000818 -AATAAATATAAT
1 TAATAAAAATAAT
14000830 AATCATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 16 0.70
15 4 0.17
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (15 bp):
TAATAAAAATAATGC
Found at i:14000813 original size:28 final size:27
Alignment explanation
Indices: 14000723--14000810 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
14000713 CATGCAAATA
14000723 AATAAA-ATCTATAATAAAAATCATGC-
1 AATAAATATC-ATAATAAAAATCATGCT
***
14000749 AACTAAATATCATAATAAAATATCAAATT
1 AA-TAAATATCATAATAAAA-ATCATGCT
14000778 AATAAATATCATAATAAAAATCATGCT
1 AATAAATATCATAATAAAAATCATGCT
14000805 AATAAA
1 AATAAA
14000811 ATAATGCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 24 0.46
28 24 0.46
29 2 0.04
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.28
Consensus pattern (27 bp):
AATAAATATCATAATAAAAATCATGCT
Found at i:14001037 original size:17 final size:17
Alignment explanation
Indices: 14001011--14001083 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
14001001 AATCACAATT
*
14001011 AAATACAATAAATAAGA
1 AAATAAAATAAATAAGA
*
14001028 AAATAAAATAACA-AACA
1 AAATAAAATAA-ATAAGA
*
14001045 AAATAATAA-AAATCAAAA
1 AAATAA-AATAAAT-AAGA
* *
14001063 AAGAAAAAATAAAAAAGA
1 AA-ATAAAATAAATAAGA
14001081 AAA
1 AAA
14001084 ACCATAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.02
17 22 0.50
18 15 0.34
19 6 0.14
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.12
Consensus pattern (17 bp):
AAATAAAATAAATAAGA
Found at i:14001054 original size:20 final size:19
Alignment explanation
Indices: 14001027--14001116 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 19
14001017 AATAAATAAG
14001027 AAAATAAAATAACAAACAA
1 AAAATAAAATAACAAACAA
*
14001046 AATAATAAAA-ATCAAA-AA
1 AA-AATAAAATAACAAACAA
* * *
14001064 AGAA-AAAATAAAAAAGAA
1 AAAATAAAATAACAAACAA
14001082 AAACCATAAAATAA-AAACAA
1 AAA--ATAAAATAACAAACAA
*
14001102 AAAAT-TAATAACAAA
1 AAAATAAAATAACAAA
14001117 AAGAAAAAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.07
17 11 0.19
18 12 0.21
19 7 0.12
20 16 0.28
21 7 0.12
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAATAAAATAACAAACAA
Found at i:14001061 original size:15 final size:13
Alignment explanation
Indices: 14001010--14001118 Score: 76
Period size: 14 Copynumber: 7.9 Consensus size: 13
14001000 TAATCACAAT
* *
14001010 TAAATACAATAAA
1 TAAAAACAAAAAA
*
14001023 TAAGAAA-ATAAAA
1 TAA-AAACAAAAAA
14001036 TAACAAACAAAATAA
1 TAA-AAACAAAA-AA
14001051 TAAAAATCAAAAAA
1 TAAAAA-CAAAAAA
* *
14001065 GAAAAAATAAAAAA
1 -TAAAAACAAAAAA
* *
14001079 GAAAAACCATAAAA
1 TAAAAA-CAAAAAA
14001093 TAAAAACAAAAAA
1 TAAAAACAAAAAA
*
14001106 TTAATAACAAAAA
1 -TAAAAACAAAAA
14001119 GAAAAAGGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
13 24 0.32
14 37 0.49
15 15 0.20
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (13 bp):
TAAAAACAAAAAA
Done.