Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 42 of 120
Found at i:11382812 original size:91 final size:87
Alignment explanation
Indices: 11382677--11382845 Score: 257
Period size: 91 Copynumber: 1.9 Consensus size: 87
11382667 CTGTTTTTCA
* *
11382677 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGCACACGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTA--T-TTTT-AA
11382742 TTTCTGTTTTTCAAAAAACAAAAATC
62 TTTCTGTTTTTCAAAAAACAAAAATC
* * *
11382768 AAAATCAACTCATATTTCGAGAGGGGAGTTGAGCCTCGGGCACACGCCGACGTATTTTTAATTTC
1 AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTATTTTTAATTTC
11382833 TGTTTTTCAAAAA
66 TGTTTTTCAAAAA
11382846 TCAACTCATA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 19 0.26
88 4 0.05
89 1 0.01
91 49 0.67
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGAGGAGTTGAGCCTCAGGCACACGCCGACGTATTTTTAATTTC
TGTTTTTCAAAAAACAAAAATC
Found at i:11383438 original size:91 final size:88
Alignment explanation
Indices: 11383303--11383547 Score: 273
Period size: 91 Copynumber: 2.9 Consensus size: 88
11383293 CTGTTTTTCA
* * *
11383303 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGATATTTCTTTTAGA
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATA-TT-TTTCA-A
*
11383368 TTTCTGTTTTTCAAAAAATAAAAATC
63 TTTCTGTTTTTAAAAAAATAAAAATC
*
11383394 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
11383459 CTG-TTTT-------T--AAA--
66 CTGTTTTTAAAAAAATAAAAATC
* * * * *
11383470 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TCACGCTGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
*
11383534 CTGTTTTTCAAAAA
66 CTGTTTTTAAAAAA
11383548 TCAACTCATA
Statistics
Matches: 139, Mismatches: 8, Indels: 23
0.82 0.05 0.14
Matches are distributed among these distances:
75 25 0.18
76 42 0.30
78 3 0.02
80 1 0.01
87 4 0.03
88 7 0.05
89 4 0.03
90 2 0.01
91 51 0.37
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (88 bp):
AAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGATATTTTTCAATTT
CTGTTTTTAAAAAAATAAAAATC
Found at i:11383520 original size:626 final size:625
Alignment explanation
Indices: 11382190--11384128 Score: 2592
Period size: 626 Copynumber: 3.1 Consensus size: 625
11382180 CAAAAATTAT
11382190 TTTTTCAATTTCTGTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
1 TTTTTCAATTTCTG-TTTTT--AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
* * * *
11382255 TCACATGCCGAGGTATTTCTTTTAAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGA
63 TCACA-GCTGAGGTATTTC-TTTAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGA
* * * * *
11382320 GTTGAGCCTCAGACACATGCCGAGGTATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATT
126 GTTGAGCCTCGGGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATT
* * * * *
11382385 GTGAGAGGTGAATTGAGCCTCGGATCGCATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAA
191 GCGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAA
* * *
11382450 AATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTGTTTTAAAT
256 AATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTCTTTTAAAT
*
11382515 TTATGTTTTTCAATAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGT
321 TTATGTTTTTCAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGT
* *
11382580 ATTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
386 ATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGTC
*
11382645 ACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAG
451 ACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
11382710 CCTCAGGCACACGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAACAAAAATCAAAATCA
516 CCTCGGGCACACGCCGAGGTATTTCTTTT-AATTTCTGTTTTTCAAAAAA-AAAAATCAAAATCA
* * *
11382775 ACTCATATTTCGAGAGGGGAGTTGAGCCTCGGGCACACGCCGACGTA
579 ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
*
11382822 TTTTT-AATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
1 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
* *
11382885 CATGCTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGT
66 CA-GCTGAGGTATTTCT-TTAAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGT
*
11382950 TGA-CCTCGGGTCACACGCTGAGGTA-TTTTAAATTTCTGTTTTT-GAAAAATCAACTCATATTG
128 TGAGCCTCGGG-CACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTG
11383012 CGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAA
192 CGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAA
* *
11383077 ATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGATGTATTTTTTTTAAATT
257 ATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTCTTTTAAATT
* *
11383142 TATGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCAAGGTA
322 TATGTTTTTCAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
* * *
11383207 TTTTTTAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGGCTCGAGTCA
387 TTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGTCA
11383272 CGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
452 CGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
11383337 CTCGGGCACACGCCGAGATATTTCTTTTAGATTTCTGTTTTTCAAAAAATAAAAATCAAAATCAA
517 CTCGGGCACACGCCGAGGTATTTCTTTTA-ATTTCTGTTTTTCAAAAAA-AAAAATCAAAATCAA
*
11383402 CTCATATTACGAGAGGTGAGTTGAACCTCGGGCACACGCCGAGGTA
580 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
*
11383448 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
*
11383513 C-GCTGAGGTA-TT-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG-AGATGAGTT
66 CAGCTGAGGTATTTCTTTAAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAG-TGAGTT
* *
11383574 GAGCCTCGGGCATACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAACAAAAATCAAAA
129 GAGCCTCGGGCACACGCTGAGGTA--T-TTTTAAATTTCTGTTTTT----------AAA--AAAA
* * * ** *
11383639 TCAACTCATATTTCGATAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTA-TT-T-TT-AATTT
179 TCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATT
* * * * *
11383699 CTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTA
244 CTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGGTA
* * * * * * * *
11383764 TTTCTCTTAAAATTCTGTTTGTCAAAAATCAACTCATATTACTAGAAGTTAGTTGAGCCTCGGGT
309 TTTCTTTTAAATTTATGTTTTTCAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-
** * *
11383829 CACA-GTTGAGGTA-TTTTAAATTTCTATTTTT-CAAAAATCAACTCATATTGT-GAGAGGTGAG
373 CACACGCCGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATT-TCGAGAGGTGAG
* * *
11383890 TTGAGCCTCGGGTCGCACGCTGAAGTA-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTA
437 TTGAGCCTCGGGT--CACGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTG
* * * *
11383954 CGAGAGGTGAGTAGAGCCTCGGGTCGCATGTCGAGGTA-TTCTTTTCAATTTCTGTTTTTC----
500 CGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTATTTCTTTT-AATTTCTGTTTTTCAAAA
* * *
11384014 -----AA--AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATGCCGAGGTA
563 AAAAAAATCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGAGGTA
* * *
11384071 TTCTTTTCAATTTCTGTTTTTCAGAAAATCAACTCATAATT-CAAGAGATGAGTTGAGC
1 -T-TTTTCAATTTCTGTTTTTAAAAAAATCAACTCAT-ATTGCGAGAGATGAGTTGAGC
11384129 TTTGAGTCGC
Statistics
Matches: 1180, Mismatches: 91, Indels: 79
0.87 0.07 0.06
Matches are distributed among these distances:
622 40 0.03
623 65 0.06
624 14 0.01
625 50 0.04
626 446 0.38
627 122 0.10
628 89 0.08
630 5 0.00
631 8 0.01
632 5 0.00
633 38 0.03
634 94 0.08
635 145 0.12
636 6 0.01
637 1 0.00
638 3 0.00
639 11 0.01
640 38 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (625 bp):
TTTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
CAGCTGAGGTATTTCTTTAAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
GCCTCGGGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAA
AGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAAAATTCTGTTTGTCAAAAATCA
ACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTCTTTTAAATTTATG
TTTTTCAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTT
TAAATTTCTGTTTTTAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGTCACGCT
GAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGCACACGCCGAGGTATTTCTTTTAATTTCTGTTTTTCAAAAAAAAAAATCAAAATCAACTCATA
TTACGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTA
Found at i:11383687 original size:91 final size:87
Alignment explanation
Indices: 11383544--11383712 Score: 248
Period size: 91 Copynumber: 1.9 Consensus size: 87
11383534 CTGTTTTTCA
* *
11383544 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCATACGCTGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTA--T-TTTT-AA
11383609 TTTCTATTTTTCAAAAAACAAAAATC
62 TTTCTATTTTTCAAAAAACAAAAATC
* * *
11383635 AAAATCAACTCATATTTCGATAGGTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
*
11383700 TGTTTTTCAAAAA
66 TATTTTTCAAAAA
11383713 TTAACTCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 18 0.25
88 4 0.06
89 1 0.01
91 49 0.68
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTC
TATTTTTCAAAAAACAAAAATC
Found at i:11384031 original size:228 final size:230
Alignment explanation
Indices: 11382768--11384128 Score: 1241
Period size: 241 Copynumber: 5.8 Consensus size: 230
11382758 AACAAAAATC
* * * * * *
11382768 AAAATCAACTCATATTTCGAGAGGGGAGTTGAGCCTCGGG-CACACGCCGACGTA-TT-T-TT-A
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
* * * * *
11382828 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCGGGTCACATGCTG
66 AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAG-TGAGTAGAGCCTCGGGTCACATGCCG
* * * * * *
11382892 AGGTATTTCTCTTAAAATTCTGTTTGTCA-AAAATCAACTCATATTGCTAGAAGTGAGTTGA-CC
130 AGGTA-TT-T-TTAAATTTCTATTTTTCAGAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCC
* * *
11382955 TCGGGTCACACGCTGAGGTATTTTAAATTTCTGTTTTTGA
192 TCGGG-CACACGCCGAAGTATTTTAAATTTCTGTTTTTCA
* * * *
11382995 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTCTCTTAA
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
* * * *
11383060 AATTCTGTTTGTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTCACATGCCGA
66 AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTAGAGCCTCGGGTCACATGCCGA
* * * * *
11383125 TGTATTTTTTTTAAATTTATGTTTTTCA-ATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
131 GGTA---TTTTTAAATTTCTATTTTTCAGAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCT
* *
11383189 CGGGCACACGCC-AAGGTATTTTTTAATTTCTGTTTTTAAA
193 CGGGCACACGCCGAA-GTA-TTTTAAATTTCTGTTTTT-CA
* * * * *
11383229 AAAATCAACTCATATTTCGAGAGGTGAGTTGAGGCTCGAGTCAC--GCTGAGGTA-TT-T-TTCA
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
* * * * * *
11383289 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCCGA
66 AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTAGAGCCTCGGGTCACATGCCGA
* * * * *
11383353 GATATTTCTTTTAGATTTCTGTTTTTCAAAAAATAAAAATCAAAATCAACTCATATTACGAGAGG
131 GGTA--T-TTTTAAATTTCTATTTTTC-----------A-GAAAATCAACTCATATTTCGAGAGG
* * * *
11383418 TGAGTTGAACCTCGGGCACACGCCGAGGTATTTTTCAATTTCTGTTTTTAAA
181 TGAGTTGAGCCTCGGGCACACGCCGAAGTA-TTTTAAATTTCTGTTTTT-CA
* * *
11383470 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TT-T-TTCA
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
* * * * * * *
11383530 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCGGG-CATACGCTG
66 AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAG-TGAGTAGAGCCTCGGGTCACATGCCG
* *
11383593 AGGTATTTCTTTTAAATTTCTATTTTTCAAAAAACAAAAATCAAAATCAACTCATATTTCGATAG
130 AGGTA--T-TTTTAAATTTCTATTTTT-------C----A-GAAAATCAACTCATATTTCGAGAG
* *
11383658 GTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTAATTTCTGTTTTTCA
180 GTGAGTTGAGCCTCGGGCACACGCCGAAGTATTTTAAATTTCTGTTTTTCA
* * * *
11383709 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTCTCTTAA
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
* * * **
11383774 AATTCTGTTTGTCAAAAATCAACTCATATTACTAGAAGTTAGTTGAGCCTCGGGTCACA-GTTGA
66 AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTAGAGCCTCGGGTCACATGCCGA
11383838 GGTA-TTTTAAATTTCTATTTTTCA-AAAATCAACTCATATTGT-GAGAGGTGAGTTGAGCCTCG
131 GGTATTTTTAAATTTCTATTTTTCAGAAAATCAACTCATATT-TCGAGAGGTGAGTTGAGCCTCG
* *
11383900 GGTCGCACGCTGAAGTATTTTAAATTTCTGTTTTTCA
195 GG-CACACGCCGAAGTATTTTAAATTTCTGTTTTTCA
* * *
11383937 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATG-TCGAGGTA-TTCTTTTC
1 AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCT-GAGGTATTTCTCTTA
* * * *
11384000 AATTTCTGTTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCGCATGCC
65 AAATTCTGTTTGTC-AAAAATCAACTCATATTACGAGAAGTGAGTAGAGCCTCGGGTCACATGCC
* * * * *
11384065 GAGGTATTCTTTTCAATTTCTGTTTTTCAGAAAATCAACTCATAATTCAAGAGATGAGTTGAGC
129 GAGGTA-T-TTTTAAATTTCTATTTTTCAGAAAATCAACTCATATTTCGAGAGGTGAGTTGAGC
11384129 TTTGAGTCGC
Statistics
Matches: 988, Mismatches: 94, Indels: 98
0.84 0.08 0.08
Matches are distributed among these distances:
227 96 0.10
228 158 0.16
229 62 0.06
230 2 0.00
231 5 0.01
232 142 0.14
233 57 0.06
234 44 0.04
239 44 0.04
240 36 0.04
241 275 0.28
242 3 0.00
243 1 0.00
244 57 0.06
245 5 0.01
248 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (230 bp):
AAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGGTCACATGCTGAGGTATTTCTCTTAA
AATTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTAGAGCCTCGGGTCACATGCCGA
GGTATTTTTAAATTTCTATTTTTCAGAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGG
GCACACGCCGAAGTATTTTAAATTTCTGTTTTTCA
Found at i:11384332 original size:20 final size:20
Alignment explanation
Indices: 11384307--11384349 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11384297 TGTGTTTAAA
*
11384307 AAAATTGCATTTTGACCCCT
1 AAAATTACATTTTGACCCCT
11384327 AAAATTACATTTTGACCCCT
1 AAAATTACATTTTGACCCCT
11384347 AAA
1 AAA
11384350 CTTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTACATTTTGACCCCT
Found at i:11384361 original size:30 final size:29
Alignment explanation
Indices: 11384326--11384441 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 29
11384316 TTTTGACCCC
11384326 TAAAATTACATTTTGACCCCTAAACTTTT
1 TAAAATTACATTTTGACCCCTAAACTTTT
** *
11384355 TAAAAATTACATTTCAACCCCTAAACATTT
1 T-AAAATTACATTTTGACCCCTAAACTTTT
* *
11384385 TGAAATTACATTTTGACCCCTAAAATTTCT
1 TAAAATTACATTTTGACCCCTAAACTTT-T
* *
11384415 CAAAATTACATTTTGACACCTAAACTT
1 TAAAATTACATTTTGACCCCTAAACTT
11384442 CCTCAGAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.32
30 50 0.68
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAATTACATTTTGACCCCTAAACTTTT
Found at i:11384437 original size:59 final size:59
Alignment explanation
Indices: 11384328--11384439 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
11384318 TTGACCCCTA
* * *
11384328 AAATTACATTTTGACCCCTAAACTTTTTAAAAATTACATTTCAACCCCTAAACATTTTG
1 AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAACATTTTG
* **
11384387 AAATTACATTTTGACCCCTAAAATTTCTCAAAATTACATTTTGACACCTAAAC
1 AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAAC
11384440 TTCCTCAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (59 bp):
AAATTACATTTTGACCCCTAAAATTTCTAAAAATTACATTTCAACACCTAAACATTTTG
Found at i:11384666 original size:21 final size:22
Alignment explanation
Indices: 11384625--11384674 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11384615 CAAACCCCCA
*
11384625 AAAGAAAAAGAAGAGAAAAGAG
1 AAAGAAAAAGAAGACAAAAGAG
11384647 AAAGAAAAA-AA-ACAACAAGAG
1 AAAGAAAAAGAAGACAA-AAGAG
11384668 AAA-AAAA
1 AAAGAAAA
11384675 TTAGCAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 9 0.35
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAGACAAAAGAG
Found at i:11385412 original size:3 final size:3
Alignment explanation
Indices: 11385404--11385463 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
11385394 AGGGTTTGAG
* *
11385404 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA AAA GAA GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
*
11385450 GAA -AA AAA GAA GAA
1 GAA GAA GAA GAA GAA
11385464 AAAAGCAACA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11385428 original size:18 final size:18
Alignment explanation
Indices: 11385405--11385463 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
11385395 GGGTTTGAGG
11385405 AAGAAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAGAAA
11385423 AAGAAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAGAAA
11385441 AAGAAG-A-AAGAA-AAA
1 AAGAAGAAGAAGAAGAAA
11385456 AAGAAGAA
1 AAGAAGAA
11385464 AAAAGCAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.22
16 6 0.15
17 1 0.03
18 24 0.60
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAGAAA
Found at i:11385813 original size:32 final size:33
Alignment explanation
Indices: 11385770--11385831 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
11385760 TCTTGTTTTT
*
11385770 TTTTTCTAAGCATTTTTTTTATTTCGTATTACG
1 TTTTTCTAAGCATTTTTTATATTTCGTATTACG
11385803 TTTTT-TAAGCATTTTTTATATTTCGTATT
1 TTTTTCTAAGCATTTTTTATATTTCGTATT
11385832 TAATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.63
Consensus pattern (33 bp):
TTTTTCTAAGCATTTTTTATATTTCGTATTACG
Found at i:11385843 original size:10 final size:10
Alignment explanation
Indices: 11385828--11385861 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
11385818 TTATATTTCG
11385828 TATTTAATTT
1 TATTTAATTT
11385838 TATTTAATTT
1 TATTTAATTT
*
11385848 CA-TTAATTT
1 TATTTAATTT
11385857 TATTT
1 TATTT
11385862 TTTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTAATTT
Found at i:11386128 original size:18 final size:17
Alignment explanation
Indices: 11386089--11386127 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11386079 GTAATTTATC
* *
11386089 AAAATTTTCGTGTTTTT
1 AAAAATTTCGTGTTTTA
11386106 AAAAATTTCGTGTTTTA
1 AAAAATTTCGTGTTTTA
11386123 AAAAA
1 AAAAA
11386128 AAATTCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTA
Found at i:11386170 original size:19 final size:18
Alignment explanation
Indices: 11386146--11386204 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
11386136 ATGTTTCGAT
11386146 ATTTTCATGTCTTCAAAAA
1 ATTTTCATGT-TTCAAAAA
11386165 ATTTTCTCATGTTTCAAAAA
1 A-TTT-TCATGTTTCAAAAA
* * *
11386185 CTATTCGTGTTTTCAAAAA
1 ATTTTCATG-TTTCAAAAA
11386204 A
1 A
11386205 ATAAGGCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 11 0.33
21 6 0.18
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (18 bp):
ATTTTCATGTTTCAAAAA
Found at i:11386381 original size:18 final size:18
Alignment explanation
Indices: 11386360--11386752 Score: 169
Period size: 18 Copynumber: 21.5 Consensus size: 18
11386350 TTTTGTGTTT
11386360 TTTCGTGTTTTCAAAAAA
1 TTTCGTGTTTTCAAAAAA
11386378 TTTC-TCGTGTTTC-AAAAA
1 TTTCGT-GT-TTTCAAAAAA
*
11386396 TCTTCATGTTTTC-AAAAA
1 T-TTCGTGTTTTCAAAAAA
11386414 TCTTCGTGTTTTC-AAAAA
1 T-TTCGTGTTTTCAAAAAA
11386432 TCTTCGTGTTTTC-AAAAA
1 T-TTCGTGTTTTCAAAAAA
* *
11386450 TTCCGGTGTTTT-AAAAAT
1 TTTC-GTGTTTTCAAAAAA
*
11386468 TTTTGTGTTTT-AAGAAAA
1 TTTCGTGTTTTCAA-AAAA
* *
11386486 TTCCG-GTGATTCAAAAAAAAA
1 TTTCGTGT-TTTC---AAAAAA
* *
11386507 TTTAGT-TTTCCAAGAAAAAAACA
1 TTTCGTGTTTTC-----AAAAA-A
11386530 TTTCGTG-TTTC-AAAAA
1 TTTCGTGTTTTCAAAAAA
* *
11386546 TTTCCGTATTTTCAAAAAT
1 TTT-CGTGTTTTCAAAAAA
* *
11386565 TTTCTTGTTTTC-AACAA
1 TTTCGTGTTTTCAAAAAA
* *
11386582 TTCTCGTG-TTTCACAAAT
1 TT-TCGTGTTTTCAAAAAA
***
11386600 TTTCGTGTTTT--AATTT
1 TTTCGTGTTTTCAAAAAA
**
11386616 TTTTTTGTTTTCAAAAAA
1 TTTCGTGTTTTCAAAAAA
*
11386634 TTCTCGTG-TTTCAAAAAT
1 TT-TCGTGTTTTCAAAAAA
*
11386652 TTTCGTGTTTT-AAAAAT
1 TTTCGTGTTTTCAAAAAA
* *
11386669 TTTCGTG-TTTC-TAAAG
1 TTTCGTGTTTTCAAAAAA
* *
11386685 TTTC-TGTGTGTCAAAAAT
1 TTTCGTGT-TTTCAAAAAA
*
11386703 TTTCATGTTTTCAAAAAAAA
1 TTTCGTGTTTTC--AAAAAA
*
11386723 TTCTCGTGTTTTAAAAAAAAA
1 TT-TCGTGTTTT--CAAAAAA
11386744 TTTCGTGTT
1 TTTCGTGTT
11386753 CTTTTTTTAA
Statistics
Matches: 292, Mismatches: 46, Indels: 72
0.71 0.11 0.18
Matches are distributed among these distances:
15 2 0.01
16 25 0.09
17 56 0.19
18 128 0.44
19 22 0.08
20 17 0.06
21 24 0.08
22 9 0.03
23 9 0.03
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTCGTGTTTTCAAAAAA
Found at i:11386544 original size:17 final size:16
Alignment explanation
Indices: 11386524--11386719 Score: 122
Period size: 17 Copynumber: 11.3 Consensus size: 16
11386514 TTCCAAGAAA
11386524 AAAACATTTCGTGTTTC
1 AAAA-ATTTCGTGTTTC
*
11386541 AAAAATTTCCGTATTTTC
1 AAAAATTT-CGT-GTTTC
*
11386559 AAAAATTTTCTTGTTTTC
1 AAAAA-TTTCGTG-TTTC
*
11386577 AACAATTCTCGTGTTTC
1 AAAAATT-TCGTGTTTC
* *
11386594 ACAAATTTTCGTGTTTT
1 A-AAAATTTCGTGTTTC
*** **
11386611 AATTTTTTTTTGTTTTC
1 AAAAATTTCGTG-TTTC
11386628 AAAAAATTCTCGTGTTTC
1 -AAAAATT-TCGTGTTTC
*
11386646 AAAAATTTTCGTGTTTT
1 AAAAA-TTTCGTGTTTC
11386663 AAAAATTTTCGTGTTTC
1 AAAAA-TTTCGTGTTTC
* * *
11386680 TAAAGTTTCTGTGTGTC
1 AAAAATTTC-GTGTTTC
*
11386697 AAAAATTTTCATGTTTTC
1 AAAAA-TTTCGTG-TTTC
11386715 AAAAA
1 AAAAA
11386720 AAATTCTCGT
Statistics
Matches: 139, Mismatches: 27, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
16 15 0.11
17 69 0.50
18 49 0.35
19 6 0.04
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:11386652 original size:52 final size:52
Alignment explanation
Indices: 11386523--11386718 Score: 202
Period size: 52 Copynumber: 3.8 Consensus size: 52
11386513 TTTCCAAGAA
* *
11386523 AAAAACATT-TCGTGTTTCAAAAATTTCCGTATTTTCAAAAATTTTCTTGTTTTC
1 AAAAA-ATTCTCGTGTTTCAAAAATTTTCGTGTTTT--AAAATTTTCTTGTTTTC
* * ** *
11386577 -AACAATTCTCGTGTTTCACAAATTTTCGTGTTTTAATTTTTTTTTGTTTTC
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAATTTTCTTGTTTTC
*
11386628 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAAATTTTCGTG-TTTC
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-AAAATTTTCTTGTTTTC
* ** * *
11386680 TAAAGTTTCT-GTGTGTCAAAAATTTTCATGTTTTCAAAA
1 AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-AAAA
11386719 AAAATTCTCG
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
51 40 0.33
52 46 0.38
53 34 0.28
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (52 bp):
AAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAATTTTCTTGTTTTC
Found at i:11386741 original size:20 final size:20
Alignment explanation
Indices: 11386697--11386752 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
11386687 TCTGTGTGTC
* * *
11386697 AAAAATTTTCATGTTTTCAA
1 AAAAAATTTCGTGTTTTAAA
11386717 AAAAAATTCTCGTGTTTTAAA
1 AAAAAATT-TCGTGTTTTAAA
11386738 AAAAAATTTCGTGTT
1 AAAAAATTTCGTGTT
11386753 CTTTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
AAAAAATTTCGTGTTTTAAA
Found at i:11387489 original size:44 final size:43
Alignment explanation
Indices: 11387441--11388377 Score: 348
Period size: 44 Copynumber: 21.6 Consensus size: 43
11387431 TTTTAGTCTA
*
11387441 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAT-TTCAATCTG
** * * *
11387485 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATAAGATCTAATT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAT-TTCA-ATC---TG
* * * * * *
11387534 CGACCTACTGCAATTTCAGAGG-TATATGATTCATCGT-TTT-AATCCG
1 C-TCC-ACTGCAACTTCAG-GGAGATAAGA--C-TTGTATTTCAATCTG
* * * ***
11387580 CTCCACTGCAACTTCAGAGAGATAGGA-TTAGTTTCTTTTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * *
11387624 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAT-TTCAATCTG
* * * * *
11387669 C-CCTACTGCAAATTCA-GGAGGATAAGAC-CGGATAT-GATCTG
1 CTCC-ACTGCAACTTCAGGGA-GATAAGACTTGTATTTCAATCTG
* * * * * ** * * * * *
11387710 TTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGT-ATTTCAATCTG
* * * * **
11387754 CTCCGCTGCAACTTTAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
** * * *
11387798 CTCCACTGCAACTTCAGAAAGATAAGAC-TGGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * * *
11387839 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * **
11387883 CTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * * *
11387927 CTCCACTACAACTTCAGGGAGATAAGAC-TGGA-TGCGATCTT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * *
11387968 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGT-TTTTAAT-TCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCT-G
* * * **
11388012 CTCCACTGTAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * *
11388056 CTCCATTGCAACTTCAGGGAGATAAGAC-TG-AATGCGAT-TG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* ** * *
11388096 CTCTACTGCAACTTCAAAGAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * *
11388140 CTCCACTGAAACTTCAGGGAGATAAGAC-TGGA-TGCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
* * ** * *
11388181 CTCTATTGCAACTTCAGAAAGATAAGATCTGTGT-TTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTATTTCAATCTG
* * * **
11388225 CTCCACTGTAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT-TTCAATCTG
* * * * * * *
11388269 CTCTACAGTAACTTCAGGAAGATAAGAC-TGGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
** * * * * *
11388310 CTTTACTGCAACTTCAGAGAGATAATA-TATGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGT-ATTTCAATCTG
*
11388354 CTCCACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
11388378 GGATTGGTGG
Statistics
Matches: 650, Mismatches: 179, Indels: 128
0.68 0.19 0.13
Matches are distributed among these distances:
40 26 0.04
41 145 0.22
42 20 0.03
43 25 0.04
44 360 0.55
45 40 0.06
46 3 0.00
49 5 0.01
50 3 0.00
51 17 0.03
52 3 0.00
53 1 0.00
54 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTATTTCAATCTG
Found at i:11387837 original size:129 final size:129
Alignment explanation
Indices: 11387579--11388163 Score: 784
Period size: 129 Copynumber: 4.5 Consensus size: 129
11387569 GTTTTAATCC
* * ** *
11387579 GCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-GTGTT-TTTAATCCGCTCCACTGCAACTTCAGG
* * * * * * * **
11387642 GAGATAAGACTCGCTATCTT-TAGTCTGC-CCTACTGCAAATTCAGGAGGATAAGACCGGATATG
64 GAGATAGGA-TTGGTTTCTTCT-GTCTGCTCC-ACTGCAACTTCAGGAAGATAAGACTGGATGCG
11387705 ATCT
126 ATCT
* * * * * * * * *
11387709 GTTCTACTACGATTTCATAGAGACAAGATTTGTGTTTTTAATCCGCTCCGCTGCAACTTTAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
11387774 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGATCT
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
11387838 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
11387903 GATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCT
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
* * *
11387967 TCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
11388032 GATAGGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCGAT-T
66 GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
* *
11388095 GCTCTACTGCAACTTCAAAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGAAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
11388160 GATA
66 GATA
11388164 AGACTGGATG
Statistics
Matches: 406, Mismatches: 45, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
128 66 0.16
129 281 0.69
130 56 0.14
131 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATCT
Found at i:11387906 original size:85 final size:85
Alignment explanation
Indices: 11387797--11388248 Score: 434
Period size: 85 Copynumber: 5.3 Consensus size: 85
11387787 TCTTCTGTCT
**
11387797 GCTCCACTGCAACTTCAGAAAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
11387862 AAGATCTGTGTTTTTAATCC
66 AAGATCTGTGTTTTTAATCC
* * * * * * *
11387882 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG-TCTGCTCCACTACAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGG---ATGC-GATCTGCTCTACTGCAACTTCAGAG
* *** *
11387946 AGATAAGA-CTG-G-ATGCGATCT
62 AGATAAGATCTGTGTTTTTAATCC
* * * * *** * * *
11387967 TCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAAT-TCGCTCCACTGTAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CTG-G-ATGCGATCT-GCTCTACTGCAACTTCAGAG
* ** *
11388031 AGATAGGAT-TG-GTTTCTTCTGTCT
62 AGATAAGATCTGTGTTT-TT-AATCC
* * *
11388055 GCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCGAT-TGCTCTACTGCAACTTCAAAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
11388119 AAGATCTGTGTTTTTAATCC
66 AAGATCTGTGTTTTTAATCC
* * * *
11388139 GCTCCACTGAAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTATTGCAACTTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
11388204 AAGATCTGTGTTTTTAATCC
66 AAGATCTGTGTTTTTAATCC
*
11388224 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
11388249 GGATTGGTTT
Statistics
Matches: 297, Mismatches: 55, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
84 62 0.21
85 162 0.55
86 8 0.03
87 7 0.02
88 57 0.19
89 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
AAGATCTGTGTTTTTAATCC
Found at i:11388155 original size:213 final size:214
Alignment explanation
Indices: 11387926--11388377 Score: 728
Period size: 213 Copynumber: 2.1 Consensus size: 214
11387916 TCTTCTGTCT
* * *
11387926 GCTCCACT-ACAACTTCAGGGAGATAAGACTGGATGCGATCTTCTCTACTGCAACTTCAGAGAGA
1 GCTCCACTGA-AACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGA
*
11387990 TAAGATCTGTGTTTTTAATTCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
65 TAAGATCTGTGTTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
** *
11388055 GCTCCATTGCAACTTCAGGGAGATAAGACTGAATGCGAT-TGCTCTACTGCAACTTCAAAGAGAT
130 GCTCCACAGCAACTTCAGGAAGATAAGACTGAATGCGATCTGCTCTACTGCAACTTCAAAGAGAT
*
11388119 AAGATCTGTGTTTTTAATCC
195 AAGATATGTGTTTTTAATCC
*
11388139 GCTCCACTGAAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTATTGCAACTTCAGAAAGAT
1 GCTCCACTGAAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGAT
11388204 AAGATCTGTGTTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
66 AAGATCTGTGTTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
* * * * *
11388269 CTCTACAGTAACTTCAGGAAGATAAGACTGGATGCGATCTGCTTTACTGCAACTTCAGAGAGATA
131 CTCCACAGCAACTTCAGGAAGATAAGACTGAATGCGATCTGCTCTACTGCAACTTCAAAGAGATA
*
11388334 ATATATGTGTTTTTAATCC
196 AGATATGTGTTTTTAATCC
* *
11388353 GCTCCACTGCAACTTCAGAGAGATA
1 GCTCCACTGAAACTTCAGGGAGATA
11388378 GGATTGGTGG
Statistics
Matches: 220, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
213 155 0.70
214 65 0.30
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (214 bp):
GCTCCACTGAAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGAT
AAGATCTGTGTTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
CTCCACAGCAACTTCAGGAAGATAAGACTGAATGCGATCTGCTCTACTGCAACTTCAAAGAGATA
AGATATGTGTTTTTAATCC
Found at i:11388293 original size:129 final size:129
Alignment explanation
Indices: 11388149--11388385 Score: 393
Period size: 129 Copynumber: 1.8 Consensus size: 129
11388139 GCTCCACTGA
* * *
11388149 AACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTATTGCAACTTCAGAAAGATAAGATCTGTG
1 AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
* *
11388214 TTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
66 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
* * * *
11388278 AACTTCAGGAAGATAAGACTGGATGCGATCTGCTTTACTGCAACTTCAGAGAGATAATATATGTG
1 AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
11388343 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGT
66 TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGT
11388386 GGTTTCGCTG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (129 bp):
AACTTCAGGAAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAAAGATAAGATATGTG
TTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCTACAGT
Found at i:11389000 original size:108 final size:107
Alignment explanation
Indices: 11388822--11389016 Score: 275
Period size: 108 Copynumber: 1.8 Consensus size: 107
11388812 GAAAAATGCT
* *
11388822 TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAATAAATC
1 TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAATC
11388887 AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * * **
11388929 TGAAAATGATTATCACAATGGATAATATGGAAA-TTTCTTGAGAGTAAAGCTTTAAATGAACAAA
1 TGAAAA-GATTATCAAAATGGAGAAAAT-GAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAA
*
11388993 TTAATCAAGATAGCAAATTTTGCT
64 TCAATCAAGATAGCAAATTTTGCT
11389017 AGAATGAGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
107 6 0.08
108 66 0.87
109 4 0.05
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (107 bp):
TGAAAAGATTATCAAAATGGAGAAAATGAAATTTTCTTGAGAGCAAAGCTCTAAACAAACAAATC
AATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:11389374 original size:17 final size:18
Alignment explanation
Indices: 11389339--11389384 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
11389329 GGCCTCTCCT
11389339 TTTTTCCTTTTCTTTTTCA
1 TTTTT-CTTTTCTTTTTCA
11389358 TTTTTCTTTTC-TTTTCA
1 TTTTTCTTTTCTTTTTCA
11389375 TTTTTCTTTT
1 TTTTTCTTTT
11389385 TTTCAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 16 0.59
18 6 0.22
19 5 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTCA
Found at i:11389385 original size:6 final size:6
Alignment explanation
Indices: 11389339--11389385 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
11389329 GGCCTCTCCT
*
11389339 TTTTTC CTTTTC TTTTTC ATTTTTC -TTTTC -TTTTC ATTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
11389386 TTCAAGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 10 0.28
6 15 0.42
7 11 0.31
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:11389846 original size:22 final size:21
Alignment explanation
Indices: 11389820--11389867 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11389810 CCCCGATAGA
* *
11389820 GTTTTTT-ATTTTTTGCTTTT
1 GTTTTTTAAATTTTTACTTTT
11389840 GTTTTTTAAATTTTTACTTTT
1 GTTTTTTAAATTTTTACTTTT
11389861 GTTTTTT
1 GTTTTTT
11389868 TGTTGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.10, C:0.04, G:0.08, T:0.77
Consensus pattern (21 bp):
GTTTTTTAAATTTTTACTTTT
Found at i:11398763 original size:2 final size:2
Alignment explanation
Indices: 11398756--11398783 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11398746 TAAGATGACT
11398756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11398784 ATTAGAGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11401909 original size:132 final size:132
Alignment explanation
Indices: 11401672--11401930 Score: 464
Period size: 132 Copynumber: 2.0 Consensus size: 132
11401662 CTGCATTGAC
11401672 AGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
11401737 CAAGCCTTGTCTCCATCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAAGCA
11401802 GT
131 GT
*
11401804 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
11401869 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAA
66 CAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAA
11401931 AGTTGCAGTG
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAAGCA
GT
Found at i:11401988 original size:132 final size:132
Alignment explanation
Indices: 11401671--11401991 Score: 360
Period size: 132 Copynumber: 2.4 Consensus size: 132
11401661 CCTGCATTGA
* * * * ** *
11401671 CAGTGGAGAAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCCAAGATAGCAGAAAGCAGATTTAAGCCA
* * *
11401736 CCAAGCCTTGTCTCCATCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
66 CCAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAAGC
11401801 AG
131 AG
* * * * ** *
11401803 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCCAAGATAGCAGAAAGCAGATTTAAGCCA
* *
11401868 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAAAG
66 CCAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCT-AAG
**
11401933 TTG
130 CAG
* * * * *
11401936 CAGTGGAGCGGAT-TAAAACCTC-AGATCTTATCTCTCTGAAG-TTGCAGAAAGCAGAT
1 CAGTGGAGCAGATCGAAAACCGCGA-ATCTTATCTCTC-CAAGATAGCAGAAAGCAGAT
11401992 CGCATCTAGT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
131 1 0.01
132 146 0.88
133 18 0.11
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCCAAGATAGCAGAAAGCAGATTTAAGCCA
CCAAGCCTTGTCTCCATCAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAAGC
AG
Found at i:11402058 original size:44 final size:45
Alignment explanation
Indices: 11401999--11402120 Score: 187
Period size: 45 Copynumber: 2.7 Consensus size: 45
11401989 GATCGCATCT
11401999 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCA
* *
11402043 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
11402088 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
11402121 TTAAATGTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.45
45 36 0.51
46 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:11402061 original size:84 final size:87
Alignment explanation
Indices: 11401920--11402125 Score: 210
Period size: 84 Copynumber: 2.4 Consensus size: 87
11401910 TTGTAAATCC
* * * *
11401920 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAG-A
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGTA
*
11401984 AAGCAGA-TCG-CAT-CTAGTCT
66 AAGCAGACT-GACATGCAAGTCT
*
11402004 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATC-CTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AACCTAAGATCTTATCTCT-CTGAAGTTGCA
*** *
11402066 GTGGGGCAGACTGAAGATGGCAAGTCT
63 GTAAAGCAGACTG-ACAT-GCAAGTCT
*
11402093 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
11402126 TGTAACACCT
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
83 2 0.02
84 48 0.47
85 8 0.08
86 4 0.04
87 3 0.03
89 37 0.36
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGTA
AAGCAGACTGACATGCAAGTCT
Found at i:11402785 original size:13 final size:13
Alignment explanation
Indices: 11402767--11402791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11402757 AATTGTTTAT
11402767 CAAATGCATATAC
1 CAAATGCATATAC
11402780 CAAATGCATATA
1 CAAATGCATATA
11402792 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:11403033 original size:41 final size:41
Alignment explanation
Indices: 11402977--11403107 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
11402967 TGATTCGGTA
* * *
11402977 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAAT-T-T
* *
11403018 CACCGGCATTAAGCCTGCAAGACGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
* * * * *
11403059 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
*
11403100 CACTGGCA
1 CACCGGCA
11403108 ATAAATCAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 72 0.94
42 2 0.03
43 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
Found at i:11404781 original size:25 final size:25
Alignment explanation
Indices: 11404736--11404784 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11404726 TATTTGTTTA
*
11404736 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
11404761 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
11404785 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:11410543 original size:13 final size:13
Alignment explanation
Indices: 11410525--11410549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11410515 AATTGTTTAT
11410525 CAAATGCATATAC
1 CAAATGCATATAC
11410538 CAAATGCATATA
1 CAAATGCATATA
11410550 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:11410791 original size:41 final size:41
Alignment explanation
Indices: 11410735--11410865 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
11410725 TGATTCGGTA
* * *
11410735 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAAT-T-T
*
11410776 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
* * * * * *
11410817 CACTGGCATAAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
*
11410858 CACTGGCA
1 CACCGGCA
11410866 ATAAATCAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 74 0.94
42 2 0.03
43 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
Found at i:11412572 original size:45 final size:43
Alignment explanation
Indices: 11412480--11412919 Score: 387
Period size: 44 Copynumber: 10.0 Consensus size: 43
11412470 GATCGCATCT
* * *
11412480 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAT-GGCA
*
11412524 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATGGCA
* *
11412569 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-GCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATGGC-A
* * * ** *
11412612 TATTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTC
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATGGC-A
** * ** *
11412656 AGATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-TCGCAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATGGCA
* * * *
11412697 AGTCTTATCTCCCTGAAGTTGTAGTGCAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAT-GGCA
* * *
11412741 AGTCCTATC-CTCCTAAAGTTGCAGTGGGGCAGACTGAAATTGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAA-TGGCA
11412786 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATTGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAA-TGGCA
* *
11412831 AGTCTTATCTCCCTGTAGTTGCAGTGGAGCAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAT-GGCA
11412875 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAAATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT--AAATGGCA
11412920 CTAATTCCTA
Statistics
Matches: 329, Mismatches: 44, Indels: 45
0.79 0.11 0.11
Matches are distributed among these distances:
40 19 0.06
41 9 0.03
42 5 0.02
43 17 0.05
44 154 0.47
45 117 0.36
46 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATGGCA
Found at i:11412593 original size:89 final size:88
Alignment explanation
Indices: 11412480--11412919 Score: 420
Period size: 89 Copynumber: 5.0 Consensus size: 88
11412470 GATCGCATCT
* *
11412480 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTC-CCTGAAGTT
* *
11412544 GCAGTGGGGCAGACTGAAGATGGCA
65 GCAGTGGAGCAGACT-AAAATGGCA
* *** * *
11412569 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG-ATATTCCTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA-AGTCTTATCTCCCTGAAGTT
* ***
11412633 GCAGTGGAGCAGATTAAAACCTC-
65 GCAGTGGAGCAGACTAAAATGGCA
** * ** *
11412656 AGATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-TCGCAT---CTAGTCTTATCTCCCTGAAGT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCAAGTCTTATCTCCCTGAAGT
* *
11412716 TGTAGTGCAGCAGACTAAGTAA--GCA
64 TGCAGTGGAGCAGACTAA--AATGGCA
* * * **
11412741 AGTCCTATC-CTCCTAAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCAAGTCTTATCTCCCTGAAGT
11412805 TGCAGTGGAGCAGACTAAAATTGGCA
64 TGCAGTGGAGCAGACTAAAA-TGGCA
*
11412831 AGTCTTATCTCCCTGTAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATC-CTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTC-CCTGAAGTT
11412895 GCAGT-GAGGCAGACTGAAAATGGCA
65 GCAGTGGA-GCAGACT-AAAATGGCA
11412920 CTAATTCCTA
Statistics
Matches: 285, Mismatches: 45, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
84 50 0.18
85 8 0.03
86 6 0.02
87 12 0.04
88 28 0.10
89 143 0.50
90 37 0.13
91 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTAAAATGGCA
Found at i:11412773 original size:217 final size:219
Alignment explanation
Indices: 11412391--11412868 Score: 777
Period size: 217 Copynumber: 2.2 Consensus size: 219
11412381 NNNNNNNNNN
* *
11412391 CCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTTATCTTTCTGA
1 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCTTATCTTTCTGA
* *
11412456 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAA
66 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTAAGTAA
* *
11412521 GCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGA-TGGCAAGTCTTATCTCCCTGA
131 GCAAGTCCTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAA-ATTGGCAAGTCTTATCTCCCTGA
*
11412585 AGTTGCAGTGGAGCAGA-TTAAA-G
195 AGTTGCAGTGGAGCAGACTAAAATG
*
11412608 CCGATATTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCTTATCTTTCTGA
1 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCTTATCTTTCTGA
*
11412673 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGCAGCAGACTAAGTAA
66 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTAAGTAA
11412738 GCAAGTCCTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAA
131 GCAAGTCCTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAA
11412803 GTTGCAGTGGAGCAGACTAAAATTG
196 GTTGCAGTGGAGCAGACTAAAA-TG
* * * * *
11412828 GC-A-AGTCTTATCTCCCTGTAGTTGCAGTGGAGCAGACTAAA
1 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
11412869 TAAGCAAGTC
Statistics
Matches: 243, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
216 1 0.00
217 201 0.83
218 38 0.16
219 1 0.00
220 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (219 bp):
CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCTTATCTTTCTGA
AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTAAGTAA
GCAAGTCCTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAA
GTTGCAGTGGAGCAGACTAAAATG
Found at i:11413109 original size:19 final size:19
Alignment explanation
Indices: 11413085--11413159 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
11413075 AATTTTTGAG
11413085 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
11413104 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
11413123 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
11413144 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
11413160 ATATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
21 17 0.34
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11413822 original size:2 final size:2
Alignment explanation
Indices: 11413810--11413852 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
11413800 TATTTTTCTC
* * * *
11413810 AT AT TT AT AT AT AT AT GT AT AT AT AT AT AT AT CT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11413852 A
1 A
11413853 CGTAATTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11413836 original size:18 final size:18
Alignment explanation
Indices: 11413810--11413852 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11413800 TATTTTTCTC
*
11413810 ATATTTATATATATATGT
1 ATATATATATATATATGT
*
11413828 ATATATATATATATCTGT
1 ATATATATATATATATGT
11413846 ATATATA
1 ATATATA
11413853 CGTAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (18 bp):
ATATATATATATATATGT
Found at i:11413884 original size:22 final size:21
Alignment explanation
Indices: 11413858--11413902 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11413848 ATATACGTAA
11413858 TTTTGAGAAATGTACTCATTAT
1 TTTTGA-AAATGTACTCATTAT
*
11413880 TTTTGATAATGTACTCATTAT
1 TTTTGAAAATGTACTCATTAT
11413901 TT
1 TT
11413903 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTTGAAAATGTACTCATTAT
Found at i:11413997 original size:23 final size:25
Alignment explanation
Indices: 11413943--11413991 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11413933 TATGTACATG
*
11413943 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
11413968 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
11413992 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:11414829 original size:98 final size:98
Alignment explanation
Indices: 11414660--11414856 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
11414650 TTTAAAATAA
* *
11414660 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11414725 TTAAATCTTGGAGAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGAGAAGTGGATGTTCTTTTAAAG
*
11414758 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
11414823 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGAGAAGTGGATGTTCTTTTAAAG
11414856 T
1 T
11414857 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGAGAAGTGGATGTTCTTTTAAAG
Found at i:11418515 original size:39 final size:42
Alignment explanation
Indices: 11418408--11418519 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 42
11418398 CGTTTGGTTC
*
11418408 GTTGTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTAGTTG
1 GTTGTAATGGAATAGAGGCGTAATAGC-AATC-ATTGTGTA-TTG
** *
11418453 AATGTAATGGAATAGAAGCGTAATAGCAATC-TTGTGT-TTG
1 GTTGTAATGGAATAGAGGCGTAATAGCAATCATTGTGTATTG
*
11418493 GTTG-AATGGAATAGAGGTGTAATAGCA
1 GTTGTAATGGAATAGAGGCGTAATAGCA
11418520 TAATGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 21 0.36
40 5 0.08
42 5 0.08
44 4 0.07
45 24 0.41
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (42 bp):
GTTGTAATGGAATAGAGGCGTAATAGCAATCATTGTGTATTG
Found at i:11418682 original size:16 final size:16
Alignment explanation
Indices: 11418645--11418686 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11418635 TTAATCATAT
*
11418645 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11418661 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11418676 TTAAAATATAT
1 TTAAAATATAT
11418687 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11418693 original size:14 final size:15
Alignment explanation
Indices: 11418654--11418695 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11418644 TTTAAACATA
*
11418654 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11418669 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11418683 A-TATAATTTAATA
1 ATTATAATTAAATA
11418696 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11418796 original size:120 final size:120
Alignment explanation
Indices: 11418648--11418891 Score: 461
Period size: 120 Copynumber: 2.0 Consensus size: 120
11418638 ATCATATTTA
*
11418648 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
11418713 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
11418768 AACATAATTATTGTTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
*
11418833 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
11418888 AACA
1 AACA
11418892 CTCATGTTTA
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:11418821 original size:44 final size:43
Alignment explanation
Indices: 11418741--11418823 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
11418731 CTCAAATCAT
* *
11418741 AATATATGATACTATAAAATATAAATTAACATAATTATTGTTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTGTTA
* *
11418784 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATT
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATT
11418824 AATAATCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.38
44 12 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTGTTA
Found at i:11418866 original size:59 final size:59
Alignment explanation
Indices: 11418683--11418866 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
11418673 TAATTAAAAT
*
11418683 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * *
11418742 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTGTTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTATTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
11418801 AT-
57 ATA
11418803 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
11418862 ATATA
1 ATATA
11418867 TGATACTATA
Statistics
Matches: 96, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.12
58 7 0.07
59 20 0.21
60 11 0.11
61 15 0.16
62 7 0.07
63 12 0.12
64 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:11418878 original size:61 final size:61
Alignment explanation
Indices: 11418693--11418880 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
11418683 ATATAATTTA
*
11418693 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * * *
11418754 ATAAAA-TATAAATTAA-C-ATAATTATTGT-TAAATATA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT
11418812 AATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
11418874 ATAAAAT
1 ATAAAAT
11418881 ATAATTTAAC
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (61 bp):
ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:11418920 original size:22 final size:22
Alignment explanation
Indices: 11418892--11419010 Score: 166
Period size: 22 Copynumber: 5.4 Consensus size: 22
11418882 TAATTTAACA
11418892 CTCATGTTTAACGTACTAAGCT
1 CTCATGTTTAACGTACTAAGCT
* * *
11418914 CTCATGTTTAACGAACTAAACC
1 CTCATGTTTAACGTACTAAGCT
**
11418936 CTCATGGCTAACGTACTAAGCT
1 CTCATGTTTAACGTACTAAGCT
**
11418958 CTCATGGCTAACGTACTAAGCT
1 CTCATGTTTAACGTACTAAGCT
*
11418980 CTCATGTTTCACGTACTAAGCT
1 CTCATGTTTAACGTACTAAGCT
11419002 CTCATGTTT
1 CTCATGTTT
11419011 GAACAATAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 86 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
CTCATGTTTAACGTACTAAGCT
Found at i:11429566 original size:21 final size:22
Alignment explanation
Indices: 11429540--11429586 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11429530 AATCCCATCA
*
11429540 TTCCAA-AAAAA-ATCCCTTTGT
1 TTCCAAGAAAAAGA-CCCATTGT
11429561 TTCCAAGAAAAAGACCCATTGT
1 TTCCAAGAAAAAGACCCATTGT
11429583 TTCC
1 TTCC
11429587 CAGATTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (22 bp):
TTCCAAGAAAAAGACCCATTGT
Found at i:11434750 original size:5 final size:5
Alignment explanation
Indices: 11434735--11434766 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11434725 TTCTCAAAGA
*
11434735 TTTTC TCTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
11434767 GAGAGTTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:11435427 original size:17 final size:17
Alignment explanation
Indices: 11435393--11435430 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11435383 ATAAAGTATT
11435393 AATTTAAAAAATCGTAAA
1 AATTTAAAAAATC-TAAA
11435411 AATTTAAAAGAAT-TAAA
1 AATTTAAAA-AATCTAAA
11435428 AAT
1 AAT
11435431 AAGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (17 bp):
AATTTAAAAAATCTAAA
Found at i:11438167 original size:17 final size:17
Alignment explanation
Indices: 11438145--11438178 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11438135 TGATCCAAAC
* *
11438145 TATATTGCTTCAAACAA
1 TATATTCCTGCAAACAA
11438162 TATATTCCTGCAAACAA
1 TATATTCCTGCAAACAA
11438179 ACTTTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
TATATTCCTGCAAACAA
Found at i:11441303 original size:12 final size:13
Alignment explanation
Indices: 11441253--11441327 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
11441243 CCAATGTTCC
*
11441253 ATTTCACATATCT
1 ATTTCATATATCT
* *
11441266 ATTTTCATATAACC
1 A-TTTCATATATCT
11441280 ATTTCATATATCT
1 ATTTCATATATCT
11441293 ATTTC-TATATCT
1 ATTTCATATATCT
* *
11441305 A-TTCATATAACC
1 ATTTCATATATCT
11441317 ATTTCATATAT
1 ATTTCATATAT
11441328 ATCAAGAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
11 3 0.06
12 14 0.27
13 24 0.47
14 10 0.20
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTCATATATCT
Found at i:11442036 original size:32 final size:32
Alignment explanation
Indices: 11441995--11442062 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
11441985 ATACATACAT
11441995 ATACATATTTATTGATAATGCTCTAAAATGAC
1 ATACATATTTATTGATAATGCTCTAAAATGAC
11442027 ATACATATTTATTGATAATGCTCTAAAATGAC
1 ATACATATTTATTGATAATGCTCTAAAATGAC
11442059 ATAC
1 ATAC
11442063 TTTTTTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (32 bp):
ATACATATTTATTGATAATGCTCTAAAATGAC
Found at i:11446851 original size:45 final size:44
Alignment explanation
Indices: 11446764--11446856 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
11446754 ATTACAACAT
*
11446764 CATTCTATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
11446808 CATTCCATTCAACCAAACA-ATTA-AATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA--AGAA-TACTATTACAGTTCTATTC
11446853 CATT
1 CATT
11446857 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 20 0.44
45 24 0.53
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:11446859 original size:16 final size:16
Alignment explanation
Indices: 11446838--11446892 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
11446828 TTAAATTACT
*
11446838 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
11446854 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
11446870 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
11446886 ATTACAG
1 ATTACAG
11446893 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:11447840 original size:24 final size:24
Alignment explanation
Indices: 11447770--11447841 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
11447760 ATTTTCATAA
**
11447770 TCAGATACAGATGCAAATTTAGAT
1 TCAGATACAGATGCAAACATAGAT
* * * *
11447794 TCAAATACAAAT-AAATACGTAGAT
1 TCAGATACAGATGCAA-ACATAGAT
*
11447818 TCAGATACAGATGCAGACATAGAT
1 TCAGATACAGATGCAAACATAGAT
11447842 CCTACCTCCA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
23 2 0.06
24 33 0.92
25 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (24 bp):
TCAGATACAGATGCAAACATAGAT
Found at i:11450313 original size:57 final size:57
Alignment explanation
Indices: 11450250--11450373 Score: 203
Period size: 57 Copynumber: 2.2 Consensus size: 57
11450240 ATTTTCATTT
*
11450250 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAGGACATATACTTA
1 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
* * *
11450307 TATGGAGCATGCCCAAGATTTATTTTTATCACATTGTCCTTCTAAGACATATACTTT
1 TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
*
11450364 TTTGGAGCAT
1 TATGGAGCAT
11450374 TTTAGTTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (57 bp):
TATGGAGCATGCCCAAGACTTATTTTTATCACACTGTCCTTCTAAGACATATACTTA
Found at i:11456966 original size:18 final size:18
Alignment explanation
Indices: 11456926--11456968 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11456916 AAAAATACTG
*
11456926 ATAATAATGAAAGTGGTA
1 ATAATAATGAAAGTGATA
*
11456944 GTAATAATGATAA-TGATA
1 ATAATAATGA-AAGTGATA
11456962 ATAATAA
1 ATAATAA
11456969 CTAAACTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
ATAATAATGAAAGTGATA
Found at i:11458128 original size:13 final size:13
Alignment explanation
Indices: 11458103--11458146 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
11458093 TCTGCTGGTT
11458103 TAGGCTAGTTGGGC
1 TAGGCT-GTTGGGC
*
11458117 TAGGGTGTTGGGC
1 TAGGCTGTTGGGC
11458130 TTAGGCTGATTGGGC
1 -TAGGCTG-TTGGGC
11458145 TA
1 TA
11458147 ATTGGGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.14, C:0.11, G:0.43, T:0.32
Consensus pattern (13 bp):
TAGGCTGTTGGGC
Found at i:11465896 original size:3 final size:3
Alignment explanation
Indices: 11465888--11465979 Score: 143
Period size: 3 Copynumber: 31.3 Consensus size: 3
11465878 AAATGAAAGG
11465888 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
11465935 AGA AAA AG- AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGG AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
11465980 AGAGAGGGTG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 4 0.05
3 77 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11466061 original size:33 final size:34
Alignment explanation
Indices: 11465996--11466067 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
11465986 GGTGGTGCCG
* *
11465996 GAAAAA-GA-AAAGAAAAAGAGAGAAAGAGAATA
1 GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
* *
11466028 GAGAAAGGAGAAAGAAAGAGA-AGAAAAAAAATA
1 GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
11466061 GAAAAAG
1 GAAAAAG
11466068 TAAGGTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 5 0.15
33 18 0.55
34 10 0.30
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (34 bp):
GAAAAAGGAGAAAGAAAAAGAGAGAAAAAAAATA
Found at i:11466063 original size:24 final size:23
Alignment explanation
Indices: 11466000--11466064 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
11465990 GTGCCGGAAA
*
11466000 AAGAAAAGAAAAAGAGAGAAAGAG
1 AAGAAAA-AAAAAGAAAGAAAGAG
* * **
11466024 AATAGAGAAAGGAGAAAGAAAGAG
1 AAGA-AAAAAAAAGAAAGAAAGAG
11466048 AAGAAAAAAAATAGAAA
1 AAGAAAAAAAA-AGAAA
11466065 AAGTAAGGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
23 4 0.13
24 24 0.80
25 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAAAAGAAAGAAAGAG
Found at i:11466341 original size:41 final size:41
Alignment explanation
Indices: 11466239--11466463 Score: 100
Period size: 40 Copynumber: 5.7 Consensus size: 41
11466229 GTTTAGTTAT
* * *
11466239 TAATAATTATTGTTACTTAG-TATTATTGTTAGTAAAAAAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
* *
11466279 TAA-TATTATTATTATGGTTAGTTATTA-AGATTAGTAAAAACCC
1 TAATTATTATTATTA--CTTAGTTATTATAG-TTAGTAAAAA-AC
* * *** *
11466322 TAATTATTATT-TTACTTAG-TATGATTGTTAGTTTTTACAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAG-TAAAAAAC
* * **
11466362 T-A-TATTATTGTTAGTTA-TTATT-T--TTAGTAAAACCC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
* * **
11466397 TAATTATTATTGTTAGTTAG-TATTATTTTTAGTAAAAAAC
1 TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
* *
11466437 TATCATCATCATTATTA-TTA-TTATTAT
1 TA--ATTATTATTATTACTTAGTTATTAT
11466464 TATTATTATT
Statistics
Matches: 142, Mismatches: 24, Indels: 37
0.70 0.12 0.18
Matches are distributed among these distances:
35 5 0.04
36 5 0.04
37 19 0.13
38 9 0.06
39 19 0.13
40 25 0.18
41 21 0.15
42 25 0.18
43 7 0.05
44 7 0.05
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (41 bp):
TAATTATTATTATTACTTAGTTATTATAGTTAGTAAAAAAC
Found at i:11466417 original size:76 final size:76
Alignment explanation
Indices: 11466288--11466429 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 76
11466278 CTAATATTAT
11466288 TATTATGGTTAGTTATTAAGATTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAG
1 TATTATGGTTAGTTATTAAGATTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAG
11466353 TTTTTACACTA
66 TTTTTACACTA
* *** * * *
11466364 TATTATTGTTAGTTATTATTTTTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTA
1 TATTATGGTTAGTTATTAAGATTAGTAAAAACCCTAATTATTATT-TTACTTAGTATGATTGTTA
11466428 GT
65 GT
11466430 AAAAAACTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 18 0.31
76 40 0.69
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (76 bp):
TATTATGGTTAGTTATTAAGATTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAG
TTTTTACACTA
Found at i:11466453 original size:3 final size:3
Alignment explanation
Indices: 11466447--11466512 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
11466437 TATCATCATC
11466447 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11466495 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
11466513 GTGTTAGTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11466455 original size:75 final size:76
Alignment explanation
Indices: 11466309--11466458 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 76
11466299 GTTATTAAGA
*** * * **
11466309 TTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAGTTTTTACACTATATTATTGTT
1 TTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAGTTAAAAAACTATATCATCATT
11466374 AGTTATTATTT
66 AGTTATTATTT
* * *
11466385 TTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAG-TAAAAAACTATCATCATCA
1 TTAGTAAAAACCCTAATTATTATT-TTACTTAGTATGATTGTTAGTTAAAAAACTAT-ATCATCA
11466448 TTA-TTATTATT
64 TTAGTTATTATT
11466459 ATTATTATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
75 33 0.53
76 29 0.47
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (76 bp):
TTAGTAAAAACCCTAATTATTATTTTACTTAGTATGATTGTTAGTTAAAAAACTATATCATCATT
AGTTATTATTT
Found at i:11471903 original size:15 final size:15
Alignment explanation
Indices: 11471883--11471911 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11471873 TCAAAAAATA
11471883 TATTATTTTATATTT
1 TATTATTTTATATTT
11471898 TATTATTTTATATT
1 TATTATTTTATATT
11471912 ATTTTAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:11472109 original size:160 final size:158
Alignment explanation
Indices: 11471842--11472377 Score: 782
Period size: 159 Copynumber: 3.4 Consensus size: 158
11471832 TAATTTCAAT
** * * *
11471842 GTATTTTTCTTATTTTCGGATTTTATTACTATCAAAAAATATATTATTTT-ATATTTTATTATTT
1 GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
11471906 TATATTATTTTAGTACATAAAGTTCGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATT-ATTTAGTGTGTTTTTTTATATAAATTTAG
11471971 TAAAAAAACCCTTATTTTGGCCATTTGTTC
130 T-AAAAAACCCTTATTTTGGCCATTTGTTC
11472001 GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
11472066 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTA
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTA-TTTAGTGTG-TTTTTTTATATAAATTTA
**
11472131 GT-AAAAACCCTTATTTTGGCTTTTTGTTC
129 GTAAAAAACCCTTATTTTGGCCATTTGTTC
* * *
11472160 GGT-TTTTTCTTATTTTCGAATTTTATTTCTTTCAAAAAATATTCTATTTTCGTATTTTATTATT
1 -GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
* * * *
11472224 TCATATCATTTTAGTACATAATGTTTGAAATATATTATTTAGTGTCTTTTTTTATATAAATTTAG
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTAGTGTGTTTTTTTATATAAATTTAG
*
11472289 TAAAAAACCCTTATTTTGGCCCTTTGTTC
130 TAAAAAACCCTTATTTTGGCCATTTGTTC
* ***
11472318 GTA-TTTT-TT-TTTTCAGATTTTATTACTTTCGGTAAATATACTATTTTCGT-TTTT-TTATTT
1 GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
11472378 CTTTTCGTAT
Statistics
Matches: 346, Mismatches: 25, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
153 6 0.02
154 4 0.01
155 34 0.10
156 2 0.01
157 26 0.08
158 33 0.10
159 164 0.47
160 57 0.16
161 20 0.06
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (158 bp):
GTATTTTTCTTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTAGTGTGTTTTTTTATATAAATTTAGT
AAAAAACCCTTATTTTGGCCATTTGTTC
Found at i:11472434 original size:28 final size:27
Alignment explanation
Indices: 11472379--11472437 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
11472369 TTTTTATTTC
11472379 TTTTCGTATTTTTTTTCATAAACATATT
1 TTTTCGTATTTTTTTT-ATAAACATATT
11472407 TTTTCAGTATTTTATTTT-TAATAC-TATT
1 TTTTC-GTATTTT-TTTTATAA-ACATATT
11472435 TTT
1 TTT
11472438 GTAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 15 0.54
29 9 0.32
30 4 0.14
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTCGTATTTTTTTTATAAACATATT
Found at i:11472562 original size:30 final size:30
Alignment explanation
Indices: 11472528--11472661 Score: 176
Period size: 30 Copynumber: 4.7 Consensus size: 30
11472518 AAATTAAATA
11472528 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
11472558 AAATAATAAAACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
11472580 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
11472610 AAATAATTAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
11472640 AAATAATTAAACATAGAATGTA
1 AAATAATAAAACATAGAATGTA
11472662 TGAATGAAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
22 14 0.15
23 2 0.02
25 2 0.02
26 4 0.04
27 2 0.02
29 3 0.03
30 64 0.70
ACGTcount: A:0.60, C:0.08, G:0.07, T:0.25
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:11472572 original size:14 final size:14
Alignment explanation
Indices: 11472528--11472582 Score: 67
Period size: 14 Copynumber: 3.8 Consensus size: 14
11472518 AAATTAAATA
11472528 AAATAATAAAACAT
1 AAATAATAAAACAT
*
11472542 AGAAT-GTACATAACAT
1 A-AATAATA-A-AACAT
11472558 AAATAATAAAACAT
1 AAATAATAAAACAT
11472572 AAATAATAAAA
1 AAATAATAAAA
11472583 TAATAAGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 19 0.54
15 8 0.23
16 8 0.23
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAATAAAACAT
Found at i:11472587 original size:52 final size:52
Alignment explanation
Indices: 11472524--11472624 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
11472514 AAATAAATTA
11472524 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAAT
1 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAAT
* * *
11472576 AATAAAATAATAAGACATAGTATGTACATAACATAAATAATTAAACATA
1 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATA
11472625 GAATGTACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (52 bp):
AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAAT
Found at i:11472624 original size:14 final size:14
Alignment explanation
Indices: 11472605--11472654 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
11472595 GTATGTACAT
11472605 AACATAAATAATTA
1 AACATAAATAATTA
11472619 AACATAGAATGTACA-T-
1 AACATA-AA--TA-ATTA
11472635 AACATAAATAATTA
1 AACATAAATAATTA
11472649 AACATA
1 AACATA
11472655 GAATGTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 12 0.40
15 4 0.13
16 6 0.20
17 3 0.10
18 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.26
Consensus pattern (14 bp):
AACATAAATAATTA
Found at i:11472870 original size:3 final size:3
Alignment explanation
Indices: 11472864--11472972 Score: 71
Period size: 3 Copynumber: 36.0 Consensus size: 3
11472854 TTCTCTCCCC
* * * *
11472864 CTT CTT CTT CTT CTT CTT CTC CTT C-T CTT TTT CTT TTT CCTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT
* ** * **
11472909 CTT CCTT CTG CGC CTC CTT CCC CTT CTT CTT CTT C-T CTT CTT -TT
1 CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
11472953 CTT CTT CTCT CATT CTT CTT
1 CTT CTT CT-T C-TT CTT CTT
11472973 TCCTGCAACT
Statistics
Matches: 82, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
2 6 0.07
3 66 0.80
4 9 0.11
5 1 0.01
ACGTcount: A:0.01, C:0.37, G:0.02, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:11472959 original size:22 final size:22
Alignment explanation
Indices: 11472932--11472973 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
11472922 CTCCTTCCCC
11472932 TTCTTCTTCT-TC--TCTTCTT
1 TTCTTCTTCTCTCATTCTTCTT
11472951 TTCTTCTTCTCTCATTCTTCTT
1 TTCTTCTTCTCTCATTCTTCTT
11472973 T
1 T
11472974 CCTGCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
22 8 0.40
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTCTTCTCTCATTCTTCTT
Found at i:11481238 original size:25 final size:25
Alignment explanation
Indices: 11481210--11481268 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
11481200 TTTAAACTTT
*
11481210 AAACCCAAATACCCATTGAAT-TTTA
1 AAACCCAAATACACATT-AATATTTA
*
11481235 AAACTC-AATACACATTAATATTTA
1 AAACCCAAATACACATTAATATTTA
11481259 AAACCCAAAT
1 AAACCCAAAT
11481269 TGATAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 18 0.62
25 8 0.28
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (25 bp):
AAACCCAAATACACATTAATATTTA
Found at i:11481399 original size:18 final size:18
Alignment explanation
Indices: 11481376--11481411 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11481366 TCTCTATGTC
11481376 AGTTCGATTTATTCGGTT
1 AGTTCGATTTATTCGGTT
11481394 AGTTCGATTTATTCGGTT
1 AGTTCGATTTATTCGGTT
11481412 TACATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
AGTTCGATTTATTCGGTT
Found at i:11483833 original size:28 final size:28
Alignment explanation
Indices: 11483775--11483840 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
11483765 TCGGTTAATC
*
11483775 GGTCGGTTAACCGAATTAATTCAATCGG
1 GGTCGGTTAACCGAATTAATTCAATCAG
* **
11483803 GGTTGGTTAACCGAATTAATTCGGTCAG
1 GGTCGGTTAACCGAATTAATTCAATCAG
11483831 GGTCGGTTAA
1 GGTCGGTTAA
11483841 TAATTTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
GGTCGGTTAACCGAATTAATTCAATCAG
Found at i:11487087 original size:38 final size:39
Alignment explanation
Indices: 11487045--11487147 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 39
11487035 TGAAATTACT
* *
11487045 GAAGTATAATA-GGGCACGTATGTGCAACCAGGGGTACC
1 GAAGTATAACAGGGGCACGTATGTGCAACCAGAGGTACC
* **
11487083 GAAGTATAAACAGGGGCACATATGTGCAATTAGAGGTACC
1 GAAGTAT-AACAGGGGCACGTATGTGCAACCAGAGGTACC
* *
11487123 GAAGTACAAACATGGGCACGTATGT
1 GAAGTA-TAACAGGGGCACGTATGT
11487148 ACAATTAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 7 0.13
39 3 0.06
40 44 0.81
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (39 bp):
GAAGTATAACAGGGGCACGTATGTGCAACCAGAGGTACC
Found at i:11487153 original size:40 final size:40
Alignment explanation
Indices: 11487056--11487155 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
11487046 AAGTATAATA
** * *
11487056 GGGCACGTATGTGCAACCAGGGGTACCGAAGTATAAACAG
1 GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
* *
11487096 GGGCACATATGTGCAATTAGAGGTACCGAAGTACAAACAT
1 GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
*
11487136 GGGCACGTATGTACAATTAG
1 GGGCACGTATGTGCAATTAG
11487156 GTATAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGCACGTATGTGCAATTAGAGGTACCGAAGTACAAACAG
Found at i:11498255 original size:16 final size:16
Alignment explanation
Indices: 11498234--11498269 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11498224 TGGTTCGCTA
11498234 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
*
11498250 TAATGGATTAGAGGCG
1 TAATGGAATAGAGGCG
11498266 TAAT
1 TAAT
11498270 AGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:11498313 original size:45 final size:44
Alignment explanation
Indices: 11498249--11498345 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
11498239 GAATAGAGGC
*
11498249 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
11498294 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
11498338 GGAATGGA
1 GTAATGGA
11498346 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:11498523 original size:18 final size:17
Alignment explanation
Indices: 11498502--11498536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11498492 TTATTATTAA
*
11498502 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11498520 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11498537 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11498643 original size:120 final size:120
Alignment explanation
Indices: 11498482--11498960 Score: 823
Period size: 120 Copynumber: 4.0 Consensus size: 120
11498472 TTAATCATAT
* * *
11498482 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * * * *
11498547 CAATATTCTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATAT
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
11498602 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
**
11498667 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
11498722 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
11498787 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATATTATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
11498842 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
11498907 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
11498961 GATTAATAAT
Statistics
Matches: 344, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 344 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
Found at i:11498837 original size:44 final size:42
Alignment explanation
Indices: 11498788--11498951 Score: 100
Period size: 38 Copynumber: 4.0 Consensus size: 42
11498778 CTTAATATTA
*
11498788 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACT
1 AATATTATTATATGAATTTAATAAAATCATAA-ATATAATACT
* * *
11498831 -ATA-TA-T-TAT-AATTTAAAATAATTATTATTAAATATAAT-TT
1 AATATTATTATATGAATTT--AATAA-AATCA-TAAATATAATACT
** * *
11498871 AATAAAAATATAT-AATTTAATAAAATTC-TTAATAT--TA--
1 AATATTATTATATGAATTTAATAAAA-TCATAAATATAATACT
*
11498908 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACT
1 AATATTATTATATGAATTTAATAAAATCATAA-ATATAATACT
11498951 A
1 A
11498952 TATAATATAG
Statistics
Matches: 91, Mismatches: 13, Indels: 34
0.66 0.09 0.25
Matches are distributed among these distances:
37 11 0.12
38 20 0.22
39 7 0.08
40 13 0.14
41 17 0.19
42 13 0.14
43 2 0.02
44 8 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (42 bp):
AATATTATTATATGAATTTAATAAAATCATAAATATAATACT
Found at i:11498908 original size:18 final size:18
Alignment explanation
Indices: 11498742--11498895 Score: 69
Period size: 18 Copynumber: 8.9 Consensus size: 18
11498732 TTATTATTAA
11498742 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
11498760 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
11498778 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
11498797 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
11498815 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
*
11498831 ATAT-ATTATAATTTAAAAT
1 ATATAATT-TAA-TAAAAAT
* *
11498850 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
11498862 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
11498880 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
11498896 TTCTTAATAT
Statistics
Matches: 98, Mismatches: 22, Indels: 32
0.64 0.14 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 10 0.10
17 12 0.12
18 41 0.42
19 16 0.16
20 3 0.03
21 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:11502627 original size:98 final size:98
Alignment explanation
Indices: 11502403--11502597 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
11502393 ATGCAATAAA
* * *
11502403 ACTTTAAAAGAACATCCA-TTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
1 ACTTTAAAAGAACATCCACTT-ATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAAT
*
11502467 CCCTTTAGAATCCCAAACTCGGAATATTTCCTTT
65 CCCTTTAGAATCCCAAACTCGAAATATTTCCTTT
*
11502501 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATC
*
11502566 CCTTTAGAATCTCAAACTCGAAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTT
11502598 CATGATTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 88 0.98
99 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
Found at i:11503659 original size:22 final size:22
Alignment explanation
Indices: 11503631--11503678 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
11503621 CGCGCCGGCT
*
11503631 GCCGATCACTGGCGCCGGCACC
1 GCCGATCACCGGCGCCGGCACC
11503653 GCCGATCACCGGCGCCGGCACC
1 GCCGATCACCGGCGCCGGCACC
11503675 GCCG
1 GCCG
11503679 TCTATGGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.48, G:0.33, T:0.06
Consensus pattern (22 bp):
GCCGATCACCGGCGCCGGCACC
Found at i:11504696 original size:44 final size:44
Alignment explanation
Indices: 11504648--11505274 Score: 269
Period size: 44 Copynumber: 14.2 Consensus size: 44
11504638 CTGCAACTTC
11504648 AGGGAGATAAGATTTGCCA-TCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTG-CAGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * *
11504692 AGGGAGATAAGATCTT-CAATCTTAAATTTTCTCCGCTGCTACTC
1 AGGGAGATAAGAT-TTGCAGTCTTCAATCTGCTCCACTACTGCTT
* ** ** * *
11504736 AGGGAGACAAGGCTTGGTGGC-TCAAATCTACTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCAGTCTTC-AATCTGC-T-CCACTACTGCTT
* * * *
11504780 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* * ** * * * * *
11504824 AAGGAGATAAGATCTATAATCTTCAACCTCCTCCGCTACTGCTC
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* * * * *
11504868 AGGGAGACAAGGCTTTG-TGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTT
* * * *
11504912 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* * ** * * * *
11504956 AAGGAGATAAGATCTATAATCTTCAACCTCCTCCGCTACTGCTT
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* ** ** * *
11505000 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTT
* * * *
11505044 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * *
11505088 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTC
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* ** ** * * *
11505132 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCAC-AAT-CTT
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGC-T-CCACTACTGCTT
* * * *
11505176 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
11505220 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTC
1 AGGGAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
11505264 AGGGAGATAAG
1 AGGGAGATAAG
11505275 GCTTGGTGGC
Statistics
Matches: 405, Mismatches: 147, Indels: 62
0.66 0.24 0.10
Matches are distributed among these distances:
42 22 0.05
43 26 0.06
44 318 0.79
45 21 0.05
46 18 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATTTGCAGTCTTCAATCTGCTCCACTACTGCTT
Found at i:11504740 original size:132 final size:132
Alignment explanation
Indices: 11504652--11505344 Score: 1138
Period size: 132 Copynumber: 5.2 Consensus size: 132
11504642 AACTTCAGGG
* * * *
11504652 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTAA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
** * * * *
11504717 ATTTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTCAAATCTACTTCCCACTATCTTGG
66 ACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
11504782 AA
131 AA
*
11504784 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTAT-AATCTTC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TCAATCTTC
* *
11504848 AACCTCCTCCGCTACTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTG
65 AACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
11504913 GAA
130 GAA
*
11504916 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTAT-AATCTTC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TCAATCTTC
* *
11504980 AACCTCCTCCGCTACTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
65 AACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
11505045 GAA
130 GAA
*
11505048 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
* * *
11505113 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACAATCTTGG
66 ACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
11505178 AA
131 AA
*
11505180 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
* * *
11505245 ACCTTCTCCACTACTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTTCTTCCCACTATCTTGG
66 ACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
11505310 AA
131 AA
11505312 AGATAAGATTCGCCGTCTTCGATCTGCTCCACT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACT
11505345 GTCAATGCAA
Statistics
Matches: 533, Mismatches: 26, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
132 532 1.00
133 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
ACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AA
Found at i:11510050 original size:21 final size:22
Alignment explanation
Indices: 11510028--11510070 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
11510018 GTATAATTTA
11510028 TTTA-TGTAATGAAAGAATATAT
1 TTTAGTGT-ATGAAAGAATATAT
11510050 TTTAGGTGTATGAAAGAATAT
1 TTTA-GTGTATGAAAGAATAT
11510071 TTACTCGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (22 bp):
TTTAGTGTATGAAAGAATATAT
Found at i:11516989 original size:98 final size:98
Alignment explanation
Indices: 11516765--11516959 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 98
11516755 ATGCAATAAA
* * *
11516765 ACTTTAAAAGAACATTCA-TTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
1 ACTTTAAAAGAACATCCACTT-ATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAAT
11516829 CCCTTTAGAATCCCAAACTCGGAATATTTCCTTT
65 CCCTTTAGAATCCCAAACTCGGAATATTTCCTTT
*
11516863 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
11516928 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
11516960 CATGATTTTT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 89 0.98
99 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:11517805 original size:12 final size:12
Alignment explanation
Indices: 11517788--11517814 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11517778 CCTCAAAACG
11517788 ACGCCGTTTTGC
1 ACGCCGTTTTGC
11517800 ACGCCGTTTTGC
1 ACGCCGTTTTGC
11517812 ACG
1 ACG
11517815 TCTGGAGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.33, G:0.26, T:0.30
Consensus pattern (12 bp):
ACGCCGTTTTGC
Found at i:11520491 original size:14 final size:14
Alignment explanation
Indices: 11520468--11520515 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11520458 TCCTCCCTGC
*
11520468 CTTCTTCATTTTCT
1 CTTCTACATTTTCT
*
11520482 CTTCTACATTTTCC
1 CTTCTACATTTTCT
*
11520496 CTTCGATCATTTTCT
1 CTTCTA-CATTTTCT
*
11520511 TTTCT
1 CTTCT
11520516 TTTTCCAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.58
Consensus pattern (14 bp):
CTTCTACATTTTCT
Found at i:11526283 original size:2 final size:2
Alignment explanation
Indices: 11526276--11526300 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11526266 AAACATGACC
11526276 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11526301 CTCAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11527236 original size:20 final size:20
Alignment explanation
Indices: 11527223--11527281 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
11527213 GTGCAGTCAG
11527223 GGGCACAAAAGTGCAAACAA
1 GGGCACAAAAGTGCAAACAA
11527243 GGGCACAAAAGTGCAAACAA
1 GGGCACAAAAGTGCAAACAA
* **
11527263 GGACACCGAAGTGCAAACA
1 GGGCACAAAAGTGCAAACA
11527282 GCGGCACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.47, C:0.22, G:0.25, T:0.05
Consensus pattern (20 bp):
GGGCACAAAAGTGCAAACAA
Found at i:11532068 original size:3 final size:3
Alignment explanation
Indices: 11532047--11532103 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
11532037 CGTATGGAAG
* * *
11532047 TAA TAA TAC TAA TAC TAA TAA TATA TAA TAAA TAA TAGA TAA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TA-A TAA TAA TAA
11532094 TAA TAA TAA T
1 TAA TAA TAA T
11532104 GCAATTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 34 0.77
4 9 0.20
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11532082 original size:14 final size:14
Alignment explanation
Indices: 11532048--11532108 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
11532038 GTATGGAAGT
*
11532048 AATAATACTAATAC
1 AATAATAATAATAC
11532062 TAATAATATATAATA-
1 -AATAATA-ATAATAC
11532077 AATAATAGATAATAC
1 AATAATA-ATAATAC
*
11532092 AATAATAATAATGC
1 AATAATAATAATAC
11532106 AAT
1 AAT
11532109 TTAATAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 22 0.54
15 14 0.34
16 5 0.12
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
AATAATAATAATAC
Found at i:11534777 original size:27 final size:28
Alignment explanation
Indices: 11534741--11534794 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
11534731 TCGAAATTCA
*
11534741 AACTTTAATTA-TAAAATAATTAATTTG
1 AACTTAAATTATTAAAATAATTAATTTG
* *
11534768 AACTTAAATTATTAACATATTTAATTT
1 AACTTAAATTATTAAAATAATTAATTT
11534795 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (28 bp):
AACTTAAATTATTAAAATAATTAATTTG
Found at i:11536973 original size:35 final size:35
Alignment explanation
Indices: 11536927--11536995 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
11536917 ATGAAAATAT
*
11536927 ATTTTGTTTAACTTAACTTGCAAGCAATCTCTTAG
1 ATTTTATTTAACTTAACTTGCAAGCAATCTCTTAG
*
11536962 ATTTTATTTAACTTGACTTGCAAGCAATCTCTTA
1 ATTTTATTTAACTTAACTTGCAAGCAATCTCTTA
11536996 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (35 bp):
ATTTTATTTAACTTAACTTGCAAGCAATCTCTTAG
Found at i:11545659 original size:5 final size:5
Alignment explanation
Indices: 11545651--11545676 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11545641 GAGATGGAAT
11545651 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11545677 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11545676 original size:26 final size:26
Alignment explanation
Indices: 11545625--11545676 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11545615 TGAAGTTTTC
* * *
11545625 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
11545651 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
11545677 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:11547447 original size:29 final size:29
Alignment explanation
Indices: 11547415--11547474 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11547405 ACTCTTGAAG
11547415 TTGATATTCATTTCGTCAATACCTTGTGA
1 TTGATATTCATTTCGTCAATACCTTGTGA
11547444 TTGATATTCATTTCGTCAATACCTTGTGA
1 TTGATATTCATTTCGTCAATACCTTGTGA
11547473 TT
1 TT
11547475 TCTTCTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (29 bp):
TTGATATTCATTTCGTCAATACCTTGTGA
Found at i:11549195 original size:48 final size:48
Alignment explanation
Indices: 11549097--11549192 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
11549087 TTTTTCTAAT
*
11549097 ATTATATATTATTTTTATTAGTTCATATTTTAATAATAATTATATTAA
1 ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
* *
11549145 ATTATTTATTATTTTTATTAAATT-ATA-TTTAATTAA-AATTCTATTAA
1 ATTATATATTATTTTTATT-AATTCATATTTTAA-TAATAATTATATTAA
11549192 A
1 A
11549193 ATTTAATAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 16 0.37
48 24 0.56
49 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (48 bp):
ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
Found at i:11549208 original size:6 final size:6
Alignment explanation
Indices: 11549197--11549225 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11549187 ATTAAAATTT
11549197 AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAA
11549226 TCATTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:11549362 original size:49 final size:49
Alignment explanation
Indices: 11549303--11549411 Score: 175
Period size: 49 Copynumber: 2.2 Consensus size: 49
11549293 CATCTATTTT
*
11549303 ATTCAACCAAAAGCAAGAATACTATTATAATTTTATTCTATTC-CATTCC
1 ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTA-TCACATTCC
* *
11549352 ATTCAACCAAATGCAAGAATACTATTATAGTTCTATTCTATCACATTCC
1 ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTCC
11549401 ATTCAACCAAA
1 ATTCAACCAAA
11549412 CAATTGAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 2 0.04
49 54 0.96
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (49 bp):
ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTCC
Found at i:11554939 original size:46 final size:44
Alignment explanation
Indices: 11554887--11554979 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 44
11554877 CAATGAATAG
* *
11554887 AAATAGATAAATGAAAAACATTCAGAAATGATTATGGGTTTCTCCA
1 AAATAGAGAAATG-AAAACATTCAGAAATGAATATGGGTTTCT-CA
* * ** *
11554933 AAATAGAGAAATGGAATCATTTGGAAATGAATGTGGGTTTCTCA
1 AAATAGAGAAATGAAAACATTCAGAAATGAATATGGGTTTCTCA
11554977 AAA
1 AAA
11554980 CACAAAAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.12
45 23 0.57
46 12 0.30
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (44 bp):
AAATAGAGAAATGAAAACATTCAGAAATGAATATGGGTTTCTCA
Found at i:11556526 original size:15 final size:14
Alignment explanation
Indices: 11556508--11556543 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
11556498 TTTTTATAAT
11556508 AATAAAATAAAAGAA
1 AATAAAATAAAA-AA
*
11556523 AATAACATAAAAAA
1 AATAAAATAAAAAA
11556537 AATAAAA
1 AATAAAA
11556544 GTTCAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (14 bp):
AATAAAATAAAAAA
Found at i:11567772 original size:24 final size:24
Alignment explanation
Indices: 11567745--11567792 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11567735 AAAGAAAGAA
11567745 AGAAACTACTTTGTATTCCCAATG
1 AGAAACTACTTTGTATTCCCAATG
* *
11567769 AGAAACTGCTTTGTATTCCTAATG
1 AGAAACTACTTTGTATTCCCAATG
11567793 TCTTTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (24 bp):
AGAAACTACTTTGTATTCCCAATG
Found at i:11569345 original size:15 final size:15
Alignment explanation
Indices: 11569322--11569359 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11569312 ATATATATAC
*
11569322 ATAATATTA-TTTCAA
1 ATAAAATTAGTTTC-A
11569337 ATAAAATTAGTTTCA
1 ATAAAATTAGTTTCA
11569352 ATAAAATT
1 ATAAAATT
11569360 TAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAAATTAGTTTCA
Found at i:11588967 original size:509 final size:508
Alignment explanation
Indices: 11588010--11589033 Score: 1913
Period size: 509 Copynumber: 2.0 Consensus size: 508
11588000 CTTAATTTGG
*
11588010 TAAAATTACGATTTAGTCCCTCATAATTCTTCATCTATTCAATTTTGTCCCAATTCATCCATTTT
1 TAAAATTACGATTTAGTCCCTCATAATTCTTCATCAATTCAATTTTGTCCCAATTCATCCATTTT
*
11588075 CCTTAGTTTCTAAATTATTCCACCCTTAAAATATTTACACTATTGGTCCTTAAACTTTTTCATAT
66 CCTTAGTTTCTAAATTATTCCACCCTTAAAATATTTACACTATTGGTCCTTAAAATTTTTCATAT
11588140 TTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGGATAACAAAACTTTTCTCACTTTTGC
131 TTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGGATAACAAAACTTTTCTCACTTTTGC
11588205 AATTTAATCCTTTCTTTAATTAATATGTCATAATATACTTCCCAATGTTGTCATAACTCAAAATT
196 AATTTAATCCTTTCTTTAATTAATATGTCATAATATACTTCCCAATGTTGTCATAACTCAAAATT
*
11588270 CTCCTTTTTGTCACTTTATTTCCTTACTATATCAAAGATAATATCTTACTGTAAAAATTTTCGGG
261 CTCCTTTTTGTCACTTTATTTCCTTACTATATCAAAGATAATATCTTACTATAAAAATTTTCGGG
* * *
11588335 GTATTACATTTCTCTCCCTCTTAAAATAAATTTCATCCTCTAAATTTTCCTCGTCGGATTTGTGG
326 GTATTACATTTCTCTCCCCCTTAAAATAAATTTCATCCTCTAAATTTTCCTCATCAGATTTGTGG
*
11588400 TCCCAAAACCACTGTTCCAACTAGACCCAAAAATCGAGCTGTTACACTCGGGACCCTAAAAAGAC
391 TCCCAAAACCACTATTCCAACTAGACCCAAAAATCGAGCTGTTACACTCGGGACCCTAAAAAGAC
*
11588465 GTTAGAAACGAATTGGGAATAAAATGGAAACATATGAAATTTTCAAAAAAAATT
456 GTTAGAAACGAATTGGGAATAAAATGGAAACATATGAAATTTTC-AAAAAAAGT
11588519 TAAAATTACGATTTAGTCCCTCATAATTCTTCATCAATTCAATTTTGTCCCAATTCATCCATTTT
1 TAAAATTACGATTTAGTCCCTCATAATTCTTCATCAATTCAATTTTGTCCCAATTCATCCATTTT
**
11588584 CCTTAGTTTCTAGGTTATTCCACCCTTAAAATATTTACACTATTGGTCCTTAAAATTTTTCATAT
66 CCTTAGTTTCTAAATTATTCCACCCTTAAAATATTTACACTATTGGTCCTTAAAATTTTTCATAT
11588649 TTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGGATAACAAAACTTTTCTCACTTTTGC
131 TTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGGATAACAAAACTTTTCTCACTTTTGC
11588714 AATTTAATCCTTTCTTTAATTAATATGTCATAATATACTTCCCAATGTTGTCATAACTCAAAATT
196 AATTTAATCCTTTCTTTAATTAATATGTCATAATATACTTCCCAATGTTGTCATAACTCAAAATT
11588779 CTCCTTTTTGTCACTTTATTTCCTTACTATATCAAAGATAATATCTTACTATAAAAATTTTCGGG
261 CTCCTTTTTGTCACTTTATTTCCTTACTATATCAAAGATAATATCTTACTATAAAAATTTTCGGG
*
11588844 GTATTACATTTCTCTCCCCCTTAAAATAAATTTCATCCTCTAAATTTTTCTCATCAGATTTGTGG
326 GTATTACATTTCTCTCCCCCTTAAAATAAATTTCATCCTCTAAATTTTCCTCATCAGATTTGTGG
* *
11588909 TCCCGAAACCACTATTCCAACTAGACCCAAAAATCGAGCTGTTACACTCGGGACCCTAAAAAGAT
391 TCCCAAAACCACTATTCCAACTAGACCCAAAAATCGAGCTGTTACACTCGGGACCCTAAAAAGAC
*
11588974 GTTAGAAACGAATTGGGAATAAAATGGAAACATATGAAATTTTCAGAAAAAGT
456 GTTAGAAACGAATTGGGAATAAAATGGAAACATATGAAATTTTCAAAAAAAGT
11589027 TAAAATT
1 TAAAATT
11589034 TTTCAAACTG
Statistics
Matches: 501, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
508 14 0.03
509 487 0.97
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (508 bp):
TAAAATTACGATTTAGTCCCTCATAATTCTTCATCAATTCAATTTTGTCCCAATTCATCCATTTT
CCTTAGTTTCTAAATTATTCCACCCTTAAAATATTTACACTATTGGTCCTTAAAATTTTTCATAT
TTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGGATAACAAAACTTTTCTCACTTTTGC
AATTTAATCCTTTCTTTAATTAATATGTCATAATATACTTCCCAATGTTGTCATAACTCAAAATT
CTCCTTTTTGTCACTTTATTTCCTTACTATATCAAAGATAATATCTTACTATAAAAATTTTCGGG
GTATTACATTTCTCTCCCCCTTAAAATAAATTTCATCCTCTAAATTTTCCTCATCAGATTTGTGG
TCCCAAAACCACTATTCCAACTAGACCCAAAAATCGAGCTGTTACACTCGGGACCCTAAAAAGAC
GTTAGAAACGAATTGGGAATAAAATGGAAACATATGAAATTTTCAAAAAAAGT
Found at i:11597309 original size:59 final size:53
Alignment explanation
Indices: 11597210--11597348 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 53
11597200 ACTAGGGTCT
* * * * * *
11597210 GGATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGG
1 GGATTTAGCCTGGACTGGTAATCCCGA-CCAAACTCATT--AGT--TTAT-ATTACAAG
11597269 GGATTTAGCCTGGACTGGTAATCCCGA-CAATACTCTATTAGTTTATATTACAAG
1 GGATTTAGCCTGGACTGGTAATCCCGACCAA-ACTC-ATTAGTTTATATTACAAG
*
11597323 GGATTTAGCCTGAACTGGTAATCCCG
1 GGATTTAGCCTGGACTGGTAATCCCG
11597349 CTGTAAGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
54 31 0.44
55 3 0.04
57 6 0.08
58 3 0.04
59 28 0.39
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (53 bp):
GGATTTAGCCTGGACTGGTAATCCCGACCAAACTCATTAGTTTATATTACAAG
Done.