Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 15
Found at i:529338 original size:23 final size:23
Alignment explanation
Indices: 529312--529374 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
529302 ATATAACCAT
529312 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
529335 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
529358 TACCTATTACATCATAT
1 TACCTATTACATTATAT
529375 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:529755 original size:21 final size:20
Alignment explanation
Indices: 529725--529778 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
529715 GATAGACACT
*
529725 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
529746 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
529769 TTACATTATA
1 TTACATTATA
529779 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:529766 original size:23 final size:23
Alignment explanation
Indices: 529740--529802 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
529730 ATATAACCAT
529740 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
529763 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
529786 TACCTATTACATCATAT
1 TACCTATTACATTATAT
529803 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:530186 original size:21 final size:20
Alignment explanation
Indices: 530156--530209 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
530146 GATAGACACT
*
530156 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
530177 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
530200 TTACATTATA
1 TTACATTATA
530210 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:530197 original size:23 final size:23
Alignment explanation
Indices: 530171--530233 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
530161 ATATAACCAT
530171 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
530194 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
530217 TACCTATTACATCATAT
1 TACCTATTACATTATAT
530234 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:530386 original size:431 final size:431
Alignment explanation
Indices: 529032--531189 Score: 4260
Period size: 431 Copynumber: 5.0 Consensus size: 431
529022 GGATCGATAC
529032 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
529097 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
529162 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
529227 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
529292 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
529357 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
529422 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
529463 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
529528 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA-TTTTAATTTAATAAT-A-ATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
529590 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
529655 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
529720 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
529785 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
529850 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
529891 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
529956 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
530021 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
530086 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
530151 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
530216 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
530281 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
530322 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
530387 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
530452 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
530517 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
530582 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATAT-AGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
530646 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
530711 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
530752 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
530817 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
530880 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
530944 AAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
531008 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
531073 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
531138 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
531179 TTTAACAGTGT
1 TTTAACAGTGT
531190 ACTGCGAATT
Statistics
Matches: 1723, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
426 92 0.05
427 210 0.12
428 426 0.25
429 17 0.01
430 246 0.14
431 732 0.42
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:530617 original size:21 final size:20
Alignment explanation
Indices: 530587--530640 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
530577 GATAGACACT
*
530587 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
530608 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
530631 TTACATTATA
1 TTACATTATA
530641 TAGGGCTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:530879 original size:859 final size:859
Alignment explanation
Indices: 529032--531189 Score: 4254
Period size: 859 Copynumber: 2.5 Consensus size: 859
529022 GGATCGATAC
529032 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
529097 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
529162 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
529227 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
529292 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
529357 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
529422 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA
529487 CCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
456 CCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
529552 AAATATTATTTAGAATTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACG
521 AAATATTATTTAGAATTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACG
529617 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
586 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
529682 CAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTAT
651 CAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTAT
529747 TACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTA
716 TACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTA
529812 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATT
781 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATT
529877 TATGTTTCAATTTT
846 TATGTTTCAATTTT
529891 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
529956 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
530021 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
530086 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
530151 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
530216 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
530281 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA
530346 CCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
456 CCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
530411 AAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAG
521 AAATATTATTTAGAA-TTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAG
530476 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
583 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
530541 CCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACC
648 CCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACC
530606 TATTACATTATATAAACGATACCTATTACATTATAT-AGGGCTACCTATTACATCATATGTTTAC
713 TATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTAC
530670 CTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTA
778 CTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTA
530735 ATTTATGTTTCAATTTT
843 ATTTATGTTTCAATTTT
530752 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
530817 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
530880 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
530944 AAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
531008 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
531073 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
531138 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
531190 ACTGCGAATT
Statistics
Matches: 1296, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
857 214 0.17
858 89 0.07
859 549 0.42
860 16 0.01
861 231 0.18
862 197 0.15
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (859 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA
CCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
AAATATTATTTAGAATTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACG
CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
CAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTAT
TACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTA
TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATT
TATGTTTCAATTTT
Found at i:531043 original size:21 final size:20
Alignment explanation
Indices: 531013--531066 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
531003 GATAGACACT
*
531013 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
531034 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
531057 TTACATTATA
1 TTACATTATA
531067 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:531054 original size:23 final size:23
Alignment explanation
Indices: 531028--531090 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
531018 ATATAACCAT
531028 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
531051 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
531074 TACCTATTACATCATAT
1 TACCTATTACATTATAT
531091 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:533957 original size:184 final size:184
Alignment explanation
Indices: 533648--534694 Score: 1968
Period size: 184 Copynumber: 5.7 Consensus size: 184
533638 TTTTAAATGG
*
533648 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
533713 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
533778 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
533832 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
533897 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
533962 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
*
534016 TATGGACATAAAGTAACGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
534081 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
534146 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
*
534200 TATGGACATAAAGTAACGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
534265 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
534330 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
534384 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
534449 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
*
534514 GGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
124 GGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
534575 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
534640 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
534695 ATGTTGAAAG
Statistics
Matches: 849, Mismatches: 7, Indels: 14
0.98 0.01 0.02
Matches are distributed among these distances:
184 663 0.78
186 3 0.00
189 3 0.00
191 180 0.21
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:536071 original size:3 final size:3
Alignment explanation
Indices: 536063--536113 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
536053 ACTTGTTTGG
* * * *
536063 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
536111 ATC
1 ATC
536114 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:536080 original size:12 final size:12
Alignment explanation
Indices: 536063--536125 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
536053 ACTTGTTTGG
536063 ATCATCATCTTC
1 ATCATCATCTTC
*
536075 ATCATCATCGTC
1 ATCATCATCTTC
*
536087 ATCATCATCATC
1 ATCATCATCTTC
*
536099 ATCGTCATCTTC
1 ATCATCATCTTC
* *
536111 ATCGTCAGCTTC
1 ATCATCATCTTC
536123 ATC
1 ATC
536126 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:536124 original size:18 final size:18
Alignment explanation
Indices: 536067--536128 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
536057 GTTTGGATCA
536067 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
536085 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
536103 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
536121 TCATCTTC
1 TCATCTTC
536129 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:536128 original size:6 final size:6
Alignment explanation
Indices: 536067--536128 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
536057 GTTTGGATCA
* * * * * *
536067 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
536115 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
536129 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:538324 original size:397 final size:397
Alignment explanation
Indices: 537591--539205 Score: 2963
Period size: 397 Copynumber: 4.1 Consensus size: 397
537581 TTTAAATTAG
*
537591 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
537656 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
537721 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGTAAAATTCATTCTGGAAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGGAAAAAA
537786 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
537851 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
537916 ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
326 ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
537981 AAAAAAA
391 AAAAAAA
537988 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
538053 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
538117 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGT-AAAATTCATTCTGGAAAAA
538182 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
*
538247 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
538312 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
325 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
538377 GAAAAAAA
390 GAAAAAAA
*
538385 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
538450 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
538515 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGG-AAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGGAAAAAA
538579 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
*
538644 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
538709 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
326 ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
538773 -AAAAAA
391 AAAAAAA
*
538779 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
538844 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ** *
538908 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG--TAAAATTCATTCTGGAAA
538973 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
193 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
539038 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
258 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
* * ***
539103 GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT
323 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
*
539167 GGAAAAAAAA
388 GGGAAAAAAA
*
539177 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
539206 TGACCCTTAA
Statistics
Matches: 1193, Mismatches: 17, Indels: 15
0.97 0.01 0.01
Matches are distributed among these distances:
393 52 0.04
394 124 0.10
395 56 0.05
396 248 0.21
397 552 0.46
398 161 0.13
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGGAAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
AAAAAAA
Found at i:538719 original size:594 final size:594
Alignment explanation
Indices: 537591--539205 Score: 2918
Period size: 594 Copynumber: 2.7 Consensus size: 594
537581 TTTAAATTAG
* *
537591 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
537656 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * ** *
537721 CGACAC-TTTTTATATATGGATCGACACTTTATTGATTCACCTTG--TAAAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
537783 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
537848 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
* * **
537913 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
326 GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG--TAAAATTCATTCT
537978 GGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
389 -GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
538043 AACCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
453 AACCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
* *
538108 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTG-TAAAAATTCAT
518 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCAT
538172 TCTGGAAAAAAAA
583 TCTGG-AAAAAAA
538185 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
538250 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
538315 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
538380 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
538445 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
538510 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGG
326 GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGG
*
538574 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
391 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
538639 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
456 CGGTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
* ***
538704 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTC
520 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTC
*
538769 TGGGAAAAAA
585 TGGAAAAAAA
538779 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
538844 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
538908 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
538973 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
539038 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
539103 GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTG
326 GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGT-AAAATTCATTCTG
*
539168 GAAAAAAAATATCGACACAAACTATATTAGTATCGACA
390 G-AAAAAAATATCGACACAAACTATATTAGTGTCGACA
539206 TGACCCTTAA
Statistics
Matches: 989, Mismatches: 24, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
593 341 0.34
594 360 0.36
595 62 0.06
596 71 0.07
597 155 0.16
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (594 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
GGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAATTCATTCTGG
AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
CGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCT
GGAAAAAAA
Found at i:539312 original size:37 final size:38
Alignment explanation
Indices: 539271--539350 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
539261 TCTCATTCAT
*
539271 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
539308 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
539346 AATTA
1 AATTA
539351 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:539314 original size:19 final size:19
Alignment explanation
Indices: 539287--539350 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
539277 ATTCACATAA
*
539287 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
539306 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
539325 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
539344 AAAATTA
1 AAAATTA
539351 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:541182 original size:33 final size:33
Alignment explanation
Indices: 541145--541210 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
541135 CATCTTAATA
*
541145 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
541178 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
541211 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:543369 original size:24 final size:24
Alignment explanation
Indices: 543332--543384 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
543322 CCGTTCTATC
543332 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
543356 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
543380 TATTT
1 TATTT
543385 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:543575 original size:20 final size:19
Alignment explanation
Indices: 543529--543575 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
543519 TCCGGTATCA
*
543529 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
543548 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
543569 TTTTACC
1 TTTTACC
543576 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:543740 original size:20 final size:20
Alignment explanation
Indices: 543692--543741 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
543682 TCGACACTTT
543692 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
543712 T-TTTGTTACCGGTTTTATCA
1 TAATT-TTACCGGTTTTATCA
543732 TAATTTTACC
1 TAATTTTACC
543742 TGGTATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Found at i:545846 original size:42 final size:42
Alignment explanation
Indices: 545795--545885 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
545785 AGTGAAATTC
545795 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
* *
545836 TAATATATTTAAATAAAAATTATTTATATGAAAATTTATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
545878 TAATATAT
1 TAATATAT
545886 CATTTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
Found at i:545874 original size:16 final size:15
Alignment explanation
Indices: 545796--545871 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
545786 GTGAAATTCT
545796 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
545811 AATTATTTATATAAA
1 AATTATTTAAATAAA
**
545826 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
545839 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
* *
545853 AATTATTTATATGAA
1 AATTATTTAAATAAA
545868 AATT
1 AATT
545872 TATCGATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.13
14 6 0.13
15 32 0.68
16 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:545921 original size:21 final size:21
Alignment explanation
Indices: 545879--545918 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
545869 ATTTATCGAT
*
545879 AATATATCATTTTATTATTTA
1 AATATATCATTGTATTATTTA
545900 AATATATCA-TGTATTATTT
1 AATATATCATTGTATTATTT
545919 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (21 bp):
AATATATCATTGTATTATTTA
Found at i:547531 original size:17 final size:18
Alignment explanation
Indices: 547509--547555 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
547499 TCTCTTTAAA
547509 ATTTTATATTATTA-TAT
1 ATTTTATATTATTATTAT
* * *
547526 ATTTTAGATTTTTATTTGT
1 ATTTTATATTATTA-TTAT
547545 ATTTTATATTA
1 ATTTTATATTA
547556 ATAATATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATTTTATATTATTATTAT
Found at i:548078 original size:69 final size:69
Alignment explanation
Indices: 547995--548134 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
547985 ATGAACACAA
547995 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
548060 ACTC
66 ACTC
* * *
548064 TTCCAGAACAGGATAAATAGCCATAATTTCTACAAACAAATCTCAAAGACAAATTAATGAAGTGA
1 TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
548129 ACTC
66 ACTC
548133 TT
1 TT
548135 ATGTCAAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (69 bp):
TTCCAGAACAGGATAAATAACCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
ACTC
Found at i:550727 original size:2 final size:2
Alignment explanation
Indices: 550722--550769 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
550712 CTAAAAAATA
550722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
550764 AT AT AT
1 AT AT AT
550770 TCATGATTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:550886 original size:29 final size:28
Alignment explanation
Indices: 550817--550896 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
550807 AAAGTATAAC
550817 TTATAATTAA-TTTTAATTCATAAAATTTT
1 TTATAATTAATTTTTAATT--TAAAATTTT
* *
550846 TTA-ATATGAATTTATTAATTTACAATTTT
1 TTATA-ATTAATTT-TTAATTTAAAATTTT
*
550875 TTATAATTAATTTTTTATTTAA
1 TTATAATTAATTTTTAATTTAA
550897 TTGTACATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 8 0.19
29 25 0.60
30 3 0.07
31 6 0.14
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (28 bp):
TTATAATTAATTTTTAATTTAAAATTTT
Found at i:558308 original size:31 final size:31
Alignment explanation
Indices: 558270--558330 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
558260 TATGTTCCAG
558270 TTCCAGTTCCAACTAAACTAGTAATGATCTA
1 TTCCAGTTCCAACTAAACTAGTAATGATCTA
558301 TTCCAGTTCCAACTAAACTAGTAATGATCT
1 TTCCAGTTCCAACTAAACTAGTAATGATCT
558331 TTAAAAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (31 bp):
TTCCAGTTCCAACTAAACTAGTAATGATCTA
Found at i:559585 original size:21 final size:21
Alignment explanation
Indices: 559547--559586 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
559537 ATATTTTTAA
*
559547 TATTTTTAATAATTAAAATAT
1 TATTTTTAATAATAAAAATAT
559568 TATTTTTAATGAA-AAAAAT
1 TATTTTTAAT-AATAAAAAT
559587 TAAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TATTTTTAATAATAAAAATAT
Found at i:559997 original size:6 final size:6
Alignment explanation
Indices: 559983--560016 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
559973 ACCTATTGCT
* *
559983 GGGGCA GGGGGA GGGGAA GGGGAA GGGGAA GGGG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGG
560017 GAGAGGGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.24, C:0.03, G:0.74, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:560003 original size:12 final size:12
Alignment explanation
Indices: 559983--560024 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
559973 ACCTATTGCT
*
559983 GGGGCAGGGGGA
1 GGGGAAGGGGGA
*
559995 GGGGAAGGGGAA
1 GGGGAAGGGGGA
560007 GGGGAAGGGGGA
1 GGGGAAGGGGGA
560019 GAGGGA
1 G-GGGA
560025 GAACGCCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.71, T:0.00
Consensus pattern (12 bp):
GGGGAAGGGGGA
Found at i:567116 original size:17 final size:16
Alignment explanation
Indices: 567094--567147 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
567084 AATGTTAATA
567094 TTTAAATTTATTTTTAT
1 TTTAAA-TTATTTTTAT
**
567111 TTTAAAGTTATTATGAAT
1 TTTAAA-TTATT-TTTAT
*
567129 TTTATATTATTTTTAT
1 TTTAAATTATTTTTAT
567145 TTT
1 TTT
567148 TATAATGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 6 0.20
17 16 0.53
18 8 0.27
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTAAATTATTTTTAT
Found at i:569317 original size:32 final size:32
Alignment explanation
Indices: 569246--569343 Score: 117
Period size: 32 Copynumber: 3.0 Consensus size: 32
569236 TGATAAATGT
* *
569246 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATA-AAAAT-TATTATTCGAAAATTAAA
*
569280 -ATAAAATAAAAATTATTATTCGAAAATTAAA
1 TTTAAAATAAAAATTATTATTCGAAAATTAAA
*
569311 TTTAAAATATAAATTATAGTATTCGAAAATTAA
1 TTTAAAATAAAAATTAT--TATTCGAAAATTAA
569344 CATTAAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
31 17 0.30
32 18 0.32
33 7 0.12
34 14 0.25
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (32 bp):
TTTAAAATAAAAATTATTATTCGAAAATTAAA
Found at i:569334 original size:34 final size:33
Alignment explanation
Indices: 569246--569343 Score: 128
Period size: 31 Copynumber: 3.0 Consensus size: 33
569236 TGATAAATGT
* *
569246 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATAAAAATTATA-TATTCGAAAATTAAA
*
569280 -ATAAAATAAAAATTAT-TATTCGAAAATTAAA
1 TTTAAAATAAAAATTATATATTCGAAAATTAAA
*
569311 TTTAAAATATAAATTATAGTATTCGAAAATTAA
1 TTTAAAATAAAAATTATA-TATTCGAAAATTAA
569344 CATTAAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
31 14 0.25
32 14 0.25
33 14 0.25
34 14 0.25
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (33 bp):
TTTAAAATAAAAATTATATATTCGAAAATTAAA
Found at i:569350 original size:34 final size:32
Alignment explanation
Indices: 569247--569350 Score: 129
Period size: 34 Copynumber: 3.2 Consensus size: 32
569237 GATAAATGTT
* *
569247 TTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTAAAATAAAAATTATA-TATTCGAAAATTAAA
*
569280 ATAAAATAAAAATTAT-TATTCGAAAATTAAA
1 TTAAAATAAAAATTATATATTCGAAAATTAAA
*
569311 TTTAAAATATAAATTATAGTATTCGAAAATTAACA
1 -TTAAAATAAAAATTATA-TATTCGAAAATTAA-A
569346 TTAAA
1 TTAAA
569351 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
31 14 0.23
32 14 0.23
33 14 0.23
34 19 0.31
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.37
Consensus pattern (32 bp):
TTAAAATAAAAATTATATATTCGAAAATTAAA
Found at i:570294 original size:125 final size:128
Alignment explanation
Indices: 569706--570318 Score: 987
Period size: 128 Copynumber: 4.9 Consensus size: 128
569696 TGATTTACTG
569706 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* * ** * *
569771 ATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCAAGTCCCCT-GAGAAGTAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGTGAAATAATAGGTACTGAT
569834 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* * ** *
569899 ATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCAGGTCCCCT-GAGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGTGAAATAATAGGTACTGAT
569962 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
*
570027 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
*
570090 ATATCTAGTAT--CCGAGGGACATGAGTGAC---ATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
*
570150 ATAATGGAAGGCGCG-CCCCGGGAACGCACCTTCATGT-AATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
570211 ATATCTAGTGTCCCCGA-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* *
570275 ATAATGGAAGACGC-CCCCCGGGAACGCGCCTTCATGTGAATAGT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGT
570319 ACTCCGATTA
Statistics
Matches: 462, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
121 34 0.07
122 34 0.07
123 50 0.11
125 65 0.14
126 24 0.05
127 1 0.00
128 254 0.55
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
Found at i:570400 original size:8 final size:8
Alignment explanation
Indices: 570387--570427 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
570377 TCACAAGCTT
570387 TCAAATTC
1 TCAAATTC
570395 TCAAATTC
1 TCAAATTC
* *
570403 CCAAACTC
1 TCAAATTC
570411 T-AAATTC
1 TCAAATTC
570418 TCAAATTC
1 TCAAATTC
570426 TC
1 TC
570428 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:573534 original size:45 final size:44
Alignment explanation
Indices: 573467--573614 Score: 165
Period size: 45 Copynumber: 3.3 Consensus size: 44
573457 AATCCAAGAC
*
573467 TTTTGAGTATTGAGTTGT-CAAAAGTAAAATCAAATGATTAGTTCA
1 TTTTGATTATTG-GTT-TCCAAAAGTAAAATCAAATGATTAGTTCA
*
573512 TTTTGATTATTGTGTTTCCAAAAGTAAAATCAAAGGATTAGTTCA
1 TTTTGATTATTG-GTTTCCAAAAGTAAAATCAAATGATTAGTTCA
* * * * * *
573557 TTCAT-ATTATTAGATTGCGAAAATTAAAATCAAATGATTAGTTCC
1 TT-TTGATTATT-GGTTTCCAAAAGTAAAATCAAATGATTAGTTCA
573602 TTTTGATTATTGG
1 TTTTGATTATTGG
573615 GTTGGTAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
44 3 0.03
45 82 0.94
46 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (44 bp):
TTTTGATTATTGGTTTCCAAAAGTAAAATCAAATGATTAGTTCA
Found at i:573939 original size:58 final size:60
Alignment explanation
Indices: 573797--573950 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 60
573787 CTTTGTAAGG
* * * * *
573797 AAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTGAATGATTTTAACTGTGCAAGAAA
1 AAAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTAACTGTGCAAGAAA
* * * ** *
573857 AAAATAAATTGTCAAATTTATTTTCTTGAGAATCTTAAATGATTCT-ATTTTGTTA-AAT
1 AAAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTAACTGTGCAAGAAA
*
573915 GAAATAAATTGTTAAATTTATTTTCTTG-GTAATCTT
1 AAAATAAATTGTTAAATTTATTTTCTTGAG-AATCTT
573951 GAATAAAGAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
57 1 0.01
58 34 0.43
59 5 0.06
60 40 0.50
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (60 bp):
AAAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTAACTGTGCAAGAAA
Found at i:574107 original size:39 final size:39
Alignment explanation
Indices: 574003--574107 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
573993 ATATTTTTAG
* * ** * * *
574003 AATGAAACAAATCGTTTGATTTATTTGCTTATTTTGTAA
1 AATGAAATAAATTGTTAAATTTATTTTCCTATCTTGTAA
* * *
574042 AATGAAATAACTTGTTGAGTTTATTTTCCTATCTTGTAA
1 AATGAAATAAATTGTTAAATTTATTTTCCTATCTTGTAA
574081 AA-GAAAATAAATTGTTAAATTTATTTT
1 AATG-AAATAAATTGTTAAATTTATTTT
574108 TTCTAAGAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 1 0.02
39 52 0.98
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (39 bp):
AATGAAATAAATTGTTAAATTTATTTTCCTATCTTGTAA
Found at i:574305 original size:88 final size:89
Alignment explanation
Indices: 574155--574321 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 89
574145 AATTAAATCG
* * * *
574155 TTTGATTTATTTTCCTATTTTGTAAAAAGGAAATAAATCGTTGGATTTAATTTCCTGTTTTGTAA
1 TTTGATTTATTTTCCTAGTTTATAAAAAGGAAATAAATCATTGGATTTAATTTCCTATTTTGTAA
574220 AA-AGAAATAAATCAAAACAAACCA
66 AAGA-AAATAAATCAAAACAAACCA
* * *
574244 TTTGATTTATTTTCCTGGTTTAT-AAAAGTAAATAAATCATTGGATTTATTTTCCTATTTTGTAA
1 TTTGATTTATTTTCCTAGTTTATAAAAAGGAAATAAATCATTGGATTTAATTTCCTATTTTGTAA
*
574308 TAGAAAATAAATCA
66 AAGAAAATAAATCA
574322 TTAGATTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
88 48 0.70
89 21 0.30
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (89 bp):
TTTGATTTATTTTCCTAGTTTATAAAAAGGAAATAAATCATTGGATTTAATTTCCTATTTTGTAA
AAGAAAATAAATCAAAACAAACCA
Found at i:574452 original size:39 final size:39
Alignment explanation
Indices: 574242--574451 Score: 269
Period size: 39 Copynumber: 5.4 Consensus size: 39
574232 CAAAACAAAC
* * * * *
574242 CATTTGATTTATTTTCCTGGTTTATAAAAGTAAATAAAT
1 CATTGGATTTATTTTCCAGTTTTGTAAAAGGAAATAAAT
* *
574281 CATTGGATTTATTTTCCTA-TTTTGTAATAGAAAATAAAT
1 CATTGGATTTATTTTCC-AGTTTTGTAAAAGGAAATAAAT
* * *
574320 CATTAGATTTATTTTCCAATTTTGTAATAGGAAATAAAT
1 CATTGGATTTATTTTCCAGTTTTGTAAAAGGAAATAAAT
* *
574359 CATTGGATTTATTTTTCAGTTTTGTAACAGGAAATAAAT
1 CATTGGATTTATTTTCCAGTTTTGTAAAAGGAAATAAAT
*
574398 CATTGGATTTATTTTTCAGTTTTGTAAAAGGAAATAAAT
1 CATTGGATTTATTTTCCAGTTTTGTAAAAGGAAATAAAT
**
574437 CATTATATTTATTTT
1 CATTGGATTTATTTT
574452 TTTGGGATTC
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 153 0.99
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (39 bp):
CATTGGATTTATTTTCCAGTTTTGTAAAAGGAAATAAAT
Found at i:584211 original size:3 final size:3
Alignment explanation
Indices: 584203--584235 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
584193 AAACGGAAAG
584203 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
584236 AACGACAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:585287 original size:226 final size:226
Alignment explanation
Indices: 584893--585344 Score: 904
Period size: 226 Copynumber: 2.0 Consensus size: 226
584883 GACTGAAGGC
584893 CTCGCTTAAAAGCCAAGACGTGTATGCAAAAGTTCCGAAATCGCTCACCATTCTTTTTTATTAGT
1 CTCGCTTAAAAGCCAAGACGTGTATGCAAAAGTTCCGAAATCGCTCACCATTCTTTTTTATTAGT
584958 ACTTTTTAAAGACAAAATAAAGGCACAAAAGCAACAAAATTTGAGAATATTTAGTTATTTTAAAA
66 ACTTTTTAAAGACAAAATAAAGGCACAAAAGCAACAAAATTTGAGAATATTTAGTTATTTTAAAA
585023 AAGGAATAAAAAAAATTATTTTATTATTGTTGAGTGTATTTTTTCTTGGAGGATCGAACGGCTGA
131 AAGGAATAAAAAAAATTATTTTATTATTGTTGAGTGTATTTTTTCTTGGAGGATCGAACGGCTGA
585088 GCTGTATTCGATCTTTCGAAAGTTCTGTTTA
196 GCTGTATTCGATCTTTCGAAAGTTCTGTTTA
585119 CTCGCTTAAAAGCCAAGACGTGTATGCAAAAGTTCCGAAATCGCTCACCATTCTTTTTTATTAGT
1 CTCGCTTAAAAGCCAAGACGTGTATGCAAAAGTTCCGAAATCGCTCACCATTCTTTTTTATTAGT
585184 ACTTTTTAAAGACAAAATAAAGGCACAAAAGCAACAAAATTTGAGAATATTTAGTTATTTTAAAA
66 ACTTTTTAAAGACAAAATAAAGGCACAAAAGCAACAAAATTTGAGAATATTTAGTTATTTTAAAA
585249 AAGGAATAAAAAAAATTATTTTATTATTGTTGAGTGTATTTTTTCTTGGAGGATCGAACGGCTGA
131 AAGGAATAAAAAAAATTATTTTATTATTGTTGAGTGTATTTTTTCTTGGAGGATCGAACGGCTGA
585314 GCTGTATTCGATCTTTCGAAAGTTCTGTTTA
196 GCTGTATTCGATCTTTCGAAAGTTCTGTTTA
585345 TGTGTTTTGG
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
226 226 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (226 bp):
CTCGCTTAAAAGCCAAGACGTGTATGCAAAAGTTCCGAAATCGCTCACCATTCTTTTTTATTAGT
ACTTTTTAAAGACAAAATAAAGGCACAAAAGCAACAAAATTTGAGAATATTTAGTTATTTTAAAA
AAGGAATAAAAAAAATTATTTTATTATTGTTGAGTGTATTTTTTCTTGGAGGATCGAACGGCTGA
GCTGTATTCGATCTTTCGAAAGTTCTGTTTA
Found at i:595533 original size:20 final size:20
Alignment explanation
Indices: 595508--595545 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
595498 AATTCTCATA
* *
595508 TATTTATATATATTTTATAT
1 TATTTATAGATAATTTATAT
595528 TATTTATAGATAATTTAT
1 TATTTATAGATAATTTAT
595546 TTTCATCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTTATAGATAATTTATAT
Found at i:597145 original size:113 final size:116
Alignment explanation
Indices: 597016--597270 Score: 376
Period size: 113 Copynumber: 2.2 Consensus size: 116
597006 AATTCACAAA
*
597016 ACATAAAAATTATAAAACTTTAAAATCTCTTTTCAAGTTTATTTGATCATATTTTAGATTTTTAA
1 ACATAAAAATT-TAAAATTTTAAAAT-TCTTTTCAAGTTTATTTGATCATATTTTAGATTTTTAA
*
597081 GATACCTTTATGA-TTTT-TAACGCTTTAG-A-ATATAAAAAATACATAAACT
64 GATACCTTTATGATTTTTATAACACTTTAGAATATATAAAAAATACATAAACT
* * * *
597130 ATATAAAAATTTAAAATTTTACAAATTCTTTTCAAGTTTATTTTATCATTTTTTAGATTTTTAAT
1 ACATAAAAATTTAAAATTTTA-AAATTCTTTTCAAGTTTATTTGATCATATTTTAGATTTTTAAG
*
597195 ATACTTTTATGATTTTTATAACACTTTAGAATATATAAAAAATACATAAACT
65 ATACCTTTATGATTTTTATAACACTTTAGAATATATAAAAAATACATAAACT
*
597247 ACAT-AAAATTTAAAATTTTCAAAT
1 ACATAAAAATTTAAAATTTTAAAAT
597271 GTCAACACCC
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
113 56 0.44
114 18 0.14
115 14 0.11
116 16 0.13
117 23 0.18
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (116 bp):
ACATAAAAATTTAAAATTTTAAAATTCTTTTCAAGTTTATTTGATCATATTTTAGATTTTTAAGA
TACCTTTATGATTTTTATAACACTTTAGAATATATAAAAAATACATAAACT
Found at i:597220 original size:20 final size:19
Alignment explanation
Indices: 597180--597221 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
597170 TTTTATCATT
*
597180 TTTTAGATTTTTAATATAC
1 TTTTAGATTTTTAATACAC
597199 TTTTATGATTTTT-ATAACAC
1 TTTTA-GATTTTTAAT-ACAC
597219 TTT
1 TTT
597222 AGAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTAGATTTTTAATACAC
Found at i:599872 original size:18 final size:18
Alignment explanation
Indices: 599849--599889 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
599839 CTGAACATAA
599849 AATAATTTACAGAAAAAT
1 AATAATTTACAGAAAAAT
599867 AATAATTTACAGAAAAAT
1 AATAATTTACAGAAAAAT
*
599885 TATAA
1 AATAA
599890 AAATCTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (18 bp):
AATAATTTACAGAAAAAT
Found at i:600621 original size:19 final size:20
Alignment explanation
Indices: 600597--600634 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
600587 ATGATGTGAG
600597 ATTTAAAAT-ATAAAAAATA
1 ATTTAAAATAATAAAAAATA
600616 ATTTAAAATAATAAAAAAT
1 ATTTAAAATAATAAAAAAT
600635 TTCAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTAAAATAATAAAAAATA
Found at i:601638 original size:22 final size:23
Alignment explanation
Indices: 601605--601648 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
601595 AAAAATATGA
*
601605 TTTTTTATAAATATAATATTATT
1 TTTTTTATAAATATAAAATTATT
*
601628 TTTTTTA-AAATTTAAAATTAT
1 TTTTTTATAAATATAAAATTAT
601649 CAGAGTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTTATAAATATAAAATTATT
Found at i:604124 original size:17 final size:16
Alignment explanation
Indices: 604104--604159 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
604094 AATCTAGCTC
604104 GAGTTTAAAAAATTTTT
1 GAGTTT-AAAAATTTTT
604121 GAGTTTAAAAATTTTT
1 GAGTTTAAAAATTTTT
** *
604137 GAACTT--CAATTTTT
1 GAGTTTAAAAATTTTT
604151 GAGTTTAAA
1 GAGTTTAAA
604160 TAGTTTGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 11 0.35
16 14 0.45
17 6 0.19
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (16 bp):
GAGTTTAAAAATTTTT
Found at i:605562 original size:25 final size:27
Alignment explanation
Indices: 605512--605563 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
605502 TTTAGTATAT
*
605512 AACATCATCACCTTGATGTGTCACATAC
1 AACATCATCACCTCGATGTG-CACATAC
605540 AACATCATCACCTCGA-GTG-ACATA
1 AACATCATCACCTCGATGTGCACATA
605564 ACCCCTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
27 3 0.13
28 15 0.65
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.25
Consensus pattern (27 bp):
AACATCATCACCTCGATGTGCACATAC
Found at i:607671 original size:12 final size:14
Alignment explanation
Indices: 607645--607688 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
607635 TTTTAAATTA
607645 TTATATATTTATTT
1 TTATATATTTATTT
*
607659 TTATATATTTTTTT
1 TTATATATTTATTT
607673 ATTA-ATAATTTATTT
1 -TTATAT-ATTTATTT
607688 T
1 T
607689 GTCCACCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTTATTT
Found at i:608298 original size:13 final size:13
Alignment explanation
Indices: 608276--608314 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
608266 AGTATCTAAC
608276 AAAATTAAGATAT
1 AAAATTAAGATAT
* *
608289 AAAATCAAGA-AC
1 AAAATTAAGATAT
608301 AAAATTAAGATAT
1 AAAATTAAGATAT
608314 A
1 A
608315 TATTAGACCG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATTAAGATAT
Found at i:615676 original size:20 final size:20
Alignment explanation
Indices: 615651--615689 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
615641 TGACATTCGA
615651 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
615671 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
615690 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:615683 original size:9 final size:9
Alignment explanation
Indices: 615651--615689 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
615641 TGACATTCGA
615651 ATACGAGCC
1 ATACGAGCC
*
615660 ATACAAGCC
1 ATACGAGCC
615669 ATATACGAGCC
1 --ATACGAGCC
615680 ATACGAGCC
1 ATACGAGCC
615689 A
1 A
615690 ATGGAGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (9 bp):
ATACGAGCC
Found at i:615740 original size:29 final size:29
Alignment explanation
Indices: 615696--615799 Score: 163
Period size: 29 Copynumber: 3.6 Consensus size: 29
615686 GCCAATGGAG
* **
615696 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
615725 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
615754 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
615783 AGGTCGCCATGTAGTCC
1 AGGTCGCCATGTAGTCC
615800 TAGCTCACGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:616162 original size:25 final size:26
Alignment explanation
Indices: 616112--616162 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
616102 CTTGGTCGCC
**
616112 GAGATTGCAGCCGAAGAAAGGGAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
616138 GAGATTGCAGCCG-AGAAAGAAAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
616163 AGTGAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.45, C:0.12, G:0.35, T:0.08
Consensus pattern (26 bp):
GAGATTGCAGCCGAAGAAAGAAAGAA
Found at i:616364 original size:41 final size:41
Alignment explanation
Indices: 616319--616407 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
616309 TATATGATTG
* *
616319 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
616360 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
616401 TTAGTTT
1 TTAGTTT
616408 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:616450 original size:45 final size:45
Alignment explanation
Indices: 616347--616478 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
616337 TACATAAATT
*
616347 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
616389 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
616433 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
616479 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:616555 original size:32 final size:33
Alignment explanation
Indices: 616519--616595 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
616509 TTAGTTAGTA
616519 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
616551 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
616585 ATTTTATTAGT
1 AGTTTATTAGT
616596 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:616673 original size:16 final size:16
Alignment explanation
Indices: 616641--616687 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
616631 TTTAAAAAGT
*
616641 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
616657 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
616673 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
616688 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:616682 original size:15 final size:14
Alignment explanation
Indices: 616662--616692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
616652 GTTTATTAGT
616662 TTATTATATTATAAG
1 TTATTATATTA-AAG
616677 TTATTATATTAAAG
1 TTATTATATTAAAG
616691 TT
1 TT
616693 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:618867 original size:17 final size:17
Alignment explanation
Indices: 618845--618877 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
618835 CAATGATTTT
*
618845 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
618862 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
618878 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:618894 original size:24 final size:22
Alignment explanation
Indices: 618862--618930 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
618852 AAATCATTAC
618862 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
618884 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
618909 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
618931 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:619131 original size:11 final size:11
Alignment explanation
Indices: 619113--619148 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
619103 TTAAATTATT
619113 ATTA-TAAATA
1 ATTACTAAATA
619123 ATTACTAAATA
1 ATTACTAAATA
*
619134 ATAACTAAATA
1 ATTACTAAATA
619145 ATTA
1 ATTA
619149 TTATAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
ATTACTAAATA
Found at i:619176 original size:12 final size:13
Alignment explanation
Indices: 619085--619436 Score: 163
Period size: 14 Copynumber: 27.1 Consensus size: 13
619075 ATTAGTAATA
619085 ATTATTAAATCATT
1 ATTA-TAAATCATT
* *
619099 AGTATTAAATTATT
1 ATTA-TAAATCATT
619113 ATTATAAAT-A--
1 ATTATAAATCATT
619123 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
619134 ATAACTAAATAATT
1 ATTA-TAAATCATT
619148 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
619162 ATTAT-AATGATT
1 ATTATAAATCATT
619174 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
619188 A--CTAAATCATC
1 ATTATAAATCATT
* * *
619199 A-AATCATTACA-T
1 ATTATAAAT-CATT
619211 ATT-TAAATCATT
1 ATTATAAATCATT
619223 A-T-TAAATCATT
1 ATTATAAATCATT
* *
619234 TTTAT-AATGATT
1 ATTATAAATCATT
619246 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
619260 ATTAT-AATGATT
1 ATTATAAATCATT
619272 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
619286 ACTAT-AATGATT
1 ATTATAAATCATT
619298 ATTATCAAATCATT
1 ATTAT-AAATCATT
619312 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
619331 AAATATTTAAATCATT
1 --AT-TATAAATCATT
619347 A-T-TAAATCATT
1 ATTATAAATCATT
* *
619358 TTTAT-AATGATT
1 ATTATAAATCATT
619370 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
619384 ATTAT-AATGATT
1 ATTATAAATCATT
619396 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
619410 ACTAT-AATGATT
1 ATTATAAATCATT
619422 ATTATAATATCATT
1 ATTATAA-ATCATT
619436 A
1 A
619437 CTAAATCATC
Statistics
Matches: 266, Mismatches: 38, Indels: 68
0.72 0.10 0.18
Matches are distributed among these distances:
10 4 0.02
11 44 0.17
12 86 0.32
13 15 0.06
14 91 0.34
15 1 0.00
16 8 0.03
17 1 0.00
18 3 0.01
19 11 0.04
20 1 0.00
21 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:619183 original size:26 final size:26
Alignment explanation
Indices: 619145--619436 Score: 247
Period size: 26 Copynumber: 11.7 Consensus size: 26
619135 TAACTAAATA
*
619145 ATTATTATAAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
619171 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * *
619196 ATCA-AATC-ATTACA-TATT-TAA--
1 ATTATTATCAAAT-CATTATTATAATG
* * *
619217 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
619243 ATTATTA-CTAAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
619269 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
619295 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
619320 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
619341 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
619367 ATTATTA-CTAAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
619393 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
619419 ATTATTAT-AATATCATTA
1 ATTATTATCAA-ATCATTA
619437 CTAAATCATC
Statistics
Matches: 215, Mismatches: 32, Indels: 38
0.75 0.11 0.13
Matches are distributed among these distances:
21 8 0.04
22 6 0.03
23 26 0.12
24 14 0.07
25 14 0.07
26 145 0.67
27 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATTATCAAATCATTATTATAATG
Found at i:619309 original size:124 final size:124
Alignment explanation
Indices: 619101--619494 Score: 643
Period size: 124 Copynumber: 3.2 Consensus size: 124
619091 AAATCATTAG
* * * * * * * *
619101 TATTAAATTATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
* *
619163 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTACATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
619222 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
619287 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
619346 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
619411 CTATAATGATTATTAT-AATATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAA-ATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
* *
619470 TATTAAATAAATTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
619495 ATAAATACAT
Statistics
Matches: 257, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
121 17 0.07
123 19 0.07
124 221 0.86
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (124 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:619494 original size:23 final size:23
Alignment explanation
Indices: 619454--619501 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
619444 ATCAAATCAT
*
619454 TAAATATTTAAATCATTATTAAA
1 TAAATATTTAAATCATTAATAAA
*
619477 TAAAT-TTTATAATGATTAATAAA
1 TAAATATTTA-AATCATTAATAAA
619500 TA
1 TA
619502 CATAGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATATTTAAATCATTAATAAA
Found at i:622378 original size:26 final size:24
Alignment explanation
Indices: 622320--622378 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
622310 CTAATAAACC
*
622320 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
622344 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
622372 TAATAAT
1 TAATAAT
622379 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:623176 original size:42 final size:47
Alignment explanation
Indices: 623120--623232 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 47
623110 GTTTAAAGAT
*
623120 ACTAACAAATTAATTAATATTTTTT-TAT-AT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
*
623162 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAA-T-ATTTTTTATATAATAT-ATATATAACTTAA
*
623212 ACTAATAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
623233 AACTTAAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
42 15 0.25
43 1 0.02
44 7 0.12
45 3 0.05
46 2 0.03
47 1 0.02
49 4 0.07
50 23 0.39
51 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.42
Consensus pattern (47 bp):
ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
Found at i:623232 original size:28 final size:30
Alignment explanation
Indices: 623192--623254 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
623182 ATTTTTTATA
*
623192 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
623222 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
623250 TAATA
1 TAATA
623255 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:623261 original size:28 final size:28
Alignment explanation
Indices: 623196--623261 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
623186 TTTATATAAT
*
623196 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
623224 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
623252 ATAATTTATA
1 ATAATATATA
623262 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:623264 original size:21 final size:21
Alignment explanation
Indices: 623231--623279 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
623221 CTAATATAAT
623231 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
623252 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
623273 ATTAACT
1 A-TAACT
623280 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:623671 original size:21 final size:21
Alignment explanation
Indices: 623646--623738 Score: 100
Period size: 21 Copynumber: 4.3 Consensus size: 21
623636 ACGCAACTAT
623646 GGATGCAACACATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
* *
623667 GGATGCAGGA-ATC-TCCCAGCTAT
1 GGATGCA--ACA-CAT-GCAGCTAC
*
623690 GGATGCAACGCATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
*
623711 GGATGCAACGCATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
623732 GGATGCA
1 GGATGCA
623739 TGAATCTCCC
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
21 43 0.70
22 3 0.05
23 15 0.25
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (21 bp):
GGATGCAACACATGCAGCTAC
Found at i:623870 original size:20 final size:20
Alignment explanation
Indices: 623845--623882 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
623835 ACGTGCATGG
*
623845 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
623865 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
623883 ATGCATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:623894 original size:20 final size:20
Alignment explanation
Indices: 623871--623908 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
623861 ACGTCCCATG
*
623871 CACAGCTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
623891 CACAACTCCCCCATGCAT
1 CACAACTCCCACATGCAT
623909 GCTCCAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.50, G:0.08, T:0.16
Consensus pattern (20 bp):
CACAACTCCCACATGCATCC
Found at i:624001 original size:29 final size:29
Alignment explanation
Indices: 623968--624042 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
623958 AACACCACAC
623968 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCTCGGATGCCATGGCGACCTCCA
623997 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCTCGGATGCCATGGCGACCTCCA
* *
624026 AGCTCGCCCGGATGCCA
1 AGGTCGCTCGGATGCCA
624043 CTGTAGAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (29 bp):
AGGTCGCTCGGATGCCATGGCGACCTCCA
Found at i:625880 original size:3 final size:3
Alignment explanation
Indices: 625872--625914 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
625862 ACACATATAT
* * *
625872 GAA GAA GAA GAA GAA GAA GAA GAA AAA AAA GGA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
625915 CCATTTGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:626828 original size:24 final size:24
Alignment explanation
Indices: 626789--626834 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
626779 TTTTAGAAGA
* * *
626789 CTCCAAGAGTGTATGGAGTCTTCC
1 CTCCAAGACTGCATGGAATCTTCC
626813 CTCCAAGACTGCATGGAATCTT
1 CTCCAAGACTGCATGGAATCTT
626835 GAAATAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (24 bp):
CTCCAAGACTGCATGGAATCTTCC
Found at i:635146 original size:18 final size:19
Alignment explanation
Indices: 635123--635160 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
635113 TTCTCTCAAC
*
635123 TTTCTTCTCT-TGAATCCA
1 TTTCTTCTCTCTCAATCCA
*
635141 TTTCTTTTCTCTCAATCCA
1 TTTCTTCTCTCTCAATCCA
635160 T
1 T
635161 AACATCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTCTTCTCTCTCAATCCA
Found at i:638618 original size:17 final size:17
Alignment explanation
Indices: 638592--638625 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
638582 GTTAAACAAA
638592 ATATAATATATATATAT
1 ATATAATATATATATAT
* *
638609 ATATACTATATTTATAT
1 ATATAATATATATATAT
638626 GACTACTAAT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAATATATATATAT
Found at i:640015 original size:3 final size:3
Alignment explanation
Indices: 640009--640091 Score: 70
Period size: 3 Copynumber: 29.0 Consensus size: 3
639999 ATTATTTATT
* * *
640009 TAA TAA TAA TAA T-A TAT TAA TAA -AA -AA T-A TAT TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
640053 TAA TAA TATA TAA -ATA TAA TAA TAA TAA T-A TAA AAA TAA
1 TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
640092 ATGGATGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 11 0.17
3 50 0.77
4 4 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:640039 original size:15 final size:17
Alignment explanation
Indices: 640008--640084 Score: 89
Period size: 15 Copynumber: 5.0 Consensus size: 17
639998 TATTATTTAT
640008 TTAATAATAATAATATA
1 TTAATAATAATAATATA
640025 TTAATAA-AA-AATATA
1 TTAATAATAATAATATA
*
640040 TTAATATTAATAATA-A
1 TTAATAATAATAATATA
640056 -TAAT-AT-ATAA-ATA
1 TTAATAATAATAATATA
640069 -TAATAATAATAATATA
1 TTAATAATAATAATATA
640085 AAAATAAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.02
13 9 0.17
14 3 0.06
15 20 0.38
16 8 0.15
17 11 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAATAATAATAATATA
Found at i:640632 original size:121 final size:122
Alignment explanation
Indices: 640284--640984 Score: 744
Period size: 121 Copynumber: 5.9 Consensus size: 122
640274 GATGACAATT
* * * * *
640284 TATCTCCTTCTGTGATATAATCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTT-TT
1 TATCTCATTCTGTGATAGAATTATACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
* *
640348 CATTCTTCAGATGAGTTCTTCTCATTATAAACACTTCTGGAAATATTATTGCTGATC
66 CATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTGTTGCTGATC
* * * * * *
640405 TATCTCCTTCTGTGATAGAGTTATGCAAAGGTTGAATAAGTTATTTCTTATTATGAACTTCTT-T
1 TATCTCATTCTGTGATAGAATTATACAAAGGTTGAACAAGTT-CTTCTCATTATGAACTTCTTCT
*
640469 TCATTCTTCAGATGAGTTCTTCTCATTATGAACACTTATGGAAATATTGTTGCTGATC
65 TCATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTGTTGCTGATC
*
640527 TATCTCATTCTGCGATAGAATTATACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-TT
1 TATCTCATTCTGTGATAGAATTATACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
* *
640591 CATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTGATACTGATC
66 CATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTGTTGCTGATC
* * *
640648 TATCTCATTCTGTGATAGAGTTATGCAAAGGTTGAACGAGCTT-TTCTCATTATGAACTTCTTCT
1 TATCTCATTCTGTGATAGAATTATACAAAGGTTGAACAAG-TTCTTCTCATTATGAACTTCTTCT
* ** *
640712 TCA-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAA-A--GTTGATG--C
65 TCATTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGGAAATATTGTTGCTGATC
* * *
640765 -ATC-GA----GTGATA-AATTCGA-ACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT
1 TATCTCATTCTGTGATAGAATT--ATAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * *
640822 CTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTTCCT--AAA-A-TG-T--TGA--
63 CTTCATTCTTCAGATGAGTTCTTCTCATTATGAACACTT-CTGGAAATATTGTTGCTGATC
** * *
640874 -A-C-CATTGAGTGATGGATTTGA-ACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
1 TATCTCATTCTGTGATAGAATT-ATAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * * * * *
640935 TTCCTTCTTTAGATGAGTTCTTTTCATTCTGAACTCTTCTGGAAACATTG
64 TTCATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTG
640985 AAAACATTCT
Statistics
Matches: 510, Mismatches: 49, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
108 2 0.00
109 3 0.01
110 3 0.01
111 16 0.03
112 116 0.23
113 37 0.07
114 1 0.00
115 3 0.01
116 3 0.01
117 1 0.00
119 4 0.01
121 197 0.39
122 124 0.24
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (122 bp):
TATCTCATTCTGTGATAGAATTATACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
CATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATATTGTTGCTGATC
Found at i:640986 original size:112 final size:111
Alignment explanation
Indices: 640674--640986 Score: 391
Period size: 112 Copynumber: 2.8 Consensus size: 111
640664 AGAGTTATGC
* * *
640674 AAAGGTTGAACGAGCTT-TTCTCATTATGAACTTCTTCTT-CATCTTCAGATAAGTTCTTCTCAT
1 AAAGGTTGAACAAG-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* **
640737 TATGAACTTTCTCTGGAAAAGTTGATGCATCGAGTGATAAATTCGAACA
65 TATGAACTCT-TCTGGAAAA-TTGAACCATCGAGTGATAAATTCGAACA
* * *
640786 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** *
640851 ATGAACTCTTCCT--AAAATGTTGAACCATTGAGTGATGGATTTGAACA
66 ATGAACTCTT-CTGGAAAA--TTGAACCATCGAGTGATAAATTCGAACA
* *
640898 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTTTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
640963 CTGAACTCTTCTGGAAACATTGAA
66 ATGAACTCTTCTGGAAA-ATTGAA
640987 AACATTCTAC
Statistics
Matches: 175, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
111 8 0.05
112 131 0.75
113 35 0.20
114 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (111 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTTCTGGAAAATTGAACCATCGAGTGATAAATTCGAACA
Found at i:643122 original size:67 final size:68
Alignment explanation
Indices: 643019--643184 Score: 253
Period size: 67 Copynumber: 2.5 Consensus size: 68
643009 GATCTTCAGT
*
643019 ATACCCCAACATTGGCTAATACAAACGTTCATCAACATTCCTGATTCTGATTGAAAGGGGCTTTC
1 ATACCCCAGCATTGGCTAATACAAACGTTCATCAACATTCCTGATTCTGATTGAAAGGGGCTTTC
**
643084 AGT
66 AAC
* * *
643087 AT-GCCCAGTATTGGCTAATACAAACGTTCATCAACATTTCTGATTCTGATTGAAAGGGGCTTTC
1 ATACCCCAGCATTGGCTAATACAAACGTTCATCAACATTCCTGATTCTGATTGAAAGGGGCTTTC
643151 AAC
66 AAC
* *
643154 ATACCCCAGCATTGACTTATACAAACGTTCA
1 ATACCCCAGCATTGGCTAATACAAACGTTCA
643185 AAATACATCA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
67 61 0.70
68 26 0.30
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (68 bp):
ATACCCCAGCATTGGCTAATACAAACGTTCATCAACATTCCTGATTCTGATTGAAAGGGGCTTTC
AAC
Found at i:656437 original size:15 final size:15
Alignment explanation
Indices: 656417--656446 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
656407 GTAATATTTA
656417 CCAGACTCTTTGTAT
1 CCAGACTCTTTGTAT
656432 CCAGACTCTTTGTAT
1 CCAGACTCTTTGTAT
656447 TACCCACTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
CCAGACTCTTTGTAT
Found at i:659599 original size:28 final size:29
Alignment explanation
Indices: 659568--659628 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
659558 GAAACTAAAG
659568 TAAAGATATTAAT-AAAA-AATAA-TATATA
1 TAAA-ATATT-ATGAAAATAATAAGTATATA
659596 T-AAATATTATGAAAATAATAAGTATATA
1 TAAAATATTATGAAAATAATAAGTATATA
659624 TAAAA
1 TAAAA
659629 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 2 0.07
26 9 0.31
27 7 0.24
28 8 0.28
29 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAAATATTATGAAAATAATAAGTATATA
Found at i:659610 original size:26 final size:28
Alignment explanation
Indices: 659573--659627 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
659563 TAAAGTAAAG
659573 ATATTAATAAAA-AATAA-TATATATAA
1 ATATTAATAAAATAATAAGTATATATAA
659599 ATATT-ATGAAAATAATAAGTATATATAA
1 ATATTAAT-AAAATAATAAGTATATATAA
659627 A
1 A
659628 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 2 0.08
26 9 0.35
27 5 0.19
28 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
ATATTAATAAAATAATAAGTATATATAA
Found at i:660424 original size:2 final size:2
Alignment explanation
Indices: 660417--660454 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
660407 AGTTAAACAA
*
660417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
660455 GACTAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:661848 original size:3 final size:3
Alignment explanation
Indices: 661842--661941 Score: 118
Period size: 3 Copynumber: 34.0 Consensus size: 3
661832 ATTATTTATT
* *
661842 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAT TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
661889 T-A TAT TAA TAA TAA TAA TATA TAA -ATA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA
*
661933 TAA AAA TAA
1 TAA TAA TAA
661942 ATGGATGAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
2 7 0.08
3 72 0.87
4 4 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:661914 original size:25 final size:24
Alignment explanation
Indices: 661842--661940 Score: 119
Period size: 25 Copynumber: 3.9 Consensus size: 24
661832 ATTATTTATT
*
661842 TAATAATAATAATAATAATAATA-A
1 TAATAATAATAAT-ATAAAAATATA
661866 TAATAATAATATATTAATAAAAATATA
1 TAATAATAATA-A-T-ATAAAAATATA
*
661893 TTAATAATAATAATATATAAATATAA
1 -TAATAATAATAATATAAAAATAT-A
661919 TAATAATAATAATATAAAAATA
1 TAATAATAATAATATAAAAATA
661941 AATGGATGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.16
25 31 0.46
26 12 0.18
27 2 0.03
28 11 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TAATAATAATAATATAAAAATATA
Found at i:669269 original size:21 final size:23
Alignment explanation
Indices: 669245--669286 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
669235 ATACATGTGG
*
669245 TATGTGA-CAGAAGA-AAATGTA
1 TATGTGATCACAAGAGAAATGTA
669266 TATGTGATCACAAGAGAAATG
1 TATGTGATCACAAGAGAAATG
669287 ACATGAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (23 bp):
TATGTGATCACAAGAGAAATGTA
Found at i:670075 original size:21 final size:21
Alignment explanation
Indices: 670049--670110 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
670039 GAAATTTAAG
* *
670049 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGTACTGTAGCAA
670070 TGCATCGATGTACTGTAGCAA
1 TGCATCGATGTACTGTAGCAA
670091 TGCATCGATGTACTGTAGCA
1 TGCATCGATGTACTGTAGCA
670111 CTGTTCATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (21 bp):
TGCATCGATGTACTGTAGCAA
Found at i:671138 original size:19 final size:20
Alignment explanation
Indices: 671100--671138 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
671090 GTAACTAACT
*
671100 CTTAACAGCTCTTAACTGCA
1 CTTAACAGCCCTTAACTGCA
*
671120 CTTAACA-CCCTTAATTGCA
1 CTTAACAGCCCTTAACTGCA
671139 TAACAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (20 bp):
CTTAACAGCCCTTAACTGCA
Found at i:671241 original size:29 final size:29
Alignment explanation
Indices: 671221--671296 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
671211 TAAATTAAAT
671221 GAATGAATTTATAAAATTTTATAATAGGA
1 GAATGAATTTATAAAATTTTATAATAGGA
671250 GAATGAATTTATAAAATTTTATAATAGGA
1 GAATGAATTTATAAAATTTTATAATAGGA
671279 GAATGAATTTATAAAATT
1 GAATGAATTTATAAAATT
671297 CAACAATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
GAATGAATTTATAAAATTTTATAATAGGA
Found at i:672273 original size:11 final size:11
Alignment explanation
Indices: 672257--672290 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
672247 TATGATGGTG
672257 GAAGCGATAAA
1 GAAGCGATAAA
672268 GAAGCGATAAA
1 GAAGCGATAAA
672279 GAAGCGAATAAA
1 GAAGCG-ATAAA
672291 TGCCCTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.56, C:0.09, G:0.26, T:0.09
Consensus pattern (11 bp):
GAAGCGATAAA
Found at i:673815 original size:2 final size:2
Alignment explanation
Indices: 673808--673835 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
673798 GTACAGAATA
673808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
673836 GTACTGTCAT
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):
AT
Found at i:675589 original size:18 final size:18
Alignment explanation
Indices: 675566--675607 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
675556 AAACTATCTA
675566 CGAATCGCATATCCAAAT
1 CGAATCGCATATCCAAAT
675584 CGAATCGCATATCCAAAT
1 CGAATCGCATATCCAAAT
*
675602 CAAATC
1 CGAATC
675608 CAATGGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (18 bp):
CGAATCGCATATCCAAAT
Found at i:685478 original size:18 final size:19
Alignment explanation
Indices: 685446--685481 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
685436 AAGCTACACC
*
685446 AGTCTCAGCAGCAGTTCCT
1 AGTCTCAGCACCAGTTCCT
685465 AGTC-CAGCACCAGTTCC
1 AGTCTCAGCACCAGTTCC
685482 ATCACAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (19 bp):
AGTCTCAGCACCAGTTCCT
Found at i:698535 original size:25 final size:24
Alignment explanation
Indices: 698471--698554 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
698461 TATATATATT
698471 TTTA-ATTATATT-TTTTTATTTA
1 TTTATATTATATTCTTTTTATTTA
698493 TTTACTA-TAT-TCCTCTTTTTATTTA
1 TTTA-TATTATAT--TCTTTTTATTTA
698518 TTTATATTATATTAC-TTTTATTATA
1 TTTATATTATATT-CTTTTTATT-TA
* *
698543 TATATCTTATAT
1 TTTATATTATAT
698555 CATTATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
22 5 0.10
23 3 0.06
24 12 0.24
25 30 0.59
26 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATATTATATTCTTTTTATTTA
Found at i:698541 original size:27 final size:24
Alignment explanation
Indices: 698482--698541 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 24
698472 TTAATTATAT
*
698482 TTTTTTATTTATTTACTATATTCC
1 TTTTTTATTTATTTACTATATTAC
*
698506 TCTTTTTATTTATTTATATTATATTAC
1 T-TTTTTATTTA-TT-TACTATATTAC
698533 TTTTATTAT
1 TTTT-TTAT
698542 ATATATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 10 0.33
26 5 0.17
27 14 0.47
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTTTATTTATTTACTATATTAC
Found at i:698546 original size:2 final size:2
Alignment explanation
Indices: 698539--698598 Score: 88
Period size: 2 Copynumber: 30.5 Consensus size: 2
698529 TTACTTTTAT
*
698539 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
698580 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
698599 GTATGTATAG
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
1 2 0.04
2 50 0.93
3 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:698680 original size:37 final size:35
Alignment explanation
Indices: 698639--698752 Score: 123
Period size: 37 Copynumber: 3.3 Consensus size: 35
698629 TTACTATGTA
698639 TATATTTTTTCTTAATATTATATTTTATACGTTTAT
1 TATATTTTTTCTTAATATTATATTTT-TACGTTTAT
* *
698675 ATATATATTTTCTTAATATTCTATTTTT--GTTT-T
1 -TATATTTTTTCTTAATATTATATTTTTACGTTTAT
* *
698708 TAT-TTATTT-ATATATATTATATTTTTAC-TTTAT
1 TATATTTTTTCTTA-ATATTATATTTTTACGTTTAT
698741 TATATTTTTTCT
1 TATATTTTTTCT
698753 ATTATTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
30 2 0.03
31 16 0.25
32 6 0.10
33 5 0.08
34 9 0.14
36 1 0.02
37 24 0.38
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (35 bp):
TATATTTTTTCTTAATATTATATTTTTACGTTTAT
Found at i:698702 original size:17 final size:17
Alignment explanation
Indices: 698639--698774 Score: 74
Period size: 17 Copynumber: 8.2 Consensus size: 17
698629 TTACTATGTA
698639 TATATTTTTTCTTAATAT
1 TATA-TTTTTCTTAATAT
*
698657 TATATTTTATACGTTTATA-
1 TATATTTT-T-C-TTAATAT
698676 TATATATTTTCTTAATAT
1 TATAT-TTTTCTTAATAT
* * **
698694 TCTATTTTTGTTTTTAT
1 TATATTTTTCTTAATAT
* *
698711 T-TATTTAT-AT-ATAT
1 TATATTTTTCTTAATAT
698725 TATATTTTTACTT--TAT
1 TATATTTTT-CTTAATAT
*
698741 TATA-TTTT-TT-CTAT
1 TATATTTTTCTTAATAT
*
698755 TATTTTTTTCTTAATAT
1 TATATTTTTCTTAATAT
698772 TAT
1 TAT
698775 GTATATCTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 26 0.28
18 10 0.11
19 7 0.08
20 8 0.09
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (17 bp):
TATATTTTTCTTAATAT
Found at i:698733 original size:25 final size:24
Alignment explanation
Indices: 698704--698798 Score: 70
Period size: 25 Copynumber: 3.9 Consensus size: 24
698694 TCTATTTTTG
698704 TTTTTATTTATTTATATATATTATA
1 TTTTTATTTATTTATAT-TATTATA
* *
698729 TTTTTACTTTA-TTATATTTTTTCTA
1 TTTTTA-TTTATTTATA-TTATTATA
* * *
698754 TTATTTTTTTCTTAATATTATGTATA
1 TT-TTTATTTATTTATATTAT-TATA
*
698780 TCTTTATTT-TTTAT-TTATT
1 TTTTTATTTATTTATATTATT
698799 TTACTTAGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
22 1 0.02
23 4 0.07
24 4 0.07
25 30 0.55
26 16 0.29
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTTTATTTATTTATATTATTATA
Found at i:698733 original size:26 final size:28
Alignment explanation
Indices: 698704--698825 Score: 71
Period size: 29 Copynumber: 4.3 Consensus size: 28
698694 TCTATTTTTG
698704 TTTTTATTTATTTATA-TATAT-TATA-
1 TTTTTATTTATTTATATTATATCTATAT
* *
698729 TTTTTACTTTA-TTATATTTTTTCTATTAT
1 TTTTTA-TTTATTTATATTATATCTA-TAT
* *
698758 TTTTT-TCTTAATATTAT-GTATATCTTTAT
1 TTTTTAT-TT-AT-TTATATTATATCTATAT
698787 TTTTTATTTATTT-TACTTAGTAT-TATAT
1 TTTTTATTTATTTATA-TTA-TATCTATAT
698815 ATTTATTATTT
1 -TTT-TTATTT
698826 TTACTTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
25 11 0.15
26 8 0.11
27 5 0.07
28 12 0.16
29 22 0.30
30 12 0.16
31 4 0.05
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTATTTATTTATATTATATCTATAT
Found at i:698763 original size:13 final size:14
Alignment explanation
Indices: 698722--698765 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 14
698712 TATTTATATA
*
698722 TATTATATTTTTACTT
1 TATTATATTTTT--TC
698738 TATTATATTTTTTC
1 TATTATATTTTTTC
698752 TATTAT-TTTTTTC
1 TATTATATTTTTTC
698765 T
1 T
698766 TAATATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 7 0.26
16 12 0.44
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTATATTTTTTC
Found at i:698816 original size:36 final size:37
Alignment explanation
Indices: 698754--698837 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 37
698744 ATTTTTTCTA
698754 TTATTT-TTTT-CTTAATATTATGTATATCT-TTATTTT
1 TTATTTATTTTACTTAATATTA-GTATATCTATTA-TTT
* *
698790 TTATTTATTTTACTTAGTATTA-TATATTTATTATTT
1 TTATTTATTTTACTTAATATTAGTATATCTATTATTT
*
698826 TTACTTATTTTA
1 TTATTTATTTTA
698838 GTAAATACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 26 0.62
37 7 0.17
38 9 0.21
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (37 bp):
TTATTTATTTTACTTAATATTAGTATATCTATTATTT
Found at i:698989 original size:11 final size:11
Alignment explanation
Indices: 698973--698998 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
698963 ATTTTGTTTA
698973 TTTTTATTATT
1 TTTTTATTATT
698984 TTTTTATTATT
1 TTTTTATTATT
698995 TTTT
1 TTTT
698999 ACGTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:698996 original size:19 final size:20
Alignment explanation
Indices: 698954--698996 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
698944 ATTTTTTAAC
698954 ATTTTATTCATTTTGTTTAT
1 ATTTTATTCATTTTGTTTAT
698974 -TTTTATT-ATTTT-TTTATT
1 ATTTTATTCATTTTGTTTA-T
698992 ATTTT
1 ATTTT
698997 TTACGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 11 0.52
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTATTCATTTTGTTTAT
Found at i:699038 original size:26 final size:27
Alignment explanation
Indices: 698991--699044 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
698981 ATTTTTTTAT
698991 TATTTTTTACGTGTTTTGTTATT-TTC
1 TATTTTTTACGTGTTTTGTTATTATTC
* *
699017 TATTTTTT-CTTGTTTTATTTATTATTC
1 TATTTTTTACGTGTTTT-GTTATTATTC
699044 T
1 T
699045 CACGTTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 13 0.54
27 4 0.17
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (27 bp):
TATTTTTTACGTGTTTTGTTATTATTC
Found at i:699042 original size:22 final size:22
Alignment explanation
Indices: 698973--699042 Score: 54
Period size: 26 Copynumber: 3.0 Consensus size: 22
698963 ATTTTGTTTA
*
698973 TTTTTATTATTTT-TTTATTAT
1 TTTTTCTTATTTTATTTATTAT
*
698994 TTTTTACGTGTTTTGTTATTT-TCTAT
1 TTTTT-C-T-TATT-TTATTTAT-TAT
*
699020 TTTTTCTTGTTTTATTTATTAT
1 TTTTTCTTATTTTATTTATTAT
699042 T
1 T
699043 CTCACGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 5 0.13
24 4 0.10
25 4 0.10
26 11 0.28
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTTTCTTATTTTATTTATTAT
Found at i:700587 original size:18 final size:17
Alignment explanation
Indices: 700531--700627 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 17
700521 TTAATCTACG
700531 TCTGATAATTGAAAATCA
1 TCTGATAATTGAAAAT-A
* *
700549 TCTAATAACT-ATAAATA
1 TCTGATAATTGA-AAATA
700566 --TGATAATTGAAAATCA
1 TCTGATAATTGAAAAT-A
* *
700582 TCTGATAATTGTAAATT
1 TCTGATAATTGAAAATA
*
700599 TCTGATAACAGTG-AAATA
1 TCTGAT-A-ATTGAAAATA
700617 TCTGATAATTG
1 TCTGATAATTG
700628 TAAGCATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
15 10 0.16
16 5 0.08
17 9 0.14
18 36 0.57
19 3 0.05
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (17 bp):
TCTGATAATTGAAAATA
Found at i:700957 original size:2 final size:2
Alignment explanation
Indices: 700950--700990 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
700940 TATTATGTAT
700950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
700991 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.