Locus 8230

Sequence ID	3R_DroMel_CAF1
Location	22,063,898 – 22,064,014
Length	116
Max. P	0.949854

overview

Window 5

Location	22,063,898 – 22,064,014
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.71
Mean single sequence MFE	-30.52
Consensus MFE	-26.29
Energy contribution	-26.89
Covariance contribution	0.60
Combinations/Pair	1.06
Mean z-score	-1.62
Structure conservation index	0.86
SVM decision value	1.19
SVM RNA-class probability	0.927728
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22063898 116 + 27905053
UUUAUUCGUGAGUGCCAAGGCUAAAGGGGAAAUAUA----UAUAUUUUUGCGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCGUCCAACUGACACUCACUAAAUAU
.......((((((((....)).....((((((..((----........))..)))))).......((((.((.(((((((.(((....))).))..)))))))))))))))))....... ( -33.20)
>DroSec_CAF1 55871 120 + 1
UUUAUUCGUGAGUGCCAAGGCUACAGCGGAAAUAUAUAUAUAUAUUAUUGCGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCAUCCAGCUGACACUCACUAAAUAU
.......(((((((.(..(((....((((.((((((....)))))).))))(((((...))))).))).(((.(((((((.(((....))).))..))))))))).)))))))....... ( -31.90)
>DroSim_CAF1 48882 116 + 1
UUUAUUCGUGAGUGCCAAGGCUAAAGGGGAAAUCUA----UAUAUUAUUGCGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCAUCCAGCUGACACUCACUAAAUAU
.......((((((((....)).....(((((((.((----........)).))))))).......((((.((.(((((((.(((....))).))..)))))))))))))))))....... ( -32.70)
>DroEre_CAF1 50452 115 + 1
UUUAUUCGUAAGUGCCAAGGCUAAAGGGGAAAUAUA----UAGAUUAUU-CGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCAUCCAACUGACACUCACUGAAUAU
..(((((((.(((((....)).....(((((((..(----((...))).-.))))))).......((((.((.(((((((.(((....))).))..)))))))))))))).)).))))). ( -29.10)
>DroYak_CAF1 58276 116 + 1
UUUAUUCGAAAGUGCCAAGGCUAAAGGGGAAAUAUA----UAGAUUAUUGCGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCAUCCAAAUGACACUCACUAAACAU
....(((......((....)).....((((((..((----........))..)))))).)))..(((((....(((((((.(((....))).))..)))))..)))))............ ( -25.70)
>consensus
UUUAUUCGUGAGUGCCAAGGCUAAAGGGGAAAUAUA____UAUAUUAUUGCGUUUCCCAGAAACUGUCAAGUGUGGAUUCGUGUUCAAGCAGGAGCAUCCAACUGACACUCACUAAAUAU
.......((((((((....)).....(((((((..................))))))).......((((.((.(((((((.(((....))).))..)))))))))))))))))....... (-26.29 = -26.89 +   0.60)

alignment

secondary structure

dotplot

Window 6

Location	22,063,898 – 22,064,014
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.71
Mean single sequence MFE	-27.75
Consensus MFE	-25.13
Energy contribution	-25.17
Covariance contribution	0.04
Combinations/Pair	1.09
Mean z-score	-1.52
Structure conservation index	0.91
SVM decision value	1.40
SVM RNA-class probability	0.949854
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22063898 116 - 27905053
AUAUUUAGUGAGUGUCAGUUGGACGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACGCAAAAAUAUA----UAUAUUUCCCCUUUAGCCUUGGCACUCACGAAUAAA
.(((((.(((((((((((((.((.((....)))).)))..................(((...((((((............----....))))))....)))..))))))))))))))).. ( -27.99)
>DroSec_CAF1 55871 120 - 1
AUAUUUAGUGAGUGUCAGCUGGAUGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACGCAAUAAUAUAUAUAUAUAUUUCCGCUGUAGCCUUGGCACUCACGAAUAAA
.(((((.(((((((((((((((((((....))(((....))))))).......(((((...(((....).))..((((((....))))))...))))))))..))))))))))))))).. ( -30.80)
>DroSim_CAF1 48882 116 - 1
AUAUUUAGUGAGUGUCAGCUGGAUGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACGCAAUAAUAUA----UAGAUUUCCCCUUUAGCCUUGGCACUCACGAAUAAA
.(((((.(((((((((((((((((((....))(((....)))))))................(((((((...........----..).))))))....)))..))))))))))))))).. ( -29.42)
>DroEre_CAF1 50452 115 - 1
AUAUUCAGUGAGUGUCAGUUGGAUGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACG-AAUAAUCUA----UAUAUUUCCCCUUUAGCCUUGGCACUUACGAAUAAA
.(((((.(((((((((((((((((((....))(((....)))))))).))......(((...((((((..-.........----....))))))....)))..))))))))))))))).. ( -28.26)
>DroYak_CAF1 58276 116 - 1
AUGUUUAGUGAGUGUCAUUUGGAUGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACGCAAUAAUCUA----UAUAUUUCCCCUUUAGCCUUGGCACUUUCGAAUAAA
.(((((((((((((((.....)))))))..)).))))))...........((((.(((....((((((............----....)))))).....((....))))).))))..... ( -22.29)
>consensus
AUAUUUAGUGAGUGUCAGUUGGAUGCUCCUGCUUGAACACGAAUCCACACUUGACAGUUUCUGGGAAACGCAAUAAUAUA____UAUAUUUCCCCUUUAGCCUUGGCACUCACGAAUAAA
.(((((.((((((((((..(((((((....))(((....)))))))).........(((...((((((....................))))))....)))..))))))))))))))).. (-25.13 = -25.17 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:13 2006