Locus 5041

Sequence ID X_DroMel_CAF1
Location 13,190,180 – 13,190,276
Length 96
Max. P 0.980083
window8203 window8204

overview

Window 3

Location 13,190,180 – 13,190,276
Length 96
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 87.46
Mean single sequence MFE -28.63
Consensus MFE -25.86
Energy contribution -26.00
Covariance contribution 0.14
Combinations/Pair 1.06
Mean z-score -4.55
Structure conservation index 0.90
SVM decision value 1.75
SVM RNA-class probability 0.975469
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13190180 96 + 22224390
CUGAAAAUCGCCAGUGGAGUUCAUUGAACCGUUGGCCAAAUGAACUCCAUUUCACUACAU-----------AUAUAGUGCGAUAUAACUAUAUAACUAAAUAUAUAC
......(((((.(((((((((((((...((...))...)))))))))))))..((((...-----------...))))))))).....((((((......)))))). ( -25.30)
>DroSec_CAF1 19802 105 + 1
--GAAAAUCUCCAGUGGAGUUCAUUGAACCGUUGGCCAAAUGAACUCCGCUCCACUAUAUAUGCAUGCACUAUAUAGUGCGCUAUAGCUAUAUAACUAAAUAUAUAC
--..........(((((((((((((...((...))...))))))))))))).(((((((((((....)).))))))))).((....))((((((......)))))). ( -30.80)
>DroSim_CAF1 21185 105 + 1
--GAAAAUCUCCAGUGGAGUUCAUUGAACCGUUGGCCAAAUGAACUCCGCUCCACUAUAUAUGCAUGCACUAUAUAGUGCGCUAUAACUAUAUAACUAAAUAUAUAC
--..........(((((((((((((...((...))...))))))))))))).(((((((((((....)).))))))))).........((((((......)))))). ( -29.80)
>consensus
__GAAAAUCUCCAGUGGAGUUCAUUGAACCGUUGGCCAAAUGAACUCCGCUCCACUAUAUAUGCAUGCACUAUAUAGUGCGCUAUAACUAUAUAACUAAAUAUAUAC
............(((((((((((((...((...))...))))))))))))).(((((((((((....)).))))))))).........((((((......)))))). (-25.86 = -26.00 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,190,180 – 13,190,276
Length 96
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 87.46
Mean single sequence MFE -33.10
Consensus MFE -28.94
Energy contribution -29.13
Covariance contribution 0.20
Combinations/Pair 1.04
Mean z-score -4.10
Structure conservation index 0.87
SVM decision value 1.85
SVM RNA-class probability 0.980083
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13190180 96 - 22224390
GUAUAUAUUUAGUUAUAUAGUUAUAUCGCACUAUAU-----------AUGUAGUGAAAUGGAGUUCAUUUGGCCAACGGUUCAAUGAACUCCACUGGCGAUUUUCAG
.((((((......))))))(....((((((((((..-----------..)))))....(((((((((((..(((...)))..)))))))))))...)))))...).. ( -29.90)
>DroSec_CAF1 19802 105 - 1
GUAUAUAUUUAGUUAUAUAGCUAUAGCGCACUAUAUAGUGCAUGCAUAUAUAGUGGAGCGGAGUUCAUUUGGCCAACGGUUCAAUGAACUCCACUGGAGAUUUUC--
.......((((((............((.(((((((((.((....)))))))))))..))((((((((((..(((...)))..)))))))))))))))).......-- ( -34.70)
>DroSim_CAF1 21185 105 - 1
GUAUAUAUUUAGUUAUAUAGUUAUAGCGCACUAUAUAGUGCAUGCAUAUAUAGUGGAGCGGAGUUCAUUUGGCCAACGGUUCAAUGAACUCCACUGGAGAUUUUC--
.......((((((............((.(((((((((.((....)))))))))))..))((((((((((..(((...)))..)))))))))))))))).......-- ( -34.70)
>consensus
GUAUAUAUUUAGUUAUAUAGUUAUAGCGCACUAUAUAGUGCAUGCAUAUAUAGUGGAGCGGAGUUCAUUUGGCCAACGGUUCAAUGAACUCCACUGGAGAUUUUC__
...........((((((....)))))).(((((((((.........)))))))))....((((((((((..(((...)))..))))))))))............... (-28.94 = -29.13 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:46 2006