Locus 5099

Sequence ID 2R_DroMel_CAF1
Location 16,588,979 – 16,589,084
Length 105
Max. P 0.979402
window8151 window8152

overview

Window 1

Location 16,588,979 – 16,589,084
Length 105
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 78.48
Mean single sequence MFE -21.42
Consensus MFE -10.68
Energy contribution -10.92
Covariance contribution 0.24
Combinations/Pair 1.17
Mean z-score -2.57
Structure conservation index 0.50
SVM decision value 1.84
SVM RNA-class probability 0.979402
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16588979 105 + 20766785
U-UUCUA--------UAUGUGCACUUCA-AGCUGCUGACUUCAACGAGGCAAUCAGUUUUUUUUUUUUAUCAGUAUCCCUGAACUUGUCCAAAAACAAGUUAAGUGCACUUAACU
.-.....--------...((((((((.(-(((((.((.((((...))))))..))))))..........((((.....))))((((((......)))))).))))))))...... ( -24.00)
>DroSec_CAF1 10625 103 + 1
AAUAAUA--------UAUGUGCACUUCAAAGCUGCUGACUCCAGCAAAGCAAUCAGUUUU----UUUUAUCAGUAUCCCUGAACUUGUCCAAAAACAAGUUAACUGCACUUAACU
.......--------...((((........(((((((....))))..)))....((((..----.....((((.....))))((((((......)))))).))))))))...... ( -21.30)
>DroSim_CAF1 10679 101 + 1
AAUAAUA--------UAUGUGCACUUCAAAGCUGCUGACUCCAGCAAAGCAAUCAGUUU------UUUAUCAGUAUCCCUGAACUUGUCCAAAAACAAGUUAACUGCACUCAACU
.......--------...((((........(((((((....))))..)))....((((.------....((((.....))))((((((......)))))).))))))))...... ( -21.30)
>DroEre_CAF1 10681 108 + 1
AAAAAUACAUACAAGUAUAAGCACUUGA-AUCUGGUUACUCCUGGAAAGUAAUCAGUUA------UUUAUCAGUACCACUGAACUUGUCCAAGAUCAAGUUUACUGUGGCAAAGU
.....(((...(((((......))))).-..(((((((((.......)))))))))...------.......)))((((((((((((........))))))))..))))...... ( -25.10)
>DroYak_CAF1 11002 100 + 1
CAAAAUA--------UAUAUGCACUUGA-ACCUGCUGACUCCUGCAAAGUAAUCAGUAA------UUUAUCAGUAUCACUGAACUUGCCCGAAAACAAGUUUACUGCACUAAAGU
.......--------....((((.((((-...((((((...((....))...)))))).------....))))......((((((((........)))))))).))))....... ( -15.40)
>consensus
AAUAAUA________UAUGUGCACUUCA_AGCUGCUGACUCCAGCAAAGCAAUCAGUUU______UUUAUCAGUAUCCCUGAACUUGUCCAAAAACAAGUUAACUGCACUAAACU
..................(((((.........((((...........))))..................((((.....))))(((((........)))))....)))))...... (-10.68 = -10.92 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,588,979 – 16,589,084
Length 105
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 78.48
Mean single sequence MFE -25.22
Consensus MFE -16.76
Energy contribution -17.12
Covariance contribution 0.36
Combinations/Pair 1.17
Mean z-score -1.90
Structure conservation index 0.66
SVM decision value 0.89
SVM RNA-class probability 0.875191
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16588979 105 - 20766785
AGUUAAGUGCACUUAACUUGUUUUUGGACAAGUUCAGGGAUACUGAUAAAAAAAAAAAACUGAUUGCCUCGUUGAAGUCAGCAGCU-UGAAGUGCACAUA--------UAGAA-A
......((((((((.(((((((....)))))))((((.....)))).............((((((..(.....).)))))).....-..))))))))...--------.....-. ( -26.40)
>DroSec_CAF1 10625 103 - 1
AGUUAAGUGCAGUUAACUUGUUUUUGGACAAGUUCAGGGAUACUGAUAAAA----AAAACUGAUUGCUUUGCUGGAGUCAGCAGCUUUGAAGUGCACAUA--------UAUUAUU
......(((((.((.(((((((....)))))))((((.....)))).....----....((((((.(......).))))))........)).)))))...--------....... ( -25.10)
>DroSim_CAF1 10679 101 - 1
AGUUGAGUGCAGUUAACUUGUUUUUGGACAAGUUCAGGGAUACUGAUAAA------AAACUGAUUGCUUUGCUGGAGUCAGCAGCUUUGAAGUGCACAUA--------UAUUAUU
......(((((.((.(((((((....)))))))((((.....))))....------...((((((.(......).))))))........)).)))))...--------....... ( -25.10)
>DroEre_CAF1 10681 108 - 1
ACUUUGCCACAGUAAACUUGAUCUUGGACAAGUUCAGUGGUACUGAUAAA------UAACUGAUUACUUUCCAGGAGUAACCAGAU-UCAAGUGCUUAUACUUGUAUGUAUUUUU
.(..((((((....((((((........))))))..))))))..).....------...(((.((((((.....)))))).)))..-.((((((....))))))........... ( -22.80)
>DroYak_CAF1 11002 100 - 1
ACUUUAGUGCAGUAAACUUGUUUUCGGGCAAGUUCAGUGAUACUGAUAAA------UUACUGAUUACUUUGCAGGAGUCAGCAGGU-UCAAGUGCAUAUA--------UAUUUUG
......(((((.(.(((((((((((..((((((((((((((........)------)))))))..)).))))..)))..)))))))-)..).)))))...--------....... ( -26.70)
>consensus
AGUUAAGUGCAGUUAACUUGUUUUUGGACAAGUUCAGGGAUACUGAUAAA______AAACUGAUUGCUUUGCUGGAGUCAGCAGCU_UGAAGUGCACAUA________UAUUAUU
......(((((....(((((((....)))))))((((.....)))).............(((...((((.....))))...)))........))))).................. (-16.76 = -17.12 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:29 2006