Locus 1933

Sequence ID 2R_DroMel_CAF1
Location 7,298,572 – 7,298,692
Length 120
Max. P 0.994597
window3194 window3195

overview

Window 4

Location 7,298,572 – 7,298,662
Length 90
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -21.52
Consensus MFE -16.99
Energy contribution -18.18
Covariance contribution 1.19
Combinations/Pair 1.11
Mean z-score -2.75
Structure conservation index 0.79
SVM decision value 2.49
SVM RNA-class probability 0.994597
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7298572 90 + 20766785
GCCAAGUCAUUCCCAGCCACAUCC------------CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCCAUAGGGUAAAAGCCCUUCUUGGCACGUUGUU
........................------------.((((.....(((((((....)))))))...(((((.(((((....)))))...))))).)))).. ( -20.60)
>DroSec_CAF1 94288 90 + 1
GCCAAGUCAUUCCCAGCCACAUCC------------CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGCGAAAGCCCUUCUUGGCACGUUGUU
((((((..................------------..........(((((((....))))))).........(((((....))))).))))))........ ( -24.70)
>DroSim_CAF1 98254 90 + 1
GCCAAGUCAUUCCCAGCCACAUCC------------CCAACCCCCUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGCAAAAGCCCUUCUUGGCACGUUGUU
((((((..................------------..........(((((((....))))))).........(((((....))))).))))))........ ( -21.00)
>DroEre_CAF1 94644 98 + 1
GCCAAGUCAUCCGCAGCCCCAUCCCCAUCCCCAUCCCCAUCCUCUUGUAUAUAUGCACA---CCCCCUGCUGUGGGGAA-AAGCCCUCCUUGGCACGUUAUU
((((((......((..((((((...............((......)).......(((..---.....))).))))))..-..))....))))))........ ( -19.80)
>consensus
GCCAAGUCAUUCCCAGCCACAUCC____________CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGCAAAAGCCCUUCUUGGCACGUUGUU
((((((........................................(((((((....))))))).........(((((....))))).))))))........ (-16.99 = -18.18 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,298,596 – 7,298,692
Length 96
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 82.08
Mean single sequence MFE -18.15
Consensus MFE -11.02
Energy contribution -11.06
Covariance contribution 0.04
Combinations/Pair 1.40
Mean z-score -3.06
Structure conservation index 0.61
SVM decision value 2.03
SVM RNA-class probability 0.986107
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7298596 96 + 20766785
---CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCCAUAGGGUAA-AAGCCCUUCUUGGCACGUUGUUUUUCUUAAAUAUCAAAUAUUCCAACAUAUU
---.((((.....(((((((....)))))))...(((((.(((((..-..)))))...))))).))))................................ ( -20.60)
>DroSec_CAF1 94312 93 + 1
---CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGCGA-AAGCCCUUCUUGGCACGUUGUUUUUCUUAAAUAUCAAAUAUUCCAACAU---
---.((((.....(((((((....)))))))...(((((.(((((..-..)))))...))))).)))).............................--- ( -23.90)
>DroSim_CAF1 98278 96 + 1
---CCAACCCCCUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGCAA-AAGCCCUUCUUGGCACGUUGUUUUUCUUAAAUAUCAAAUAUUCCAACAUAUU
---.((((.....(((((((....)))))))...(((((.(((((..-..)))))...))))).))))................................ ( -20.20)
>DroEre_CAF1 94677 95 + 1
UCCCCAUCCUCUUGUAUAUAUGCACA---CCCCCUGCUGUGGGGAA--AAGCCCUCCUUGGCACGUUAUUUUUCUCAAAUUUCGAGUAUUCCAACAUAUU
(((((((..............(((..---.....))).))))))).--..(((......)))..(((......(((.......)))......)))..... ( -16.46)
>DroYak_CAF1 96758 92 + 1
UCCCCAUCCUCUUGUAUAUA----GA---CCCCCUGCUAUAGGAAAAAAACCCCUCCUUGGCACGUUGUU-UUCUUAAAUUUCAUAUAUUCCAACAUAUU
.............((((((.----..---.....(((((.((((..........))))))))).(..(((-(....))))..)))))))........... (  -9.60)
>consensus
___CCAACCUCUUGUAUAUACAUAUAUGUACCCCUGCUAUAGGGAAA_AAGCCCUUCUUGGCACGUUGUUUUUCUUAAAUAUCAAAUAUUCCAACAUAUU
..................................(((((.(((((.....)))))...)))))..................................... (-11.02 = -11.06 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:40 2006