Locus 2212

Sequence ID X_DroMel_CAF1
Location 5,970,053 – 5,970,198
Length 145
Max. P 0.544361
window3587 window3588

overview

Window 7

Location 5,970,053 – 5,970,158
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.57
Mean single sequence MFE -40.67
Consensus MFE -26.05
Energy contribution -27.00
Covariance contribution 0.95
Combinations/Pair 1.15
Mean z-score -1.56
Structure conservation index 0.64
SVM decision value -0.02
SVM RNA-class probability 0.524960
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5970053 105 + 22224390
UCAGUGGUUCCCCCAGU------UCCAGCUCCUCCACUUGCACCGCCAUUUUGGUGGUUGUUAUUGCCACUGCCGGAUCCUGU------CGCUGCU---GCAGCUGCUGCGGCGGCCGCC
...(((((.....(((.------(((.((.....((...((((((((.....))))).)))...)).....)).)))..))).------((((((.---((....)).))))))))))). ( -38.00)
>DroSim_CAF1 4164 114 + 1
UCAGUGGUUCCCCCAGU------CCCAGCUCCUCCAAUUGCACCGCCAUUUUGGUGGUUGUUAUUGCCACCGGCGGAUCCUGUAGCCGCCGCUGCUGCAGCAGCUGCUGCGGCGGCCGCC
...((((((....(((.------....((..........)).(((((.....((((((.......)))))))))))...))).)))))).(((((((((((....))))))))))).... ( -49.00)
>DroYak_CAF1 4168 108 + 1
UCAUUGGUUCCCCCAGUUCCAGUUCCAGCUCCGCCACUUGCACCGCCGUUCUGGUGACUGUUAUUGCUACCGCCGGAUCCGGUUGCCG------CU------GCUGCUGCGGCCGCCACC
.....((.(((..(.((..((((..(((...(((((...((......))..))))).)))..))))..)).)..))).))(((.((((------(.------......))))).)))... ( -35.00)
>consensus
UCAGUGGUUCCCCCAGU______UCCAGCUCCUCCACUUGCACCGCCAUUUUGGUGGUUGUUAUUGCCACCGCCGGAUCCUGU_GCCG_CGCUGCU___GCAGCUGCUGCGGCGGCCGCC
...(((((..((.((((.......((.((..........))...........((((((.......))))))...))..............(((((....))))).)))).))..))))). (-26.05 = -27.00 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,970,087 – 5,970,198
Length 111
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -52.37
Consensus MFE -34.21
Energy contribution -34.83
Covariance contribution 0.63
Combinations/Pair 1.21
Mean z-score -1.63
Structure conservation index 0.65
SVM decision value 0.02
SVM RNA-class probability 0.544361
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5970087 111 + 22224390
CACCGCCAUUUUGGUGGUUGUUAUUGCCACUGCCGGAUCCUGU------CGCUGCU---GCAGCUGCUGCGGCGGCCGCCGUGCCGGCAACUGUUGCGACUGUUGGAGCCACCGUUGUGG
.....((((..((((((((.(..((((.((((((((...(.((------.((((((---((((...)))))))))).)).)..))))))...)).)))).....).))))))))..)))) ( -51.10)
>DroSim_CAF1 4198 120 + 1
CACCGCCAUUUUGGUGGUUGUUAUUGCCACCGGCGGAUCCUGUAGCCGCCGCUGCUGCAGCAGCUGCUGCGGCGGCCGCCGUGCCGGCAACUGUUGCAACUGUUGGAGCUACCGUAGUGG
..(((((.....((((((.......))))))))))).........((((..(.(((.((((((.(((.((((..((((......))))..)))).))).)))))).)))....)..)))) ( -55.30)
>DroYak_CAF1 4208 108 + 1
CACCGCCGUUCUGGUGACUGUUAUUGCUACCGCCGGAUCCGGUUGCCG------CU------GCUGCUGCGGCCGCCACCGUGCCAGCAACUGUGGCAACUGUGGGGGCCGCCGUUGUGG
....((((.(((((((...((....))...)))))))..))))..(((------(.------...((.((((((.((((..(((((.(....))))))...)))).)))))).)).)))) ( -50.70)
>consensus
CACCGCCAUUUUGGUGGUUGUUAUUGCCACCGCCGGAUCCUGU_GCCG_CGCUGCU___GCAGCUGCUGCGGCGGCCGCCGUGCCGGCAACUGUUGCAACUGUUGGAGCCACCGUUGUGG
.....((((..((((((((((....))..((..(((..............(((((....)))))(((..(((..((((......))))..)))..))).)))..))))))))))..)))) (-34.21 = -34.83 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:55 2006