Locus 3078

Sequence ID 2L_DroMel_CAF1
Location 8,783,925 – 8,784,072
Length 147
Max. P 0.820496
window4896 window4897

overview

Window 6

Location 8,783,925 – 8,784,032
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -35.26
Consensus MFE -24.77
Energy contribution -26.61
Covariance contribution 1.84
Combinations/Pair 1.17
Mean z-score -1.45
Structure conservation index 0.70
SVM decision value 0.12
SVM RNA-class probability 0.591487
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8783925 107 + 22407834
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCUAAGGAUCUGCACACCUCCUCAUUUCGUUCUUGGCAGGGAACA-------------CUUCGCUCCACUC
.....((((((((((((.......))))))....(((..(((((((((.....))))))))).)))......))))))....(((.((.((...-------------..)).)))))... ( -35.50)
>DroSec_CAF1 86688 107 + 1
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCUAAGGAUCUGCACACCUUCUCACUUCGUUCUUGGCAGGGACCA-------------CUCCACUCCACUU
((((((((((((.(((.....((.((((......)))).(((((((((.....)))))))))...))....)))..)))).)))))))).....-------------............. ( -36.40)
>DroSim_CAF1 90201 107 + 1
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCUAAGGAUCUGCACACCUUCUCAUUUCGUUCUUUGCAGGGACCA-------------CUCCGCUCCACUU
....................((((((...((((((((..(((((((((.....))))))))).))).................)))))(((...-------------.)))))))))... ( -34.92)
>DroEre_CAF1 91842 107 + 1
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCUAAGGAUCUGCACACCUCCUUAUUCCCUUCUUGGCUGGCACCA-------------CUCCGCUCCACUC
...((.((...((((((.......))))))....((((((((((((((.....)))))))))..............((.....))..)))))..-------------.)).))....... ( -34.80)
>DroYak_CAF1 91705 120 + 1
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCCAAGGAUCUGCACACCUCCUUACUUCGUUCUUGGCUGGGACCACCUAUCCCCUCAACUCCGCUCCACUU
....................((((((..((.((...)).)).(((((..(((((((((...................)))))))))..)))))..................))))))... ( -39.91)
>DroAna_CAF1 108949 113 + 1
CCUGUCGAAAUGUGUGCAAAUGGAACACGCUGCAUUGCCCCUGGCACUGGCUAAGGAUCUCCAGCUCUGCCU-CUGCAUCCUUGA----GAAUAUCCUUCGGUU--GGUGCUCUCCACUC
....................((((....((......))....(((((..((((((((((((.((...(((..-..)))..)).))----))...))))).))).--.))))).))))... ( -30.00)
>consensus
CUUGUCGAAAUGUGUGCAAAUGGAGCACGCUGCAGUGCCGCAGGUCCUGGCUAAGGAUCUGCACACCUCCUCACUUCGUUCUUGGCAGGGACCA_____________CUCCGCUCCACUC
....................((((((..((.((...)).)).(((((..(((((((((...................)))))))))..)))))..................))))))... (-24.77 = -26.61 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,783,965 – 8,784,072
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -30.19
Consensus MFE -20.82
Energy contribution -22.41
Covariance contribution 1.59
Combinations/Pair 1.18
Mean z-score -1.52
Structure conservation index 0.69
SVM decision value 0.68
SVM RNA-class probability 0.820496
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8783965 107 + 22407834
CAGGUCCUGGCUAAGGAUCUGCACACCUCCUCAUUUCGUUCUUGGCAGGGAACA-------------CUUCGCUCCACUCCGGCACUGCAGUAAAAUAUUGUUUCGUCCUGCUCGAGUAU
((((((((.....))))))))...................(((((((((((.(.-------------....).))).....(((...((((((...))))))...))))))).))))... ( -27.70)
>DroSec_CAF1 86728 107 + 1
CAGGUCCUGGCUAAGGAUCUGCACACCUUCUCACUUCGUUCUUGGCAGGGACCA-------------CUCCACUCCACUUCGGCACUGCAGUAAAAUAUUGUUUCGUCCUGCUCGAGUAU
..((((((.(((((((((...................))))))))).)))))).-------------....((((......(((...((((((...))))))...)))......)))).. ( -28.91)
>DroSim_CAF1 90241 107 + 1
CAGGUCCUGGCUAAGGAUCUGCACACCUUCUCAUUUCGUUCUUUGCAGGGACCA-------------CUCCGCUCCACUUCGGCACUGCAGUAAAAUAUUGUUUCGUCCUGCUCGAGUAU
((((((((.....)))))))).............((((......(((((((.(.-------------....).))).....(((...((((((...))))))...))))))).))))... ( -25.10)
>DroEre_CAF1 91882 107 + 1
CAGGUCCUGGCUAAGGAUCUGCACACCUCCUUAUUCCCUUCUUGGCUGGCACCA-------------CUCCGCUCCACUCCGGCACUGCAGUAAAAUAUUGUUUCGUGCCGCUCGAGUAU
..(((.(..((((((((.....................))))))))..).))).-------------....((((.....((((((.((((((...))))))...))))))...)))).. ( -32.40)
>DroYak_CAF1 91745 120 + 1
CAGGUCCUGGCCAAGGAUCUGCACACCUCCUUACUUCGUUCUUGGCUGGGACCACCUAUCCCCUCAACUCCGCUCCACUUUGGCACUGCAGUAAAAUAUUGUUUCGUUCCGCUCGAGUAU
..(((((..(((((((((...................)))))))))..)))))..................((((.....(((.((.((((((...))))))...)).)))...)))).. ( -34.51)
>DroAna_CAF1 108989 111 + 1
CUGGCACUGGCUAAGGAUCUCCAGCUCUGCCU-CUGCAUCCUUGA----GAAUAUCCUUCGGUU--GGUGCUCUCCACUCCACCAAUGCAGUAGGA-AUUGUCUCGC-CCGUACGAGUAU
..(((((..((((((((((((.((...(((..-..)))..)).))----))...))))).))).--.))))).((((((.((....)).))).)))-.....((((.-.....))))... ( -32.50)
>consensus
CAGGUCCUGGCUAAGGAUCUGCACACCUCCUCACUUCGUUCUUGGCAGGGACCA_____________CUCCGCUCCACUCCGGCACUGCAGUAAAAUAUUGUUUCGUCCCGCUCGAGUAU
..(((((..(((((((((...................)))))))))..))))).......................((((.(((((.(((((.....)))))...))...))).)))).. (-20.82 = -22.41 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:48 2006