Locus 5717

Sequence ID 2L_DroMel_CAF1
Location 16,268,602 – 16,268,721
Length 119
Max. P 0.979842
window9057 window9058

overview

Window 7

Location 16,268,602 – 16,268,721
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 93.22
Mean single sequence MFE -22.50
Consensus MFE -20.30
Energy contribution -20.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.40
Structure conservation index 0.90
SVM decision value 1.81
SVM RNA-class probability 0.978235
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16268602 119 + 22407834
AAUACAUUUGCAAUACCAAUCAUCAAGUUUUCUUUCACACAUCAGUGUUGUUCACAACACUGAUCUCUAAUCUGAGCUUUAAUACCAUAACGCACCCACUGUAACGAUGGCUAUGCAAC
.......(((((............((((((..........((((((((((....)))))))))).........)))))).....((((...(((.....)))....))))...))))). ( -24.71)
>DroSec_CAF1 14393 116 + 1
---AAAUUUGCAACACCAAUCAUCAAGUUUCCUUUCUCACAUCAGUGUUAUUCACAACACUGAUCUCUUAUCUGAGCUUUAAUACCAUACCGCACCCACUGAAACGAUGGCUAUGCAAC
---....(((((...(((.((.....(((((.........(((((((((......)))))))))(((......)))........................))))))))))...))))). ( -21.20)
>DroSim_CAF1 10045 115 + 1
---AAAUUUGCAACACCAAUCAUCAAGUUUC-UUUCUCACAUCAGUGUUAUUCACAACACUGAUCUCUUAUCUGAGCUUUAAUACCAUACCGCACCCACUGAAACGAUGGCUAUGCAAC
---....(((((...(((.((.....(((((-........(((((((((......)))))))))(((......)))........................))))))))))...))))). ( -21.60)
>consensus
___AAAUUUGCAACACCAAUCAUCAAGUUUCCUUUCUCACAUCAGUGUUAUUCACAACACUGAUCUCUUAUCUGAGCUUUAAUACCAUACCGCACCCACUGAAACGAUGGCUAUGCAAC
.......(((((...(((.((...................(((((((((......)))))))))(((......))).............................)))))...))))). (-20.30 = -20.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,268,602 – 16,268,721
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 93.22
Mean single sequence MFE -34.07
Consensus MFE -31.22
Energy contribution -31.00
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -3.13
Structure conservation index 0.92
SVM decision value 1.85
SVM RNA-class probability 0.979842
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16268602 119 - 22407834
GUUGCAUAGCCAUCGUUACAGUGGGUGCGUUAUGGUAUUAAAGCUCAGAUUAGAGAUCAGUGUUGUGAACAACACUGAUGUGUGAAAGAAAACUUGAUGAUUGGUAUUGCAAAUGUAUU
.(((((..((((((((((.(((((((...(((......))).))))...(((.(.((((((((((....)))))))))).).)))......))))))))).))))..)))))....... ( -38.80)
>DroSec_CAF1 14393 116 - 1
GUUGCAUAGCCAUCGUUUCAGUGGGUGCGGUAUGGUAUUAAAGCUCAGAUAAGAGAUCAGUGUUGUGAAUAACACUGAUGUGAGAAAGGAAACUUGAUGAUUGGUGUUGCAAAUUU---
.(((((..((((((((((((((.(((((......)))))...)))........(.((((((((((....)))))))))).)..))(((....)))))))).))))..)))))....--- ( -33.00)
>DroSim_CAF1 10045 115 - 1
GUUGCAUAGCCAUCGUUUCAGUGGGUGCGGUAUGGUAUUAAAGCUCAGAUAAGAGAUCAGUGUUGUGAAUAACACUGAUGUGAGAAA-GAAACUUGAUGAUUGGUGUUGCAAAUUU---
.(((((..(((((((((..(((.(((((......)))))....(((......)))((((((((((....))))))))))........-...))).))))).))))..)))))....--- ( -30.40)
>consensus
GUUGCAUAGCCAUCGUUUCAGUGGGUGCGGUAUGGUAUUAAAGCUCAGAUAAGAGAUCAGUGUUGUGAAUAACACUGAUGUGAGAAAGGAAACUUGAUGAUUGGUGUUGCAAAUUU___
.(((((..(((((((((..(((.(((((......)))))...)))........(.((((((((((....)))))))))).)..............))))).))))..)))))....... (-31.22 = -31.00 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:57 2006