Locus 8215

Sequence ID X_DroMel_CAF1
Location 20,417,412 – 20,417,510
Length 98
Max. P 0.992550
window13499 window13500

overview

Window 9

Location 20,417,412 – 20,417,510
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 90.46
Mean single sequence MFE -20.71
Consensus MFE -18.62
Energy contribution -18.26
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -1.68
Structure conservation index 0.90
SVM decision value 1.58
SVM RNA-class probability 0.965122
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20417412 98 + 22224390
AAAAAAAAAAAACUGAAGGAAGUAGGUGAGAUAAGCGGUAAAAGGGGGUUAAAACUGGGACAGACUGGACUCUCAAAUUAAGUUGAGGAGCCAGCUGU
...........(((......)))............((((..............))))..((((.((((..((((((......))))))..)))))))) ( -18.34)
>DroSec_CAF1 6778 92 + 1
------AAAAAACUGAAGGAAGUAGGUGAGAUAAGCGGUAAAAGGGGGUUAAAACUGGGCCAGACCGGACUCUCAAAUUAAGUUGAGGAGCCAGCUGU
------.....(((......)))...........(((((....((.((((.......))))...))((..((((((......))))))..)).))))) ( -19.30)
>DroSim_CAF1 3193 93 + 1
-----AAAAAAACUGAAGGAAGUAGGUGAGAUAAGCGGUAAAAGGGGGUUAAAACUGGGCCAGACCGGACUCUCAAAUUAAGUUGAGGAGCCAGCUGU
-----......(((......)))...........(((((....((.((((.......))))...))((..((((((......))))))..)).))))) ( -19.30)
>DroEre_CAF1 6085 89 + 1
----A-----AGCUGGAGGAAGUAAGUGAGAUAAGCGGCAAGAGGGGGUUACAACUGGGCCAGACCGGACUCUCAAAUUAAGUUGAGGAUCCAGCUGU
----.-----(((((((((......((.......))(((...((..(....)..))..)))...))....((((((......)))))).))))))).. ( -25.00)
>DroYak_CAF1 2863 94 + 1
----AAAAGAAACUGGAGGAAGUAGGUGAGAUAAGCGGCAAAAGGGGGUUAAAACAGGGCCAGACCGGACUCUCAAAUUAAGUUGAGGAGCCAGCUGU
----.......(((......)))...........(((((....((.((((.......))))...))((..((((((......))))))..)).))))) ( -21.60)
>consensus
____AAAAAAAACUGAAGGAAGUAGGUGAGAUAAGCGGUAAAAGGGGGUUAAAACUGGGCCAGACCGGACUCUCAAAUUAAGUUGAGGAGCCAGCUGU
...........(((......)))...........(((((....((.((((.......))))...))((..((((((......))))))..)).))))) (-18.62 = -18.26 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,417,412 – 20,417,510
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 90.46
Mean single sequence MFE -16.10
Consensus MFE -13.86
Energy contribution -13.90
Covariance contribution 0.04
Combinations/Pair 1.07
Mean z-score -2.14
Structure conservation index 0.86
SVM decision value 2.34
SVM RNA-class probability 0.992550
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20417412 98 - 22224390
ACAGCUGGCUCCUCAACUUAAUUUGAGAGUCCAGUCUGUCCCAGUUUUAACCCCCUUUUACCGCUUAUCUCACCUACUUCCUUCAGUUUUUUUUUUUU
(((((((((((.((((......))))))).)))).))))........................................................... ( -15.70)
>DroSec_CAF1 6778 92 - 1
ACAGCUGGCUCCUCAACUUAAUUUGAGAGUCCGGUCUGGCCCAGUUUUAACCCCCUUUUACCGCUUAUCUCACCUACUUCCUUCAGUUUUUU------
.((((((((((.((((......))))))).)))).)))......................................................------ ( -15.00)
>DroSim_CAF1 3193 93 - 1
ACAGCUGGCUCCUCAACUUAAUUUGAGAGUCCGGUCUGGCCCAGUUUUAACCCCCUUUUACCGCUUAUCUCACCUACUUCCUUCAGUUUUUUU-----
.((((((((((.((((......))))))).)))).))).......................................................----- ( -15.00)
>DroEre_CAF1 6085 89 - 1
ACAGCUGGAUCCUCAACUUAAUUUGAGAGUCCGGUCUGGCCCAGUUGUAACCCCCUCUUGCCGCUUAUCUCACUUACUUCCUCCAGCU-----U----
.((((((((..(((((......)))))..))))).)))....(((.((((.......)))).))).......................-----.---- ( -19.80)
>DroYak_CAF1 2863 94 - 1
ACAGCUGGCUCCUCAACUUAAUUUGAGAGUCCGGUCUGGCCCUGUUUUAACCCCCUUUUGCCGCUUAUCUCACCUACUUCCUCCAGUUUCUUUU----
.((((((((((.((((......))))))).)))).)))........................................................---- ( -15.00)
>consensus
ACAGCUGGCUCCUCAACUUAAUUUGAGAGUCCGGUCUGGCCCAGUUUUAACCCCCUUUUACCGCUUAUCUCACCUACUUCCUUCAGUUUUUUUU____
.((((((((((.((((......))))))).)))).)))............................................................ (-13.86 = -13.90 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:37 2006