Locus 2063

Sequence ID 2L_DroMel_CAF1
Location 5,573,070 – 5,573,180
Length 110
Max. P 0.935328
window3323 window3324

overview

Window 3

Location 5,573,070 – 5,573,180
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 91.88
Mean single sequence MFE -36.67
Consensus MFE -30.53
Energy contribution -33.84
Covariance contribution 3.31
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.83
SVM decision value 0.21
SVM RNA-class probability 0.634255
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5573070 110 + 22407834
GGUGAUGAUGGUGUAUGCCGAUAACGUGAGUCCUGGCACUCUCCGCCAGCCAGACCCACUAAUUUUUUACGGCUCUGGCUGGUAGCUCCUUUGCUGAUGCCCCCCCCCCC
(((......((.(..(((((...((....))..)))))..).))((((((((((.((.............)).))))))))))(((......)))...)))......... ( -37.92)
>DroSec_CAF1 17087 104 + 1
GGUGAUGAUGGUGUAUGCCGAUAACGUGAGUCCUGGCACUCUCCACCAGCCAGACCCACUAAUUUUUUACGGCUCUGGCUGGGAGCUCCUUUGCUGAUGGUCUC------
...(((.((((.(..(((((...((....))..)))))..).)).(((((((((.((.............)).))))))))).(((......))).)).)))..------ ( -37.02)
>DroEre_CAF1 17114 102 + 1
GGUGAUGAUGGUGUAUGCCGAUAACGUGAGUCCUGGCACUCUCCACCAGCCAGACCCACUAAUUUUUUACGGCUCUGGCUGGGAGCUCUUUGGCUGAUGGCC--------
(((.((..(((.(..(((((...((....))..)))))..).)))(((((((((.((.............)).))))))))).((((....)))).)).)))-------- ( -38.42)
>DroYak_CAF1 16945 102 + 1
GGUGAUGAUGGUGUAUGCCGAUAACGUGAGUCCUGGCACUCUCCUCCAGCCAGACCCACUAAUUUUUUACGGCUCUGGCUGUGAGCUCUUUGGCUGAUGGCC--------
(((.((((.((.(..(((((...((....))..)))))..).))))((((((((.((.............)).))))))))..((((....)))).)).)))-------- ( -33.32)
>consensus
GGUGAUGAUGGUGUAUGCCGAUAACGUGAGUCCUGGCACUCUCCACCAGCCAGACCCACUAAUUUUUUACGGCUCUGGCUGGGAGCUCCUUGGCUGAUGGCC________
(((.((...((.(..(((((...((....))..)))))..).)).(((((((((.((.............)).))))))))).(((......))).)).)))........ (-30.53 = -33.84 +   3.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,573,070 – 5,573,180
Length 110
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 91.88
Mean single sequence MFE -36.67
Consensus MFE -33.10
Energy contribution -33.35
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.90
SVM decision value 1.24
SVM RNA-class probability 0.935328
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5573070 110 - 22407834
GGGGGGGGGGGCAUCAGCAAAGGAGCUACCAGCCAGAGCCGUAAAAAAUUAGUGGGUCUGGCUGGCGGAGAGUGCCAGGACUCACGUUAUCGGCAUACACCAUCAUCACC
(((..(..((((....)).......(..(((((((((.((((((....))).))).)))))))))..).(.(((((..(((....)))...))))).).))..)..).)) ( -37.40)
>DroSec_CAF1 17087 104 - 1
------GAGACCAUCAGCAAAGGAGCUCCCAGCCAGAGCCGUAAAAAAUUAGUGGGUCUGGCUGGUGGAGAGUGCCAGGACUCACGUUAUCGGCAUACACCAUCAUCACC
------(((.((.........))..)))(((((((((.((((((....))).))).)))))))))(((.(.(((((..(((....)))...))))).).)))........ ( -35.80)
>DroEre_CAF1 17114 102 - 1
--------GGCCAUCAGCCAAAGAGCUCCCAGCCAGAGCCGUAAAAAAUUAGUGGGUCUGGCUGGUGGAGAGUGCCAGGACUCACGUUAUCGGCAUACACCAUCAUCACC
--------(((.....)))...((....(((((((((.((((((....))).))).)))))))))(((.(.(((((..(((....)))...))))).).)))))...... ( -37.80)
>DroYak_CAF1 16945 102 - 1
--------GGCCAUCAGCCAAAGAGCUCACAGCCAGAGCCGUAAAAAAUUAGUGGGUCUGGCUGGAGGAGAGUGCCAGGACUCACGUUAUCGGCAUACACCAUCAUCACC
--------(((.....)))...((.(((.((((((((.((((((....))).))).)))))))))))..(.(((((..(((....)))...))))).)....))...... ( -35.70)
>consensus
________GGCCAUCAGCAAAAGAGCUCCCAGCCAGAGCCGUAAAAAAUUAGUGGGUCUGGCUGGUGGAGAGUGCCAGGACUCACGUUAUCGGCAUACACCAUCAUCACC
...............(((......))).(((((((((.((((((....))).))).))))))))).((.(.(((((..(((....)))...))))).).))......... (-33.10 = -33.35 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:27 2006