Locus 608

Sequence ID 2L_DroMel_CAF1
Location 1,818,890 – 1,819,020
Length 130
Max. P 0.854498
window996 window997

overview

Window 6

Location 1,818,890 – 1,819,006
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -26.94
Consensus MFE -22.91
Energy contribution -23.60
Covariance contribution 0.70
Combinations/Pair 1.04
Mean z-score -1.51
Structure conservation index 0.85
SVM decision value -0.02
SVM RNA-class probability 0.523772
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1818890 116 - 22407834
GGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUCCCGUUUUCCCUCGC----UUUUCCUCCAGAUGUUGCCCAA
(((((((..(.(((.....))).............(((((((((..((((.............)))))))))))))..................----..........)..))))))).. ( -26.62)
>DroSec_CAF1 38841 116 - 1
GGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUCCUGUCUUCCCUCGC----UUCUCCUCCAGAUGUAGCCCAA
((((.......(((.....))).........(((..((((((((..((((.............))))))))))))(((....))).........----........))).....)))).. ( -25.82)
>DroSim_CAF1 16529 116 - 1
GGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUCCUGUUUUCCCUCGC----UUUUCCUCCAGAUGUUGCCCAA
(((((((..........((((.........((.(.(((((((((..((((.............))))))))))))).)....))........))----))...........))))))).. ( -26.75)
>DroPer_CAF1 30587 120 - 1
AGGCAAUUCCAAACAAUAAGUUGCCAUUUUAUUGCCGAAUGCUUAACCUUGUCCCCAAUCGAAAGGGGAGCAGUCAACUCCUGAGUUGUCCCGCCCCAUGCUCCCCCAGAUGUUGCCCAA
.((((((..(...(((((((.......))))))).(((.((..............)).)))...(((((((((.(((((....))))).)........))))))))..)..))))))... ( -30.74)
>DroEre_CAF1 27323 116 - 1
GGGCCAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGCAAAGGGAGCAUUCGACUCCUGUUCUCCCACGC----UUUUCCUCCAGAUGUUGCCCAA
((((((((.........((((.........((.(.(((((((((..((((((........)).))))))))))))).)....))........))----))........))))..)))).. ( -24.26)
>DroYak_CAF1 3669 116 - 1
GGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGCAAAGGGAGCAUUCGACUCCUGUUUUCCCUCGC----UUUUCCUCCAGAUGUUGCCCAA
(((((((..........((((.........((.(.(((((((((..((((((........)).))))))))))))).)....))........))----))...........))))))).. ( -27.43)
>consensus
GGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUCCUGUUUUCCCUCGC____UUUUCCUCCAGAUGUUGCCCAA
(((((((..(.(((.....))).............(((((((((..((((.............)))))))))))))................................)..))))))).. (-22.91 = -23.60 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,818,926 – 1,819,020
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.95
Mean single sequence MFE -22.71
Consensus MFE -19.89
Energy contribution -20.25
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.88
Structure conservation index 0.88
SVM decision value 0.80
SVM RNA-class probability 0.854498
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1818926 94 - 22407834
UC-CCUUUGUU-------------------------UUCCGGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUC
..-........-------------------------.....(((((((..........)))))))..........(((((((((..((((.............))))))))))))).... ( -21.82)
>DroSec_CAF1 38877 94 - 1
UC-CCUUUGUU-------------------------UUCCGGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUC
..-........-------------------------.....(((((((..........)))))))..........(((((((((..((((.............))))))))))))).... ( -21.82)
>DroSim_CAF1 16565 94 - 1
UC-CCUUUGUU-------------------------UUCCGGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUC
..-........-------------------------.....(((((((..........)))))))..........(((((((((..((((.............))))))))))))).... ( -21.82)
>DroPer_CAF1 30627 120 - 1
CUACCAUGGUUUUUUUGUAUUCUGUGGCCAACACAAUUCCAGGCAAUUCCAAACAAUAAGUUGCCAUUUUAUUGCCGAAUGCUUAACCUUGUCCCCAAUCGAAAGGGGAGCAGUCAACUC
.......((((.....((((((((((.....))))......((((((......(((....))).......))))))))))))..))))((((((((........))))).)))....... ( -29.92)
>DroEre_CAF1 27359 93 - 1
UC--CUUUGUU-------------------------UUCCGGGCCAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGCAAAGGGAGCAUUCGACUC
..--..(((((-------------------------(...(((....)))))))))...................(((((((((..((((((........)).))))))))))))).... ( -18.40)
>DroYak_CAF1 3705 94 - 1
UC-CCUUUGUU-------------------------UUCCGGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGCAAAGGGAGCAUUCGACUC
..-........-------------------------.....(((((((..........)))))))..........(((((((((..((((((........)).))))))))))))).... ( -22.50)
>consensus
UC_CCUUUGUU_________________________UUCCGGGCAAUUCCAAACAAUAAGUUGCCAUUUUACUGCCGAAUGCUUAACCUUGUCCUCAAUCGUAAAGGGAGCAUUCGACUC
.........................................(((((((..........)))))))..........(((((((((..((((.............))))))))))))).... (-19.89 = -20.25 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:51 2006