Locus 527

Sequence ID	2L_DroMel_CAF1
Location	1,609,472 – 1,609,587
Length	115
Max. P	0.911716

overview

Window 2

Location	1,609,472 – 1,609,587
Length	115
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	75.78
Mean single sequence MFE	-45.34
Consensus MFE	-27.09
Energy contribution	-27.09
Covariance contribution	0.00
Combinations/Pair	1.33
Mean z-score	-1.85
Structure conservation index	0.60
SVM decision value	1.08
SVM RNA-class probability	0.911716
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1609472 115 + 22407834
-GCGUUUUACUUACCCGGGCACCAUGAGCGAAUUAUCCCACAGCAAACGGAGCUGGCGGGUGAAGGCCGCCCAUACCUGGGCCAUGCCUUCGACGCUGCCUAGGUGGGCGUGGCAG
-..(((...((((((..((((......(((......(((.((((.......))))..)))(((((((.(((((....)))))...))))))).)))))))..))))))...))).. ( -48.30)
>DroVir_CAF1 130331 116 + 1
UUGGGGGUACUCACCCGGGCACUGAUAGAGAAUUAUCCCAUAAUAAACGCAAUUGACGUGUAAAGGCCGCCCACAGCUGCGCCAUGCCCUCCAAGCUGCCCAAAUGGGCGUGGCAA
((((((((....))))(((((..(((((....))))).........((((.......))))...(((.((........))))).))))).))))(((((((....))))..))).. ( -36.20)
>DroPse_CAF1 136359 112 + 1
-GCG---GACUCACCCGGGUACAGCUAGGGAGUUGUCCCACAGCAAACGCAGCUGACGGGUGAAAGCGGCCCACAGUUGGGCCAUGCCAUCCAGGCCGCCCGAAUGGGCAUGACAU
-((.---...(((((((((.((((((....))))))))).((((.......))))..))))))..)).(((((...((((((...(((.....))).)))))).)))))....... ( -53.10)
>DroGri_CAF1 114750 112 + 1
----GCUUACUCACCCGGGCACCGAUAGGGAAUUGUCCCAUAACAAACGCAGUUGGCGUGUAAAUACUGCCCACAACUGGGCCAUGCCCUCCACGCCGCCCAGGUGGGCGUGGCAA
----(((..((((((.((((.......((((....))))...............((((((........(((((....))))).........)))))))))).))))))...))).. ( -46.93)
>DroMoj_CAF1 135263 116 + 1
AUGGGUUUACUUACCCGGGCACUGUUAAGGAAUUAUCCCAUAAUAGACGAAGCUGACGUGUAAAGGCCGCCCAUAGUUGCGCCAUGCCCUCCAAGCUGCCCAAAUGGGCGUGGCAG
..((((......))))((((.((((((.((.......)).)))))).....(((..........))).))))........(((((((((................))))))))).. ( -40.79)
>DroAna_CAF1 117987 115 + 1
-GGCUUCCACUUACCCUGGCACUGUCAAGGAGUUAUCCCACAGCAGCCGGAGCUGCCGAGUGAAGGCGGCCCACAACUGAGCCAUGCCCUCGACGCCUCCCAGGUGGGCGUGGCAG
-((((.(((.......)))..((((...(((....))).)))).))))((.((((((.......))))))))........(((((((((.....(((.....)))))))))))).. ( -46.70)
>consensus
_GGGGUUUACUCACCCGGGCACUGUUAGGGAAUUAUCCCACAACAAACGCAGCUGACGUGUAAAGGCCGCCCACAGCUGGGCCAUGCCCUCCACGCCGCCCAAAUGGGCGUGGCAG
................((((.......((((....)))).((((.......)))).............))))........(((((((((................))))))))).. (-27.09 = -27.09 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	1,609,472 – 1,609,587
Length	115
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	75.78
Mean single sequence MFE	-46.30
Consensus MFE	-28.43
Energy contribution	-28.02
Covariance contribution	-0.41
Combinations/Pair	1.42
Mean z-score	-1.33
Structure conservation index	0.61
SVM decision value	0.10
SVM RNA-class probability	0.581654
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1609472 115 - 22407834
CUGCCACGCCCACCUAGGCAGCGUCGAAGGCAUGGCCCAGGUAUGGGCGGCCUUCACCCGCCAGCUCCGUUUGCUGUGGGAUAAUUCGCUCAUGGUGCCCGGGUAAGUAAAACGC-
.((((.((..((((...(.((((..((((((...(((((....))))).)))))).(((((.(((.......))))))))......)))))..))))..))))))..........- ( -49.90)
>DroVir_CAF1 130331 116 - 1
UUGCCACGCCCAUUUGGGCAGCUUGGAGGGCAUGGCGCAGCUGUGGGCGGCCUUUACACGUCAAUUGCGUUUAUUAUGGGAUAAUUCUCUAUCAGUGCCCGGGUGAGUACCCCCAA
.......((((....))))....(((.(((((((((((((.....((((.........))))..)))))))......((((....)))).....))))))((((....))))))). ( -39.80)
>DroPse_CAF1 136359 112 - 1
AUGUCAUGCCCAUUCGGGCGGCCUGGAUGGCAUGGCCCAACUGUGGGCCGCUUUCACCCGUCAGCUGCGUUUGCUGUGGGACAACUCCCUAGCUGUACCCGGGUGAGUC---CGC-
.....(((((.(((((((...))))))))))))((((((....))))))(..((((((((.(((((((....))...((((....)))).)))))....))))))))..---)..- ( -50.80)
>DroGri_CAF1 114750 112 - 1
UUGCCACGCCCACCUGGGCGGCGUGGAGGGCAUGGCCCAGUUGUGGGCAGUAUUUACACGCCAACUGCGUUUGUUAUGGGACAAUUCCCUAUCGGUGCCCGGGUGAGUAAGC----
.......((.(((((((((((((((....((...(((((....))))).)).....))))))...............((((....)))).......))))))))).))....---- ( -47.30)
>DroMoj_CAF1 135263 116 - 1
CUGCCACGCCCAUUUGGGCAGCUUGGAGGGCAUGGCGCAACUAUGGGCGGCCUUUACACGUCAGCUUCGUCUAUUAUGGGAUAAUUCCUUAACAGUGCCCGGGUAAGUAAACCCAU
..((((.((((.((..((...))..)))))).))))........(((((((........)))........((.(((.((((....))))))).)).))))((((......)))).. ( -37.70)
>DroAna_CAF1 117987 115 - 1
CUGCCACGCCCACCUGGGAGGCGUCGAGGGCAUGGCUCAGUUGUGGGCCGCCUUCACUCGGCAGCUCCGGCUGCUGUGGGAUAACUCCUUGACAGUGCCAGGGUAAGUGGAAGCC-
((.((((((((.....((((..(((((((((..((((((....)))))))))....))))))..))))(((.(((((((((....))))..)))))))).))))..)))).))..- ( -52.30)
>consensus
CUGCCACGCCCACCUGGGCAGCGUGGAGGGCAUGGCCCAGCUGUGGGCGGCCUUCACACGUCAGCUGCGUUUGCUAUGGGAUAAUUCCCUAACAGUGCCCGGGUAAGUAAACCCC_
.......((..(((((((((.....((((((...(((((....))))).))))))......................((((....))))......)))))))))..))........ (-28.43 = -28.02 +  -0.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:23 2006