Locus 2728

Sequence ID	X_DroMel_CAF1
Location	7,315,741 – 7,315,831
Length	90
Max. P	0.610237

overview

Window 4

Location	7,315,741 – 7,315,831
Length	90
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	75.70
Mean single sequence MFE	-22.85
Consensus MFE	-13.76
Energy contribution	-12.65
Covariance contribution	-1.11
Combinations/Pair	1.28
Mean z-score	-1.34
Structure conservation index	0.60
SVM decision value	0.02
SVM RNA-class probability	0.543100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7315741 90 + 22224390
UUUGGUCCAUU--UUUUGUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCAGUAAAGCGUGUGGGUCUCACUUUUUCCGGGUA--------UCCGAGUAU
...(..((((.--((((((((.....((((((((......))))))))))).)))))...))))..)..........(((...--------.)))..... ( -23.30)
>DroPse_CAF1 98155 80 + 1
CAUGGUCCAUU--UUUUCUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCACUAAAGCGUGUGCGUCGCCCGCC-----------------UCCUCGUA-
...(((.....--.............((((((((......))))))))((((........)))).......)))-----------------........- ( -18.90)
>DroEre_CAF1 76190 91 + 1
U-CGGUCCAUU--UUUUGUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCAGUAAAGCGUGUGGGGCUCACUUUUUCCGGGUAUU------UCCGAGUAU
(-((((((((.--((((((((.....((((((((......))))))))))).)))))...)))))((((.........))))...------.)))).... ( -23.60)
>DroYak_CAF1 93592 98 + 1
UACGGUCCAUU--UUUUGUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCAGUAAAGCGUGUGGGUCUCACUUUUUCCGGGUUUUCGGCUAUCCGAGUAU
((((..((((.--((((((((.....((((((((......))))))))))).)))))...))))..)..........(((((........))))).))). ( -27.00)
>DroMoj_CAF1 114246 88 + 1
A--UGUGCCUUGCUUUUUUGCCAAAUCACUUGACCAAUUUGUCAAGUGGCACUUAAGCGUGUACGUCUGCCGUCG----CAUCCC------UCGGAGUCC
.--.((((..(((((...((((.....(((((((......)))))))))))...))))).))))(.((.(((..(----....).------.))))).). ( -25.40)
>DroPer_CAF1 128303 80 + 1
CAUGGUCCAUU--UUUUCUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCACUAAAGCGUGUGCGUCGCCUGCC-----------------UCCUCGUA-
...(((.....--.............((((((((......))))))))((((........))))...)))....-----------------........- ( -18.90)
>consensus
UAUGGUCCAUU__UUUUGUGCAAAAUCACUUGACCAAUUUGUCAAGUGGCACUAAAGCGUGUGCGUCUCACGUCU____GGU_________UCCGAGUAU
...((..............(((....((((((((......))))))))((......)).)))(((.....)))...................))...... (-13.76 = -12.65 +  -1.11)

alignment

secondary structure

dotplot

Window 5

Location	7,315,741 – 7,315,831
Length	90
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	75.70
Mean single sequence MFE	-21.37
Consensus MFE	-13.63
Energy contribution	-13.80
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.25
Structure conservation index	0.64
SVM decision value	0.16
SVM RNA-class probability	0.610237
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7315741 90 - 22224390
AUACUCGGA--------UACCCGGAAAAAGUGAGACCCACACGCUUUACUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCACAAAA--AAUGGACCAAA
....((((.--------...)))).....(..(((.......((......))((((((((......)))))))).)))..)......--........... ( -19.40)
>DroPse_CAF1 98155 80 - 1
-UACGAGGA-----------------GGCGGGCGACGCACACGCUUUAGUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCAGAAAA--AAUGGACCAUG
-(((...((-----------------((((.((...))...)))))).))).((((((((......))))))))(((((......))--)))........ ( -20.80)
>DroEre_CAF1 76190 91 - 1
AUACUCGGA------AAUACCCGGAAAAAGUGAGCCCCACACGCUUUACUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCACAAAA--AAUGGACCG-A
....((((.------.......(.(((((((((((.......)).)))))..((((((((......)))))))).)))).).((...--..))..)))-) ( -20.20)
>DroYak_CAF1 93592 98 - 1
AUACUCGGAUAGCCGAAAACCCGGAAAAAGUGAGACCCACACGCUUUACUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCACAAAA--AAUGGACCGUA
....((((....)))).....(((..((((((.(.....).))))))..(((((((((((......)))))))).....))).....--......))).. ( -22.80)
>DroMoj_CAF1 114246 88 - 1
GGACUCCGA------GGGAUG----CGACGGCAGACGUACACGCUUAAGUGCCACUUGACAAAUUGGUCAAGUGAUUUGGCAAAAAAGCAAGGCACA--U
.......((------((..((----((.(....).))))..).)))..((((((((((((......)))))))......((......))..))))).--. ( -25.00)
>DroPer_CAF1 128303 80 - 1
-UACGAGGA-----------------GGCAGGCGACGCACACGCUUUAGUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCAGAAAA--AAUGGACCAUG
-........-----------------.(((((....((((........))))((((((((......))))))))..)))))......--........... ( -20.00)
>consensus
AUACUCGGA_________ACC____AAAAGGGAGACCCACACGCUUUACUGCCACUUGACAAAUUGGUCAAGUGAUUUUGCACAAAA__AAUGGACCAUA
......((..................................((......))((((((((......)))))))).....................))... (-13.63 = -13.80 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:55 2006