Locus 1944

Sequence ID	X_DroMel_CAF1
Location	5,316,649 – 5,316,804
Length	155
Max. P	0.986027

overview

Window 7

Location	5,316,649 – 5,316,767
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.58
Mean single sequence MFE	-22.35
Consensus MFE	-18.54
Energy contribution	-18.62
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-2.20
Structure conservation index	0.83
SVM decision value	2.03
SVM RNA-class probability	0.986027
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5316649 118 - 22224390
AAACACUCGCACAAGCCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCACCACGCACAGAAAGCUUACGAAAAU--AUAAUUUGUGGCCAACUCGAUGAAUUAAACUAAA
...((.(((.....((((((((..(((..((....))...)))..........(((......)))...................--....)))))))).....)))))............ ( -23.30)
>DroSec_CAF1 53017 112 - 1
AAACACUCGCACAAACCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCA---CGCAC---GAGCUUACGAAAAU--AUAAUUUGUUGCCAACUCGAUGAAUUAAACUAAA
.....(((((.......)).....(((((((.....(((((......)))))....)))---)))).---)))...........--.(((((..(((......)))..)))))....... ( -19.10)
>DroSim_CAF1 44493 112 - 1
AAACACUCGCACAAGCCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCA---CGCAC---GAGCUUACGAAAAU--AUAAUUUGUUGCCAACUCGACGAAUUAAACUAAA
.....((((.....(((((.....(((..((....))...)))..........))))).---....)---)))...........--.((((((((((......))))))))))....... ( -23.66)
>DroEre_CAF1 56032 112 - 1
AAACACUCGCACAAGCCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCA---CGCAC---GAGCUUACGAAAAU--AUAAUUUGUUGCCAACUCGACGAAUUAAACUGAA
.....((((.....(((((.....(((..((....))...)))..........))))).---....)---)))...........--.((((((((((......))))))))))....... ( -23.66)
>DroYak_CAF1 56199 114 - 1
AAACACUCGCACAAGCCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCA---CGCAC---GAGCCUGUGAAAAUAUAUAAUUUUUUGCCAACUCGAUAAAUUAAACUAAA
.(((..(((((((.............)))))))..))).......((((((..(((...---))).(---(((...(..((((........))))..)...)))).))))))........ ( -22.02)
>consensus
AAACACUCGCACAAGCCGCAAACAUGUGUGCGAAAGUUAAACAAAAAUUUAAAGCGGCA___CGCAC___GAGCUUACGAAAAU__AUAAUUUGUUGCCAACUCGAUGAAUUAAACUAAA
......(((((((.............))))))).((((...............(((......)))......................((((((((((......))))))))))))))... (-18.54 = -18.62 +   0.08)

alignment

secondary structure

dotplot

Window 8

Location	5,316,687 – 5,316,804
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.70
Mean single sequence MFE	-27.04
Consensus MFE	-19.66
Energy contribution	-19.34
Covariance contribution	-0.32
Combinations/Pair	1.08
Mean z-score	-1.66
Structure conservation index	0.73
SVM decision value	-0.03
SVM RNA-class probability	0.520634
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5316687 117 + 22224390
UCGUAAGCUUUCUGUGCGUGGUGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGCUUGUGCGAGUGUUUUCCACAUGUAUAUUCAGCUUUCCUCU---GGCUUCCCCAU
.(((((((....((((((((....))).((((((....)))))).....)))))...)))))))(..((((((.(((.....))).))))))..)((((.......---))))....... ( -28.50)
>DroSec_CAF1 53055 106 + 1
UCGUAAGCUC---GUGCG---UGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGUUUGUGCGAGUGUUUUCCACAUGU--AUUCAGCUUUCCUCU---GGCUUCCC---
......((((---(..((---.(((((.((((((....)))))).....(((....)))..))))).))..))))).............--....((((.......---))))....--- ( -24.90)
>DroSim_CAF1 44531 106 + 1
UCGUAAGCUC---GUGCG---UGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGCUUGUGCGAGUGUUUUCCACAUGU--AUUCAGCUUUCCUCU---GGCUUCCC---
......((((---(..((---.(((((.((((((....)))))).....(((....)))..))))).))..))))).............--....((((.......---))))....--- ( -26.40)
>DroEre_CAF1 56070 109 + 1
UCGUAAGCUC---GUGCG---UGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGCUUGUGCGAGUGUUUUCCACAUGU--AUUCAGCUUCCCGUUUUGCGUUUUCC---
.(((((((.(---(((.(---(((....((((((....)))))).....)))).))))...))((((.(((((.(((.....))).)))--))..)))).......)))))......--- ( -26.60)
>DroYak_CAF1 56239 106 + 1
UCACAGGCUC---GUGCG---UGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGCUUGUGCGAGUGUUUUUCACAUGU--AUUUAGCUUGCCUCU---GGUUUUCC---
(((.((((((---(..((---.(((((.((((((....)))))).....(((....)))..))))).))..)))(((.....)))....--.........)))).)---))......--- ( -28.80)
>consensus
UCGUAAGCUC___GUGCG___UGCCGCUUUAAAUUUUUGUUUAACUUUCGCACACAUGUUUGCGGCUUGUGCGAGUGUUUUCCACAUGU__AUUCAGCUUUCCUCU___GGCUUCCC___
....(((((....(..((....(((((.((((((....)))))).....(((....)))..))))).))..)..(((.....)))..........))))).................... (-19.66 = -19.34 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:26 2006