Locus 3027

Sequence ID	X_DroMel_CAF1
Location	8,097,790 – 8,097,908
Length	118
Max. P	0.996917

overview

Window 8

Location	8,097,790 – 8,097,908
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.14
Mean single sequence MFE	-40.40
Consensus MFE	-35.30
Energy contribution	-36.54
Covariance contribution	1.24
Combinations/Pair	1.09
Mean z-score	-1.26
Structure conservation index	0.87
SVM decision value	0.06
SVM RNA-class probability	0.564217
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8097790 118 + 22224390
UGUUUCAUUUCUUCGGCGCGUGUAGAGUGGGCAAAUAUUAG--GCAUCAGAAGACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCCCCGUUUGGGCCAAGUUA
......(((((((((((...(((..((((......))))..--)))((((....)))).....(((((((((.......)))))))))))))))))))).((((.....))))....... ( -41.70)
>DroSec_CAF1 3652 120 + 1
UGUUUCAUUUCUUCGGCGCGUGUAGAGUGGGCAAAUGUAAGGGGCCCCAGAAAACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCCCCGUUUGGGCCAAGUUA
......(((((((((((........(((((((...........))))(((....)))...)))(((((((((.......)))))))))))))))))))).((((.....))))....... ( -44.20)
>DroSim_CAF1 8255 118 + 1
UGUUUCAUUUCUUCGGCGCGUGUAGAGUGGGCAAAUGUAAG--GCCCCAGAAGACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCCCCGUUUGGGCCAAGUUA
......(((((((((((........(((((((.........--))))(((....)))...)))(((((((((.......)))))))))))))))))))).((((.....))))....... ( -44.40)
>DroEre_CAF1 3592 111 + 1
---CUCACUUCAUUGGCGUGCA-AGAGUGGCAAA-UAUGAG--GC-CCAGAAGACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCC-CGUUUGGGCCAAGUUA
---...(((((.(((((.....-..((((((...-......--))-)(((....)))...)))(((((((((.......)))))))))))))).))))).(((-(....))))....... ( -37.50)
>DroYak_CAF1 7055 117 + 1
UGUUUCAUUUCGCUGGCGUGUA-AGAGUGGGAAAUUAUGAG--GCCCCAGAAGACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCCCCGUUUGGGCCAAGUUA
....((((....((.((.....-...)).)).....))))(--((((.(((.((((......((((((((((.......)))))))))).......))))......))))))))...... ( -34.22)
>consensus
UGUUUCAUUUCUUCGGCGCGUGUAGAGUGGGCAAAUAUAAG__GCCCCAGAAGACUGAAAACUGGUUGCGACAACUUUCGUUGCGGCCGCCGAAGAAGUCGCCCCGUUUGGGCCAAGUUA
......(((((((((((........(((((((...........))))(((....)))...)))(((((((((.......)))))))))))))))))))).((((.....))))....... (-35.30 = -36.54 +   1.24)

alignment

secondary structure

dotplot

Window 9

Location	8,097,790 – 8,097,908
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.14
Mean single sequence MFE	-38.96
Consensus MFE	-34.14
Energy contribution	-35.18
Covariance contribution	1.04
Combinations/Pair	1.04
Mean z-score	-2.26
Structure conservation index	0.88
SVM decision value	2.77
SVM RNA-class probability	0.996917
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8097790 118 - 22224390
UAACUUGGCCCAAACGGGGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUCUUCUGAUGC--CUAAUAUUUGCCCACUCUACACGCGCCGAAGAAAUGAAACA
.......((((.....))))...((((((((((((.(((((....))))).)).....((..((((....)))).))--.......................))))))))))........ ( -39.60)
>DroSec_CAF1 3652 120 - 1
UAACUUGGCCCAAACGGGGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUUUUCUGGGGCCCCUUACAUUUGCCCACUCUACACGCGCCGAAGAAAUGAAACA
.......((((.....))))...((((((((((((.(((((....))))).))..........(((....)))((((...........))))..........))))))))))........ ( -43.30)
>DroSim_CAF1 8255 118 - 1
UAACUUGGCCCAAACGGGGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUCUUCUGGGGC--CUUACAUUUGCCCACUCUACACGCGCCGAAGAAAUGAAACA
.......((((.....))))...((((((((((((.(((((....))))).))..........(((....)))((((--.........))))..........))))))))))........ ( -43.50)
>DroEre_CAF1 3592 111 - 1
UAACUUGGCCCAAACG-GGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUCUUCUGG-GC--CUCAUA-UUUGCCACUCU-UGCACGCCAAUGAAGUGAG---
.......((((....)-))).(((((...((((((.(((((....))))).))..((((...........))))-..--......-..(((......-.)))))))...)))))...--- ( -36.50)
>DroYak_CAF1 7055 117 - 1
UAACUUGGCCCAAACGGGGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUCUUCUGGGGC--CUCAUAAUUUCCCACUCU-UACACGCCAGCGAAAUGAAACA
......(((((...(((((.((((....(((..((.(((((....))))).))..)).).....)))))))))))))--).................-....((....)).......... ( -31.90)
>consensus
UAACUUGGCCCAAACGGGGCGACUUCUUCGGCGGCCGCAACGAAAGUUGUCGCAACCAGUUUUCAGUCUUCUGGGGC__CUCAUAUUUGCCCACUCUACACGCGCCGAAGAAAUGAAACA
.......((((.....))))...((((((((((((.(((((....))))).))..((((...........))))............................))))))))))........ (-34.14 = -35.18 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:18 2006