Locus 3022

Sequence ID	3R_DroMel_CAF1
Location	8,073,735 – 8,073,851
Length	116
Max. P	0.999984

overview

Window 3

Location	8,073,735 – 8,073,851
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	92.13
Mean single sequence MFE	-40.70
Consensus MFE	-36.92
Energy contribution	-36.24
Covariance contribution	-0.68
Combinations/Pair	1.17
Mean z-score	-2.37
Structure conservation index	0.91
SVM decision value	3.70
SVM RNA-class probability	0.999538
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8073735 116 + 27905053
CGAAAUUGAUACAGAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAACUGUGGCAACGAGUUGAAUUCGAGUCGCGACAAUUGCGUAUACUCGCUGUUUGUUUCUUUCUUUU
.(((((....((((.((((.(((((((.....))))))).))))....(((((.((....)))))))....((((((((((...)))))...)))))))))..)))))........ ( -39.50)
>DroSec_CAF1 19781 116 + 1
CGAAAUUGAUACAGAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAACUGUGGCAACGAGUUGAGUUCGAGUCGCGACAAUUGCGGAUGCUCGCUGUUUGUUUCUUUCGCUU
(((((..((.(((((((((.(((((((.....))))))).))).(((((.......))))).(((.((((.....((((((...))))))..))))))))))))).)))))))... ( -40.10)
>DroSim_CAF1 19774 116 + 1
CGAAAUUGAUACAGAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAACUGUGGCAACGAGUUGAGUUCGAGUCGCGACAAUUGCGUAUGCUCGCUGUUUGUUUCUUUCGCUU
(((((..(((((((.((((.(((((((.....))))))).))))....(((((.((....)))))))....((((((((((...)))))...)))))))))..)))..)))))... ( -40.00)
>DroEre_CAF1 18280 113 + 1
CGAAAUUGAUACAUAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAAUUGCGGCAACGAGUUGCGCUUGAGUCGCAACAAUUGCGGAUAUUCUCUGUUUGUUUCUUU---UU
.(((((.((((.((((((..(((((((.....)))))))........((((((.((....)).(((((((....).))))))))))))))))))....)))).)))))...---.. ( -41.10)
>DroYak_CAF1 18658 113 + 1
CGAAACUGAUACAGAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAACUGAGGCAACGAGUUGCGUUCGAGUCGCGACAUUUGCGGAUAUUCUCUGUUUGUUUCUUU---UU
.(((((....(((((((((.(((((((.....))))))).))))(((((.((((((((((....)))).))).))).)))))..............)))))..)))))...---.. ( -42.80)
>consensus
CGAAAUUGAUACAGAUCCUGGGCAGGAUCUCCUCCUGCCAAGGGGUUGCAACUGUGGCAACGAGUUGAGUUCGAGUCGCGACAAUUGCGGAUACUCGCUGUUUGUUUCUUUC__UU
.(((((....((((.((((.(((((((.....))))))).))))....(((((.((....))))))).....(((((((((...)))))...)))).))))..)))))........ (-36.92 = -36.24 +  -0.68)

alignment

secondary structure

dotplot

Window 4

Location	8,073,735 – 8,073,851
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	92.13
Mean single sequence MFE	-39.24
Consensus MFE	-36.40
Energy contribution	-36.76
Covariance contribution	0.36
Combinations/Pair	1.06
Mean z-score	-3.40
Structure conservation index	0.93
SVM decision value	5.34
SVM RNA-class probability	0.999984
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8073735 116 - 27905053
AAAAGAAAGAAACAAACAGCGAGUAUACGCAAUUGUCGCGACUCGAAUUCAACUCGUUGCCACAGUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUCUGUAUCAAUUUCG
....((((.......((((.........((((((((.(((((.............))))).))))))))....(((.(((((((.....))))))).)))..)))).....)))). ( -38.72)
>DroSec_CAF1 19781 116 - 1
AAGCGAAAGAAACAAACAGCGAGCAUCCGCAAUUGUCGCGACUCGAACUCAACUCGUUGCCACAGUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUCUGUAUCAAUUUCG
...(((((.......((((.........((((((((.(((((.............))))).))))))))....(((.(((((((.....))))))).)))..)))).....))))) ( -39.42)
>DroSim_CAF1 19774 116 - 1
AAGCGAAAGAAACAAACAGCGAGCAUACGCAAUUGUCGCGACUCGAACUCAACUCGUUGCCACAGUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUCUGUAUCAAUUUCG
...(((((.......((((.........((((((((.(((((.............))))).))))))))....(((.(((((((.....))))))).)))..)))).....))))) ( -39.42)
>DroEre_CAF1 18280 113 - 1
AA---AAAGAAACAAACAGAGAAUAUCCGCAAUUGUUGCGACUCAAGCGCAACUCGUUGCCGCAAUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUAUGUAUCAAUUUCG
..---.............((..((((((((((((((.(((((.............))))).))))))))........(((((((.....)))))))..))))))...))....... ( -39.02)
>DroYak_CAF1 18658 113 - 1
AA---AAAGAAACAAACAGAGAAUAUCCGCAAAUGUCGCGACUCGAACGCAACUCGUUGCCUCAGUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUCUGUAUCAGUUUCG
..---...(((((..(((((.................((((((.((..((((....)))).))))))))....(((.(((((((.....))))))).))).)))))....))))). ( -39.60)
>consensus
AA__GAAAGAAACAAACAGCGAGUAUCCGCAAUUGUCGCGACUCGAACUCAACUCGUUGCCACAGUUGCAACCCCUUGGCAGGAGGAGAUCCUGCCCAGGAUCUGUAUCAAUUUCG
........((((...((((.........((((((((.(((((.............))))).))))))))....(((.(((((((.....))))))).)))..)))).....)))). (-36.40 = -36.76 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:25 2006