Locus 3401

Sequence ID	3R_DroMel_CAF1
Location	9,220,864 – 9,220,957
Length	93
Max. P	0.895417

overview

Window 1

Location	9,220,864 – 9,220,957
Length	93
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	77.80
Mean single sequence MFE	-32.65
Consensus MFE	-17.86
Energy contribution	-19.95
Covariance contribution	2.09
Combinations/Pair	1.29
Mean z-score	-2.17
Structure conservation index	0.55
SVM decision value	0.99
SVM RNA-class probability	0.895417
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9220864 93 + 27905053
UUUCGCU-GGU--UUGCUGCUGUUGCUGUUUGACUGCAAGCCGGAGUUCUUGUGGUGCCGCCAAAGGAAAGUCGGCUCGCUUUAUAGCUGCAACAU
....((.-...--..))...((((((.(((.....((.((((((..(((((.(((.....))).)))))..)))))).)).....))).)))))). ( -34.30)
>DroVir_CAF1 55146 92 + 1
UUUUGCG-CGU--UUGCUGUCGAUGUCGCUCGAAUGAAAGCCAAAAUUCGUUUGAGACCGUUAACAGCACACGGCCCAGCUUUAUA-CAGCAGGAC
....((.-(((--.((((((..(((...((((((((((........))))))))))..)))..)))))).)))))((.(((.....-.))).)).. ( -33.30)
>DroSim_CAF1 55657 93 + 1
UUUCGCU-GGU--CUGCUGCUGCUGCUGUUUGACUGCAAGCCGGAGUUCUUUUGGUGCCGCCAAAGGAAAGUCGGCUCGCUUUAUAGCUGCAACAU
....((.-...--..))((.(((.(((((......((.((((((..(((((((((.....)))))))))..)))))).))...))))).))).)). ( -37.00)
>DroEre_CAF1 66192 93 + 1
UUUCACU-GGU--CUGCCGCUGCUGCUGUUUGACUGCAAGCCGGAGUUCUUUUGGUGCCGCAGAAGGAAAGUCGGCCUGCUUUAUAGCUGCAACAU
.......-((.--...))(.(((.(((((......(((.(((((..((((((((......))))))))...))))).)))...))))).))).).. ( -31.60)
>DroYak_CAF1 56070 93 + 1
UUUCGCU-GGU--CUGCUGCUGCUGCUGUUUGACUGCAAGCCGGAGUUCUUUUGGUGCCGCAAAAGGAAAGUCGGCCUGCUUUAUAGCUGCAACAU
....((.-...--..))((.(((.(((((......(((.(((((..((((((((......))))))))...))))).)))...))))).))).)). ( -31.70)
>DroAna_CAF1 59172 96 + 1
UUAACUUUUGUAGCCGCUGUUGCUGCUUUUUGACUGCAAGCCAGAGUUCUUUUGCUGUCGCCAGAAGAGAAUCGGCCGGCUUUAUAGCUGCAGCAC
.................((((((.(((...(((..((..(((.((.(((((((.(((....)))))))))))))))..)).))).))).)))))). ( -28.00)
>consensus
UUUCGCU_GGU__CUGCUGCUGCUGCUGUUUGACUGCAAGCCGGAGUUCUUUUGGUGCCGCCAAAGGAAAGUCGGCCCGCUUUAUAGCUGCAACAU
....................(((.(((((......((..(((((..(((((((((.....)))))))))..)))))..))...))))).))).... (-17.86 = -19.95 +   2.09)

alignment

secondary structure

dotplot

Window 2

Location	9,220,864 – 9,220,957
Length	93
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	77.80
Mean single sequence MFE	-28.13
Consensus MFE	-15.73
Energy contribution	-16.48
Covariance contribution	0.76
Combinations/Pair	1.39
Mean z-score	-1.94
Structure conservation index	0.56
SVM decision value	0.65
SVM RNA-class probability	0.811307
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9220864 93 - 27905053
AUGUUGCAGCUAUAAAGCGAGCCGACUUUCCUUUGGCGGCACCACAAGAACUCCGGCUUGCAGUCAAACAGCAACAGCAGCAA--ACC-AGCGAAA
.((((((.........((((((((...(((...(((.....)))...)))...)))))))).(.....).))))))...((..--...-.)).... ( -26.20)
>DroVir_CAF1 55146 92 - 1
GUCCUGCUG-UAUAAAGCUGGGCCGUGUGCUGUUAACGGUCUCAAACGAAUUUUGGCUUUCAUUCGAGCGACAUCGACAGCAA--ACG-CGCAAAA
..((.(((.-.....))).))(((((.(((((((....(((.((((.....))))((((......)))))))...))))))).--)))-.)).... ( -28.80)
>DroSim_CAF1 55657 93 - 1
AUGUUGCAGCUAUAAAGCGAGCCGACUUUCCUUUGGCGGCACCAAAAGAACUCCGGCUUGCAGUCAAACAGCAGCAGCAGCAG--ACC-AGCGAAA
.((((((.(((.....((((((((...(((.(((((.....))))).)))...)))))))).(.....)))).))))))((..--...-.)).... ( -32.60)
>DroEre_CAF1 66192 93 - 1
AUGUUGCAGCUAUAAAGCAGGCCGACUUUCCUUCUGCGGCACCAAAAGAACUCCGGCUUGCAGUCAAACAGCAGCAGCGGCAG--ACC-AGUGAAA
.((((((.(((.....((((((((......(((.((......)).))).....)))))))).((......))))).)))))).--...-....... ( -24.80)
>DroYak_CAF1 56070 93 - 1
AUGUUGCAGCUAUAAAGCAGGCCGACUUUCCUUUUGCGGCACCAAAAGAACUCCGGCUUGCAGUCAAACAGCAGCAGCAGCAG--ACC-AGCGAAA
.((((((.(((.....((((((((......((((((......)))))).....)))))))).(.....)))).))))))((..--...-.)).... ( -29.50)
>DroAna_CAF1 59172 96 - 1
GUGCUGCAGCUAUAAAGCCGGCCGAUUCUCUUCUGGCGACAGCAAAAGAACUCUGGCUUGCAGUCAAAAAGCAGCAACAGCGGCUACAAAAGUUAA
..(((((((((....))).((((((((((.(((((....))).)).)))).)).)))))))))).....(((.((....)).)))........... ( -26.90)
>consensus
AUGUUGCAGCUAUAAAGCAGGCCGACUUUCCUUUGGCGGCACCAAAAGAACUCCGGCUUGCAGUCAAACAGCAGCAGCAGCAG__ACC_AGCGAAA
.((((((.(((.....((((((((......((((..........)))).....)))))))).((......))))).)))))).............. (-15.73 = -16.48 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:07 2006