Locus 5392

Sequence ID 2R_DroMel_CAF1
Location 17,413,019 – 17,413,124
Length 105
Max. P 0.500000
window8607

overview

Window 7

Location 17,413,019 – 17,413,124
Length 105
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 92.20
Mean single sequence MFE -23.22
Consensus MFE -18.36
Energy contribution -19.08
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.30
Structure conservation index 0.79
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17413019 105 - 20766785
CAGGAA-AGAGAGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAACA--CGGCCAAAAA-GGUCAGAGCUCUCAAAA
......-...(((((...((((((((((..........))))).(((...(((((....)))))((((......)))).--..))).....-.)))))..))))).... ( -22.60)
>DroSec_CAF1 128874 105 - 1
CAGGAA-AGAGAGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAACA--CGGCCAAAAA-GGUCAGAGCUCUCAAAA
......-...(((((...((((((((((..........))))).(((...(((((....)))))((((......)))).--..))).....-.)))))..))))).... ( -22.60)
>DroSim_CAF1 132384 105 - 1
CAGGAA-AGAGAGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAACA--CGGCCAAAAA-GGUCAGAGCUCUCAAAA
......-...(((((...((((((((((..........))))).(((...(((((....)))))((((......)))).--..))).....-.)))))..))))).... ( -22.60)
>DroEre_CAF1 127952 106 - 1
CAGGAAAAGAGGGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAACA--CGGCCAAAAA-GGUCAGGGCUCUCAGGA
..........(((((...((((((((((..........))))).(((...(((((....)))))((((......)))).--..))).....-.)))))..))))).... ( -22.80)
>DroYak_CAF1 112174 106 - 1
CAGGAAAAGCGAGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUCGAGUGAUAACA--CGGCCAAAAA-GGUCAGAGCUCUCAAAA
..........(((((...((((((((((..........))))).(((...(((......(((((......)))))..))--).))).....-.)))))..))))).... ( -23.40)
>DroAna_CAF1 117387 108 - 1
CAGACAGACGGAGCAAAAUUGAUGAUCUGGAUGAAUGAGCAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAAGAUGCAGCCAGAAAUGGCCAGAGCUCUCAAA-
((..((((((...((....)).)).))))..))...((((.(((.(((..(((((....))))).(((......)))..))).((((....))))))).)))).....- ( -25.30)
>consensus
CAGGAA_AGAGAGGGAAAUUGAUGAUGUGGAUGAAUGAACAUUGGGCAAAGUGAUUAAGAUUACGUUAGAAUGAUAACA__CGGCCAAAAA_GGUCAGAGCUCUCAAAA
..........(((((...((((((((((..........))))).(((...(((((....)))))((((......)))).....))).......)))))..))))).... (-18.36 = -19.08 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:44 2006