Locus 3128

Sequence ID 2R_DroMel_CAF1
Location 10,682,818 – 10,682,917
Length 99
Max. P 0.629785
window5159

overview

Window 9

Location 10,682,818 – 10,682,917
Length 99
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 81.57
Mean single sequence MFE -31.00
Consensus MFE -21.30
Energy contribution -22.75
Covariance contribution 1.45
Combinations/Pair 1.17
Mean z-score -1.56
Structure conservation index 0.69
SVM decision value 0.20
SVM RNA-class probability 0.629785
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10682818 99 - 20766785
UGGUAGUGCGACAAUUUAACGCGCUGAUUGACGAGCAAACACUGGAGAGCUAAGAGCGGCCC------AGUUGGCCAGGACU-UUAACUGUUUGUCAAUGGCAUUA
...(((((((.........)))))))(((((((((((.....(((((.((.....))((((.------....))))....))-)))..)))))))))))....... ( -30.60)
>DroSec_CAF1 19799 99 - 1
UGGUAGUGCGACAAUUUAACGCGCUGAUUGACGAGCAAACACUGGAGGGCUGUGAGCGGCCC------AGUUGGCCAGGACU-UUAACUGUUUGUCAAUGGCAUUA
...(((((((.........)))))))(((((((((((....((((.((((((....))))))------......))))....-.....)))))))))))....... ( -34.32)
>DroSim_CAF1 19464 100 - 1
UGGUAGUGCGACAAUUUAACGCGCUGAUUGACGAGCAAACACUGGAGGGCUGUGAGCGGCCC------AGUUGGCCAGGACUGUUAACUGUUUGUCAAUGGCAUUA
...(((((((.........)))))))((((((((((..........((((((....))))))------(((((((.......)))))))))))))))))....... ( -36.80)
>DroEre_CAF1 20065 97 - 1
UGGCGGUGCGACAAUUUAACGCGCUGAUUGACGAGCAAACACUGGAGGGCUA--AGCGACCG------AGUUGGCCAGGACC-UUAACUGUUUGUCACUGGCAUUA
...(((((((.........)))))))..(((((((((......((..(((((--(.(.....------.)))))))....))-.....)))))))))......... ( -28.20)
>DroYak_CAF1 20576 97 - 1
UGGCAGUGCAACAAUUUAACGCGCUGAUUGACGAACAAACACUGGAGGGCUA--AGCGGCCG------ACUUGGCCAGGACC-UCGACUGUUUGUCAAUGGCAUUA
...((((((...........))))))(((((((((((.....(.((((((..--.))((((.------....))))....))-)).).)))))))))))....... ( -32.40)
>DroAna_CAF1 19493 88 - 1
C----------CAAUUAUACGCGCUGAUUGACGAGCAAACAC---AACGCUU--UCUGGCCGCAAGUGAGU--GCCAGAAGA-GUAACUGUUUGUCAAUGAUUUUA
.----------...............(((((((((((.....---.((..((--((((((.((......))--)))))))).-))...)))))))))))....... ( -23.70)
>consensus
UGGUAGUGCGACAAUUUAACGCGCUGAUUGACGAGCAAACACUGGAGGGCUA__AGCGGCCC______AGUUGGCCAGGACU_UUAACUGUUUGUCAAUGGCAUUA
...(((((((.........)))))))(((((((((((...........((.....))((((...........))))............)))))))))))....... (-21.30 = -22.75 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:11 2006