Locus 1356

Sequence ID 2R_DroMel_CAF1
Location 5,232,993 – 5,233,094
Length 101
Max. P 0.500000
window2342

overview

Window 2

Location 5,232,993 – 5,233,094
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.64
Mean single sequence MFE -31.90
Consensus MFE -21.40
Energy contribution -20.57
Covariance contribution -0.83
Combinations/Pair 1.36
Mean z-score -1.13
Structure conservation index 0.67
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5232993 101 - 20766785
UCACUUUU-UUUCUGACCUUCACAGCAUCGAAGGAGGUGAGCUCUUUGAUCGCGUGGUGGACGAUGAGUUCGUCCUCACCGAACGAGUCUGCCGCGUCUUCA
((((((((-((((((.......)))....)))))))))))......(((..((((((..(((.....(((((.......)))))..)))..))))))..))) ( -34.70)
>DroVir_CAF1 146022 97 - 1
UGAU----UU-UAUUAACUUGACAGCAUUGAGGGCGGCGAACUCUUUGAUCGUGUUGUGGACGAUGAAUUCGUGCUCACGGAACGCGUGUGUCGUGUCUUUA
....----..-.....((.(((((.((..(((..(...)..)))..))..((((((((((((((.....)))).).)))..))))))..))))).))..... ( -20.70)
>DroPse_CAF1 111819 95 - 1
--AU----UUCUCUA-UCUCUGCAGCAUUGAAGGCGGCGAGCUCUUUGACCGCGUGGUGGACGAUGAGUUCGUCCUCACAGAACGCGUCUGUCGCGUCUUCA
--..----.......-............((((((((((((((((.(((.((((...)))).))).)))))))))..........(((.....)))))))))) ( -32.10)
>DroEre_CAF1 109425 102 - 1
UUAUUUCUCUUUUUUGCACCCACAGCAUCGAAGGAGGCGAGCUUUUUGAUCGCGUGGUGGACGAUGAGUUCGUCCUCACCGAGCGGGUCUGCCGCGUCUUCA
......(((((((.(((.......)))..)))))))(((.((..((((.(((.((((.((((((.....))))))))))))).))))...)))))....... ( -35.40)
>DroYak_CAF1 110221 92 - 1
AC------CUUUUUUU----CACAGCAUCGAAGGAGGGGAGCUUUUCGAUCGCGUGGUGGACGAUGAGUUCGUCCUCACCGAACGAGUCUGCCGCGUCUUUA
.(------((((((((----(........)))))))))).((..((((.(((.((((.((((((.....))))))))))))).))))...)).......... ( -33.40)
>DroPer_CAF1 114397 95 - 1
--AU----UUCUCUG-UCUCUGCAGCAUUGAAGGCGGCGAGCUCUUUGACCGCGUGGUGGACGAUGAGUUCGUCCUCACUGAACGCGUCUGCCGCGUCUUCA
--..----....(((-(....))))...(((((((.(((..(.....)..)))((((..((((....(((((.......))))).))))..))))))))))) ( -35.10)
>consensus
U_AU____UUUUCUU_CCUCCACAGCAUCGAAGGAGGCGAGCUCUUUGAUCGCGUGGUGGACGAUGAGUUCGUCCUCACCGAACGCGUCUGCCGCGUCUUCA
.............................(((((..(((.((.....(((((..((((((((((.....))))))..))))..)).))).))))).))))). (-21.40 = -20.57 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:58 2006