Locus 3381

Sequence ID 2R_DroMel_CAF1
Location 11,442,986 – 11,443,200
Length 214
Max. P 0.744657
window5521 window5522

overview

Window 1

Location 11,442,986 – 11,443,085
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.09
Mean single sequence MFE -20.90
Consensus MFE -9.60
Energy contribution -10.12
Covariance contribution 0.52
Combinations/Pair 1.14
Mean z-score -1.85
Structure conservation index 0.46
SVM decision value 0.46
SVM RNA-class probability 0.744657
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11442986 99 + 20766785
UAAAUGGUGACUAAUUUGAGAAUGACUAAUCUGCAUUUAAUUAACCGAUUGAUUGAACGGAUUUCUCAAUUUAGUGUUUU-----------UUGUUUGUUAAAAAAUA-AA---------
.........(((((.(((((((......(((((..(((((((((....))))))))))))))))))))).)))))(((((-----------(((.....)))))))).-..--------- ( -20.70)
>DroSec_CAF1 61933 95 + 1
UAAAUGGUGACUAAUUUGAGAAUGACUAAUCUGCAUUAAAUUAACCGAUUGAUUGAACGGAUUUCUCAAUUUAGU----------------UAAAUAACUAACAAAUAUAG---------
.......(((((((.(((((((......(((((.....((((((....))))))...)))))))))))).)))))----------------))..................--------- ( -17.30)
>DroSim_CAF1 51931 95 + 1
UAAAUGGUGACUAAUUUGAGAAUGACUAAUCUGCAUUUAAUUAACCGAUUGAUUGAACGGAUUUCUCAAUUUAGU----------------UAAAUAACUAACAAAAGUAA---------
.......(((((((.(((((((......(((((..(((((((((....))))))))))))))))))))).)))))----------------))..................--------- ( -20.10)
>DroEre_CAF1 58819 111 + 1
UAAAUGGUGACUAAUUUGAGAAUGACUAAUGUUCAUUUGGUUA-CCGAUCGAUUGAACGGAUUUAUCAAUUUAGUGUUUUUUUUUAU-UUUUAA----CCAACAAAAGCA---AGUCAAU
....((((....(((..(((((..(((((((((((.((((((.-..)))))).))))))((....))...)))))...)))))..))-)....)----))).........---....... ( -18.40)
>DroYak_CAF1 57519 119 + 1
UUAAUGGUGACUAAUUUACGAAUGACUAAUGUUCAUUUGGUUAACCGUUCGAUUAAACGGAUUUCUCCGUUUAGUGUUUUU-CUUAUUUGUUAACUAACUAACAAAAGUCAACAGUCAAU
....((.(((((......(((((((((((.......)))))....))))))((((((((((....))))))))))......-....(((((((......)))))))))))).))...... ( -28.00)
>consensus
UAAAUGGUGACUAAUUUGAGAAUGACUAAUCUGCAUUUAAUUAACCGAUUGAUUGAACGGAUUUCUCAAUUUAGUGUUUU___________UAAAUAACUAACAAAAGUAA_________
.........(((((.(((((((...((......((.((((((....)))))).))...))..))))))).)))))............................................. ( -9.60 = -10.12 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 11,443,085 – 11,443,200
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.45
Mean single sequence MFE -20.86
Consensus MFE -15.66
Energy contribution -15.78
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -1.53
Structure conservation index 0.75
SVM decision value -0.02
SVM RNA-class probability 0.524678
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11443085 115 + 20766785
----ACAGCUACUAAAACCGCCAAACUAGCUUUUACUAAUUCAAACGAGUUAUUUCGUU-GAAAGUAUACAACUUAAUAACCGAAUCGGAAAACGAUAAUUAGCGAACAAGUAACUCAAU
----..(((((...............)))))...............(((((((((((((-((((((.....)))).........((((.....))))..))))))))...)))))))... ( -21.06)
>DroSec_CAF1 62028 115 + 1
----GCACCUACUAAAACGGUCAAACUAGCUAGUACUAAUUCAAACGAGUUAUUUCGUU-GAAAGUAUACAAGUUAAUAACCGAAUCGGUAAACGAUAAUUAGCGAACAAGAAUCUCAAU
----((...........((((.....(((((.(((((..(((((.((((....))))))-))))))))...)))))...)))).((((.....)))).....))................ ( -21.60)
>DroSim_CAF1 52026 115 + 1
----GCAGCUACUAAAACGACCAAACUAGCUAGUACUAAUUCAAACGAGUUAUUUUGUU-GAAAGUAUACAAGUUAAUAACCGAAUCGGAAAACGAUAAUUAGCGAACAAGAAUCUCAAU
----...((((...............(((((.(((((..(((((.((((....))))))-))))))))...)))))........((((.....))))...))))................ ( -17.00)
>DroEre_CAF1 58930 119 + 1
UGAUGUGGCUUCUAAAACGGGCA-ACUAGCUAGUACUAAUUCAAACGAGUUCUUUCGUUAGAAAGUAUACAACUUAAUAACCGAAUCGAAAAACGAUAAUUAGCGAACAAGAAUCUCAAU
...((.((.((((.....((...-.)).(((((((((..(((.((((((....)))))).))))))))................((((.....))))...)))).....)))))).)).. ( -21.70)
>DroYak_CAF1 57638 119 + 1
UGAUGUGGCUACUAAAACGGGCAAACUAGCUGGUACUAAUUCAAACGAGUUAUUUCGUUAGAAAGUAUACAACUUAAUAACCGAAUCGAAAAACGAUAAUUAGCGAACAAGAAU-UCCAU
...(((.((((......(((.......((.(((((((..(((.((((((....)))))).)))))))).)).))......))).((((.....))))...))))..))).....-..... ( -22.92)
>consensus
____GCAGCUACUAAAACGGCCAAACUAGCUAGUACUAAUUCAAACGAGUUAUUUCGUU_GAAAGUAUACAACUUAAUAACCGAAUCGGAAAACGAUAAUUAGCGAACAAGAAUCUCAAU
............................(((((((((..(((.((((((....)))))).))))))))................((((.....))))...))))................ (-15.66 = -15.78 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:06 2006