Locus 5228

Sequence ID 2L_DroMel_CAF1
Location 14,771,644 – 14,771,746
Length 102
Max. P 0.510802
window8322 window8323

overview

Window 2

Location 14,771,644 – 14,771,746
Length 102
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 90.51
Mean single sequence MFE -22.72
Consensus MFE -18.76
Energy contribution -18.40
Covariance contribution -0.36
Combinations/Pair 1.19
Mean z-score -1.74
Structure conservation index 0.83
SVM decision value -0.05
SVM RNA-class probability 0.506755
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14771644 102 + 22407834
-------UUCUGUGUUCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUUAUACGAAUUUAAGUAUCUUUCCAGUGCACUAAGCACACAGAACGCUCUGACAGCCCC
-------((((((((.((((.(((.....(((((((((......)))))))))(((........))).))).)))).((.....)))))))))).(((.....)))... ( -25.50)
>DroSec_CAF1 18176 102 + 1
-------UUUUGUGUCCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUCAUACGAAUUCAAGUAUCUUUCCAGUGCACUAAGCACACAGAACGCUCUGACAGCCCC
-------....(((..((((.(((.......(((((((......))))))).((((........))))))).))))..)))...((...((((....))))...))... ( -22.70)
>DroSim_CAF1 15894 102 + 1
-------UUUUGUGUCCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUCAUACGAAUUCAAGUAUCUUUCCAGUGCACUAAGCACACAGAACGCUCUGACAGCCCC
-------....(((..((((.(((.......(((((((......))))))).((((........))))))).))))..)))...((...((((....))))...))... ( -22.70)
>DroEre_CAF1 12336 109 + 1
UUUUCUUUUUUGUGUUCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUCAUACGAACUCAAGUAUCUUUCCACUGCACUAAGCACACAAAACGCUCUGACAGCCCC
.......((((((((.((.(((.........(((((((......))))))).((((........))))........)))....)).)))))))).(((.....)))... ( -19.20)
>DroYak_CAF1 15241 106 + 1
---GCUUUUUUGUGUUCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUCAUACGAACUCAAGUAUCUUUCCAGUGCACUAAGCACACAAAACGCUCUGACAGCCCC
---((((....((((.((((.(((.......(((((((......))))))).((((........))))))).)))).)))).)))).........(((.....)))... ( -23.70)
>DroAna_CAF1 11620 99 + 1
--------UUUAGG--UUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGUUCAUACGAAUUCAAGUAUCUUUCCAGUGCACUAGGCACUCGGCACGCUUUGACAGCCCC
--------....((--(((.((((((.....))).....((..(((((((((....)))..)))))).....(((((((.....))))).))...)).))).))))).. ( -22.50)
>consensus
_______UUUUGUGUUCUGGCAAGCUCAUUAAGCAAAUCGCAUUAUUUGCUCAUACGAAUUCAAGUAUCUUUCCAGUGCACUAAGCACACAGAACGCUCUGACAGCCCC
.......(((((((..((((.(((.......(((((((......))))))).((((........))))))).))))(((.....)))))))))).(((.....)))... (-18.76 = -18.40 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,771,644 – 14,771,746
Length 102
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 90.51
Mean single sequence MFE -28.68
Consensus MFE -24.17
Energy contribution -24.20
Covariance contribution 0.03
Combinations/Pair 1.13
Mean z-score -1.57
Structure conservation index 0.84
SVM decision value -0.04
SVM RNA-class probability 0.510802
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14771644 102 - 22407834
GGGGCUGUCAGAGCGUUCUGUGUGCUUAGUGCACUGGAAAGAUACUUAAAUUCGUAUAAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGAACACAGAA-------
...(((.....))).((((((((((.....)).((((.(((.........(((((.(((((((((......))))))))))))))))).)))).))))))))------- ( -29.90)
>DroSec_CAF1 18176 102 - 1
GGGGCUGUCAGAGCGUUCUGUGUGCUUAGUGCACUGGAAAGAUACUUGAAUUCGUAUGAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGGACACAAAA-------
.((((...(((......)))...)))).(((..((((.(((.........(((((.(((((((((......))))))))))))))))).))))..)))....------- ( -28.90)
>DroSim_CAF1 15894 102 - 1
GGGGCUGUCAGAGCGUUCUGUGUGCUUAGUGCACUGGAAAGAUACUUGAAUUCGUAUGAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGGACACAAAA-------
.((((...(((......)))...)))).(((..((((.(((.........(((((.(((((((((......))))))))))))))))).))))..)))....------- ( -28.90)
>DroEre_CAF1 12336 109 - 1
GGGGCUGUCAGAGCGUUUUGUGUGCUUAGUGCAGUGGAAAGAUACUUGAGUUCGUAUGAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGAACACAAAAAAGAAAA
...(((.....))).((((((((.((..(.((((((......)))).((((((((.(((((((((......)))))))))))))))))))))).))))))))....... ( -29.70)
>DroYak_CAF1 15241 106 - 1
GGGGCUGUCAGAGCGUUUUGUGUGCUUAGUGCACUGGAAAGAUACUUGAGUUCGUAUGAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGAACACAAAAAAGC---
...(((.....))).((((((((((.....)).((((.(((...)))((((((((.(((((((((......))))))))))))))))).)))).))))))))....--- ( -32.30)
>DroAna_CAF1 11620 99 - 1
GGGGCUGUCAAAGCGUGCCGAGUGCCUAGUGCACUGGAAAGAUACUUGAAUUCGUAUGAACAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAA--CCUAAA--------
..(((.(((((((((..((.(((((.....)))))))..............((((((.........))))))..)))))..))).)..)))..--......-------- ( -22.40)
>consensus
GGGGCUGUCAGAGCGUUCUGUGUGCUUAGUGCACUGGAAAGAUACUUGAAUUCGUAUGAGCAAAUAAUGCGAUUUGCUUAAUGAGCUUGCCAGAACACAAAA_______
.(..(((...((((.(((((.((((.....)))))))))............((((.(((((((((......)))))))))))))))))..)))..)............. (-24.17 = -24.20 +   0.03)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:11 2006