Locus 1175

Sequence ID 3R_DroMel_CAF1
Location 3,564,140 – 3,564,252
Length 112
Max. P 0.996560
window1924 window1925

overview

Window 4

Location 3,564,140 – 3,564,235
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 91.26
Mean single sequence MFE -29.74
Consensus MFE -27.78
Energy contribution -28.10
Covariance contribution 0.32
Combinations/Pair 1.18
Mean z-score -1.90
Structure conservation index 0.93
SVM decision value 2.71
SVM RNA-class probability 0.996560
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3564140 95 - 27905053
CGAGAGUGUUGGAGAGGCAGCUGCAGCUUAACGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUCGGCUUGCAAAGGGCG
((((((...(((((((..(((((((((((((.(.....)..((.......))..)))))))))))))))))))).))))))((((.....)))). ( -32.20)
>DroSec_CAF1 15073 95 - 1
CGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGAAGUUUUCUCUAUUUUUCGGCUUGCAAAGGGCG
((((((...((((((((((((.(.(((....((.....)).))).).)))))((((......)))).))))))).))))))((((.....)))). ( -26.80)
>DroSim_CAF1 15349 95 - 1
CGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUCGGCUUGCAAAGGGCG
((((((...(((((((..(((((((((((((((.....)).((.......))..)))))))))))))))))))).))))))((((.....)))). ( -32.60)
>DroEre_CAF1 20119 95 - 1
CGGGAGGGUCGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGUUGCACUUAAGUUGCAGUUUUCUCUAUUUUUCGGCUUGAAAAAGGCG
((..(((.....(((((.(((((((((((((((.....)).((.......))..))))))))))))).))))).)))..))((((.....)))). ( -32.20)
>DroAna_CAF1 11479 95 - 1
UCUAUAUGUGGGAGUAGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGUUGCACUUAAGUUGCAGUUUUCUCUAUUUUUUGGCUUGGCAAAGGCG
..........((((....(((((((((((((((.....)).((.......))..)))))))))))))..))))........((((.....)))). ( -24.90)
>consensus
CGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUCGGCUUGCAAAGGGCG
((((((...(((((((..(((((((((((((.(.....)..((.......))..)))))))))))))))))))).))))))((((.....)))). (-27.78 = -28.10 +   0.32)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,564,155 – 3,564,252
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.49
Mean single sequence MFE -29.44
Consensus MFE -21.38
Energy contribution -21.70
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -1.81
Structure conservation index 0.73
SVM decision value 0.48
SVM RNA-class probability 0.754294
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3564155 97 - 27905053
UUGUUCGUCGGC-----------------------AUAUGCGAGAGUGUUGGAGAGGCAGCUGCAGCUUAACGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUC
.......(((((-----------------------((........)))))))(((((.(((((((((((((.(.....)..((.......))..))))))))))))).)))))....... ( -28.40)
>DroSec_CAF1 15088 97 - 1
UUGUUCGGCGGC-----------------------AUAUGCGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGAAGUUUUCUCUAUUUUUC
...((((((.((-----------------------....))..((((((.(.(((((((((....)))...((.....)).)))))).).))))))..))))))................ ( -25.40)
>DroSim_CAF1 15364 97 - 1
UUGUCCGGCGGC-----------------------AUAUGCGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUC
...((((((...-----------------------....((....))))))))((((.(((((((((((((((.....)).((.......))..))))))))))))).))))........ ( -30.41)
>DroEre_CAF1 20134 97 - 1
UUGUUCGGCGGC-----------------------AUAUGCGGGAGGGUCGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGUUGCACUUAAGUUGCAGUUUUCUCUAUUUUUC
((.(((.(((..-----------------------...))).))).))....(((((.(((((((((((((((.....)).((.......))..))))))))))))).)))))....... ( -29.40)
>DroAna_CAF1 11494 120 - 1
CUCUCCGUCAGCUGGAGUAUGGAGUAUACAUGUACAUAUUUCUAUAUGUGGGAGUAGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGUUGCACUUAAGUUGCAGUUUUCUCUAUUUUUU
..(((((.....))))).((((((..(((.(.(((((((....))))))).).)))..(((((((((((((((.....)).((.......))..)))))))))))))..))))))..... ( -33.60)
>consensus
UUGUUCGGCGGC_______________________AUAUGCGAAAGUGUUGGAGAGGCAGCUGCAGCUUAAUGAUUUUCACGCUUCUGCUGCACUUAAGUUGCAGUUUUCUCUAUUUUUC
.....................................((((....)))).((((((..(((((((((((((.(.....)..((.......))..)))))))))))))))))))....... (-21.38 = -21.70 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:51 2006