Locus 2772

Sequence ID 2L_DroMel_CAF1
Location 7,844,718 – 7,844,813
Length 95
Max. P 0.869693
window4405 window4406

overview

Window 5

Location 7,844,718 – 7,844,813
Length 95
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.97
Mean single sequence MFE -24.42
Consensus MFE -15.77
Energy contribution -16.63
Covariance contribution 0.86
Combinations/Pair 1.05
Mean z-score -2.45
Structure conservation index 0.65
SVM decision value 0.65
SVM RNA-class probability 0.812034
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7844718 95 + 22407834
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACAUUCCAGCCAAAUGGCAGGAAC------AGUACGGACCACAGUAUG--GUCCU---UCAUAUG
...........(((...((((((((.....)).)))))).....((((.(((....))).)))).------)))..((((((.....))--)))).---....... ( -24.80)
>DroSec_CAF1 16830 97 + 1
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACGUUCCAGCCAAAUGGCAGGAAC------AGUGCGGACCACAGUAUGUAGUCCU---CCAUAUG
.................((((((((.....)).))))))....(((((.(((....))).)))))------.(((.((((.((.....)).)))).---.)))... ( -26.60)
>DroSim_CAF1 17995 97 + 1
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACGUUCCAGCCAAAUGGCAGGAAC------AGUACGGACCAUAGUAUGUAGUCCU---CCAUAUG
.......(((.(((...((((((((.....)).))))))....(((((.(((....))).)))))------)))...)))....(((((.......---.))))). ( -24.10)
>DroEre_CAF1 17074 94 + 1
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACGUUCCAGCCAAAUGGCAGGAACUGUGCGAGUACAGACCAUG-------GUCCU---CCAUA--
.......(((.......((((((((.....)).))))))....(((((.(((....))).)))))((((....))))))).(((-------(....---)))).-- ( -25.90)
>DroYak_CAF1 17366 88 + 1
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACGUUCCAGCCAAAUGGCAGGAAC------AGCACGGACCACG-------GUCCU---CCAUA--
.......(((.......((((((((.....)).))))))....(((((.(((....))).)))))------.).))((((....-------)))).---.....-- ( -26.10)
>DroAna_CAF1 18689 104 + 1
AUAAAACGUCAACUUUAUUUGCCCAACAACUGAGGCAAAUAACAUUCCAGCGAGAAGCCAGCAAG--CCAGACUACAAACCAUACAAGGUACACAUGAGCAGAAUG
..............(((((((((((.....)).)))))))))(((((..((.........))..(--(((........(((......))).....)).)).))))) ( -19.02)
>consensus
AUAAAACGUCAACUUUAUUUGCCCGACAACUGAGGCAAACAACGUUCCAGCCAAAUGGCAGGAAC______AGUACGGACCACAGUAUG__GUCCU___CCAUAUG
.......(((.......((((((((.....)).))))))....(((((.(((....))).)))))............))).......................... (-15.77 = -16.63 +   0.86)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,844,718 – 7,844,813
Length 95
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 81.97
Mean single sequence MFE -31.12
Consensus MFE -22.51
Energy contribution -22.82
Covariance contribution 0.31
Combinations/Pair 1.17
Mean z-score -2.42
Structure conservation index 0.72
SVM decision value 0.86
SVM RNA-class probability 0.869693
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7844718 95 - 22407834
CAUAUGA---AGGAC--CAUACUGUGGUCCGUACU------GUUCCUGCCAUUUGGCUGGAAUGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
.......---.((((--(((...)))))))(((((------(((((.(((....))).))))).((((((((((........)))))))))))))..))....... ( -32.90)
>DroSec_CAF1 16830 97 - 1
CAUAUGG---AGGACUACAUACUGUGGUCCGCACU------GUUCCUGCCAUUUGGCUGGAACGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
.......---.(((((((.....)))))))..(((------(((((.(((....))).))))).((((((((((........)))))))))))))........... ( -35.40)
>DroSim_CAF1 17995 97 - 1
CAUAUGG---AGGACUACAUACUAUGGUCCGUACU------GUUCCUGCCAUUUGGCUGGAACGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
.......---.((((((.......))))))(((((------(((((.(((....))).))))).((((((((((........)))))))))))))..))....... ( -31.70)
>DroEre_CAF1 17074 94 - 1
--UAUGG---AGGAC-------CAUGGUCUGUACUCGCACAGUUCCUGCCAUUUGGCUGGAACGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
--(((((---....)-------))))(((...(((......(((((.(((....))).))))).((((((((((........))))))))))))).)))....... ( -31.40)
>DroYak_CAF1 17366 88 - 1
--UAUGG---AGGAC-------CGUGGUCCGUGCU------GUUCCUGCCAUUUGGCUGGAACGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
--.....---.((((-------....))))(((((------(((((.(((....))).))))).((((((((((........)))))))))))))..))....... ( -32.00)
>DroAna_CAF1 18689 104 - 1
CAUUCUGCUCAUGUGUACCUUGUAUGGUUUGUAGUCUGG--CUUGCUGGCUUCUCGCUGGAAUGUUAUUUGCCUCAGUUGUUGGGCAAAUAAAGUUGACGUUUUAU
((((((((........(((......))).....(...((--((....))))...))).))))))((((((((((........)))))))))).............. ( -23.30)
>consensus
CAUAUGG___AGGAC__CAUACUAUGGUCCGUACU______GUUCCUGCCAUUUGGCUGGAACGUUGUUUGCCUCAGUUGUCGGGCAAAUAAAGUUGACGUUUUAU
..........................(((...(((......(((((.(((....))).))))).((((((((((........))))))))))))).)))....... (-22.51 = -22.82 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:51 2006