Locus 2969

Sequence ID 2R_DroMel_CAF1
Location 10,241,010 – 10,241,117
Length 107
Max. P 0.997294
window4910 window4911

overview

Window 0

Location 10,241,010 – 10,241,117
Length 107
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 75.66
Mean single sequence MFE -28.76
Consensus MFE -7.61
Energy contribution -9.69
Covariance contribution 2.08
Combinations/Pair 1.19
Mean z-score -2.04
Structure conservation index 0.26
SVM decision value 1.08
SVM RNA-class probability 0.912197
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10241010 107 + 20766785
CUGCA--------AACUCCUUGCAAGAAUGCACACAGCUCCUUUUCAAAUUUAUGGCAUCAAUUGAGUUUAAUCGAUUUCCAAUGCUGUGCGUA-UUUUCCCUUUGUUAAGUGUAC
.((((--------(.....)))))(((((((.((((((.((.............))....((((((......))))))......)))))).)))-))))................. ( -21.72)
>DroSec_CAF1 69816 112 + 1
CUGGAGCAAGUGCAACUUCUUACAAGAAUGCAACCAGCUCCUUUUUAGUUUUAUGGCAGCAAAGGAGCUCAAUCGAUUUCCAAUGCU--GCCUA-UUUUC-UUUUGUUGAGUGUAC
..(((((...((((..((((....))))))))....))))).............(((((((..((((.((....)).))))..))))--)))((-(.(((-.......))).))). ( -32.70)
>DroSim_CAF1 71790 112 + 1
CUGGAGCAAUUGCAACUUCUUACAAGAAUGCAACCAGCUCCUUUUCAGUUUUGUGGCAGCAAUGGAGCUUAAUCGAUUUCCAAUGCU--GCCUA-UUUUC-UUUUGUUGAGUGUAC
..(((((..(((((..((((....)))))))))...))))).............(((((((.(((((.((....)).))))).))))--)))((-(.(((-.......))).))). ( -33.00)
>DroEre_CAF1 74604 112 + 1
CUGGCCCAAGUGCAACUCCUUAGAGGAAUGCACUCAACUCCUUAUGGGUUUUAUGGCAGCAAUUGAACUGAAUUGAUUGCC-AUGCU--GUGGACUUUUC-UUUUGUCGAGUGUAC
..((((((((((((..(((.....))).))))))..........)))))).(((((((((((((......))))).)))))-)))..--(((.((((..(-....)..)))).))) ( -32.90)
>DroYak_CAF1 71640 103 + 1
----------UGCGGUUUUUUUGAGAAAUGCACUCAGCUUCUUAUGGGUAUUAUGUCAGCAAUUGAACUGAAUCGAUUUCGAAUGCU--GUGGAAUUUUC-UUUUGUUGAGUGUAC
----------..................((((((((((.......(((.(((....(((((.(((((..........))))).))))--)...))).)))-....)))))))))). ( -23.50)
>consensus
CUGGA_CAA_UGCAACUUCUUACAAGAAUGCACCCAGCUCCUUUUCAGUUUUAUGGCAGCAAUUGAGCUGAAUCGAUUUCCAAUGCU__GCGUA_UUUUC_UUUUGUUGAGUGUAC
............................(((((.((((.............(((...((((.(((((..........))))).))))..))).............)))).))))). ( -7.61 =  -9.69 +   2.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,241,010 – 10,241,117
Length 107
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 75.66
Mean single sequence MFE -29.60
Consensus MFE -3.94
Energy contribution -3.58
Covariance contribution -0.36
Combinations/Pair 1.36
Mean z-score -2.96
Structure conservation index 0.13
SVM decision value 2.83
SVM RNA-class probability 0.997294
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10241010 107 - 20766785
GUACACUUAACAAAGGGAAAA-UACGCACAGCAUUGGAAAUCGAUUAAACUCAAUUGAUGCCAUAAAUUUGAAAAGGAGCUGUGUGCAUUCUUGCAAGGAGUU--------UGCAG
(((.((((......(((((..-..((((((((..(((..(((((((......))))))).)))....(((....))).))))))))..))))).....)))).--------))).. ( -27.40)
>DroSec_CAF1 69816 112 - 1
GUACACUCAACAAAA-GAAAA-UAGGC--AGCAUUGGAAAUCGAUUGAGCUCCUUUGCUGCCAUAAAACUAAAAAGGAGCUGGUUGCAUUCUUGUAAGAAGUUGCACUUGCUCCAG
...............-.....-..(((--((((..(((..((....))..)))..))))))).............(((((.(((.(((((((....))))..)))))).))))).. ( -36.80)
>DroSim_CAF1 71790 112 - 1
GUACACUCAACAAAA-GAAAA-UAGGC--AGCAUUGGAAAUCGAUUAAGCUCCAUUGCUGCCACAAAACUGAAAAGGAGCUGGUUGCAUUCUUGUAAGAAGUUGCAAUUGCUCCAG
...............-.....-..(((--((((.((((............)))).))))))).............(((((.(((((((((((....))))..)))))))))))).. ( -36.10)
>DroEre_CAF1 74604 112 - 1
GUACACUCGACAAAA-GAAAAGUCCAC--AGCAU-GGCAAUCAAUUCAGUUCAAUUGCUGCCAUAAAACCCAUAAGGAGUUGAGUGCAUUCCUCUAAGGAGUUGCACUUGGGCCAG
...............-.....((((((--(((((-((((..(((((......))))).)))))).....((....)).))))((((((((((.....)))).)))))))))))... ( -31.80)
>DroYak_CAF1 71640 103 - 1
GUACACUCAACAAAA-GAAAAUUCCAC--AGCAUUCGAAAUCGAUUCAGUUCAAUUGCUGACAUAAUACCCAUAAGAAGCUGAGUGCAUUUCUCAAAAAAACCGCA----------
((((..((.......-))........(--(((..(((....))).(((((......))))).................)))).))))...................---------- ( -15.90)
>consensus
GUACACUCAACAAAA_GAAAA_UACGC__AGCAUUGGAAAUCGAUUAAGCUCAAUUGCUGCCAUAAAACUCAAAAGGAGCUGAGUGCAUUCUUGUAAGAAGUUGCA_UUG_UCCAG
..............................((...............(((......)))...............((((((.....))..))))..........))........... ( -3.94 =  -3.58 +  -0.36)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:16 2006