Locus 909

Sequence ID 2L_DroMel_CAF1
Location 2,612,732 – 2,612,893
Length 161
Max. P 0.834890
window1463 window1464

overview

Window 3

Location 2,612,732 – 2,612,836
Length 104
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 74.13
Mean single sequence MFE -28.00
Consensus MFE -14.15
Energy contribution -12.97
Covariance contribution -1.19
Combinations/Pair 1.42
Mean z-score -1.68
Structure conservation index 0.51
SVM decision value 0.14
SVM RNA-class probability 0.604949
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2612732 104 - 22407834
ACUUGU--CACCUGAUAUGCAGCUGAUGUAUGUAUAUUUUGUUUAGAUAGUAAUCC--CUGCUAAGAGAAGCUUA-AGGAAGUUGCUGUCAAUGAGGUGACGUGAAAGA--------
.(.(((--(((((((((((((((....)).)))))))).......(((((((((.(--(((((......)))...-)))..)))))))))....)))))))).).....-------- ( -31.90)
>DroPse_CAF1 44465 110 - 1
UCUUAA--AGCCUGCUG-GCAGCUUCUUCGU-UACCUGUUCUUCGGUAACUAAUCC--AAGCUAAGAAAAGCUUAGAGGUAGUU-CUUCUAUUAAGCCGGGGAGAGCCCGUGAGUUA
(((((.--.(((....)-)).((((....((-((((........))))))......--)))))))))..((((((..((..(((-(((((.........)))))))))).)))))). ( -30.70)
>DroSec_CAF1 33473 102 - 1
ACUUGU--CACCUGAUAAGCAGCUGAUG----UAUAUUGUGUUUAGAUAGUAAUCCCCCUGCUAAGAGAAGCUUA-AGGAAGUUGCUGUCAAUAAGGAGACGUGAAGGA--------
.(((.(--(((.(((((.((((((....----..((((((......)))))).(((....(((......)))...-.))))))))))))))....(....)))))))).-------- ( -25.40)
>DroSim_CAF1 33557 102 - 1
ACUUGU--CACCUGAUAUGCAGCUGAUG----UAUAUUGUGUUUAGAUGGUAAUCCCCCUGCUAAGAGAAGCUUA-AGGAAGUUGCUGUCAAUAGGGAGACGUGAAAGA--------
.(.(((--(.(((((((((((.....))----)))))).......(((((((((..((..(((......)))...-.))..)))))))))....))).)))).).....-------- ( -27.20)
>DroEre_CAF1 41527 99 - 1
ACUUGU--CACCUGAUACGCAGCUGACU----UAUAUUCUGCUUAGGUAGUAAUCC--UUGCUAAGAGAAGCUUA-AGGAAGUUGCUGUCAAUAAGCAGACGUGAAAA---------
....((--((.(((.....))).))))(----(((..(((((((((..((((((((--(((((......)))..)-))))..)))))..)..)))))))).))))...--------- ( -29.00)
>DroYak_CAF1 35066 100 - 1
ACUUGUAUCAGGUGA----CAGCUGACU----UAUAUUUUGUUUAGAUGGUAAUCC--UUGCUAAGAGAAGCUUA-AGGAUGUUGCUGUCAAUAAGCAGACGUGAAUGCGC------
(((((...)))))((----((((...((----((..((((.(((((..((....))--...))))).))))..))-))......)))))).....(((........)))..------ ( -23.80)
>consensus
ACUUGU__CACCUGAUA_GCAGCUGAUG____UAUAUUUUGUUUAGAUAGUAAUCC__CUGCUAAGAGAAGCUUA_AGGAAGUUGCUGUCAAUAAGCAGACGUGAAAGA________
.(((((..((.(((.....))).))....................(((((((((((....(((......))).....))..))))))))).)))))..................... (-14.15 = -12.97 +  -1.19)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,612,800 – 2,612,893
Length 93
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 70.76
Mean single sequence MFE -30.37
Consensus MFE -14.49
Energy contribution -16.27
Covariance contribution 1.78
Combinations/Pair 1.17
Mean z-score -1.80
Structure conservation index 0.48
SVM decision value 0.73
SVM RNA-class probability 0.834890
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2612800 93 + 22407834
AAUAUACAUACAUCAGCUGCAUAUCAGGUG--ACAAGUAUCGGAGUUCAUAAUGGUGCGCCGGCGAAAG------UGCGUGCCUUGCAUUCCGGAUGCG--GA---------------
................((((((....(...--.).....(((((((.((....((..(((..((....)------))))..)).)).))))))))))))--).--------------- ( -32.50)
>DroPse_CAF1 44541 84 + 1
CAGGUA-ACGAAGAAGCUGC-CAGCAGGCU--UUAAGAAAAGG-----------C----UAGGCAAAAGGCAUCGGGCGUGUCCCACAUUCUGCGGGCGGAGA---------------
......-.........((((-(.(((((((--((.....))))-----------)----...((.....))...(((.....))).....)))).)))))...--------------- ( -22.60)
>DroSec_CAF1 33543 89 + 1
AAUAUA----CAUCAGCUGCUUAUCAGGUG--ACAAGUAUCGGAGUUCAUAAUGGUGCGCCGGCGAAAG------UGCGUGCCUUGCAUUCCGGAUGCG--GA---------------
......----..(((.(((.....))).))--)...((((((((((.((....((..(((..((....)------))))..)).)).))))).))))).--..--------------- ( -31.30)
>DroSim_CAF1 33627 89 + 1
AAUAUA----CAUCAGCUGCAUAUCAGGUG--ACAAGUAUCGGAGUUCAUAAUGGUGCGCCGGCGAAAG------UGCGUGCCUUGCAUUCCGGAUGCG--GA---------------
......----......((((((....(...--.).....(((((((.((....((..(((..((....)------))))..)).)).))))))))))))--).--------------- ( -32.50)
>DroEre_CAF1 41594 89 + 1
AAUAUA----AGUCAGCUGCGUAUCAGGUG--ACAAGUAUCGGAGUUCAUAAUGGUGUGCCGGCGAAAG------UGCGUGCCUUGCAUUCCCGAUGCG--GA---------------
......----.((((.(((.....))).))--))..((((((((((.((....((..(((..((....)------))))..)).)).))).))))))).--..--------------- ( -32.70)
>DroYak_CAF1 35136 102 + 1
AAUAUA----AGUCAGCUG----UCACCUGAUACAAGUAUCGGAGUUCAUAAUGGUGUGCCGGCGAAAG------UGCGUGCCUUGCAUUCCGGAUGCG--AAUGCGGAUGCGGAUGC
......----.(((((...----....)))))....(((((.(.((((.....((..(((..((....)------))))..))..((((((.......)--))))))))).).))))) ( -30.60)
>consensus
AAUAUA____AAUCAGCUGC_UAUCAGGUG__ACAAGUAUCGGAGUUCAUAAUGGUGCGCCGGCGAAAG______UGCGUGCCUUGCAUUCCGGAUGCG__GA_______________
.............((.(((.....))).))......((((((((((.((....((..(((...(....).......)))..)).)).))))).))))).................... (-14.49 = -16.27 +   1.78)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:28 2006