Locus 2588

Sequence ID X_DroMel_CAF1
Location 6,931,356 – 6,931,456
Length 100
Max. P 0.992614
window4228 window4229

overview

Window 8

Location 6,931,356 – 6,931,456
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.04
Mean single sequence MFE -25.72
Consensus MFE -21.32
Energy contribution -21.32
Covariance contribution 0.00
Combinations/Pair 1.14
Mean z-score -2.56
Structure conservation index 0.83
SVM decision value 2.34
SVM RNA-class probability 0.992614
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6931356 100 + 22224390
GGUUGUUAUAAUAAU---------UCUCGAGUUCUCGAUAUCGAUAUAGAC----------ACAAUACAUAUAUAUCGAUCGUUGCUUUUUG-GCGGCAGCAACAACAACACACAACUUG
.((((((........---------..((((....)))).(((((((((...----------..........))))))))).((((((....)-)))))))))))................ ( -22.82)
>DroSec_CAF1 16446 94 + 1
GGUUGUUAU---AAU---------UCUCGAGUUCUGGAGAUCGAUAUAGAC----------ACA-UAC--AUAUAUCGACCGUUGCUUUUUG-CCGGCAGCAACAACAACACACAACUUG
.((((((..---...---------((((.(....).))))((((((((...----------...-...--.))))))))..((((((.....-..))))))))))))............. ( -23.10)
>DroSim_CAF1 15042 94 + 1
GGUUGUUAU---AAU---------UCUCGAGUUCUGGAGAUCGAUAUAGAC----------ACA-UAC--AUAUAUCGAUCGUUGCUUUUUG-CCGGCAGCAACAACAACACACAACUUG
.((((((..---...---------(((.(....).)))((((((((((...----------...-...--.))))))))))((((((.....-..))))))))))))............. ( -24.80)
>DroEre_CAF1 24786 102 + 1
GGUUGUUAU---AUU---------UCUCGAGUUCUCGAGAUCGAUAUAGAACACAUAAUGUACA-UAC--AUAUAUCGAUUGUUGCUUUCGGGUCAGCAACA---ACAACACACAACUUG
((((((...---...---------((((((....))))))((((((((....((.....))...-...--.))))))))((((((((........)))))))---)......)))))).. ( -26.50)
>DroYak_CAF1 17147 101 + 1
GGUUGUUUU---AUUUUGACGAGCUCUCAAGUUCUCGAGAUCGAUAUAUAU--------------UGC--AUAUAUCGAUCGUUGCUUUCGGGUCAGCAACAACAACAACACACAACUUG
.((((((..---...((((.(((((....)))))))))(((((((((((..--------------...--)))))))))))((((((........))))))))))))............. ( -31.40)
>consensus
GGUUGUUAU___AAU_________UCUCGAGUUCUCGAGAUCGAUAUAGAC__________ACA_UAC__AUAUAUCGAUCGUUGCUUUUUG_CCGGCAGCAACAACAACACACAACUUG
.((((((...............................((((((((((.......................))))))))))((((((........))))))...)))))).......... (-21.32 = -21.32 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,931,356 – 6,931,456
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.04
Mean single sequence MFE -26.96
Consensus MFE -18.88
Energy contribution -19.60
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.70
SVM decision value 1.82
SVM RNA-class probability 0.978713
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6931356 100 - 22224390
CAAGUUGUGUGUUGUUGUUGCUGCCGC-CAAAAAGCAACGAUCGAUAUAUAUGUAUUGU----------GUCUAUAUCGAUAUCGAGAACUCGAGA---------AUUAUUAUAACAACC
(((..(((((((((((((((((.....-.....)))))))).)))))))))....)))(----------((.((((..(((.((((....))))..---------)))..)))))))... ( -24.20)
>DroSec_CAF1 16446 94 - 1
CAAGUUGUGUGUUGUUGUUGCUGCCGG-CAAAAAGCAACGGUCGAUAUAU--GUA-UGU----------GUCUAUAUCGAUCUCCAGAACUCGAGA---------AUU---AUAACAACC
...(((((..((((((.((((.....)-)))..))))))((((((((((.--(..-...----------..)))))))))))..............---------...---...))))). ( -24.00)
>DroSim_CAF1 15042 94 - 1
CAAGUUGUGUGUUGUUGUUGCUGCCGG-CAAAAAGCAACGAUCGAUAUAU--GUA-UGU----------GUCUAUAUCGAUCUCCAGAACUCGAGA---------AUU---AUAACAACC
...(((((..((((((.((((.....)-)))..))))))((((((((((.--(..-...----------..)))))))))))..............---------...---...))))). ( -24.60)
>DroEre_CAF1 24786 102 - 1
CAAGUUGUGUGUUGU---UGUUGCUGACCCGAAAGCAACAAUCGAUAUAU--GUA-UGUACAUUAUGUGUUCUAUAUCGAUCUCGAGAACUCGAGA---------AAU---AUAACAACC
...((((((((((.(---(((((((........))))))))((((((((.--.((-((.....))))..)...)))))))((((((....))))))---------)))---)).))))). ( -31.10)
>DroYak_CAF1 17147 101 - 1
CAAGUUGUGUGUUGUUGUUGUUGCUGACCCGAAAGCAACGAUCGAUAUAU--GCA--------------AUAUAUAUCGAUCUCGAGAACUUGAGAGCUCGUCAAAAU---AAAACAACC
...(((((...(((((...((((((........))))))(((((((((((--(..--------------.)))))))))))).((((..(....)..))))....)))---)).))))). ( -30.90)
>consensus
CAAGUUGUGUGUUGUUGUUGCUGCCGA_CAAAAAGCAACGAUCGAUAUAU__GUA_UGU__________GUCUAUAUCGAUCUCGAGAACUCGAGA_________AUU___AUAACAACC
...(((((((((((((((((((...........)))))))).))))))................................((((((....))))))..................))))). (-18.88 = -19.60 +   0.72)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:26 2006