Locus 5090

Sequence ID 2L_DroMel_CAF1
Location 14,520,514 – 14,520,645
Length 131
Max. P 0.939175
window8103 window8104

overview

Window 3

Location 14,520,514 – 14,520,624
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.57
Mean single sequence MFE -36.90
Consensus MFE -18.76
Energy contribution -19.49
Covariance contribution 0.72
Combinations/Pair 1.25
Mean z-score -3.20
Structure conservation index 0.51
SVM decision value 1.28
SVM RNA-class probability 0.939175
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14520514 110 - 22407834
GUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGUAAUAUGCACAUGU-G------UACGUACACUAAAGCAACG
((((((.-(..((((((((((...)))))))-)))..)-.)))))).(((..(((........)))...(((..((((((.......))))))-.------..))).......))).... ( -37.50)
>DroPse_CAF1 56643 109 - 1
GUGACUG-UUGUUGGCCCUAAAAUUAAUGGC-CAGUGGCAAGUGGCAGCUGAGCAAAGAGAAAUGCCACACGAAAUAUAUAGA-----CUAAA-GUCGGGGUGUAUCGACUAAAGAA---
.....((-(..((((((...........)))-)))..))).((((((.((........))...)))))).(((.((((...((-----(....-)))...)))).))).........--- ( -34.10)
>DroSec_CAF1 52145 113 - 1
GUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGUAAUAUGCACAUGU-GUUGGCUUACAUACACUAAAGCA---
((((((.-(..((((((((((...)))))))-)))..)-.)))))).(((..(((........))).....((..(((((((...(((....)-))....)))))))..))..))).--- ( -37.70)
>DroEre_CAF1 48739 117 - 1
GUCACUG-CCGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGUAAUAUGCACAUGUUGUUGGCUUACGUACAGCAAAGACACG
((((((.-(((((((((((((...)))))))-))))))-.)))))).((((.((...(((....((((((.(..((((...))))...).))))))...)))..)).))))......... ( -40.80)
>DroYak_CAF1 42907 116 - 1
GUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGUAAAGAGAAAUGCAACACGGAAUAUGUAAUAUGCACAUGU-GUUGGCUUGCGUACACCAAAGAAACG
((((((.-(..((((((((((...)))))))-)))..)-.))))))................((((((..(((.((((((.......))))))-.)))..)))))).............. ( -36.90)
>DroPer_CAF1 60385 111 - 1
GUGACUGGUUGUUGGCCCUAGAAUUAAUGGCCCAGUGGCAAGUGGCAGCUGAGCCAAGAGAAAUGCCACACGAAAUCUAUAGA-----CUAAG-GUCGGGCUGUAUCGACUAAAGUA---
.....((((((.((((((((((.......(((....)))..((((((.((........))...))))))......))))..((-----(....-)))))))))...)))))).....--- ( -34.40)
>consensus
GUCACUG_CUGUUGGCCGUUAAAUUAAUGGC_CAGUGG_AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGUAAUAUGCACAUGU_GUUGGCUUACAUACACUAAAGAA___
((((((.((..((((((((((...))))))).)))..)).))))))......(((........))).........(((((((..................)))))))............. (-18.76 = -19.49 +   0.72)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,520,547 – 14,520,645
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.61
Mean single sequence MFE -37.40
Consensus MFE -23.52
Energy contribution -24.25
Covariance contribution 0.73
Combinations/Pair 1.13
Mean z-score -2.82
Structure conservation index 0.63
SVM decision value 0.96
SVM RNA-class probability 0.889973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14520547 98 - 22407834
-----------CAUGG-GUGUUCCC-UCUG------UUCUGUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGU
-----------.....-(((((((.-..((------((((((((((.-(..((((((((((...)))))))-)))..)-.))))))))....(((........))))))).))))))).. ( -38.80)
>DroPse_CAF1 56674 115 - 1
GGG-CAAUGCAUAUGG-GUGUUGUGUUCGGUUC-CUUACUGUGACUG-UUGUUGGCCCUAAAAUUAAUGGC-CAGUGGCAAGUGGCAGCUGAGCAAAGAGAAAUGCCACACGAAAUAUAU
.((-((..((((....-))))..(((((((...-....((((.((((-(..((((((...........)))-)))..)).))).)))))))))))........))))............. ( -35.91)
>DroSec_CAF1 52181 98 - 1
-----------CAUGG-GUGCUCCC-UCAG------UUCUGUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGU
-----------...((-(....)))-((((------..((((((((.-(..((((((((((...)))))))-)))..)-.))))))))))))(((........))).............. ( -38.10)
>DroEre_CAF1 48779 98 - 1
-----------CAUGG-GUGCUGCC-UCUG------UUCUGUCACUG-CCGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGU
-----------((((.-(((.((((-((((------((((((((((.-(((((((((((((...)))))))-))))))-.)))))))...))))..))))....))).)))....)))). ( -38.40)
>DroYak_CAF1 42946 98 - 1
-----------CAUGG-GUGUUCCC-UCUG------UUCUGUCACUG-CUGUUGGCCGUUAAAUUAAUGGC-CAGUGG-AAGUGGCAGCUGAGUAAAGAGAAAUGCAACACGGAAUAUGU
-----------.....-(((((((.-..((------((((((((((.-(..((((((((((...)))))))-)))..)-.))))))))....(((........))))))).))))))).. ( -36.80)
>DroPer_CAF1 60416 120 - 1
AGGCCAAUGCAUAUGGGGUGUUGUGUUCGGUUCCCUUACUGUGACUGGUUGUUGGCCCUAGAAUUAAUGGCCCAGUGGCAAGUGGCAGCUGAGCCAAGAGAAAUGCCACACGAAAUCUAU
.(((((.......((((((.......(((((..(......)..)))))......)))))).......)))))..((((((..((((......)))).......))))))........... ( -36.36)
>consensus
___________CAUGG_GUGUUCCC_UCUG______UUCUGUCACUG_CUGUUGGCCGUUAAAUUAAUGGC_CAGUGG_AAGUGGCAGCUGAGCAAAGAGAAAUGCAACACGGAAUAUGU
...........((((..(((..................((((((((.((..((((((((((...))))))).)))..)).))))))))....(((........)))..)))....)))). (-23.52 = -24.25 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:44 2006