Locus 4151

Sequence ID 3R_DroMel_CAF1
Location 11,321,463 – 11,321,607
Length 144
Max. P 0.999792
window6649 window6650 window6651

overview

Window 9

Location 11,321,463 – 11,321,573
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.30
Mean single sequence MFE -38.78
Consensus MFE -31.30
Energy contribution -31.90
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -3.45
Structure conservation index 0.81
SVM decision value 3.26
SVM RNA-class probability 0.998867
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11321463 110 - 27905053
----------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAUUUAUGUAAGGCCAAAAUCAGAGGGCAGCCAAAUGCAUAAC
----------......(((((((((((((((((((((.......))))))))..))))))))(((......((((.....)))).....))).........)))))((.....))..... ( -35.20)
>DroSec_CAF1 60704 105 - 1
----------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAUUUAUGUAAGGCCAAAAGCAGAG-----CCAAAUGCAUAAC
----------......((.((((((((((((((((((.......))))))))..))))))))))))..............(((((((.((((.......).)-----))...))))))). ( -35.70)
>DroSim_CAF1 56944 110 - 1
----------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAUUUAUGUAAGGCCAAAAGCAGAGGGCGGGCAAAUGCAUAAC
----------......((.((((((((((((((((((.......))))))))..))))))))))))..............(((((((..(((....((.....)).)))...))))))). ( -40.20)
>DroEre_CAF1 55929 120 - 1
GGAUCCGACGAUCCGACGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCAAGCUCCUGCGGCAAUAUAAUGAAUUAUUUAUGUAAGGCCAAAAACAGAGGGCAGCCAAAUGCAUAAC
(((((....)))))...((((((((((((((((((((.......))))))))..))))))))(((.((((((........))))))...))).........)))).((.....))..... ( -43.10)
>DroYak_CAF1 57459 110 - 1
----------AUCUGCAGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUACAAUGAAUUAUUUAUGUAGGGCCAAAGACAGAGGGCAGCGAAAUGCAUAAC
----------...(((.((((((((((((((((((((.......))))))))..))))))))(((..((((.(((.....)))))))..))).........)))).)))........... ( -39.70)
>consensus
__________AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAUUUAUGUAAGGCCAAAAACAGAGGGCAGCCAAAUGCAUAAC
.................((((((((((((((((((((.......))))))))..))))))))(((......((((.....)))).....))).........))))............... (-31.30 = -31.90 +   0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,321,503 – 11,321,607
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -25.72
Consensus MFE -19.68
Energy contribution -19.68
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.37
SVM RNA-class probability 0.709497
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11321503 104 + 27905053
AUAAUUCAUUAAAUUGCCGCAGGAGCUGGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACAUGAGAU----------------CCUCGGCUCCUAAAAAGCAUUAACAGCUUUAUCA
....................(((((((((((((((.(((((.................))))))))))..----------------.))))))))))..(((((.......))))).... ( -26.33)
>DroSec_CAF1 60739 104 + 1
AUAAUUCAUUAAAUUGCCGCAGGAGCUGGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACAUGAGAU----------------CCUCGGCUCCUAAAAAACAUUAACAGCUUUAUCA
....................(((((((((((((((.(((((.................))))))))))..----------------.))))))))))....................... ( -22.93)
>DroSim_CAF1 56984 104 + 1
AUAAUUCAUUAAAUUGCCGCAGGAGCUGGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACAUGAGAU----------------CCUCGGCUCCUAAAAAACAUUAACAGCUUUAUCA
....................(((((((((((((((.(((((.................))))))))))..----------------.))))))))))....................... ( -22.93)
>DroEre_CAF1 55969 120 + 1
AUAAUUCAUUAUAUUGCCGCAGGAGCUUGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACGUCGGAUCGUCGGAUCCUCGGCUCCUCGGCUCCUAAAAAACAUUAACAGCUUUAUCA
...............((((.((((((.((((((...(((....)))))))))..........((..(((((....))))).))))))))))))........................... ( -32.50)
>DroYak_CAF1 57499 104 + 1
AUAAUUCAUUGUAUUGCCGCAGGAGCUGGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACUGCAGAU----------------CCUCGGCUCCUAAAAAACAUUAACAGCUUUAUCA
.........((((...(((.(((((...(((((...(((....)))))))).))))).)))..))))(((----------------....((((..(((......)))..))))..))). ( -23.90)
>consensus
AUAAUUCAUUAAAUUGCCGCAGGAGCUGGGCUUAUCGUUCGCAAACAAGCCACUCCUACGGACAUGAGAU________________CCUCGGCUCCUAAAAAACAUUAACAGCUUUAUCA
................(((.(((((...(((((...(((....)))))))).))))).))).............................((((..(((......)))..))))...... (-19.68 = -19.68 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,321,503 – 11,321,607
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.67
Mean single sequence MFE -35.44
Consensus MFE -32.70
Energy contribution -32.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.92
SVM decision value 4.09
SVM RNA-class probability 0.999792
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11321503 104 - 27905053
UGAUAAAGCUGUUAAUGCUUUUUAGGAGCCGAGG----------------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAU
....(((((.......)))))......(((..((----------------((.....))))((((((((((((((((.......))))))))..)))))))))))............... ( -34.80)
>DroSec_CAF1 60739 104 - 1
UGAUAAAGCUGUUAAUGUUUUUUAGGAGCCGAGG----------------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAU
.(((...(((.((((......)))).))).....----------------)))...((.((((((((((((((((((.......))))))))..)))))))))))).............. ( -34.40)
>DroSim_CAF1 56984 104 - 1
UGAUAAAGCUGUUAAUGUUUUUUAGGAGCCGAGG----------------AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAU
.(((...(((.((((......)))).))).....----------------)))...((.((((((((((((((((((.......))))))))..)))))))))))).............. ( -34.40)
>DroEre_CAF1 55969 120 - 1
UGAUAAAGCUGUUAAUGUUUUUUAGGAGCCGAGGAGCCGAGGAUCCGACGAUCCGACGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCAAGCUCCUGCGGCAAUAUAAUGAAUUAU
.......(((.((((......)))).)))......(((..(((((....))))).......((((((((((((((((.......))))))))..)))))))))))............... ( -40.00)
>DroYak_CAF1 57499 104 - 1
UGAUAAAGCUGUUAAUGUUUUUUAGGAGCCGAGG----------------AUCUGCAGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUACAAUGAAUUAU
.(((...(((.((((......)))).))).....----------------)))....(.((((((((((((((((((.......))))))))..)))))))))))............... ( -33.60)
>consensus
UGAUAAAGCUGUUAAUGUUUUUUAGGAGCCGAGG________________AUCUCAUGUCCGUAGGAGUGGCUUGUUUGCGAACGAUAAGCCCAGCUCCUGCGGCAAUUUAAUGAAUUAU
.......(((.((((......)))).)))............................(.((((((((((((((((((.......))))))))..)))))))))))............... (-32.70 = -32.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:30 2006