Locus 7827

Sequence ID 3L_DroMel_CAF1
Location 20,963,315 – 20,963,435
Length 120
Max. P 0.616837
window12740 window12741

overview

Window 0

Location 20,963,315 – 20,963,435
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.67
Mean single sequence MFE -51.77
Consensus MFE -41.32
Energy contribution -40.71
Covariance contribution -0.61
Combinations/Pair 1.29
Mean z-score -1.78
Structure conservation index 0.80
SVM decision value 0.17
SVM RNA-class probability 0.616837
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20963315 120 + 23771897
GGCAAAUCCUGCCAAGCUUCGCUAAAGCUGGCCGGACAGAGUGAGGAACUGCAGCGACAUGCUUACCGCUUUGGCAAACAUUUGGCGCUCGCUUGGCAGGCUUGCUUGGAUGCCGAACCU
((((...((((((((((..(((((((....((((....(((((.(.....(((......)))...)))))))))).....)))))))...))))))))))((.....)).))))...... ( -45.30)
>DroPse_CAF1 220162 120 + 1
GGCAAGUCCUGCCAGGCCUCGCUGAAGCUGGCCGGCCAGAGCGAGGAGCUGCAGCGUCAUGCGUAUCGCUUUGGCAAGCAUCUGGCCCUCGCCUGGCAGGCCUGCCUGGACGCCGAGCCC
((((.(.((((((((((...(((((.(((.....((((((((((...((.(((......))))).)))))))))).))).)).)))....))))))))))).)))).((.(.....))). ( -58.90)
>DroWil_CAF1 273220 120 + 1
GGCAAAUCCUGUCAAGCAUCACUUAAACUGGCUGGCCAGAGUGAAGAACUACAGCGACAUGCAUAUCGCUUUGGCAAGCAUUUGGCCAUGGCUUGGCAGGCUUGCUUAGAUGCCGAGCCC
((((((((.((((((...(((((....((((....)))))))))........(((((........))))))))))).).)))).)))..(((((((((..((.....)).))))))))). ( -43.60)
>DroYak_CAF1 226506 120 + 1
GGCAAAUCUUGCCAAGCUUCGCUAAAGCUGGCUGGACAAAGUGAGGAACUGCAGCGGCAUGCUUAUCGCUUUGGAAAACAUUUGGCCCUCGCUUGGCAGGCUUGCCUGGAUGCCGAACCU
(((((..((((((((((...((....)).(((..((((((((((......(((......)))...)))))))).......))..)))...)))))))))).))))).............. ( -43.71)
>DroAna_CAF1 207348 120 + 1
GGCAAGUCCUGCCAGGGCUCUCUGAAGUUGGCCGGCCAGAGCGAGGAGCUCCAGCGCCAUGCCUAUCGGUUUGGAAAGCACUUGGCUCUGGCCUGGCAGGCCUGCCUGGACGCGGAACCC
((((.(.(((((((.((((..(....)..))))(((((((((.(((.(((......(((.(((....))).)))..))).))).))))))))))))))))).)))).............. ( -60.20)
>DroPer_CAF1 220990 120 + 1
GGCAAGUCCUGCCAGGCCUCGCUGAAGCUGGCCGGCCAGAGCGAGGAGCUGCAGCGUCAUGCGUAUCGCUUUGGCAAGCAUCUGGCCCUCGCCUGGCAGGCCUGCCUGGACGCCGAGCCC
((((.(.((((((((((...(((((.(((.....((((((((((...((.(((......))))).)))))))))).))).)).)))....))))))))))).)))).((.(.....))). ( -58.90)
>consensus
GGCAAAUCCUGCCAAGCCUCGCUGAAGCUGGCCGGCCAGAGCGAGGAACUGCAGCGACAUGCGUAUCGCUUUGGCAAGCAUUUGGCCCUCGCCUGGCAGGCCUGCCUGGACGCCGAACCC
((((.(.((((((((((...((....)).(((((((((((((((......(((......)))...))))))))).......))))))...)))))))))).))))).............. (-41.32 = -40.71 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,963,315 – 20,963,435
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.67
Mean single sequence MFE -51.67
Consensus MFE -38.62
Energy contribution -38.27
Covariance contribution -0.36
Combinations/Pair 1.24
Mean z-score -1.95
Structure conservation index 0.75
SVM decision value 0.06
SVM RNA-class probability 0.565957
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20963315 120 - 23771897
AGGUUCGGCAUCCAAGCAAGCCUGCCAAGCGAGCGCCAAAUGUUUGCCAAAGCGGUAAGCAUGUCGCUGCAGUUCCUCACUCUGUCCGGCCAGCUUUAGCGAAGCUUGGCAGGAUUUGCC
.((........))..(((((((((((((((...(((...(((((((((.....)))))))))((((..((((.........)))).))))........)))..)))))))))).))))). ( -49.00)
>DroPse_CAF1 220162 120 - 1
GGGCUCGGCGUCCAGGCAGGCCUGCCAGGCGAGGGCCAGAUGCUUGCCAAAGCGAUACGCAUGACGCUGCAGCUCCUCGCUCUGGCCGGCCAGCUUCAGCGAGGCCUGGCAGGACUUGCC
((((.....)))).((((((((((((((((.(((((.((..(((.((...((((..........)))))))))..)).))))).)))((((.((....))..))))))))))).)))))) ( -63.60)
>DroWil_CAF1 273220 120 - 1
GGGCUCGGCAUCUAAGCAAGCCUGCCAAGCCAUGGCCAAAUGCUUGCCAAAGCGAUAUGCAUGUCGCUGUAGUUCUUCACUCUGGCCAGCCAGUUUAAGUGAUGCUUGACAGGAUUUGCC
.((((.((((.((.....))..)))).))))..(((.((((.((((.((((((((((....)))))))...((...(((((((((....))))....))))).))))).))))))))))) ( -40.00)
>DroYak_CAF1 226506 120 - 1
AGGUUCGGCAUCCAGGCAAGCCUGCCAAGCGAGGGCCAAAUGUUUUCCAAAGCGAUAAGCAUGCCGCUGCAGUUCCUCACUUUGUCCAGCCAGCUUUAGCGAAGCUUGGCAAGAUUUGCC
.((........)).(((((((.((((((((((((((.....))))))(((((.((..(((.(((....))))))..)).)))))........((....))...)))))))).).)))))) ( -37.40)
>DroAna_CAF1 207348 120 - 1
GGGUUCCGCGUCCAGGCAGGCCUGCCAGGCCAGAGCCAAGUGCUUUCCAAACCGAUAGGCAUGGCGCUGGAGCUCCUCGCUCUGGCCGGCCAACUUCAGAGAGCCCUGGCAGGACUUGCC
(((.......))).((((((((((((((((((((((...((((((((......)).))))))((.((....)).))..)))))))))((((.........).))).))))))).)))))) ( -56.40)
>DroPer_CAF1 220990 120 - 1
GGGCUCGGCGUCCAGGCAGGCCUGCCAGGCGAGGGCCAGAUGCUUGCCAAAGCGAUACGCAUGACGCUGCAGCUCCUCGCUCUGGCCGGCCAGCUUCAGCGAGGCCUGGCAGGACUUGCC
((((.....)))).((((((((((((((((.(((((.((..(((.((...((((..........)))))))))..)).))))).)))((((.((....))..))))))))))).)))))) ( -63.60)
>consensus
GGGCUCGGCAUCCAGGCAAGCCUGCCAAGCGAGGGCCAAAUGCUUGCCAAAGCGAUAAGCAUGACGCUGCAGCUCCUCACUCUGGCCGGCCAGCUUCAGCGAGGCCUGGCAGGACUUGCC
.((........)).((((((((((((((((....((....(((((....)))))....))....(((((.(((.....)))((((....))))...)))))..)))))))))).)))))) (-38.62 = -38.27 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:00 2006