Locus 717

Sequence ID X_DroMel_CAF1
Location 1,975,479 – 1,975,578
Length 99
Max. P 0.999462
window1152 window1153

overview

Window 2

Location 1,975,479 – 1,975,578
Length 99
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 73.45
Mean single sequence MFE -32.93
Consensus MFE -22.24
Energy contribution -22.38
Covariance contribution 0.15
Combinations/Pair 1.14
Mean z-score -2.34
Structure conservation index 0.68
SVM decision value 3.62
SVM RNA-class probability 0.999462
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1975479 99 + 22224390
UGAAUGGCAGCAAUUUGCUGUUGCAACAUUUGUUGUUGAAGGAUGUGCUGUUUCUGAAACAGUUGUAGCUGC---------------------UGUUGCUGCUUGUCGACUCCUGCCGCA
.((..(((((((((..((.((((((((......((((..((((........))))..)))))))))))).))---------------------.)))))))))..))............. ( -31.90)
>DroSec_CAF1 8354 87 + 1
UGAAUGGCAGCAA------------ACAUUUGUUGCUGCAGGAUUUGCUGUUUUUGAAUCAGUUGUAGCUGC---------------------UGUUGCUGCUUGUCGACUCCUGCCGCA
.....((((((((------------....))))))))((((((...((((.........)))).(((((...---------------------....)))))........)))))).... ( -26.40)
>DroYak_CAF1 8561 120 + 1
UGAAUGGCAGCAAUCUGCUGUUGCAACAUUUGCUGCUGUAGGAUUUGCUGUUUCUGGAUCAGUUGCAACUGCUGUUUCUCAAUCAGUUGUAACUGUUGCUGCUUGUCCACUCCUGCCGUA
...((((((((((..(((....)))....)))))))))).((((..((.((........((((((((((((.((.....))..))))))))))))..)).))..))))............ ( -40.50)
>consensus
UGAAUGGCAGCAAU_UGCUGUUGCAACAUUUGUUGCUGAAGGAUUUGCUGUUUCUGAAUCAGUUGUAGCUGC_____________________UGUUGCUGCUUGUCGACUCCUGCCGCA
.....((((((((..(((....)))....))))))))((((((...((((.........)))).(((((.((......................)).)))))........)))))).... (-22.24 = -22.38 +   0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,975,479 – 1,975,578
Length 99
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 73.45
Mean single sequence MFE -26.43
Consensus MFE -15.19
Energy contribution -15.97
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.24
Structure conservation index 0.57
SVM decision value 1.99
SVM RNA-class probability 0.984793
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1975479 99 - 22224390
UGCGGCAGGAGUCGACAAGCAGCAACA---------------------GCAGCUACAACUGUUUCAGAAACAGCACAUCCUUCAACAACAAAUGUUGCAACAGCAAAUUGCUGCCAUUCA
((((((....)))).)).(((((((..---------------------((........(((((.....))))).........(((((.....))))).....))...)))))))...... ( -22.40)
>DroSec_CAF1 8354 87 - 1
UGCGGCAGGAGUCGACAAGCAGCAACA---------------------GCAGCUACAACUGAUUCAAAAACAGCAAAUCCUGCAGCAACAAAUGU------------UUGCUGCCAUUCA
...(((((((((((...(((.((....---------------------)).))).....)))))).......(((.....)))............------------...)))))..... ( -21.00)
>DroYak_CAF1 8561 120 - 1
UACGGCAGGAGUGGACAAGCAGCAACAGUUACAACUGAUUGAGAAACAGCAGUUGCAACUGAUCCAGAAACAGCAAAUCCUACAGCAGCAAAUGUUGCAACAGCAGAUUGCUGCCAUUCA
........((((((....((((((.(((((.((((((.(((.....))))))))).)))))...........((..........))......))))))..((((.....)))))))))). ( -35.90)
>consensus
UGCGGCAGGAGUCGACAAGCAGCAACA_____________________GCAGCUACAACUGAUUCAGAAACAGCAAAUCCUACAGCAACAAAUGUUGCAACAGCA_AUUGCUGCCAUUCA
..((((....))))....(((((((........................(((......))).....................(((((.....)))))..........)))))))...... (-15.19 = -15.97 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:56 2006