Locus 6628

Sequence ID 2L_DroMel_CAF1
Location 18,623,125 – 18,623,237
Length 112
Max. P 0.997050
window10571 window10572

overview

Window 1

Location 18,623,125 – 18,623,237
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.48
Mean single sequence MFE -19.70
Consensus MFE -13.07
Energy contribution -13.87
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.66
SVM decision value 2.57
SVM RNA-class probability 0.995421
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18623125 112 + 22407834
UCG---AACCCGCUUUUGUCGACUCAGCUCGUACAAAAAA-AUAUAUAUGGGAAAAACAAAAACCUAUAAUCACUGAAUAAACAAGCUGAUAAAACAAAAGCAACAUAUUU----GUAUA
...---.....((((((((....((((((.((........-.....((((((...........))))))............)).))))))....)))))))).(((....)----))... ( -22.21)
>DroSec_CAF1 100705 106 + 1
UCG---AACCCGCUUUUGUCGACUCAGGUCGUACAAAAAA-AAA------GGAACAACAAAAACCUAUAAUCACUGAAUAAACAAGCUGAUAAAACAAAAGCAACGUAUUU----GUAUA
...---.....((((((((((((....)))).........-...------...................((((((.........)).))))...)))))))).........----..... ( -15.30)
>DroSim_CAF1 102163 106 + 1
UCG---AACCCGCUUUUGUCGACUCAGCUCGUACAAAAAA-AAA------GGAACAACAAAAACCUAUAAUCACUGAAUAAACAAGCUGAUAAAACAAAAGCAGCAUAUUU----GUAUA
...---.....((((((((....((((((.((........-..(------((...........)))....((...))....)).))))))....)))))))).(((....)----))... ( -18.20)
>DroEre_CAF1 99702 114 + 1
UCG---AACCCGCUUUUGUCGACUCAGCUUGUACACAGACUAGAAAAA-AGAAAAAA--CAAAUCUAUAAUCACUGAAUAAACAAGCUGAUAAAACAAAAGCGACUUACAUGUAUGUAUA
...---....(((((((((....(((((((((...(((..((((....-........--....))))......))).....)))))))))....)))))))))...((((....)))).. ( -24.79)
>DroAna_CAF1 91515 97 + 1
UCGCGAGAGCCGCUUUUGCCGACUCAGCUCACGGAAUCA-----------G--GCAG--CAAACCCAUAAUCAUUGAAUAAACAAGCUGAUAAAACAAAAGCCACAUA--------AAUA
..((....)).(((((((.....((((((.......(((-----------(--....--..............)))).......)))))).....)))))))......--------.... ( -18.01)
>consensus
UCG___AACCCGCUUUUGUCGACUCAGCUCGUACAAAAAA_AAA______GGAACAACAAAAACCUAUAAUCACUGAAUAAACAAGCUGAUAAAACAAAAGCAACAUAUUU____GUAUA
...........((((((((....((((((.((.................................................)).))))))....)))))))).................. (-13.07 = -13.87 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,623,125 – 18,623,237
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.48
Mean single sequence MFE -27.88
Consensus MFE -22.17
Energy contribution -21.65
Covariance contribution -0.52
Combinations/Pair 1.30
Mean z-score -2.75
Structure conservation index 0.80
SVM decision value 2.79
SVM RNA-class probability 0.997050
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18623125 112 - 22407834
UAUAC----AAAUAUGUUGCUUUUGUUUUAUCAGCUUGUUUAUUCAGUGAUUAUAGGUUUUUGUUUUUCCCAUAUAUAU-UUUUUUGUACGAGCUGAGUCGACAAAAGCGGGUU---CGA
.....----.......(((((((((((...(((((((((......((((..(((.((...........)).)))..)))-).......)))))))))...)))))))))))...---... ( -26.72)
>DroSec_CAF1 100705 106 - 1
UAUAC----AAAUACGUUGCUUUUGUUUUAUCAGCUUGUUUAUUCAGUGAUUAUAGGUUUUUGUUGUUCC------UUU-UUUUUUGUACGACCUGAGUCGACAAAAGCGGGUU---CGA
.....----.......(((((((((((...((((.((((.....(((.((....(((..(.....)..))------)..-.)).))).)))).))))...)))))))))))...---... ( -21.20)
>DroSim_CAF1 102163 106 - 1
UAUAC----AAAUAUGCUGCUUUUGUUUUAUCAGCUUGUUUAUUCAGUGAUUAUAGGUUUUUGUUGUUCC------UUU-UUUUUUGUACGAGCUGAGUCGACAAAAGCGGGUU---CGA
.....----.......(((((((((((...(((((((((.....(((.((....(((..(.....)..))------)..-.)).))).)))))))))...)))))))))))...---... ( -30.40)
>DroEre_CAF1 99702 114 - 1
UAUACAUACAUGUAAGUCGCUUUUGUUUUAUCAGCUUGUUUAUUCAGUGAUUAUAGAUUUG--UUUUUUCU-UUUUUCUAGUCUGUGUACAAGCUGAGUCGACAAAAGCGGGUU---CGA
..........((.((.(((((((((((...(((((((((.....(((.((..(.(((....--.....)))-.)..))....)))...)))))))))...))))))))))).))---)). ( -33.60)
>DroAna_CAF1 91515 97 - 1
UAUU--------UAUGUGGCUUUUGUUUUAUCAGCUUGUUUAUUCAAUGAUUAUGGGUUUG--CUGC--C-----------UGAUUCCGUGAGCUGAGUCGGCAAAAGCGGCUCUCGCGA
....--------...((.(((((((((...((((((..(....(((.........(((...--..))--)-----------)))....)..))))))...))))))))).))........ ( -27.50)
>consensus
UAUAC____AAAUAUGUUGCUUUUGUUUUAUCAGCUUGUUUAUUCAGUGAUUAUAGGUUUUUGUUGUUCC______UUU_UUUUUUGUACGAGCUGAGUCGACAAAAGCGGGUU___CGA
................(((((((((((...(((((((((.................................................)))))))))...)))))))))))......... (-22.17 = -21.65 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:53 2006