Locus 695

Sequence ID X_DroMel_CAF1
Location 1,923,263 – 1,923,383
Length 120
Max. P 0.994263
window1112 window1113

overview

Window 2

Location 1,923,263 – 1,923,383
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 75.56
Mean single sequence MFE -39.27
Consensus MFE -28.18
Energy contribution -29.77
Covariance contribution 1.59
Combinations/Pair 1.06
Mean z-score -2.09
Structure conservation index 0.72
SVM decision value 2.46
SVM RNA-class probability 0.994263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1923263 120 + 22224390
GUGAAUGUGGGCGUUUGCUAUAUCACCGCCCACAUACACAUCGGGUACAUUGGACUCCAGGAAAUCAGUGACGUCCACGGAUCCGUUACGAUUUACCUUCACGCCCGACUUGGCCAGAAA
(((.(((((((((.............))))))))).))).((((((....(((...)))(((((((.((((((((....))..))))))))))).)).....))))))............ ( -42.02)
>DroEre_CAF1 7301 120 + 1
GUGGAUGUGAGCGUUGGCUAUGUCGCCGCCCACAUAUACAUCGGGUACAUUGGACUCGAGGAAAUCUGUGACGUCCACGGAUCCGUUACGAUUUACCUUUACGCCUGACUUGGCCAGGAA
(((.(((((.(((.((((...)))).))).))))).))).((((((.......))))))(((((((.((((((((....))..))))))))))).)).....(((......)))...... ( -37.80)
>DroYak_CAF1 7380 120 + 1
GUGGAUGUGGGCGUUGGCUAUGUCACCGCCCACAUAGACAUCGGGCACGUUGGACUCCAUGAAAUCUGUGACGUCCACGGAUCCGUUACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
((..(((((((((.((((...)))).)))))))))..))..((((..(((.((((..(((.......)))..)))))))..))))................................... ( -38.00)
>consensus
GUGGAUGUGGGCGUUGGCUAUGUCACCGCCCACAUACACAUCGGGUACAUUGGACUCCAGGAAAUCUGUGACGUCCACGGAUCCGUUACGAUUUACCUU_ACGCC_GACUUGGCCAG_AA
(((.(((((((((.((((...)))).))))))))).)))..(((((....(((((((...(....)...)).)))))...))))).................(((......)))...... (-28.18 = -29.77 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,923,263 – 1,923,383
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 75.56
Mean single sequence MFE -36.17
Consensus MFE -26.50
Energy contribution -25.90
Covariance contribution -0.60
Combinations/Pair 1.18
Mean z-score -1.32
Structure conservation index 0.73
SVM decision value 0.38
SVM RNA-class probability 0.714591
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1923263 120 - 22224390
UUUCUGGCCAAGUCGGGCGUGAAGGUAAAUCGUAACGGAUCCGUGGACGUCACUGAUUUCCUGGAGUCCAAUGUACCCGAUGUGUAUGUGGGCGGUGAUAUAGCAAACGCCCACAUUCAC
...........((((((.((...((....))...))(((((((.(((.(((...))).))))))).)))......))))))(((.(((((((((.............))))))))).))) ( -40.72)
>DroEre_CAF1 7301 120 - 1
UUCCUGGCCAAGUCAGGCGUAAAGGUAAAUCGUAACGGAUCCGUGGACGUCACAGAUUUCCUCGAGUCCAAUGUACCCGAUGUAUAUGUGGGCGGCGACAUAGCCAACGCUCACAUCCAC
...(((((...)))))((((...((((...(((...(((..((.(((.(((...))).))).))..))).)))))))..))))..(((((((((((......)))...)))))))).... ( -36.30)
>DroYak_CAF1 7380 120 - 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGUAACGGAUCCGUGGACGUCACAGAUUUCAUGGAGUCCAACGUGCCCGAUGUCUAUGUGGGCGGUGACAUAGCCAACGCCCACAUCCAC
....................................((((..(((((((((...(((((....)))))....(....))))))))))(((((((.((.......)).))))))))))).. ( -31.50)
>consensus
UU_CUGGCCAAGUC_GGCGU_AAGGUAAAUCGUAACGGAUCCGUGGACGUCACAGAUUUCCUGGAGUCCAAUGUACCCGAUGUAUAUGUGGGCGGUGACAUAGCCAACGCCCACAUCCAC
..((((((...))))))..................(((.(.(((((((.((...(....)...)))))).))).).)))..((..(((((((((((......))...)))))))))..)) (-26.50 = -25.90 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:19 2006