Locus 680

Sequence ID 2R_DroMel_CAF1
Location 3,358,335 – 3,358,435
Length 100
Max. P 0.966255
window1202 window1203

overview

Window 2

Location 3,358,335 – 3,358,435
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 81.00
Mean single sequence MFE -22.70
Consensus MFE -19.61
Energy contribution -18.50
Covariance contribution -1.11
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.86
SVM decision value 1.59
SVM RNA-class probability 0.966255
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3358335 100 + 20766785
UUAAAUACCCAUGAAAGUUAAUCUUAGGUAAAAAACCUGAACACUAUUGUGUUUACUUUAAACGGCAUUAGGUAGAGUAUAUCUGUGGUGAGGUAUUUAG
.(((((((((((.(((((.......((((.....))))((((((....)))))))))))......(((.(((((.....))))))))))).)))))))). ( -24.80)
>DroSec_CAF1 19109 100 + 1
UUAAAUUCCCAUAAAAGUGAAUCUUAGGUAAAAAACCUGAACACUAUUGUGUUUACUUUAAACGGCACUAGGUAGACUAUAUCUGUGGUGAGGAAUUUUG
..((((((((((.(((((((...((((((.....))))))((((....)))))))))))......(((.(((((.....))))))))))).))))))).. ( -27.00)
>DroEre_CAF1 10384 87 + 1
UUAAAUUC------------AUCUUAGGUAAA-AACCUUAACGUUAUUGUGCUUACUUUAAGCGGCAUUAGGUAGAGUGUAUCUGUGACGAGGAAUUUCA
..((((((------------.....((((...-.))))...((((((.((((..((((((..(.......).))))))))))..))))))..)))))).. ( -16.30)
>consensus
UUAAAUUCCCAU_AAAGU_AAUCUUAGGUAAAAAACCUGAACACUAUUGUGUUUACUUUAAACGGCAUUAGGUAGAGUAUAUCUGUGGUGAGGAAUUUAG
..(((((((..............((((((.....)))))).((((((((((((((...))))).)))..(((((.....))))))))))).))))))).. (-19.61 = -18.50 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 3,358,335 – 3,358,435
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 81.00
Mean single sequence MFE -15.47
Consensus MFE -12.71
Energy contribution -11.60
Covariance contribution -1.11
Combinations/Pair 1.17
Mean z-score -1.19
Structure conservation index 0.82
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3358335 100 - 20766785
CUAAAUACCUCACCACAGAUAUACUCUACCUAAUGCCGUUUAAAGUAAACACAAUAGUGUUCAGGUUUUUUACCUAAGAUUAACUUUCAUGGGUAUUUAA
.((((((((.......(((.....))).........(((..(((((.(((((....))))).((((.....)))).......))))).))))))))))). ( -16.90)
>DroSec_CAF1 19109 100 - 1
CAAAAUUCCUCACCACAGAUAUAGUCUACCUAGUGCCGUUUAAAGUAAACACAAUAGUGUUCAGGUUUUUUACCUAAGAUUCACUUUUAUGGGAAUUUAA
..(((((((.(((...((((...)))).....))).(((..(((((.(((((....))))).((((.....)))).......))))).)))))))))).. ( -17.30)
>DroEre_CAF1 10384 87 - 1
UGAAAUUCCUCGUCACAGAUACACUCUACCUAAUGCCGCUUAAAGUAAGCACAAUAACGUUAAGGUU-UUUACCUAAGAU------------GAAUUUAA
..((((((.((..........................(((((...)))))............((((.-...))))..)).------------)))))).. ( -12.20)
>consensus
CAAAAUUCCUCACCACAGAUAUACUCUACCUAAUGCCGUUUAAAGUAAACACAAUAGUGUUCAGGUUUUUUACCUAAGAUU_ACUUU_AUGGGAAUUUAA
..(((((((((((...(((.....)))..........(((((...)))))......)))...((((.....))))...............)))))))).. (-12.71 = -11.60 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:31 2006