Locus 7

Sequence ID nosto.0
Location 1,592,156 – 1,592,223
Length 67
Max. P 0.966859
window12 window13

overview

Window 2

Location 1,592,156 – 1,592,223
Length 67
Sequences 6
Columns 68
Reading direction forward
Mean pairwise identity 73.55
Mean single sequence MFE -21.23
Consensus MFE -18.95
Energy contribution -16.18
Covariance contribution -2.77
Combinations/Pair 1.79
Mean z-score -0.58
Structure conservation index 0.89
SVM decision value 0.54
SVM RNA-class probability 0.775883
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1592156 67 + 6413771
UAGCUCAG-UGGAUAGAGCCACGGAUUUCUAAUCCGUUGGUCGCAGGUUCGAACCCUGCCGCGCUCGU
........-......((((.((((((.....))))))..((.(((((.......))))).)))))).. ( -21.40)
>synec.0 1813573 68 + 2434428
UAGCUCAGCUGGAUAGAGCAACUGCCUUCUAAGCAGUCGGUCGAUGGUUCGAAUCCAUCAGGGGGCGU
..((((..((.....((.(.(((((.......))))).).))(((((.......))))))).)))).. ( -21.70)
>proch.0 1203672 68 + 1709204
UAGCUCAGCUGGAUAGAGCAACUGCCUUCUAAGCAGUGGGCCGCAGGUUCGAAUCCUGCAGGAAGCGU
..((((.(((......))).(((((.......))))))))).(((((.......)))))......... ( -21.70)
>anava.0 24136 68 - 6365727
UAACUCAGUUGGAUAGAGUAUCCGCCUUCUAAGCGGACUGUCGCAGGUUCAAGUCCUGCCGCGCCUGU
.....(((.(((((((....(((((.......))))))))))(((((.......)))))..)).))). ( -20.80)
>synel.0 722816 67 - 2696255
UAGCUCAG-UGGAUAGAGCACCCGCCUUCUAAGCGGUCGGUCGUUGGUUCGAUCCCAACCUGAGGCGU
...(((((-......((.(..((((.......))))..).))(((((.......)))))))))).... ( -20.20)
>gloev.0 3392744 67 + 4659019
UAGCUCAG-CGGAUAGAGCGUUCGCCUCCGGAGCGAAAGGUCGUGGGUUCGAUCCCCGCCGUGCCCAU
..((((..-......))))..........((.(((...((.((.(((......))))))).))))).. ( -21.60)
>consensus
UAGCUCAG_UGGAUAGAGCAACCGCCUUCUAAGCGGUCGGUCGCAGGUUCGAACCCUGCCGGGCGCGU
..((((.........)))).(((((.......))))).....(((((.......)))))......... (-18.95 = -16.18 +  -2.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,592,156 – 1,592,223
Length 67
Sequences 6
Columns 68
Reading direction reverse
Mean pairwise identity 73.55
Mean single sequence MFE -22.33
Consensus MFE -20.71
Energy contribution -18.13
Covariance contribution -2.58
Combinations/Pair 1.73
Mean z-score -1.41
Structure conservation index 0.93
SVM decision value 1.60
SVM RNA-class probability 0.966859
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 1592156 67 - 6413771
ACGAGCGCGGCAGGGUUCGAACCUGCGACCAACGGAUUAGAAAUCCGUGGCUCUAUCCA-CUGAGCUA
.........(((((.......))))).....((((((.....))))))(((((......-..))))). ( -22.50)
>synec.0 1813573 68 - 2434428
ACGCCCCCUGAUGGAUUCGAACCAUCGACCGACUGCUUAGAAGGCAGUUGCUCUAUCCAGCUGAGCUA
..(((..((((((((.((((....)))).((((((((.....)))))))).))))).)))..).)).. ( -20.60)
>proch.0 1203672 68 - 1709204
ACGCUUCCUGCAGGAUUCGAACCUGCGGCCCACUGCUUAGAAGGCAGUUGCUCUAUCCAGCUGAGCUA
.......(((((((.......)))))))...((((((.....)))))).((((.........)))).. ( -21.80)
>anava.0 24136 68 + 6365727
ACAGGCGCGGCAGGACUUGAACCUGCGACAGUCCGCUUAGAAGGCGGAUACUCUAUCCAACUGAGUUA
.(((.....(((((.......)))))((..(((((((.....)))))))..)).......)))..... ( -21.60)
>synel.0 722816 67 + 2696255
ACGCCUCAGGUUGGGAUCGAACCAACGACCGACCGCUUAGAAGGCGGGUGCUCUAUCCA-CUGAGCUA
..((.(((((((((.......)))))((.((.(((((.....))))).)).))......-)))))).. ( -23.00)
>gloev.0 3392744 67 - 4659019
AUGGGCACGGCGGGGAUCGAACCCACGACCUUUCGCUCCGGAGGCGAACGCUCUAUCCG-CUGAGCUA
...(((.((((((((.(((......))))).((((((.....))))))........)))-))).))). ( -24.50)
>consensus
ACGCGCCCGGCAGGAUUCGAACCUGCGACCGACCGCUUAGAAGGCGGUUGCUCUAUCCA_CUGAGCUA
.........(((((.......))))).....((((((.....)))))).((((.........)))).. (-20.71 = -18.13 +  -2.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Wed Apr 5 20:05:42 2006