Locus 2617

Sequence ID 2L_DroMel_CAF1
Location 7,260,311 – 7,260,404
Length 93
Max. P 0.940559
window4169 window4170

overview

Window 9

Location 7,260,311 – 7,260,404
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 81.13
Mean single sequence MFE -27.52
Consensus MFE -19.39
Energy contribution -20.84
Covariance contribution 1.45
Combinations/Pair 1.23
Mean z-score -2.46
Structure conservation index 0.70
SVM decision value 1.05
SVM RNA-class probability 0.907013
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7260311 93 + 22407834
ACUGGCAAAGCACA----UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUAUGGACUUUACAGUUUUUAGUUGCUUCUGCUGCUGAUG-CUGCC
...((((.((((((----..............))))))((((((.(((((..(((..((((....))))..))).))))).)))))).....-.)))) ( -30.24)
>DroGri_CAF1 63670 84 + 1
------------UGUGGAGAGAAAAAUCCCUUUGUGCUGUGGCAGAAGCAUUUUAUGGACU-UACAGUUU-AAGUCGCAAUAGUAGCAACAACAGCAG
------------.(..(((.((....)).)))..)(((((.((..............((((-((.....)-)))))((....)).))....))))).. ( -17.60)
>DroSec_CAF1 53562 93 + 1
ACUGGCAAAGCACA----UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUAUGGACUUUACAGGUUUUAGUUGCUUCUGCUGCUGAUG-CUGCC
...((((.((((((----..............))))))((((((.(((((......(((((.....)))))....))))).)))))).....-.)))) ( -29.24)
>DroSim_CAF1 60136 93 + 1
ACUGGCAAAGCACA----UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUAUGGACUUUACAGUUUUUAGUUGCUUCUGCUGCUGAUG-CUGCC
...((((.((((((----..............))))))((((((.(((((..(((..((((....))))..))).))))).)))))).....-.)))) ( -30.24)
>DroEre_CAF1 54149 93 + 1
ACUGGCACAGCACA----UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUACGGACUUUACAGUUUCUAGCUGCUUCUGCUGUGGAUG-CUGCC
...(((((((((((----..............)))))))(((((.(((((..(((..((((....))))..))).))))).)))))......-.)))) ( -27.64)
>DroYak_CAF1 53778 93 + 1
ACGGGCAAAGCACA----UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUAUGGACUUUACAGUUUUUAGUUGCUUCUGCCGUUGAUG-CUGCC
...((((.((((((----..............))))))((((((.(((((..(((..((((....))))..))).))))).)))))).....-.)))) ( -30.14)
>consensus
ACUGGCAAAGCACA____UGUAUAAAUCCCUUUGUGCUGCGGCAAAAGCAUUUUAUGGACUUUACAGUUUUUAGUUGCUUCUGCUGCUGAUG_CUGCC
...((((.((((((..................))))))((((((.(((((......(((((....))))).....))))).)))))).......)))) (-19.39 = -20.84 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 7,260,311 – 7,260,404
Length 93
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 81.13
Mean single sequence MFE -27.76
Consensus MFE -16.15
Energy contribution -19.04
Covariance contribution 2.89
Combinations/Pair 1.08
Mean z-score -3.20
Structure conservation index 0.58
SVM decision value 1.29
SVM RNA-class probability 0.940559
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7260311 93 - 22407834
GGCAG-CAUCAGCAGCAGAAGCAACUAAAAACUGUAAAGUCCAUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA----UGUGCUUUGCCAGU
(((((-.....((.(((((((((.......(((....)))........))))))))).))((((((...(........).----)))))))))))... ( -29.06)
>DroGri_CAF1 63670 84 - 1
CUGCUGUUGUUGCUACUAUUGCGACUU-AAACUGUA-AGUCCAUAAAAUGCUUCUGCCACAGCACAAAGGGAUUUUUCUCUCCACA------------
.((((((.((.((......((.(((((-(.....))-))))))......))....)).))))))...(((((....))))).....------------ ( -20.90)
>DroSec_CAF1 53562 93 - 1
GGCAG-CAUCAGCAGCAGAAGCAACUAAAACCUGUAAAGUCCAUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA----UGUGCUUUGCCAGU
(((((-.....((.(((((((((........((....)).........))))))))).))((((((...(........).----)))))))))))... ( -27.43)
>DroSim_CAF1 60136 93 - 1
GGCAG-CAUCAGCAGCAGAAGCAACUAAAAACUGUAAAGUCCAUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA----UGUGCUUUGCCAGU
(((((-.....((.(((((((((.......(((....)))........))))))))).))((((((...(........).----)))))))))))... ( -29.06)
>DroEre_CAF1 54149 93 - 1
GGCAG-CAUCCACAGCAGAAGCAGCUAGAAACUGUAAAGUCCGUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA----UGUGCUGUGCCAGU
(((..-........(((((((((.......(((....)))........))))))))).((((((((...(........).----)))))))))))... ( -30.26)
>DroYak_CAF1 53778 93 - 1
GGCAG-CAUCAACGGCAGAAGCAACUAAAAACUGUAAAGUCCAUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA----UGUGCUUUGCCCGU
(((((-......(((((((((((.......(((....)))........))))))))))).((((((...(........).----)))))))))))... ( -29.86)
>consensus
GGCAG_CAUCAGCAGCAGAAGCAACUAAAAACUGUAAAGUCCAUAAAAUGCUUUUGCCGCAGCACAAAGGGAUUUAUACA____UGUGCUUUGCCAGU
((((.......((.(((((((((.......(((....)))........))))))))).))((((((...(........).....)))))).))))... (-16.15 = -19.04 +   2.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:02 2006