Locus 3638

Sequence ID 2R_DroMel_CAF1
Location 12,054,262 – 12,054,409
Length 147
Max. P 0.972977
window5919 window5920

overview

Window 9

Location 12,054,262 – 12,054,376
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.83
Mean single sequence MFE -22.28
Consensus MFE -16.95
Energy contribution -17.40
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.71
Structure conservation index 0.76
SVM decision value 1.70
SVM RNA-class probability 0.972977
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12054262 114 + 20766785
-----UAUAAACACAAAAUUGCAGAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAA-AAUGAAAUGUCAGUUUUGGGGGAAGCUAAGGCGAAAUAAAAGUG
-----......(((....(((((....((((((.....))))))))))).............((((((((((...-.)))))))))).(((((((......))))))).........))) ( -23.70)
>DroVir_CAF1 81246 96 + 1
CGUGUUAUAA--ACAAAAUGGCACAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAAUGAAAUGUCAGA---------------GGCAAAAU-------
.(((((((..--.....)))))))......((((((.....))))))...............((((((((((.....))))))))))...---------------........------- ( -21.80)
>DroPse_CAF1 109184 110 + 1
-----UAUAAACAGAAAAUUGCAGAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAA-AAUGAAAUGUCAGCUCAAGGGG-CGAAAAGGCGAGA--A-AGGC
-----.............((((........((((((.....))))))...............((((((((((...-.)))))))))).(((.....))-)......))))..--.-.... ( -22.70)
>DroGri_CAF1 69803 96 + 1
UGUGUUAUAA--ACAAAAUGGCACAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAAUGAAAUGUCAGA---------------GGCGGAAC-------
((((((((..--.....)))))))).....((((((.....))))))...............((((((((((.....))))))))))...---------------........------- ( -22.20)
>DroAna_CAF1 51155 114 + 1
-----UAUAAACACAAAAUUGCAGAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAA-AAUGAAAUGUCAGUUUUUGGGGGAGCUAAAAAGGAAGAAAACAA
-----.......................((((..(.(((((....)).......((((((..((((((((((...-.)))))))))).))))))))))..))))................ ( -20.60)
>DroPer_CAF1 106897 110 + 1
-----UAUAAACAGAAAAUUGCAGAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAA-AAUGAAAUGUCAGCUCAAGGGG-CGAAAAGGCGAGA--A-AGGC
-----.............((((........((((((.....))))))...............((((((((((...-.)))))))))).(((.....))-)......))))..--.-.... ( -22.70)
>consensus
_____UAUAAACACAAAAUUGCAGAAAAUGGCGACACCUGCUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAA_AAUGAAAUGUCAGAU___GGGG__G__AAGGCGAAA__A_AG__
..................((((........((((((.....))))))...............((((((((((.....))))))))))...................)))).......... (-16.95 = -17.40 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,054,297 – 12,054,409
Length 112
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 89.29
Mean single sequence MFE -26.79
Consensus MFE -21.45
Energy contribution -22.03
Covariance contribution 0.58
Combinations/Pair 1.11
Mean z-score -2.94
Structure conservation index 0.80
SVM decision value 0.91
SVM RNA-class probability 0.880308
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12054297 112 + 20766785
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUGGGGGAAGCUAAGGCGAAAUAAAAGUGGGGAAAACCGAGGCCCAGCACAGCAGGAAAAUC----
((((((................((((((((((....))))))))))....(((((....((....))..........(((......)))...)))))..)))))).......---- ( -26.20)
>DroSec_CAF1 55156 112 + 1
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCUGUUUUGGGGGAAGCUAAGGCAAAAUAAAAGUGGGGAAAACCGAGGCCCAGCACAGCAGGAAAAUC----
((((((.........((((((.((((((((((....)))))))))))))))).(((...((....))..........(((......)))...)))....)))))).......---- ( -27.00)
>DroSim_CAF1 55744 112 + 1
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUGGGGGAAGCUGAGGCAAAAUAAAAGUGGGGAAAACCGAGGCCCAGCACAGCAGGAAAAUC----
((((((................((((((((((....)))))))))).............((((.(((..........(((......)))..))))))).)))))).......---- ( -29.30)
>DroEre_CAF1 55390 112 + 1
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUGGGGGAAGCUAAGGCGAAAUAAAAGUGGGGAAAGCCGAGGCCCAGCACAGCAGGGAAAUC----
((((((................((((((((((....)))))))))).(((((((......))))))).........((.(((..........))).)).)))))).......---- ( -25.90)
>DroYak_CAF1 56733 112 + 1
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUGGGGGAAGCUAAGGCAAAAUAAAAGUGGGCAAAACCGAGGCCCAGCACAGCAGGAAAAUC----
((((((................((((((((((....)))))))))).(((((((......)))))))..........(((((.........)))))...)))))).......---- ( -28.80)
>DroAna_CAF1 51190 112 + 1
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUUGGGGGAGCUAAAAAGGAAGAAAACAAGCAAGACUUCAG----GGCACAGCAGGAGUGGCAACA
..(((((...............((((((((((....))))))))))..((((((..(..(((......((((.............))))..----))).)..))))))..))))). ( -23.52)
>consensus
CUGUUGCAAAUUAGAAAAAUAAGAUGUUUCAUAAAAAUGAAAUGUCAGUUUUGGGGGAAGCUAAGGCAAAAUAAAAGUGGGGAAAACCGAGGCCCAGCACAGCAGGAAAAUC____
((((((................((((((((((....)))))))))).(((((((......)))))))..........((((...........))))...))))))........... (-21.45 = -22.03 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:30 2006