Locus 2284

Sequence ID 3L_DroMel_CAF1
Location 6,421,377 – 6,421,472
Length 95
Max. P 0.696025
window3530 window3531

overview

Window 0

Location 6,421,377 – 6,421,472
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 83.68
Mean single sequence MFE -21.20
Consensus MFE -17.03
Energy contribution -17.92
Covariance contribution 0.89
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.80
SVM decision value 0.34
SVM RNA-class probability 0.696025
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6421377 95 + 23771897
UUUUUUGUGUUUGUGUUUUUUGCAGACUUCAGUCAAUGCACUCUCUAGGACGUCGUCGUCGUCUGACUGCACAAAAUGAAAAAGUUUCGCAAAAA
.((((((((((((((.....)))))))((((.....((((.((...(.((((....)))).)..)).)))).....))))........))))))) ( -21.80)
>DroGri_CAF1 164284 87 + 1
----GUUUUUUUGUUGGUUUUGCAGACUUCAGUCAAUGCACUCUCUAUGACGACG---UCGUCUGACUGCACAAAAUGAAAAAGUUUCGAAAUA-
----............((((((.((((((((.....((((.((.....((((...---.)))).)).)))).....)))...))))))))))).- ( -18.00)
>DroSim_CAF1 164916 94 + 1
UUUGUGUUUUUUGUGUUUUUUGCAGACUUCAGUCAAUGCACUCUCUAUGACGUCGUCGUCGUCUGACUGCACAAAAUGAAAAAGUUUCGCAAAA-
((((((.(((((.((((((.(((((...((((..............((((((....))))))))))))))).)))))).)))))...)))))).- ( -22.33)
>DroWil_CAF1 191464 85 + 1
UUUUU----------UUUUUUGUAGACUUCAGUCAAUGCACUCUCUAUGACGUCGUCGUCGUCUGACUGCACAAAAUGAAAAAGUUUCAAAAAAA
....(----------(((((((.((((((((.....((((.((...((((((....))))))..)).)))).....)))...))))))))))))) ( -21.20)
>DroYak_CAF1 172633 85 + 1
--UUCGUGU--------UUUUGCAGACUUCAGUCAAUGCACUCUCUAUGACGUCGUCGUCGUCUGACUGCACAAAAUGAAAAAGUUUCGCAAAAA
--......(--------((((((((((((((.....((((.((...((((((....))))))..)).)))).....)))...))))).))))))) ( -22.50)
>DroAna_CAF1 162737 90 + 1
----GGUUUUCUGCA-UUUUCGCAGACUUCAGUCAAUGCACUCUCUAUGACGUCGACGUCGUCUGACUGCACAAAAUGAAAAAGUUUCGCAAAAA
----.....(((((.-.....))))).((((.....((((.((...((((((....))))))..)).)))).....))))............... ( -21.40)
>consensus
__UUUGUUUUUUGU_UUUUUUGCAGACUUCAGUCAAUGCACUCUCUAUGACGUCGUCGUCGUCUGACUGCACAAAAUGAAAAAGUUUCGCAAAAA
.................((((((((((((((.....((((.((...((((((....))))))..)).)))).....)))...))))).)))))). (-17.03 = -17.92 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,421,377 – 6,421,472
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 83.68
Mean single sequence MFE -20.45
Consensus MFE -17.57
Energy contribution -17.98
Covariance contribution 0.42
Combinations/Pair 1.08
Mean z-score -1.51
Structure conservation index 0.86
SVM decision value 0.22
SVM RNA-class probability 0.639547
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6421377 95 - 23771897
UUUUUGCGAAACUUUUUCAUUUUGUGCAGUCAGACGACGACGACGUCCUAGAGAGUGCAUUGACUGAAGUCUGCAAAAAACACAAACACAAAAAA
((((((((..(((((.(((....(((((.((....((((....)))).....)).))))))))..))))).))))))))................ ( -22.00)
>DroGri_CAF1 164284 87 - 1
-UAUUUCGAAACUUUUUCAUUUUGUGCAGUCAGACGA---CGUCGUCAUAGAGAGUGCAUUGACUGAAGUCUGCAAAACCAACAAAAAAAC----
-.............(((((.((.(((((.((.((((.---...)))).....)).))))).)).)))))......................---- ( -15.50)
>DroSim_CAF1 164916 94 - 1
-UUUUGCGAAACUUUUUCAUUUUGUGCAGUCAGACGACGACGACGUCAUAGAGAGUGCAUUGACUGAAGUCUGCAAAAAACACAAAAAACACAAA
-(((((((..(((((.(((....(((((.((....((((....)))).....)).))))))))..))))).)))))))................. ( -21.10)
>DroWil_CAF1 191464 85 - 1
UUUUUUUGAAACUUUUUCAUUUUGUGCAGUCAGACGACGACGACGUCAUAGAGAGUGCAUUGACUGAAGUCUACAAAAAA----------AAAAA
((((((((..(((((.(((....(((((.((....((((....)))).....)).))))))))..)))))...)))))))----------).... ( -19.80)
>DroYak_CAF1 172633 85 - 1
UUUUUGCGAAACUUUUUCAUUUUGUGCAGUCAGACGACGACGACGUCAUAGAGAGUGCAUUGACUGAAGUCUGCAAAA--------ACACGAA--
((((((((..(((((.(((....(((((.((....((((....)))).....)).))))))))..))))).)))))))--------)......-- ( -21.70)
>DroAna_CAF1 162737 90 - 1
UUUUUGCGAAACUUUUUCAUUUUGUGCAGUCAGACGACGUCGACGUCAUAGAGAGUGCAUUGACUGAAGUCUGCGAAAA-UGCAGAAAACC----
..............(((((.((.(((((.((....((((....)))).....)).))))).)).)))))(((((.....-.))))).....---- ( -22.60)
>consensus
UUUUUGCGAAACUUUUUCAUUUUGUGCAGUCAGACGACGACGACGUCAUAGAGAGUGCAUUGACUGAAGUCUGCAAAAAA_ACAAAAAACAAA__
.(((((((..(((((.(((....(((((.((....((((....)))).....)).))))))))..))))).)))))))................. (-17.57 = -17.98 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:39 2006