Locus 3385

Sequence ID 2R_DroMel_CAF1
Location 11,445,913 – 11,446,051
Length 138
Max. P 0.981034
window5532 window5533

overview

Window 2

Location 11,445,913 – 11,446,015
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.26
Mean single sequence MFE -27.53
Consensus MFE -15.90
Energy contribution -17.76
Covariance contribution 1.86
Combinations/Pair 1.05
Mean z-score -2.35
Structure conservation index 0.58
SVM decision value 1.77
SVM RNA-class probability 0.976300
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11445913 102 - 20766785
G--C----GUGAUGGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAA----AAAAGAAAAACAAAAGCAGGGCGGGCU---UU-----UUACCGUUCUCUU
(--(----.(((..(((((((((.((((....)))).)))))))))....)))...))........----.............(((.(((((((...---..-----...)))))))))) ( -30.00)
>DroSec_CAF1 64788 103 - 1
G--C----GUGUGAGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAAA---AAAAGAAAAACAAAAGCAGGGCGGGCU---UU-----UUACCGUUCUCUU
(--(----((.((((((((((((.((((....)))).)))))))))....)))...)))).......---.............(((.(((((((...---..-----...)))))))))) ( -32.00)
>DroSim_CAF1 54795 104 - 1
G--C----GUGUGAGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAAA--AAAAAGAAAAACAAAAGCAGGGCGGGCU---UU-----UUACCGUUCUCUU
(--(----((.((((((((((((.((((....)))).)))))))))....)))...)))).......--..............(((.(((((((...---..-----...)))))))))) ( -32.00)
>DroEre_CAF1 61830 105 - 1
---U----GUCUGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAAAAAAAAAAAAAAGAAAAACAAAAGCAGGGCGGGCU---UU-----UUACCGUUCUCUU
---(----(((((((((((((((.((((....)))).))))))))).......)))).)))......................(((.(((((((...---..-----...)))))))))) ( -27.41)
>DroYak_CAF1 60487 97 - 1
GGGU----UUCCGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAAAA-------------AAACAAAAGCAGGGCGGGCU---UUUUUUUUUACCGUUCU---
..((----(....((((((((((.((((....)))).)))))))))).....))).((......-------------........))(((((((...---..........)))))))--- ( -25.06)
>DroPer_CAF1 64668 93 - 1
AUGUUUCUAUCUGUGUGUGUGUU-----UGUUUUGUAAAA----GCGAUUUCCACAACGUAGAAA------------AAACAGAAGCAGGGCAGGGCUCCCU-----UUCACGUUCC-GU
.(((((((.(((((((.((((.(-----(((((.....))----))))....)))))))))))..------------....))))))).((.(((....)))-----.)).......-.. ( -18.70)
>consensus
G__C____GUCUGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAA____AAAAGAAAAACAAAAGCAGGGCGGGCU___UU_____UUACCGUUCUCUU
..............(((((((((.((((....)))).))))))))).........................................(((((((................)))))))... (-15.90 = -17.76 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,445,945 – 11,446,051
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.05
Mean single sequence MFE -26.18
Consensus MFE -11.22
Energy contribution -13.08
Covariance contribution 1.86
Combinations/Pair 1.05
Mean z-score -2.55
Structure conservation index 0.43
SVM decision value 1.88
SVM RNA-class probability 0.981034
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11445945 106 - 20766785
AUUAUUCAUUUAAAACUCUGGAUAACCUGUAUGUA----UG--C----GUGAUGGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAA----AAAAGAAAAA
.(((((((..........))))))).((.....((----((--(----((((..(((((((((.((((....)))).)))))))))....))....)))))))...----...))..... ( -25.70)
>DroPse_CAF1 61924 94 - 1
GUUAUUCAUA---AGUAGCGGAUAAUGUGUCUGUG--CGUAUGUUUCUAUCUGUGUGUGUGUU-----UGUUUUGUAAAA----GCGAUUUCCACAACGUAGAAA------------AAA
......((((---.(((.(((((.....)))))))--).))))(((((((...((((.(...(-----(((((.....))----))))...)))))..)))))))------------... ( -21.10)
>DroSec_CAF1 64820 111 - 1
AUUAUUCAUUUAAAACUCUGGAUUACCUGUAUGUAUGGAUG--C----GUGUGAGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAAA---AAAAGAAAAA
....(((..................((.........))(((--(----((.((((((((((((.((((....)))).)))))))))....)))...)))))).....---....)))... ( -25.30)
>DroSim_CAF1 54827 108 - 1
AUUAUUCAUUUAAAACUCUGGAUUACCUGUAUGUA----UG--C----GUGUGAGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAAA--AAAAAGAAAAA
....(((.......((...((....)).))...((----((--(----((.((((((((((((.((((....)))).)))))))))....)))...)))))))....--.....)))... ( -26.20)
>DroEre_CAF1 61862 112 - 1
GUUAUUCAUUUAAAACUCUGGAUAACCUGUGGCUGUGUG----U----GUCUGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAAAAAAAAAAAAAAGAAAAA
((((((((..........)))))))).((((.((((.((----.----.....((((((((((.((((....)))).))))))))))....))))))))))................... ( -29.30)
>DroYak_CAF1 60521 103 - 1
GUUAUUCAUUUAAAACUCUGGAUAACCUGUGGCUGUGUUUGGGU----UUCCGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAAAA-------------AAA
((((((((..........)))))))).((((.((((....((..----..)).((((((((((.((((....)))).))))))))))......))))))))...-------------... ( -29.50)
>consensus
AUUAUUCAUUUAAAACUCUGGAUAACCUGUAUGUA____UG__C____GUCUGUGUGUGUGUUGGCAAUGUUUUGCAAAUACAUACAAUUUCAACAGCGCAUAAAA____AAAAGAAAAA
.(((((((..........))))))).............................(((((((((.((((....)))).))))))))).................................. (-11.22 = -13.08 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:16 2006