Locus 4823

Sequence ID	3L_DroMel_CAF1
Location	13,535,513 – 13,535,604
Length	91
Max. P	0.995680

overview

Window 6

Location	13,535,513 – 13,535,604
Length	91
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	90.85
Mean single sequence MFE	-26.44
Consensus MFE	-23.03
Energy contribution	-22.87
Covariance contribution	-0.16
Combinations/Pair	1.21
Mean z-score	-1.48
Structure conservation index	0.87
SVM decision value	0.77
SVM RNA-class probability	0.846246
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13535513 91 + 23771897
---UCCGCUGUCUCACUGGCAGUGUCUCGCUUUUUUGUUUGCCAGCAAGUCCUUGCAUCCU--UGGGCUCUGCAUGGGCAAAAGUUCAGCGCAAAA
---..(((((((.....)))))))...((((......((((((.((((((((.........--.))))).)))...)))))).....))))..... ( -30.90)
>DroSec_CAF1 22734 89 + 1
---UCCGCUGUCUCACUGGCAGUGUCUCACUUUUUUGUUUGCCAGCGAGUCCUUGCAUCCU--UUGGC--UGCAUGGGCAAAAGUUCAGCGCAAAA
---..(((((..((.(((((((................))))))).))((((.((((.((.--..)).--)))).)))).......)))))..... ( -29.89)
>DroSim_CAF1 8857 89 + 1
---UCCGCUGUCUCACUGGCAGUGUCUCACUUUUUUGUUUGCCAGCGGGUCCUUGCAUCCU--UUGGC--UGCAUGGACAAAAGUUCAGCGCAAAA
---..(((((..((.(((((((................))))))).))((((.((((.((.--..)).--)))).)))).......)))))..... ( -29.39)
>DroEre_CAF1 23003 89 + 1
---UCCGUUGUCUCACUUGCAGUGUCUCGCUUUUUUGUUUGCCGGCGAGUCCUUGCAUCCU--UUGGC--UGCAUGGGUAAAAGUUCAGCGCAAAA
---..(((((....((((((((.(.((((((............)))))).).))))((((.--.((..--..)).))))..)))).)))))..... ( -21.90)
>DroYak_CAF1 24538 94 + 1
CGCUCCGUUGUCUCACUUGCAGUGUCUCCCUUUUUUGUUUGCCGCCGAGUCCUUGCAUCCUUUUUGGC--UGCAUGGGUAAAAGUUCAGUGCAAAA
................(((((.((.....(((((.....(((.((((((.............))))))--.))).....)))))..)).))))).. ( -20.12)
>consensus
___UCCGCUGUCUCACUGGCAGUGUCUCACUUUUUUGUUUGCCAGCGAGUCCUUGCAUCCU__UUGGC__UGCAUGGGCAAAAGUUCAGCGCAAAA
.....(((((.(((.(((((((................))))))).)))(((.((((.((.....))...)))).)))........)))))..... (-23.03 = -22.87 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	13,535,513 – 13,535,604
Length	91
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	90.85
Mean single sequence MFE	-27.25
Consensus MFE	-24.33
Energy contribution	-25.97
Covariance contribution	1.64
Combinations/Pair	1.04
Mean z-score	-2.05
Structure conservation index	0.89
SVM decision value	2.60
SVM RNA-class probability	0.995680
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13535513 91 - 23771897
UUUUGCGCUGAACUUUUGCCCAUGCAGAGCCCA--AGGAUGCAAGGACUUGCUGGCAAACAAAAAAGCGAGACACUGCCAGUGAGACAGCGGA---
.....(((((.........((.((((...((..--.)).)))).)).((..((((((..................))))))..)).)))))..--- ( -30.07)
>DroSec_CAF1 22734 89 - 1
UUUUGCGCUGAACUUUUGCCCAUGCA--GCCAA--AGGAUGCAAGGACUCGCUGGCAAACAAAAAAGUGAGACACUGCCAGUGAGACAGCGGA---
.....(((((.........((.((((--.((..--.)).)))).)).((((((((((..................)))))))))).)))))..--- ( -32.57)
>DroSim_CAF1 8857 89 - 1
UUUUGCGCUGAACUUUUGUCCAUGCA--GCCAA--AGGAUGCAAGGACCCGCUGGCAAACAAAAAAGUGAGACACUGCCAGUGAGACAGCGGA---
.....(((((.......((((.((((--.((..--.)).)))).)))).((((((((..................))))))))...)))))..--- ( -31.87)
>DroEre_CAF1 23003 89 - 1
UUUUGCGCUGAACUUUUACCCAUGCA--GCCAA--AGGAUGCAAGGACUCGCCGGCAAACAAAAAAGCGAGACACUGCAAGUGAGACAACGGA---
.((((((.((.........((.((((--.((..--.)).)))).)).(((((..............))))).)).))))))............--- ( -19.84)
>DroYak_CAF1 24538 94 - 1
UUUUGCACUGAACUUUUACCCAUGCA--GCCAAAAAGGAUGCAAGGACUCGGCGGCAAACAAAAAAGGGAGACACUGCAAGUGAGACAACGGAGCG
....((.(((...((((((((.((((--.((.....)).)))).)).....((((....(......)(....).))))..))))))...))).)). ( -21.90)
>consensus
UUUUGCGCUGAACUUUUGCCCAUGCA__GCCAA__AGGAUGCAAGGACUCGCUGGCAAACAAAAAAGCGAGACACUGCCAGUGAGACAGCGGA___
.....(((((.........((.((((...((.....)).)))).)).((((((((((..................)))))))))).)))))..... (-24.33 = -25.97 +   1.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:28 2006