Locus 8569

Sequence ID	X_DroMel_CAF1
Location	21,229,344 – 21,229,445
Length	101
Max. P	0.987492

overview

Window 5

Location	21,229,344 – 21,229,445
Length	101
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	79.46
Mean single sequence MFE	-35.35
Consensus MFE	-21.66
Energy contribution	-22.38
Covariance contribution	0.73
Combinations/Pair	1.24
Mean z-score	-3.78
Structure conservation index	0.61
SVM decision value	2.08
SVM RNA-class probability	0.987492
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21229344 101 + 22224390
GAAAGGGGCAGCGGGAG------AA--AGCGCUUGGAAAAGCGGGCAUUUUACGUUGAAGUUGGUCAGCAAUUUCCACAGAUAUAAAUAAAAAUUCGCUGCC---GCUUUCG
(((((.(((((((((..------..--..(((((....)))))..........((.(((((((.....))))))).))...............)))))))))---.))))). ( -39.20)
>DroSec_CAF1 41801 103 + 1
GAAAGGAGCAGCUGGAA------AAGCAGAGCUCGGAAAAGCGGGCAUUUUACGUUGAAGUUGGUCAGCAAUUUCCACAGAUAUAAAUAAAAAUUCGCUGCC---GCUUUCG
(((((..((((((((((------(......(((((......))))).......(((((......)))))..))))))..((.............))))))).---.))))). ( -31.12)
>DroSim_CAF1 33251 103 + 1
GAAAGGGGCAGCGGGAA------AAGCAGCGCUCGGAAAAGCGGGCAUUUUACGUUGAAGUUGGUCAGCAAUUUCCACAGAUAUAAAUAAAAAUUCGCUGCC---GCUUUCG
(((((.(((((((((..------.......(((((......))))).......((.(((((((.....))))))).))...............)))))))))---.))))). ( -39.00)
>DroEre_CAF1 27572 99 + 1
GAAUGGGGCAGC--------GGAAA--AGCGCCUGGAAAAGCGGGCAUUUUAAGUUGAAGUUGGUCAGCAAUUUCUACAGAUAUAAAUAAAAAUUCGCUGCC---GCUUUCG
(((.(.((((((--------(((..--...(((((......))))).......((.(((((((.....))))))).))...............)))))))))---.).))). ( -36.40)
>DroYak_CAF1 28531 107 + 1
GAAAGGGGCGGCGGGAAAGCGGGAA--AGCGCCUGGAAAAGCGGGCAUUUAACGUUGAAGUUGGUCAGCAAUUUCAACAGAUAUAAAUAAAAAUUCGCUGUC---GCUUUCG
(((((.(((((((((...((.....--.))(((((......))))).......((((((((((.....))))))))))...............)))))))))---.))))). ( -42.20)
>DroAna_CAF1 26088 99 + 1
AACAGGAGCGGA----G------UGGUAGUGGUGGGGGUAGCAGGCUGGCUAAAUGGAAGUUGGUCAGCAAGUUUUACAGUUAUAAAUACAAAUUUGUUGUCUAGGCUU---
...(((((((((----.------..(((...((((..(((((..(((((((((.......)))))))))..))..)))..))))...)))...)))))).)))......--- ( -24.20)
>consensus
GAAAGGGGCAGCGGGAA______AA__AGCGCUUGGAAAAGCGGGCAUUUUACGUUGAAGUUGGUCAGCAAUUUCCACAGAUAUAAAUAAAAAUUCGCUGCC___GCUUUCG
(((((.((((((..................(((((......))))).......((.(((((((.....))))))).))..................))))))....))))). (-21.66 = -22.38 +   0.73)

alignment

secondary structure

dotplot

Window 6

Location	21,229,344 – 21,229,445
Length	101
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	79.46
Mean single sequence MFE	-23.03
Consensus MFE	-12.22
Energy contribution	-13.88
Covariance contribution	1.67
Combinations/Pair	1.20
Mean z-score	-1.85
Structure conservation index	0.53
SVM decision value	-0.05
SVM RNA-class probability	0.506980
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21229344 101 - 22224390
CGAAAGC---GGCAGCGAAUUUUUAUUUAUAUCUGUGGAAAUUGCUGACCAACUUCAACGUAAAAUGCCCGCUUUUCCAAGCGCU--UU------CUCCCGCUGCCCCUUUC
.(((((.---((((((((((((((((........)))))))))(((((......))).............((((....)))))).--..------....))))))).))))) ( -27.50)
>DroSec_CAF1 41801 103 - 1
CGAAAGC---GGCAGCGAAUUUUUAUUUAUAUCUGUGGAAAUUGCUGACCAACUUCAACGUAAAAUGCCCGCUUUUCCGAGCUCUGCUU------UUCCAGCUGCUCCUUUC
.((((((---((((((.(((((((((........)))))))))))))....((......)).......))))))))..((((...(((.------....))).))))..... ( -27.10)
>DroSim_CAF1 33251 103 - 1
CGAAAGC---GGCAGCGAAUUUUUAUUUAUAUCUGUGGAAAUUGCUGACCAACUUCAACGUAAAAUGCCCGCUUUUCCGAGCGCUGCUU------UUCCCGCUGCCCCUUUC
.(((((.---((((((((((((((((........))))))))).......................((.(((((....)))))..))..------....))))))).))))) ( -29.50)
>DroEre_CAF1 27572 99 - 1
CGAAAGC---GGCAGCGAAUUUUUAUUUAUAUCUGUAGAAAUUGCUGACCAACUUCAACUUAAAAUGCCCGCUUUUCCAGGCGCU--UUUCC--------GCUGCCCCAUUC
.(((.(.---((((((((((((((((........)))))))))(((((......))).........(((.(......).))))).--....)--------)))))).).))) ( -24.20)
>DroYak_CAF1 28531 107 - 1
CGAAAGC---GACAGCGAAUUUUUAUUUAUAUCUGUUGAAAUUGCUGACCAACUUCAACGUUAAAUGCCCGCUUUUCCAGGCGCU--UUCCCGCUUUCCCGCCGCCCCUUUC
.((((((---(..(((.......((((((....(((((((.(((.....))).))))))).))))))...(((......))))))--....))))))).............. ( -22.80)
>DroAna_CAF1 26088 99 - 1
---AAGCCUAGACAACAAAUUUGUAUUUAUAACUGUAAAACUUGCUGACCAACUUCCAUUUAGCCAGCCUGCUACCCCCACCACUACCA------C----UCCGCUCCUGUU
---.(((..((((((.....))))..........(((...((.(((((...........))))).))..))).................------)----)..)))...... (  -7.10)
>consensus
CGAAAGC___GGCAGCGAAUUUUUAUUUAUAUCUGUGGAAAUUGCUGACCAACUUCAACGUAAAAUGCCCGCUUUUCCAAGCGCU__UU______UUCCCGCUGCCCCUUUC
.(((((....((((((.(((((((((........)))))))))..........................(((((....))))).................)))))).))))) (-12.22 = -13.88 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:28 2006