Locus 891

Sequence ID	X_DroMel_CAF1
Location	2,507,499 – 2,507,604
Length	105
Max. P	0.937237

overview

Window 6

Location	2,507,499 – 2,507,604
Length	105
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	82.10
Mean single sequence MFE	-23.22
Consensus MFE	-12.00
Energy contribution	-12.40
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.61
Structure conservation index	0.52
SVM decision value	0.89
SVM RNA-class probability	0.876093
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2507499 105 + 22224390
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCCUCCUCUUCUUGAUUCACAUAUGUGUGCAUAU---------------AUAGACCGACAGACAGA
.........((.((..(((((.((((((...(((((((..(((((.......)))))...((.....)))))))))...))))))...---------------.))))).)).))..... ( -26.50)
>DroSec_CAF1 6073 97 + 1
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCC---UCUUCUUGUUUCACAUAUCUGUACAU-----------------AUAGACCGACAGAC---
................((((((.........((((((((((((((.......)))))---.......))))))))).(((((....-----------------)))))..).)))))--- ( -21.81)
>DroSim_CAF1 6979 97 + 1
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCC---UCUUCUUGAUUCACAUAUCUGUACAU-----------------AUAGACCGACAGAC---
................((((((.........(((((((..(((((.......)))))---((.....))))))))).(((((....-----------------)))))..).)))))--- ( -19.80)
>DroEre_CAF1 6498 112 + 1
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCC---UCUUCUUGAUUCACAUAUAUGUCCAUAUAUC---UAUAUACAUAUUAACAG--UGACAUA
................(((.((((.......(((((((..(((((.......)))))---((.....)))))))))((((((..((((...---.))))))))))...)))--))))... ( -21.50)
>DroYak_CAF1 7555 117 + 1
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCC---UCUUCUUGAUUCACAUAUGUAUAUAUCUCUCUUGUAUAUACAUAUUGACUGACUUGAAUA
..............(((((.............((((((..(((((.......)))))---((.....))))))))(((((((((((.......)))))))))))..)))))......... ( -26.50)
>consensus
UCGCCAAAACUUUCCAGUCUGCUGCACAACAAUGUGAAACGGAACACGAAACGUUCC___UCUUCUUGAUUCACAUAUCUGUACAU_U_______________AUAGACCGACAGACA_A
..............(((....))).(((...(((((((..(((((.......)))))...((.....)))))))))...)))...................................... (-12.00 = -12.40 +   0.40)

alignment

secondary structure

dotplot

Window 7

Location	2,507,499 – 2,507,604
Length	105
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.10
Mean single sequence MFE	-30.62
Consensus MFE	-22.92
Energy contribution	-23.24
Covariance contribution	0.32
Combinations/Pair	1.07
Mean z-score	-2.18
Structure conservation index	0.75
SVM decision value	1.26
SVM RNA-class probability	0.937237
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2507499 105 - 22224390
UCUGUCUGUCGGUCUAU---------------AUAUGCACACAUAUGUGAAUCAAGAAGAGGAGGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
..((((..(((((((..---------------...((((((((.(((((((((.....))...((((((.....))))))..))))))))).))))))..)))))))........)))). ( -30.90)
>DroSec_CAF1 6073 97 - 1
---GUCUGUCGGUCUAU-----------------AUGUACAGAUAUGUGAAACAAGAAGA---GGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
---(((..(((((((..-----------------.(((((((..(((((((((.......---((((((.....)))))))))))))))..)))))))..)))))))........))).. ( -32.71)
>DroSim_CAF1 6979 97 - 1
---GUCUGUCGGUCUAU-----------------AUGUACAGAUAUGUGAAUCAAGAAGA---GGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
---(((..(((((((..-----------------.(((((((..(((((((((.....))---((((((.....))))))..)))))))..)))))))..)))))))........))).. ( -30.70)
>DroEre_CAF1 6498 112 - 1
UAUGUCA--CUGUUAAUAUGUAUAUA---GAUAUAUGGACAUAUAUGUGAAUCAAGAAGA---GGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
..(((((--(((((.((((((.....---.))))))(.(((...(((((((((.....))---((((((.....))))))..)))))))...))).))))))(((....)))..))))). ( -29.00)
>DroYak_CAF1 7555 117 - 1
UAUUCAAGUCAGUCAAUAUGUAUAUACAAGAGAGAUAUAUACAUAUGUGAAUCAAGAAGA---GGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
.......((((.(((((((((((((((......).))))))))))).)))..........---((((((.....))))))(((.((((....)))).)))(((((....))))))))).. ( -29.80)
>consensus
U_UGUCUGUCGGUCUAU_______________A_AUGUACACAUAUGUGAAUCAAGAAGA___GGAACGUUUCGUGUUCCGUUUCACAUUGUUGUGCAGCAGACUGGAAAGUUUUGGCGA
...................................((((((...(((((((((.....))...((((((.....))))))..)))))))...))))))((.((((....))))...)).. (-22.92 = -23.24 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:25 2006