Locus 768

Sequence ID	X_DroMel_CAF1
Location	2,116,257 – 2,116,359
Length	102
Max. P	0.980570

overview

Window 7

Location	2,116,257 – 2,116,359
Length	102
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.42
Mean single sequence MFE	-26.00
Consensus MFE	-15.04
Energy contribution	-15.92
Covariance contribution	0.88
Combinations/Pair	1.17
Mean z-score	-2.72
Structure conservation index	0.58
SVM decision value	1.87
SVM RNA-class probability	0.980570
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2116257 102 + 22224390
CCAUACAAUGCAUUUUGAGUGCUCAUUACG---------GCCAUUACC----GAAUCGAUAUUCUCGAAAUGAACGAGCCGAACUGGCUCGACGUUCAAAACUGCAUAAAAAAGG-----
.......((((((((((((((.(((((.((---------(......))----)..((((.....))))))))).((((((.....)))))).))))))))).)))))........----- ( -29.70)
>DroSec_CAF1 4391 104 + 1
CUAUACAAUGCAUUUUGAGUGCUCAUUACG---------GCCAUUACCGACCGAAUCGAUAUCCUCGAACUGAACGAGCAGU-CCCGCUCGACUUUCA-AACUGCAUAAAAAAGA-----
.......(((((.(((((((((((....((---------(......)))......((((.....)))).......)))))((-(......))).))))-)).)))))........----- ( -25.00)
>DroSim_CAF1 4384 103 + 1
CUAUACAAUGCAUUUUGAGUGCUCAUUACG---------GCCAUUACCGACCGAAUCGAUAUCCUCGAACUGAACGAGCAGU-CCCGCUCGACUUUCA-AACUGCAUAAA-AAGA-----
.......(((((.(((((((((((....((---------(......)))......((((.....)))).......)))))((-(......))).))))-)).)))))...-....----- ( -25.00)
>DroEre_CAF1 4327 113 + 1
CUAUACAAUGCAUUUUGAGUGCUCAUUACGGCCAUUACGGCCAUUACC----AAAUCGAUAUCCUCAAACUGAACGAGGAA---CUGCUCGAUGCUCAAAAAUGCAUAAAAUGCAAAAGC
.......(((((((((((((.........((((.....))))......----..(((((..(((((.........))))).---....))))))))).)))))))))............. ( -31.00)
>DroYak_CAF1 4429 103 + 1
CUAUACAAUGCAUUUUGAGUGCUCAUUACG---------GCCAUUACC----AAAUCGAUAUCCUCAAACCGAACGAGCAGU-UCCGCCUGAUGUUUAAAAAUGCAUAAAAAAAAAA---
.......(((((((((.......(((((.(---------((.......----.....((.....)).....((((.....))-)).))))))))....)))))))))..........--- ( -19.30)
>consensus
CUAUACAAUGCAUUUUGAGUGCUCAUUACG_________GCCAUUACC____GAAUCGAUAUCCUCGAACUGAACGAGCAGU_CCCGCUCGACGUUCAAAACUGCAUAAAAAAGA_____
.......((((((((((((((..................................((((.....))))......(((((.......))))).))))))))).)))))............. (-15.04 = -15.92 +   0.88)

alignment

secondary structure

dotplot

Window 8

Location	2,116,257 – 2,116,359
Length	102
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.42
Mean single sequence MFE	-30.48
Consensus MFE	-17.74
Energy contribution	-17.82
Covariance contribution	0.08
Combinations/Pair	1.21
Mean z-score	-1.83
Structure conservation index	0.58
SVM decision value	0.11
SVM RNA-class probability	0.589386
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2116257 102 - 22224390
-----CCUUUUUUAUGCAGUUUUGAACGUCGAGCCAGUUCGGCUCGUUCAUUUCGAGAAUAUCGAUUC----GGUAAUGGC---------CGUAAUGAGCACUCAAAAUGCAUUGUAUGG
-----((......(((((.((((((.....(((((.....)))))(((((((((((.....))))..(----(((....))---------)).)))))))..))))))))))).....)) ( -32.70)
>DroSec_CAF1 4391 104 - 1
-----UCUUUUUUAUGCAGUU-UGAAAGUCGAGCGGG-ACUGCUCGUUCAGUUCGAGGAUAUCGAUUCGGUCGGUAAUGGC---------CGUAAUGAGCACUCAAAAUGCAUUGUAUAG
-----........(((((.((-(((.....(((((..-..)))))(((((..((((.....))))..((((((....))))---------))...)))))..))))).)))))....... ( -31.40)
>DroSim_CAF1 4384 103 - 1
-----UCUU-UUUAUGCAGUU-UGAAAGUCGAGCGGG-ACUGCUCGUUCAGUUCGAGGAUAUCGAUUCGGUCGGUAAUGGC---------CGUAAUGAGCACUCAAAAUGCAUUGUAUAG
-----....-...(((((.((-(((.....(((((..-..)))))(((((..((((.....))))..((((((....))))---------))...)))))..))))).)))))....... ( -31.40)
>DroEre_CAF1 4327 113 - 1
GCUUUUGCAUUUUAUGCAUUUUUGAGCAUCGAGCAG---UUCCUCGUUCAGUUUGAGGAUAUCGAUUU----GGUAAUGGCCGUAAUGGCCGUAAUGAGCACUCAAAAUGCAUUGUAUAG
((....)).....(((((((((.(((.(((((....---.((((((.......))))))..)))))((----.((.((((((.....)))))).)).))..))))))))))))....... ( -33.80)
>DroYak_CAF1 4429 103 - 1
---UUUUUUUUUUAUGCAUUUUUAAACAUCAGGCGGA-ACUGCUCGUUCGGUUUGAGGAUAUCGAUUU----GGUAAUGGC---------CGUAAUGAGCACUCAAAAUGCAUUGUAUAG
---..........(((((((((......((((((.((-((.....)))).)))))).((..(((...(----(((....))---------))...)))....)))))))))))....... ( -23.10)
>consensus
_____UCUUUUUUAUGCAGUUUUGAACGUCGAGCGGG_ACUGCUCGUUCAGUUCGAGGAUAUCGAUUC____GGUAAUGGC_________CGUAAUGAGCACUCAAAAUGCAUUGUAUAG
.............(((((.((((((.....((((((...))))))(((((..((((.....))))...........(((...........)))..)))))..)))))))))))....... (-17.74 = -17.82 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:23 2006