Locus 186

Sequence ID	X_DroMel_CAF1
Location	650,480 – 650,600
Length	120
Max. P	0.863459

overview

Window 2

Location	650,480 – 650,600
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	92.50
Mean single sequence MFE	-52.57
Consensus MFE	-46.58
Energy contribution	-46.92
Covariance contribution	0.34
Combinations/Pair	1.09
Mean z-score	-2.31
Structure conservation index	0.89
SVM decision value	0.84
SVM RNA-class probability	0.863459
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 650480 120 + 22224390
UCCCUCAUCAACAUGCACUUUGAGGGACGCUGGCUGGUCGCCAAGGAGCAGUUGCCCCUGCUGCUGGCGCAGAGCCUGCAACUGAUUCAGAAGCUGGUGACCAGGCAGCCCGACUACGCC
(((((((.............))))))).((((.((((((((((..((((((((((.....((((....)))).....))))))).)))......)))))))))).))))........... ( -54.72)
>DroEre_CAF1 8377 120 + 1
UCCCUCAUCAGCAUGCACUUUGAGGGCAGCUGGCUGGUCGCCAAGGAGCAGUUGCCACUGCUGCUGGCGCAGAGCCUGCAACUGAUUCAGAAGCUGGUGACCAAGCAGCCCGACUACGCG
.((((((..((......)).))))))..((((..(((((((((..((((((((((.....((((....)))).....))))))).)))......)))))))))..))))........... ( -47.20)
>DroYak_CAF1 8718 120 + 1
UCGCUCAUCAACAUGCACUUGGAGGGCUGCUGGCUGGUCGCCAAGGAGCAGUUGCCCCUGCUGCUGGCGCAGAGUCUGCAGUUGACUCAGAAGCUGGUGACCAGGCAGCCCGACUAUGCG
..............(((...(..(((((((...(((((((((.((.(((((......))))).))(((...(((((.......)))))....)))))))))))))))))))..)..))). ( -55.80)
>consensus
UCCCUCAUCAACAUGCACUUUGAGGGCAGCUGGCUGGUCGCCAAGGAGCAGUUGCCCCUGCUGCUGGCGCAGAGCCUGCAACUGAUUCAGAAGCUGGUGACCAGGCAGCCCGACUACGCG
.((((((.............))))))..((((.((((((((((..((((((((((.....((((....)))).....))))))).)))......)))))))))).))))........... (-46.58 = -46.92 +   0.34)

alignment

secondary structure

dotplot

Window 3

Location	650,480 – 650,600
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	92.50
Mean single sequence MFE	-52.01
Consensus MFE	-42.61
Energy contribution	-42.07
Covariance contribution	-0.55
Combinations/Pair	1.14
Mean z-score	-2.03
Structure conservation index	0.82
SVM decision value	0.02
SVM RNA-class probability	0.541771
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 650480 120 - 22224390
GGCGUAGUCGGGCUGCCUGGUCACCAGCUUCUGAAUCAGUUGCAGGCUCUGCGCCAGCAGCAGGGGCAACUGCUCCUUGGCGACCAGCCAGCGUCCCUCAAAGUGCAUGUUGAUGAGGGA
...........((((.((((((.(((............(((((.(((.....))).)))))((((((....))))))))).)))))).)))).(((((((.............))))))) ( -51.92)
>DroEre_CAF1 8377 120 - 1
CGCGUAGUCGGGCUGCUUGGUCACCAGCUUCUGAAUCAGUUGCAGGCUCUGCGCCAGCAGCAGUGGCAACUGCUCCUUGGCGACCAGCCAGCUGCCCUCAAAGUGCAUGCUGAUGAGGGA
..........(((((.((((((.((((.....((..(((((((..(((((((....)))).))).))))))).)).)))).)))))).))))).((((((.(((....)))..)))))). ( -51.20)
>DroYak_CAF1 8718 120 - 1
CGCAUAGUCGGGCUGCCUGGUCACCAGCUUCUGAGUCAACUGCAGACUCUGCGCCAGCAGCAGGGGCAACUGCUCCUUGGCGACCAGCCAGCAGCCCUCCAAGUGCAUGUUGAUGAGCGA
.((((.(..(((((((((((((.(((((....(((((.......)))))(((....)))))((((((....))))))))).))))))...)))))))..)..)))).((((....)))). ( -52.90)
>consensus
CGCGUAGUCGGGCUGCCUGGUCACCAGCUUCUGAAUCAGUUGCAGGCUCUGCGCCAGCAGCAGGGGCAACUGCUCCUUGGCGACCAGCCAGCAGCCCUCAAAGUGCAUGUUGAUGAGGGA
.(((.....(((((((((((((..(((..((((((....)).))))..))).(((((.(((((......))))).).))))))))))...)))))))......))).............. (-42.61 = -42.07 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:27 2006