Locus 379

Sequence ID	X_DroMel_CAF1
Location	1,131,230 – 1,131,374
Length	144
Max. P	0.949762

overview

Window 7

Location	1,131,230 – 1,131,340
Length	110
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	93.30
Mean single sequence MFE	-36.66
Consensus MFE	-31.68
Energy contribution	-31.04
Covariance contribution	-0.64
Combinations/Pair	1.09
Mean z-score	-1.46
Structure conservation index	0.86
SVM decision value	0.78
SVM RNA-class probability	0.847730
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1131230 110 - 22224390
ACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAGCGAGAGAGAGAUUUUCCAGCAGGUGAGACACUGAACCC
...((((---(((((((((.((((((((.......--(((....))).((......)))))....((.((((((...))))))))...)))))..))))))).))))))...... ( -37.90)
>DroSec_CAF1 27900 113 - 1
ACAGGUGUCGUCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAGCAAGAGAGAGAUUUCCCAGCAGGUGAGACACUGAGCCC
...((((((...((((((((....)))........--(((....))).......(.((((.(((.((.((((((...))))))..)).))))))).)))))).))))))...... ( -38.40)
>DroSim_CAF1 29345 110 - 1
ACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAGCAAGAGAGAGAUUUCCCAGCAGGUGAGACACUGAGCCC
...((((---((((((((((....)))........--(((....))).......(.((((.(((.((.((((((...))))))..)).))))))).)))))).))))))...... ( -39.50)
>DroEre_CAF1 29277 110 - 1
ACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAGUGAGAGAGAGAUUUCCCAACAGGUGAGAUUCUGAAUCC
.((((.(---((((((((((....)))........--(((....))).......(.((((.(((.((.(((((.......))))))).))))))).)))))).)))))))..... ( -34.90)
>DroYak_CAF1 28861 110 - 1
ACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAACACGCACCGGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG--AGAGAGAGAUUUCCCAGCAGGUGAGAUUCUAAAUCC
...((.(---((((((((((....)(((..((.....))....)))..........((((.(((.((.(((((....--.))))))).)))))))))))))).))).))...... ( -32.60)
>consensus
ACAGGUG___UCCGCCUGCCGAAAGGCCAACGAAA__CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAGCAAGAGAGAGAUUUCCCAGCAGGUGAGACACUGAACCC
...(((....((((((((((....)))....((....(((....)))....)).(.((((.(((.((.(((((.......))))))).))))))).)))))).))......))). (-31.68 = -31.04 +  -0.64)

alignment

secondary structure

dotplot

Window 8

Location	1,131,268 – 1,131,374
Length	106
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	92.59
Mean single sequence MFE	-34.64
Consensus MFE	-28.92
Energy contribution	-28.92
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.83
SVM decision value	1.39
SVM RNA-class probability	0.949762
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1131268 106 - 22224390
-----AC-CCCAUUCAAAACUGAUAGCAAGGGAGGCCCAAACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
-----..-...........(..(.((((..(((.(((......))).---)))(((((((....)))........--(((....)))..........)))).....)))).)..).. ( -33.00)
>DroSec_CAF1 27938 109 - 1
-----CC-CUCAUUCAAAACUGAUAGCAAGGGAGGCCCAAACAGGUGUCGUCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
-----..-....(((((..(((((.((..(((...))).....((((.(((.((...(((....)))...))..)--)))))).))....)))))..(((((....)))))))))). ( -35.30)
>DroSim_CAF1 29383 106 - 1
-----CC-CCCAUUCAAAACUGAUAGCAAGGGAGGCCCAAACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
-----..-...........(..(.((((..(((.(((......))).---)))(((((((....)))........--(((....)))..........)))).....)))).)..).. ( -33.00)
>DroEre_CAF1 29315 107 - 1
-----CCCCCUAUUCAAAACUGAUAGCAGGGUAGACCCAAACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAA--CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
-----.......(((((..(((((.((.(((....))).....((((---(.((...(((....)))...))...--.))))).))....)))))..(((((....)))))))))). ( -34.70)
>DroYak_CAF1 28897 114 - 1
UUAACCCCCCCAUUCAAAACUGAUAGAAGGGGAGACCCAAACAGGUG---UCCGCCUGCCGAAAGGCCAACGAAACACGCACCGGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
.........(((.......(((((....(((....))).......((---((.(((.(((....)))...((.....))....))))))))))))..(((((....))))).))).. ( -37.20)
>consensus
_____CC_CCCAUUCAAAACUGAUAGCAAGGGAGGCCCAAACAGGUG___UCCGCCUGCCGAAAGGCCAACGAAA__CGCACCAGCGACAAUCAGAUGGGCAGAACUGCUCUUGGAG
............(((((..(((((.....((.....))....(((((.....)))))(((....)))..........(((....)))...)))))..(((((....)))))))))). (-28.92 = -28.92 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:06 2006