Locus 8282

Sequence ID	X_DroMel_CAF1
Location	20,603,818 – 20,603,920
Length	102
Max. P	0.999719

overview

Window 3

Location	20,603,818 – 20,603,920
Length	102
Sequences	4
Columns	105
Reading direction	forward
Mean pairwise identity	79.64
Mean single sequence MFE	-32.00
Consensus MFE	-25.86
Energy contribution	-27.80
Covariance contribution	1.94
Combinations/Pair	1.17
Mean z-score	-3.44
Structure conservation index	0.81
SVM decision value	3.94
SVM RNA-class probability	0.999719
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20603818 102 + 22224390
CCCCCAUUCGCUUGCAACCUGAAGCUUUUUGUUUACUGCCUACGGUUGUGUUACUCACUUUUAUCAUGG---AGGCAUGCAUAUGUUUUUCAAGUUGCAGGCGAA
......((((((((((((.(((((..(..(((....(((((..(((.(((.....)))....)))....---))))).)))...)..))))).)))))))))))) ( -32.90)
>DroSec_CAF1 8500 100 + 1
C--UCAUUCGCUUGCAACCUGAAGCUAUUUGUUUGCUGCCUACGGCUGUGUUACUGACUUUAAUCAAGG---AGGCAUGGAUAUAUUGUUCAAGAUGCAGGCGAA
.--...((((((((((.(.((((.(.((.(((..(.(((((.(((........))).((((....))))---))))))..))).)).))))).).)))))))))) ( -28.30)
>DroEre_CAF1 8540 99 + 1
C--CCAUUCGCUUGCAACCUGAUGCCAUAUGUCUACUGCCUAUGAGUAUGUCUUGCAUUGUUAUUAUUG---AGGCAUGCAUAUAUUA-UCAAGUUGCAGGCGAA
.--...((((((((((((.(((((..((((((....(((((((((..(((.....))).....))))..---))))).))))))..))-))).)))))))))))) ( -35.70)
>DroYak_CAF1 8750 102 + 1
C--CCAUUCGAUUGCAACCUGAAGCUAUAUGCUUACUGCCUAUGAGUAUGUUUAUUAUUUUCAUGAUUGAAGAGGCAUGCAUAUAAUA-UCAAGUUGCAGGCGAA
.--...((((.(((((((.(((.(.(((((((....((((....((((....)))).((((((....)))))))))).))))))).).-))).))))))).)))) ( -31.10)
>consensus
C__CCAUUCGCUUGCAACCUGAAGCUAUAUGUUUACUGCCUACGAGUAUGUUACUCACUUUUAUCAUGG___AGGCAUGCAUAUAUUA_UCAAGUUGCAGGCGAA
......((((((((((((.((((..(((((((....(((((((((..(((.....)))..))))........))))).)))))))...)))).)))))))))))) (-25.86 = -27.80 +   1.94)

alignment

secondary structure

dotplot

Window 4

Location	20,603,818 – 20,603,920
Length	102
Sequences	4
Columns	105
Reading direction	reverse
Mean pairwise identity	79.64
Mean single sequence MFE	-29.92
Consensus MFE	-23.78
Energy contribution	-25.41
Covariance contribution	1.62
Combinations/Pair	1.04
Mean z-score	-3.41
Structure conservation index	0.79
SVM decision value	3.91
SVM RNA-class probability	0.999702
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20603818 102 - 22224390
UUCGCCUGCAACUUGAAAAACAUAUGCAUGCCU---CCAUGAUAAAAGUGAGUAACACAACCGUAGGCAGUAAACAAAAAGCUUCAGGUUGCAAGCGAAUGGGGG
(((((.(((((((((((.......(((.(((((---..(((......(((.....)))...)))))))))))..........))))))))))).)))))...... ( -28.53)
>DroSec_CAF1 8500 100 - 1
UUCGCCUGCAUCUUGAACAAUAUAUCCAUGCCU---CCUUGAUUAAAGUCAGUAACACAGCCGUAGGCAGCAAACAAAUAGCUUCAGGUUGCAAGCGAAUGA--G
(((((.((((.((((((...........(((((---.(.((((....))))((......)).).)))))((.........)))))))).)))).)))))...--. ( -25.50)
>DroEre_CAF1 8540 99 - 1
UUCGCCUGCAACUUGA-UAAUAUAUGCAUGCCU---CAAUAAUAACAAUGCAAGACAUACUCAUAGGCAGUAGACAUAUGGCAUCAGGUUGCAAGCGAAUGG--G
(((((.((((((((((-(..(((((((.(((((---............................)))))...).))))))..))))))))))).)))))...--. ( -32.79)
>DroYak_CAF1 8750 102 - 1
UUCGCCUGCAACUUGA-UAUUAUAUGCAUGCCUCUUCAAUCAUGAAAAUAAUAAACAUACUCAUAGGCAGUAAGCAUAUAGCUUCAGGUUGCAAUCGAAUGG--G
((((..((((((((((-..((((((((.(((((........((((...............)))))))))....))))))))..))))))))))..))))...--. ( -32.86)
>consensus
UUCGCCUGCAACUUGA_UAAUAUAUGCAUGCCU___CAAUGAUAAAAAUGAGAAACACACCCAUAGGCAGUAAACAAAUAGCUUCAGGUUGCAAGCGAAUGG__G
(((((.((((((((((....((((((..(((((...............................))))).....))))))...)))))))))).)))))...... (-23.78 = -25.41 +   1.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:08 2006