Locus 3265

Sequence ID	X_DroMel_CAF1
Location	8,667,774 – 8,667,869
Length	95
Max. P	0.965121

overview

Window 3

Location	8,667,774 – 8,667,869
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	91.74
Mean single sequence MFE	-29.94
Consensus MFE	-24.86
Energy contribution	-25.02
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-1.43
Structure conservation index	0.83
SVM decision value	0.36
SVM RNA-class probability	0.704118
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8667774 95 + 22224390
UAUGCUAGUUUUUUUUCAGUGUACCGGCAGACCGGGCACGUUGCAAGUUGCAGCUUCGUUUGCUUUGCCGCUGCUGUUCAAUGGCCGUUGCCAUU
................(((((...(((((((.(((((..(((((.....)))))...))))).))))))).)))))...((((((....)))))) ( -28.90)
>DroSec_CAF1 104446 94 + 1
UAUGCCAGUUUC-UUUCAGUGUACCAGCAGACCGGGCACGUUGCAAGUUGCAGCUUCGUUUGCUUUGCCGCUGCUGUUCAAUGGCCGUUGCCAUU
...((((.....-...(((((....(((((((..(((....(((.....))))))..)))))))....)))))........)))).......... ( -26.49)
>DroSim_CAF1 68833 94 + 1
UAUGCCAGUUUC-UUUCAGUGUACCAGCAGACCGGGCACGUUGCAAGUUGCAGCUUCGUUUGCUUUGCCGCUGCUGUUCAAUGGCCGUUGCCAUU
...((((.....-...(((((....(((((((..(((....(((.....))))))..)))))))....)))))........)))).......... ( -26.49)
>DroEre_CAF1 116202 94 + 1
UAUAGAUAUUUU-UUCCAGUGCACCGGGCGACCGGGCACGUUGCAAGUUGCAGCUCCGUUUGCUUUGCCGCUGCUGUUCAAUGGCCAUUGCCAUU
.((((.......-.....((((.((((....))))))))((.(((((..((((......))))))))).))..))))..((((((....)))))) ( -30.70)
>DroYak_CAF1 107891 94 + 1
UAUGCAUAUUUU-UUUCAGUGCACCGGGAGACCGGGCACGUUGCAAGUUGCAGCUCCGUUUGCUUGGCCGCUGCUGUUCAAUGGCCGUUGCCAUU
...(((......-.....((((.((((....))))))))(((((.....)))))......))).((((.((.(((((...))))).)).)))).. ( -37.10)
>consensus
UAUGCAAGUUUU_UUUCAGUGUACCGGCAGACCGGGCACGUUGCAAGUUGCAGCUUCGUUUGCUUUGCCGCUGCUGUUCAAUGGCCGUUGCCAUU
..................((((.((((....))))))))...(((.((.(((((.......)))..)).))))).....((((((....)))))) (-24.86 = -25.02 +   0.16)

alignment

secondary structure

dotplot

Window 4

Location	8,667,774 – 8,667,869
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	91.74
Mean single sequence MFE	-27.46
Consensus MFE	-24.06
Energy contribution	-23.58
Covariance contribution	-0.48
Combinations/Pair	1.10
Mean z-score	-1.71
Structure conservation index	0.88
SVM decision value	1.58
SVM RNA-class probability	0.965121
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8667774 95 - 22224390
AAUGGCAACGGCCAUUGAACAGCAGCGGCAAAGCAAACGAAGCUGCAACUUGCAACGUGCCCGGUCUGCCGGUACACUGAAAAAAAACUAGCAUA
((((((....)))))).....((.(((((............)))))..........(((((.((....)))))))...............))... ( -25.90)
>DroSec_CAF1 104446 94 - 1
AAUGGCAACGGCCAUUGAACAGCAGCGGCAAAGCAAACGAAGCUGCAACUUGCAACGUGCCCGGUCUGCUGGUACACUGAAA-GAAACUGGCAUA
((((((....)))))).....((.(((((............)))))..(((.((..(((((.((....)))))))..)).))-)......))... ( -24.90)
>DroSim_CAF1 68833 94 - 1
AAUGGCAACGGCCAUUGAACAGCAGCGGCAAAGCAAACGAAGCUGCAACUUGCAACGUGCCCGGUCUGCUGGUACACUGAAA-GAAACUGGCAUA
((((((....)))))).....((.(((((............)))))..(((.((..(((((.((....)))))))..)).))-)......))... ( -24.90)
>DroEre_CAF1 116202 94 - 1
AAUGGCAAUGGCCAUUGAACAGCAGCGGCAAAGCAAACGGAGCUGCAACUUGCAACGUGCCCGGUCGCCCGGUGCACUGGAA-AAAAUAUCUAUA
((((((....)))))).....((((((((............)))))....)))...((((((((....)))).))))((((.-......)))).. ( -28.40)
>DroYak_CAF1 107891 94 - 1
AAUGGCAACGGCCAUUGAACAGCAGCGGCCAAGCAAACGGAGCUGCAACUUGCAACGUGCCCGGUCUCCCGGUGCACUGAAA-AAAAUAUGCAUA
((((((....)))))).....(((((..((........)).)))))....((((..((((((((....)))).))))(....-).....)))).. ( -33.20)
>consensus
AAUGGCAACGGCCAUUGAACAGCAGCGGCAAAGCAAACGAAGCUGCAACUUGCAACGUGCCCGGUCUGCCGGUACACUGAAA_AAAACUGGCAUA
((((((....))))))...(((..(((((............)))))..........(((((.((....))))))).)))................ (-24.06 = -23.58 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:11 2006