Locus 6262

Sequence ID	3L_DroMel_CAF1
Location	16,681,536 – 16,681,669
Length	133
Max. P	0.849972

overview

Window 6

Location	16,681,536 – 16,681,629
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	85.02
Mean single sequence MFE	-34.65
Consensus MFE	-26.77
Energy contribution	-27.80
Covariance contribution	1.03
Combinations/Pair	1.12
Mean z-score	-2.88
Structure conservation index	0.77
SVM decision value	0.78
SVM RNA-class probability	0.849972
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16681536 93 + 23771897
UACCUCGCUUCAGCGGGGAAUCAGUCAGAUGGAACGGAUAACGCCAAACGAGCCGACCACCAGUAGCACUGGUGGUGCUGGCCAUCCAUCUCU
..((((((....))))))........(((((((..((......))....(.((((((((((((.....))))))))..))))).))))))).. ( -40.30)
>DroSec_CAF1 3242 93 + 1
UACUUCGCUUCAGCGGGGAAUCAGUCAGAUGGAGAGGAUAACGCCAAACGAGCCGACCACCAGCAGCACUGGUGGUGCUGGCCAUCCAUCUCU
..((((((....))))))........(((((((..((......))....(.((((((((((((.....))))))))..))))).))))))).. ( -36.60)
>DroSim_CAF1 3037 93 + 1
UACCUCGCUUCAGCGGGGAAUCAGUCAGAUGGAAAGGAUAACGCCAAACGAGCCGACCACCAGCAGCACUGGUGGUGCUGGCCAUCCAUCUCU
..((((((....))))))........(((((((..((......))....(.((((((((((((.....))))))))..))))).))))))).. ( -39.40)
>DroEre_CAF1 3513 93 + 1
AACUUCGCUUCAGCGGGGAAUCAGUCAAAUGGAACGGAUAACGCCAAACGAGCCCACCACCACCAGCACUGGUGGUGCUGGCCAUCCAUCUUU
..((((((....))))))..........(((((..((......))....(.(((...((((((((....))))))))..)))).))))).... ( -32.40)
>DroYak_CAF1 2806 93 + 1
AACCUCGCUUCAGCGGGGAAUCAGUCAGAUGGAAAGGAUAACGCCAAACGAGCCCACUACCACCAGCACUGGUGGUGCUGGCCAUCCAUCUUU
..((((((....))))))........(((((((..((......))......(.(((.((((((((....)))))))).))).).))))))).. ( -37.80)
>DroAna_CAF1 792 84 + 1
CACCUCCCUGCAGCGGGGCAUCAGCCAAAUGGAACGCAUCACACCCAAUGAACCCGCCUCCA---------GUGGCGGCGGACAUCCCACUUU
..((.(((((..(((((((.....((....))...)).(((.......))).)))))...))---------).)).)).((.....))..... ( -21.40)
>consensus
UACCUCGCUUCAGCGGGGAAUCAGUCAGAUGGAAAGGAUAACGCCAAACGAGCCCACCACCAGCAGCACUGGUGGUGCUGGCCAUCCAUCUCU
..((((((....))))))........(((((((..((......))....(.(((.(((((((.......)))))))...)))).))))))).. (-26.77 = -27.80 +   1.03)

alignment

secondary structure

dotplot

Window 7

Location	16,681,576 – 16,681,669
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	86.74
Mean single sequence MFE	-40.95
Consensus MFE	-29.84
Energy contribution	-29.98
Covariance contribution	0.14
Combinations/Pair	1.15
Mean z-score	-2.71
Structure conservation index	0.73
SVM decision value	-0.02
SVM RNA-class probability	0.525811
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16681576 93 - 23771897
CGAGUCUCCGAAAGGAUCGUCCUCGCUGGCUGAUUUCGCUAGAGAUGGAUGGCCAGCACCACCAGUGCUACUGGUGGUCGGCUCGUUUGGCGU
(((((((((....)))........(((((((((((((....)))))...))))))))((((((((.....)))))))).))))))........ ( -42.90)
>DroSec_CAF1 3282 93 - 1
UGAGUCUCCGAAAGGAUCGUCCUCGCUGGCUGAUUUUGCUAGAGAUGGAUGGCCAGCACCACCAGUGCUGCUGGUGGUCGGCUCGUUUGGCGU
.((((((((....)))((((((((.(((((.......))))).)).))))))...(.((((((((.....))))))))))))))......... ( -42.40)
>DroSim_CAF1 3077 93 - 1
UGAGUCUCCGAAAGGAUCGUCCUCGCUGGCUGAUUUUGCUAGAGAUGGAUGGCCAGCACCACCAGUGCUGCUGGUGGUCGGCUCGUUUGGCGU
.((((((((....)))((((((((.(((((.......))))).)).))))))...(.((((((((.....))))))))))))))......... ( -42.40)
>DroEre_CAF1 3553 93 - 1
UGAGUCUCCGAAAGGAUCGUCCUCGCUGGCGGAUUUCGCUAAAGAUGGAUGGCCAGCACCACCAGUGCUGGUGGUGGUGGGCUCGUUUGGCGU
.((((.(((....)))((((((((..(((((.....)))))..)).))))))(((.((((((((....)))))))).)))))))......... ( -44.60)
>DroYak_CAF1 2846 93 - 1
UGAGUCUCCGAAAGGAUCGUCCUCGCUGGCUGACUUCGCUAAAGAUGGAUGGCCAGCACCACCAGUGCUGGUGGUAGUGGGCUCGUUUGGCGU
...((((((....)))..((((.(((((((((.((((......)).)).))))))))(((((((....))))))).).))))......))).. ( -40.80)
>DroAna_CAF1 832 84 - 1
CGAGUCUCCGAAGGGAUCGUCUUCGCUGGCGGAUUUGGCCAAAGUGGGAUGUCCGCCGCCAC---------UGGAGGCGGGUUCAUUGGGUGU
.((..((((....))).((((((((.((((((......((......)).......)))))).---------)))))))))..))......... ( -32.62)
>consensus
UGAGUCUCCGAAAGGAUCGUCCUCGCUGGCUGAUUUCGCUAAAGAUGGAUGGCCAGCACCACCAGUGCUGCUGGUGGUCGGCUCGUUUGGCGU
.((((((((....))).(((((((..((((.......))))..)).)))))......(((((((.......))))))).)))))......... (-29.84 = -29.98 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:09 2006