Locus 3778

Sequence ID	3L_DroMel_CAF1
Location	10,912,282 – 10,912,383
Length	101
Max. P	0.999097

overview

Window 1

Location	10,912,282 – 10,912,383
Length	101
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	97.04
Mean single sequence MFE	-32.90
Consensus MFE	-30.63
Energy contribution	-30.68
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-1.91
Structure conservation index	0.93
SVM decision value	2.61
SVM RNA-class probability	0.995774
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10912282 101 + 23771897
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG-CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCAAAAUUAAUUUU
.(((...(((((((((((..(((((((....)))))))..))))).((-((.((((((....)))))).))))))))))...(....))))........... ( -34.70)
>DroSec_CAF1 45318 101 + 1
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG-CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((...(((((((((((..(((((((....)))))))..))))).((-((.((((((....)))))).))))))))))...(....))))........... ( -34.00)
>DroSim_CAF1 40819 101 + 1
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG-CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((...(((((((((((..(((((((....)))))))..))))).((-((.((((((....)))))).))))))))))...(....))))........... ( -34.00)
>DroEre_CAF1 45287 101 + 1
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG-CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((...(((((((((((..(((((((....)))))))..))))).((-((.((((((....)))))).))))))))))...(....))))........... ( -34.00)
>DroYak_CAF1 44153 101 + 1
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG-CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((...(((((((((((..(((((((....)))))))..))))).((-((.((((((....)))))).))))))))))...(....))))........... ( -34.00)
>DroAna_CAF1 36257 102 + 1
GUGCAGCUGUUGCAAAAUCUUUUCCGCUGCUGUGGCAGCCAUUUUCCUUUUGGCCAGACCGCUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((.(((((..((................))..))))).......((((((....(.((((((....)))))))..)))))).....)))........... ( -26.69)
>consensus
CUGCAGCUGUUGCAAAAUCUUUGCCGCUGCUGUGGCAGCCAUUUUCCG_CUGGCCUGGCCACUUAGGUGAGCGGCAACAAAAGACAUCGCGAAAUUAAUUUU
.(((.((....)).......((((((((((((((((.((((.........))))...)))))...))).))))))))...........)))........... (-30.63 = -30.68 +   0.06)

alignment

secondary structure

dotplot

Window 2

Location	10,912,282 – 10,912,383
Length	101
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	97.04
Mean single sequence MFE	-33.87
Consensus MFE	-31.75
Energy contribution	-31.95
Covariance contribution	0.20
Combinations/Pair	1.04
Mean z-score	-2.21
Structure conservation index	0.94
SVM decision value	3.37
SVM RNA-class probability	0.999097
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10912282 101 - 23771897
AAAAUUAAUUUUGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG-CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
..........((((((.(((((....(((((((...((..(((((..(((((.-.......)))))))))))).)))))))))))).))))))......... ( -36.00)
>DroSec_CAF1 45318 101 - 1
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG-CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
............((((.(((((....(((((((...((..(((((..(((((.-.......)))))))))))).)))))))))))).))))........... ( -34.80)
>DroSim_CAF1 40819 101 - 1
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG-CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
............((((.(((((....(((((((...((..(((((..(((((.-.......)))))))))))).)))))))))))).))))........... ( -34.80)
>DroEre_CAF1 45287 101 - 1
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG-CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
............((((.(((((....(((((((...((..(((((..(((((.-.......)))))))))))).)))))))))))).))))........... ( -34.80)
>DroYak_CAF1 44153 101 - 1
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG-CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
............((((.(((((....(((((((...((..(((((..(((((.-.......)))))))))))).)))))))))))).))))........... ( -34.80)
>DroAna_CAF1 36257 102 - 1
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGCGGUCUGGCCAAAAGGAAAAUGGCUGCCACAGCAGCGGAAAAGAUUUUGCAACAGCUGCAC
((((((..((((((....(((((((..((((((......)))))).....)))))))......((((...)))).))))))..))))))(((.....))).. ( -28.00)
>consensus
AAAAUUAAUUUCGCGAUGUCUUUUGUUGCCGCUCACCUAAGUGGCCAGGCCAG_CGGAAAAUGGCUGCCACAGCAGCGGCAAAGAUUUUGCAACAGCUGCAG
............((((.(((((....(((((((...((..(((((..(((((.........)))))))))))).)))))))))))).))))........... (-31.75 = -31.95 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:25 2006