Locus 2183

Sequence ID	3L_DroMel_CAF1
Location	5,948,938 – 5,949,029
Length	91
Max. P	0.934451

overview

Window 4

Location	5,948,938 – 5,949,029
Length	91
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	74.96
Mean single sequence MFE	-14.38
Consensus MFE	-8.60
Energy contribution	-9.52
Covariance contribution	0.92
Combinations/Pair	1.06
Mean z-score	-1.81
Structure conservation index	0.60
SVM decision value	1.11
SVM RNA-class probability	0.917172
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5948938 91 + 23771897
UUUGCAUAUAUAUGUGUA-UACUUUGAUUUAGUUUUUAUGCAAAUCAUAUUUAUUUGGCCCUAUGUGAUUUAGUGUUC-CACUGAUUUACGUC
..((((((....))))))-.....((((((.((......))))))))...............((((((.((((((...-)))))).)))))). ( -15.80)
>DroVir_CAF1 10178 75 + 1
-----------------U-CAGCCUGAUUCUGUUUUUAUGCAAAUCAUAUUUAUUUGAUUAUUUGUGAUUUAGCGUUUGCUCUGAUUUACGUC
-----------------.-..((.(((.((.((....((((((((((((..((......))..)))))))).))))..))...)).))).)). ( -13.70)
>DroGri_CAF1 45223 75 + 1
-----------------U-CAGUUUGAUUUAGUUUUUAUGCAAAUCAUAUUUAUUUGAUUAUAUGUGAUUUACUGUUGCGUCUGAUUUACGCC
-----------------.-((((........((......))(((((((((.((......)).)))))))))))))..((((.......)))). ( -11.90)
>DroEre_CAF1 7182 83 + 1
UUUGCAUA--------UA-UACUUUGAUUUAGUUUUUAUGCAAAUCAUAUUUAUUUGGCCCUAUGUGAUUUAGUGUUC-CACUGAUUUACGUC
((((((((--------..-.(((.......)))...))))))))..................((((((.((((((...-)))))).)))))). ( -18.00)
>DroWil_CAF1 49995 86 + 1
UUUGGGUAUUUA----UUUUUUUGUGAUUUCGUUUUUAUGCAAAUCAUAUUUAUUUGAU--UAUGUGAUUUAGUGUUU-GGCUGAUUUACGUC
.....(((.(((----..(...(((((((((((....))).))))))))...)..))).--)))((((.(((((....-.))))).))))... ( -14.80)
>DroAna_CAF1 7081 83 + 1
UAUACUAC--------AA-UACUUAGAUUUAGUUUUUAUGCAAAUCAUAUUUAUUUGGCUCUGUGUGAUUUAGUGUCC-CACUGAUUUACGUC
....(((.--------((-((..(((((((.((......))))))).))..)))))))......((((.((((((...-)))))).))))... ( -12.10)
>consensus
UUUGC_UA________UA_UACUUUGAUUUAGUUUUUAUGCAAAUCAUAUUUAUUUGACUCUAUGUGAUUUAGUGUUC_CACUGAUUUACGUC
.........................(((((.((......))))))).................(((((.((((((....)))))).))))).. ( -8.60 =  -9.52 +   0.92)

alignment

secondary structure

dotplot

Window 5

Location	5,948,938 – 5,949,029
Length	91
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	74.96
Mean single sequence MFE	-10.09
Consensus MFE	-6.15
Energy contribution	-6.15
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.61
SVM decision value	1.24
SVM RNA-class probability	0.934451
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5948938 91 - 23771897
GACGUAAAUCAGUG-GAACACUAAAUCACAUAGGGCCAAAUAAAUAUGAUUUGCAUAAAAACUAAAUCAAAGUA-UACACAUAUAUAUGCAAA
...((((((((.((-(....(((.......)))..)))........)))))))).................(((-((........)))))... ( -13.00)
>DroVir_CAF1 10178 75 - 1
GACGUAAAUCAGAGCAAACGCUAAAUCACAAAUAAUCAAAUAAAUAUGAUUUGCAUAAAAACAGAAUCAGGCUG-A-----------------
...((((((((.(((....)))........................)))))))).......(((.......)))-.----------------- (  -9.81)
>DroGri_CAF1 45223 75 - 1
GGCGUAAAUCAGACGCAACAGUAAAUCACAUAUAAUCAAAUAAAUAUGAUUUGCAUAAAAACUAAAUCAAACUG-A-----------------
.((((.......))))....((((((((.((.((......)).)).))))))))....................-.----------------- ( -11.10)
>DroEre_CAF1 7182 83 - 1
GACGUAAAUCAGUG-GAACACUAAAUCACAUAGGGCCAAAUAAAUAUGAUUUGCAUAAAAACUAAAUCAAAGUA-UA--------UAUGCAAA
..((((......((-(....(((.......)))..)))......)))).((((((((.(.(((.......))).-).--------)))))))) ( -12.20)
>DroWil_CAF1 49995 86 - 1
GACGUAAAUCAGCC-AAACACUAAAUCACAUA--AUCAAAUAAAUAUGAUUUGCAUAAAAACGAAAUCACAAAAAAA----UAAAUACCCAAA
...((((((((...-.................--............)))))))).......................----............ (  -6.25)
>DroAna_CAF1 7081 83 - 1
GACGUAAAUCAGUG-GGACACUAAAUCACACAGAGCCAAAUAAAUAUGAUUUGCAUAAAAACUAAAUCUAAGUA-UU--------GUAGUAUA
...((((((((.((-(....)))..((.....))............))))))))....................-..--------........ (  -8.20)
>consensus
GACGUAAAUCAGUG_GAACACUAAAUCACAUAGAACCAAAUAAAUAUGAUUUGCAUAAAAACUAAAUCAAAGUA_AA________UA_GCAAA
...((((((((...................................))))))))....................................... ( -6.15 =  -6.15 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:16 2006