Locus 2697

Sequence ID	X_DroMel_CAF1
Location	7,224,760 – 7,224,895
Length	135
Max. P	0.641431

overview

Window 5

Location	7,224,760 – 7,224,857
Length	97
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	78.87
Mean single sequence MFE	-25.07
Consensus MFE	-14.17
Energy contribution	-15.25
Covariance contribution	1.08
Combinations/Pair	1.00
Mean z-score	-1.78
Structure conservation index	0.57
SVM decision value	0.22
SVM RNA-class probability	0.641431
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7224760 97 + 22224390
CA-AUGAUAACCCCUCA----AAGAGGGGGU--UUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
..-.(((.(((((((..----....))))))--)..))).((((.((((.((((((....(((....))))))))))))).)((((....))))....)))... ( -27.20)
>DroPse_CAF1 1503 78 + 1
------------CCUUCG-----------UG--CAGCAGCAGCGGGUU-GCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
------------......-----------((--(((.(((((((.(((-(((((((....(((....))))))))))))).))).......))))..))))).. ( -23.81)
>DroSim_CAF1 1266 97 + 1
CA-AUGAUAACCCCUCA----AAGAGGGGAU--UUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
((-((((...((((((.----..))))))..--.......((.(.((((.((((((....(((....))))))))))))).)))..........)))))).... ( -26.20)
>DroEre_CAF1 1236 97 + 1
CA-AUGAUAGCCCCUUC----AAAAGGGGGC--UUUUCACGCCGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
..-.(((.(((((((..----....))))))--)..)))....(.((((.((((((....(((....))))))))))))).)((((((......))).)))... ( -28.90)
>DroYak_CAF1 1944 104 + 1
CAAAUGAUAACCCCUUCGCAAAAACGGGGGCCUUUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
.......(((((((((((......)))))((.........)).))))))(((((((....(((....))))))))))...(((.((((......)))))))... ( -22.40)
>DroAna_CAF1 1233 88 + 1
GGAACGAC--CCCCUUCG----------GCU--CCGUGGCAACGGGUU-GCAUG-GUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
(((.(((.--.....)))----------..)--))...((((.(.(((-(((((-((((.......))))))..)))))).)((((....))))...))))... ( -21.90)
>consensus
CA_AUGAUAACCCCUUC____AA_AGGGGGU__UUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAU
..........((((...........))))..............(.(((.((((((((((.......))).)))))))))).)((((((......))).)))... (-14.17 = -15.25 +   1.08)

alignment

secondary structure

dotplot

Window 6

Location	7,224,779 – 7,224,895
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.38
Mean single sequence MFE	-25.08
Consensus MFE	-16.17
Energy contribution	-16.28
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-1.54
Structure conservation index	0.64
SVM decision value	0.03
SVM RNA-class probability	0.550003
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7224779 116 + 22224390
AGGGGGU--UUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAUAAUCCGAUGCAAAUUUGCAAAAACUCAAACUGACA--CAA
((.((((--((((...((((.((((.((((((....(((....))))))))))))).)((((.(((((((.....)).)))))...)))).....)))))))))))...))....--... ( -26.20)
>DroVir_CAF1 23838 100 + 1
UGGGGAG--UU--------GUGUU-GCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCUCGCAUAAUUAUGUUUAUUGCAAUAAUCUGAUGCGAAUUUUCAA-AACACAAACUG--------
((..((.--..--------..(((-(((((((....(((....)))))))))))))((((((.(((((((.....)).)))))...)))))).))..)).-...........-------- ( -25.10)
>DroPse_CAF1 1509 112 + 1
-----UG--CAGCAGCAGCGGGUU-GCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAUAAUCCGAUGCAAAUUUUCCAAAACUCCAACUGACACACAA
-----((--(((.....(((.(((-(((((((....(((....))))))))))))).))).............(((((.........))))).................))).))..... ( -26.10)
>DroYak_CAF1 1968 118 + 1
CGGGGGCCUUUUUCACGCAGGGUUGGCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAUAAUCCGAUGCAAAUUUGCAAAAACUCAAACUGACA--CAA
.....(((...(((.....)))..))).((((((...((((.......(((((.....))))).....((((.((((((...............))))))))))))))...))))--)). ( -23.96)
>DroMoj_CAF1 26811 100 + 1
UGGGGAG--UU--------GUGUU-GCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCUCGCAUAAUUAUGUUUAUUGCAAUAAUCUGAUGCAAAUUUUCAA-AACUCAAACUG--------
.((.(((--((--------(.(((-(((((((....(((....))))))))))))).)((((.(((((((.....)).)))))...))))..........-)))))...)).-------- ( -25.00)
>DroAna_CAF1 1249 110 + 1
----GCU--CCGUGGCAACGGGUU-GCAUG-GUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAUAAUCCGAUGCAAAUUCGCAAAAACUCAAACUGACA--CAA
----...--..((((((.((((((-(((((-((((.......))))))..))))))(((.((((......)))))))......))).)))..............((.....))))--).. ( -24.10)
>consensus
_GGGGAG__UU_U__C___GGGUU_GCAUGUGUUUAAUUGAAAAAUCAUAUGCAGCGCGCAUAAUUAUGUUUAUUGCAAUAAUCCGAUGCAAAUUUGCAAAAACUCAAACUGACA__CAA
...................(((((.((((((((((.......))).))))))).....((((.(((((((.....)).)))))...))))...........))))).............. (-16.17 = -16.28 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:11 2006