Locus 5746

Sequence ID	2L_DroMel_CAF1
Location	16,370,482 – 16,370,620
Length	138
Max. P	0.976017

overview

Window 1

Location	16,370,482 – 16,370,596
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-27.03
Consensus MFE	-23.13
Energy contribution	-22.82
Covariance contribution	-0.31
Combinations/Pair	1.07
Mean z-score	-2.49
Structure conservation index	0.86
SVM decision value	1.76
SVM RNA-class probability	0.976017
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16370482 114 + 22407834
UAUAUG--AAAAAAUACC---AAAAUCGGUUAAUGUUUAUUGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCGG
...(((--((.....(((---......))).....)))))...(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)... ( -26.80)
>DroVir_CAF1 29851 114 + 1
UUUAUG--AAAAAAUACC---AAAAUCGGUUAAUGUUUAUUGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CUGG
((.(((--((.....(((---......))).....))))).))(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)... ( -27.00)
>DroPse_CAF1 39987 116 + 1
UAUAUGAGAAAAAAUACC---AAAAUCGGUUAAUGUUUAUUGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCGG
..................---.....(((((((((........(((((((((...(((((((.....)))))))...)))))))))........))))).((((......)))))-))). ( -26.29)
>DroGri_CAF1 60278 114 + 1
UUUAUG--AAAAAAUACC---AAAAUCGGUUAAUGUUUAUUGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCAG
((.(((--((.....(((---......))).....))))).))(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)... ( -26.60)
>DroWil_CAF1 50433 118 + 1
GUUAUG--AAAAAAUACCGAAAAAAUCGGUUAAUGUUUAUUGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCAACCGG
...(((--((.....(((((.....))))).....)))))...(((((((((...(((((((.....)))))))...))))))))).............(((((......)))))..... ( -28.10)
>DroMoj_CAF1 46960 114 + 1
UUUAUG--AAAAAAUACC---AAAAUCGGUUAAUGUUUAUUGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCA-CUGC
((.(((--((.....(((---......))).....))))).))(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)... ( -27.40)
>consensus
UUUAUG__AAAAAAUACC___AAAAUCGGUUAAUGUUUAUUGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG_CCGG
..........................(((.(((((........(((((((((...(((((((.....)))))))...)))))))))........))))).((((......))))..))). (-23.13 = -22.82 +  -0.31)

alignment

secondary structure

dotplot

Window 2

Location	16,370,517 – 16,370,620
Length	103
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.07
Mean single sequence MFE	-25.13
Consensus MFE	-20.30
Energy contribution	-20.05
Covariance contribution	-0.25
Combinations/Pair	1.05
Mean z-score	-2.47
Structure conservation index	0.81
SVM decision value	1.58
SVM RNA-class probability	0.965162
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16370517 103 + 22407834
UGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCGGC---CCUG-AA-AACGCACCC-----------CAAUCCUA
...(((((((((...(((((((.....)))))))...)))))))))............((((.......((((.(-....)---))))-..-...))))..-----------........ ( -24.50)
>DroVir_CAF1 29886 92 + 1
UGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CUGGCAAACCUGGGA---------------------CA------
...(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)..............---------------------..------ ( -23.30)
>DroGri_CAF1 60313 92 + 1
UGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCAGCAAACCUUGAA---------------------CC------
...(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-)..............---------------------..------ ( -22.90)
>DroWil_CAF1 50471 116 + 1
UGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCAACCGGC---GAUA-CAGUAUCCACGGCAUCCAUAGACCAUCCAUA
...(((((((((...(((((((.....)))))))...)))))))))(((((...((((((((((......)))).....))---))))-..)))))...(((.......).))....... ( -26.90)
>DroMoj_CAF1 46995 92 + 1
UGAAAAGGCAUAAAAUUCGUUCUACUAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCA-CUGCAAAACCUGGCA---------------------CA------
...(((((((((...(((((((.....)))))))...)))))))))...........((((((....(((((...-)))))......))))---------------------))------ ( -27.80)
>DroPer_CAF1 41379 104 + 1
UGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG-CCGGC---CCUGGAA-AACGCACCC-----------CAAACCUU
...(((((((((...(((((((.....)))))))...)))))))))............((((((......)))))-).((.---..(((..-........)-----------))..)).. ( -25.40)
>consensus
UGAAAAAGCAUAAAAUUCGUUCUACCAGAAUGGAAAAUAUGCUUUUGAUACAAUUAUUGUGCCUAUCUGCAGGCG_CCGGC___CCUGGAA_____________________CA______
...(((((((((...(((((((.....)))))))...)))))))))..............((((......)))).............................................. (-20.30 = -20.05 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:41 2006