Locus 4919

Sequence ID	2L_DroMel_CAF1
Location	14,073,036 – 14,073,133
Length	97
Max. P	0.827192

overview

Window 6

Location	14,073,036 – 14,073,133
Length	97
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	76.65
Mean single sequence MFE	-21.90
Consensus MFE	-11.96
Energy contribution	-11.76
Covariance contribution	-0.20
Combinations/Pair	1.35
Mean z-score	-1.95
Structure conservation index	0.55
SVM decision value	0.70
SVM RNA-class probability	0.827192
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14073036 97 + 22407834
----AGGUUUUUUAAUUAAAUUAAAGAAGUAACAUCUUCGCGAUCUUAAGGCACUCGAUUUUUAUUGAGAGCCCUAUGAAUUCAAAAAGAGUAAUGCAUAG
----(((((.((((((...))))))((((......))))..)))))...(((.((((((....)))))).)))(((((.((((.....))))....))))) ( -19.10)
>DroSec_CAF1 161731 97 + 1
----AGGUUUUUUAAUUAAAUUUAAGAAGUAACAUCUUCGCGAUCUUGAGGCUCUCGAUUUUUAUUGAGAGCCCUAUGAAUUCAAAAAGAGUAAUGCAUAG
----...........((((..((..((((......))))..))..))))((((((((((....))))))))))(((((.((((.....))))....))))) ( -24.10)
>DroSim_CAF1 162658 97 + 1
----AGGUUUUUUAAUUAAAUUAAAGAAGUAACAUCUUCGCGAUCUUAAGGCUCUCGAUUUUUAUUGAGAGCCCUAUGAACUCAAAAAGAGUAAUGCAUAG
----(((((.((((((...))))))((((......))))..)))))...((((((((((....))))))))))(((((.((((.....))))....))))) ( -26.30)
>DroEre_CAF1 164560 96 + 1
GCGUAAGAAGCGAAAUUAAACUAAGGGAGUAACAAUUUCUCGAACUUAAGGAACUCGAUAUUCAUAGAGAGCC-----GAUUACUAUAGAGUAACAAAUAG
...((((..(.((((((..(((.....)))...)))))).)...)))).((..(((..........)))..))-----(.(((((....))))))...... ( -12.60)
>DroYak_CAF1 172052 101 + 1
GCGUAAGAUGUGAAAUUAAAUUAAACGAGUUACUUCUCAUCGAUCUUGAGGAACUCGACUUUUAUUGAGAGUCCUUUAGAUUCGAAUGGAGUAACGAAUAG
.(((..(((..........)))..))).((((((((...(((((((.(((((.(((((......)))))..))))).))).))))..))))))))...... ( -27.40)
>consensus
____AGGUUUUUUAAUUAAAUUAAAGAAGUAACAUCUUCGCGAUCUUAAGGCACUCGAUUUUUAUUGAGAGCCCUAUGAAUUCAAAAAGAGUAAUGCAUAG
.........................((((......))))(((.......(((.((((((....)))))).)))......((((.....))))..))).... (-11.96 = -11.76 +  -0.20)

alignment

secondary structure

dotplot

Window 7

Location	14,073,036 – 14,073,133
Length	97
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	76.65
Mean single sequence MFE	-18.60
Consensus MFE	-5.64
Energy contribution	-6.12
Covariance contribution	0.48
Combinations/Pair	1.23
Mean z-score	-1.83
Structure conservation index	0.30
SVM decision value	0.22
SVM RNA-class probability	0.641196
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14073036 97 - 22407834
CUAUGCAUUACUCUUUUUGAAUUCAUAGGGCUCUCAAUAAAAAUCGAGUGCCUUAAGAUCGCGAAGAUGUUACUUCUUUAAUUUAAUUAAAAAACCU----
.........(((((((.(((..((.((((((.(((..........))).)))))).))))).))))).))...........................---- ( -17.10)
>DroSec_CAF1 161731 97 - 1
CUAUGCAUUACUCUUUUUGAAUUCAUAGGGCUCUCAAUAAAAAUCGAGAGCCUCAAGAUCGCGAAGAUGUUACUUCUUAAAUUUAAUUAAAAAACCU----
.........(((((((.(((..((.(..(((((((..........)))))))..).))))).))))).))...........................---- ( -18.00)
>DroSim_CAF1 162658 97 - 1
CUAUGCAUUACUCUUUUUGAGUUCAUAGGGCUCUCAAUAAAAAUCGAGAGCCUUAAGAUCGCGAAGAUGUUACUUCUUUAAUUUAAUUAAAAAACCU----
....((...((((.....))))((.((((((((((..........)))))))))).))..))((((......)))).....................---- ( -24.30)
>DroEre_CAF1 164560 96 - 1
CUAUUUGUUACUCUAUAGUAAUC-----GGCUCUCUAUGAAUAUCGAGUUCCUUAAGUUCGAGAAAUUGUUACUCCCUUAGUUUAAUUUCGCUUCUUACGC
.................((((..-----(((............((((..(.....)..))))(((((((..(((.....))).))))))))))..)))).. ( -13.80)
>DroYak_CAF1 172052 101 - 1
CUAUUCGUUACUCCAUUCGAAUCUAAAGGACUCUCAAUAAAAGUCGAGUUCCUCAAGAUCGAUGAGAAGUAACUCGUUUAAUUUAAUUUCACAUCUUACGC
......((((((((((.(((.(((..(((((((............))).))))..))))))))).).))))))............................ ( -19.80)
>consensus
CUAUGCAUUACUCUUUUUGAAUUCAUAGGGCUCUCAAUAAAAAUCGAGUGCCUUAAGAUCGCGAAGAUGUUACUUCUUUAAUUUAAUUAAAAAACCU____
...........................((((.(((.((....)).))).)))).........((((......))))......................... ( -5.64 =  -6.12 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:03 2006