Locus 5902

Sequence ID	2R_DroMel_CAF1
Location	18,627,335 – 18,627,444
Length	109
Max. P	0.888033

overview

Window 5

Location	18,627,335 – 18,627,444
Length	109
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	88.81
Mean single sequence MFE	-26.20
Consensus MFE	-19.40
Energy contribution	-20.12
Covariance contribution	0.72
Combinations/Pair	1.07
Mean z-score	-1.70
Structure conservation index	0.74
SVM decision value	0.18
SVM RNA-class probability	0.619416
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18627335 109 + 20766785
GAAAAAACUAUACCAUGAAG------AUAUUUUCCAUCAGGGAAAACUCUGCUCCACACGCAGAGGUAAUUGACUUUGAAAUGAGCUCCCCUUGGCUGGAACUUCAGAAGCAUAA
...............(((((------.....(((((((((((....((((((.......))))))......(((((......))).)).)))))).))))))))))......... ( -26.10)
>DroSec_CAF1 38064 108 + 1
GAA-AAACUAUGCCAUGAAG------AUAUUUUCCAUCAGGGAAAACUCUGCUCCACACGCAGAGGUAAUUGACUUUGAAAUGAGCUCCCCUUGGCUGGAACUUCAGAUGCAUAA
...-....(((((..(((((------.....(((((((((((....((((((.......))))))......(((((......))).)).)))))).))))))))))...))))). ( -31.90)
>DroSim_CAF1 32626 108 + 1
GAA-AAACUACACCAUGAAG------AUAUUUUCCAUCAGGGAAAACUCUGCUCCACACGCAGAGGUAAUUGACUUUGAAAUGAGCUCCCCUUGGCUGGAACUUCAGAUGCAUAA
...-...........(((((------.....(((((((((((....((((((.......))))))......(((((......))).)).)))))).))))))))))......... ( -26.10)
>DroEre_CAF1 40271 114 + 1
CGA-AAACUAUACCAUGAAUUUUCCAUCAUUUUCCAUCAGAGAAAACUCUGCCAUACAUGCAGAGGUAAUUGACUUUGAAAUGAGCUCCCCUUGGCUGGAACCUCAGAUGCAUAA
...-...........(((...((((((((((((...((((..(...((((((.......)))))).)..))))....)))))))(((......))))))))..)))......... ( -21.60)
>DroYak_CAF1 36936 108 + 1
CAA-AAACUGUACCAUGAAG------ACAGUUUCCAUCAGAGAAAACUCCGCCAUACAUGAGGAGGUAAUUGACUUUGAAAUGAGCUUCCCUUGGCUGGAACCUCAGAUGCAUAA
...-(((((((.........------))))))).((((.(((.....(((((((.....(.((((((.(((........)))..))))))).)))).)))..))).))))..... ( -25.30)
>consensus
GAA_AAACUAUACCAUGAAG______AUAUUUUCCAUCAGGGAAAACUCUGCUCCACACGCAGAGGUAAUUGACUUUGAAAUGAGCUCCCCUUGGCUGGAACUUCAGAUGCAUAA
...............(((((...........(((((((((((....((((((.......))))))......(((((......))).)).)))))).))))))))))......... (-19.40 = -20.12 +   0.72)

alignment

secondary structure

dotplot

Window 6

Location	18,627,335 – 18,627,444
Length	109
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	88.81
Mean single sequence MFE	-30.31
Consensus MFE	-26.26
Energy contribution	-25.58
Covariance contribution	-0.68
Combinations/Pair	1.19
Mean z-score	-1.65
Structure conservation index	0.87
SVM decision value	0.95
SVM RNA-class probability	0.888033
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18627335 109 - 20766785
UUAUGCUUCUGAAGUUCCAGCCAAGGGGAGCUCAUUUCAAAGUCAAUUACCUCUGCGUGUGGAGCAGAGUUUUCCCUGAUGGAAAAUAU------CUUCAUGGUAUAGUUUUUUC
(((((((..((((((((((....(((((((((........))).......((((((.......))))))..))))))..))))).....------))))).)))))))....... ( -30.80)
>DroSec_CAF1 38064 108 - 1
UUAUGCAUCUGAAGUUCCAGCCAAGGGGAGCUCAUUUCAAAGUCAAUUACCUCUGCGUGUGGAGCAGAGUUUUCCCUGAUGGAAAAUAU------CUUCAUGGCAUAGUUU-UUC
((((((...((((((((((....(((((((((........))).......((((((.......))))))..))))))..))))).....------)))))..))))))...-... ( -32.00)
>DroSim_CAF1 32626 108 - 1
UUAUGCAUCUGAAGUUCCAGCCAAGGGGAGCUCAUUUCAAAGUCAAUUACCUCUGCGUGUGGAGCAGAGUUUUCCCUGAUGGAAAAUAU------CUUCAUGGUGUAGUUU-UUC
...((((((((((((((((....(((((((((........))).......((((((.......))))))..))))))..))))).....------))))).))))))....-... ( -32.70)
>DroEre_CAF1 40271 114 - 1
UUAUGCAUCUGAGGUUCCAGCCAAGGGGAGCUCAUUUCAAAGUCAAUUACCUCUGCAUGUAUGGCAGAGUUUUCUCUGAUGGAAAAUGAUGGAAAAUUCAUGGUAUAGUUU-UCG
((((((...((((.((((.......)))).))))((((...((((.....((((((.......))))))((((((.....)))))))))).)))).......))))))...-... ( -29.00)
>DroYak_CAF1 36936 108 - 1
UUAUGCAUCUGAGGUUCCAGCCAAGGGAAGCUCAUUUCAAAGUCAAUUACCUCCUCAUGUAUGGCGGAGUUUUCUCUGAUGGAAACUGU------CUUCAUGGUACAGUUU-UUG
.(((((((..(((((..........((((.....))))..........)))))...))))))).(((((....)))))..(((((((((------((....)).)))))))-)). ( -27.05)
>consensus
UUAUGCAUCUGAAGUUCCAGCCAAGGGGAGCUCAUUUCAAAGUCAAUUACCUCUGCGUGUGGAGCAGAGUUUUCCCUGAUGGAAAAUAU______CUUCAUGGUAUAGUUU_UUC
((((((...((((((((((....(((((((((........))).......((((((.......))))))..))))))..)))))...........)))))..))))))....... (-26.26 = -25.58 +  -0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:43 2006