Locus 382

Sequence ID	2R_DroMel_CAF1
Location	2,362,775 – 2,362,895
Length	120
Max. P	0.764484

overview

Window 9

Location	2,362,775 – 2,362,895
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.16
Mean single sequence MFE	-38.16
Consensus MFE	-29.10
Energy contribution	-29.54
Covariance contribution	0.44
Combinations/Pair	1.07
Mean z-score	-1.83
Structure conservation index	0.76
SVM decision value	0.28
SVM RNA-class probability	0.667522
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2362775 120 + 20766785
GACCCUUUUUGCGUCGGAAGAGGACGCAACACUUUCGUCCUGCGGCACAGCAAACUGUGGGAAAAUUAUGCAAAUGCUGCGGCGGCUUUACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
(((.....(((((((.......))))))).......)))..(((((((((....)))))((......(((((((((..(((..((.....))....))).)))))))))...)).)))). ( -35.30)
>DroSec_CAF1 12288 120 + 1
GCCCCUUUUUGCGUCGGAAGAGGCCGCAACACUUUCCUCCUGCGGCACAGCAAGCUGUGGGAAAAUUAUGCAAAUGCUGCGGCGGCUUCACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
.........((((..((..((((((((..........(((..((((.......))))..)))......((((.....))))))))))))......((((......))))...))..)))) ( -42.40)
>DroSim_CAF1 12399 120 + 1
GCCCCUUUUUGCGUCGGAAGAGGCCGCAACACUUUCCUCCUGCGGCACAGCAAACUGUGGGAAAAUUAUGCAAAUGCUGCGGCGGCUUCACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
.((((..(((((.((....)).((((((............))))))...)))))..).)))........((....)).((((.(((.........((((......))))..))).)))). ( -40.30)
>DroEre_CAF1 12100 119 + 1
GCCCCUUUCUGAG-CGGAAGCGGCCGCAACACUUUCAUCCUGCGGCACAGCAAACUGUGGAAAAAUUAUGCAAAUGCCGCGGCAGCCUCACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
............(-((((.(((((((((............)))).(((((....)))))................)))))(((((..........((((......)))))))))))))). ( -36.80)
>DroYak_CAF1 11783 118 + 1
GCCCCUUU-UGAG-CGGAAGAGGCCGCAACACUUUUCUCCUGCGGCACAGCAAACUGUGGAGAAAUUAUGCAAAUUCUGCGGUAGCUUCACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
........-...(-((((....((((((............))))))...(((((..((((((......((((.....))))....)))))).....(((......)))))))).))))). ( -36.00)
>consensus
GCCCCUUUUUGCGUCGGAAGAGGCCGCAACACUUUCCUCCUGCGGCACAGCAAACUGUGGGAAAAUUAUGCAAAUGCUGCGGCGGCUUCACUAAUAUGCUCAUUUGCAUUUGCCUCCGCA
(((.(((((......))))).))).................(((((((((....)))))..........((((((((....(.(((...........))))....))))))))..)))). (-29.10 = -29.54 +   0.44)

alignment

secondary structure

dotplot

Window 0

Location	2,362,775 – 2,362,895
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.16
Mean single sequence MFE	-40.86
Consensus MFE	-32.98
Energy contribution	-32.66
Covariance contribution	-0.32
Combinations/Pair	1.16
Mean z-score	-1.61
Structure conservation index	0.81
SVM decision value	0.51
SVM RNA-class probability	0.764484
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2362775 120 - 20766785
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUAAAGCCGCCGCAGCAUUUGCAUAAUUUUCCCACAGUUUGCUGUGCCGCAGGACGAAAGUGUUGCGUCCUCUUCCGACGCAAAAAGGGUC
(((((.(((..((((......)))).((....))))).)))))((....))........(((((((....))))((.((((.((....)).))))(((.......))))).....))).. ( -38.30)
>DroSec_CAF1 12288 120 - 1
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUGAAGCCGCCGCAGCAUUUGCAUAAUUUUCCCACAGCUUGCUGUGCCGCAGGAGGAAAGUGUUGCGGCCUCUUCCGACGCAAAAAGGGGC
((((..(....((((......))))......((((..((((((((((((......(((((((((((....))))).....))))))))))))))))))..)))))..))))......... ( -41.60)
>DroSim_CAF1 12399 120 - 1
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUGAAGCCGCCGCAGCAUUUGCAUAAUUUUCCCACAGUUUGCUGUGCCGCAGGAGGAAAGUGUUGCGGCCUCUUCCGACGCAAAAAGGGGC
((((..(....((((......))))......((((..((((((((((((......(((((((((((....))))).....))))))))))))))))))..)))))..))))......... ( -41.40)
>DroEre_CAF1 12100 119 - 1
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUGAGGCUGCCGCGGCAUUUGCAUAAUUUUUCCACAGUUUGCUGUGCCGCAGGAUGAAAGUGUUGCGGCCGCUUCCG-CUCAGAAAGGGGC
.((((((((..(((((((((.((....(((.....)))..))..))))))))).........((((....))))(((((((.((....)).))))))).)))))))-)............ ( -47.50)
>DroYak_CAF1 11783 118 - 1
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUGAAGCUACCGCAGAAUUUGCAUAAUUUCUCCACAGUUUGCUGUGCCGCAGGAGAAAAGUGUUGCGGCCUCUUCCG-CUCA-AAAGGGGC
.(((((((...((((((((..((....(((.....)))..))...)))))))).........((((....))))(((((((.(......).)))))))..))))))-)...-........ ( -35.50)
>consensus
UGCGGAGGCAAAUGCAAAUGAGCAUAUUAGUGAAGCCGCCGCAGCAUUUGCAUAAUUUUCCCACAGUUUGCUGUGCCGCAGGAGGAAAGUGUUGCGGCCUCUUCCGACGCAAAAAGGGGC
(((((.(((..((((......)))).((....))))).)))))((....)).......((((((((....))))(((((((.(......).))))))).................)))). (-32.98 = -32.66 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:02 2006