Locus 6388

Sequence ID	3L_DroMel_CAF1
Location	17,099,198 – 17,099,300
Length	102
Max. P	0.999918

overview

Window 9

Location	17,099,198 – 17,099,300
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	93.13
Mean single sequence MFE	-20.72
Consensus MFE	-18.02
Energy contribution	-18.30
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-1.60
Structure conservation index	0.87
SVM decision value	1.24
SVM RNA-class probability	0.935025
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17099198 102 + 23771897
AUAUGUAGGCUGCUUAUUCAAGCAUUAUCUUUGUUCAUUUCCUUUUACACUUUGCAAAAUGAAAUGAAUGAUUUUGCCGCUUAUUCCGUUGGAGUUUUUAUU
.......((((((((....)))))......(..((((((((.((((.(.....).)))).))))))))..)....)))....(((((...)))))....... ( -20.60)
>DroSec_CAF1 58791 102 + 1
AUAUGUAGGCUGCUUAUUCAAGCAUUAUCUUUGUUCAUUUCCUUUUACACUUUGCAAAAUGAAAUGAAUGAUUCUGCGGCUUAUUCCGUUGGAGUUUUUAUU
....(((((((((....(((.(((.......)))(((((((.((((.(.....).)))).))))))).)))....)))))))))(((...)))......... ( -21.60)
>DroSim_CAF1 60783 102 + 1
AUAUGUAGGCUGCUUAUUCAAGCAUUAUCUUUGUUCAUUUCCUUUUACACUUUGCGAAAUGAAGUGAAUGAUUCUGCCGCUUAUUCCGUUGGAGUUUUUAUU
.......((((((((....)))))......(..((((((((.(((..(.....)..))).))))))))..)....)))....(((((...)))))....... ( -21.70)
>DroEre_CAF1 57524 100 + 1
AUAUGUAGGCUGCUUAUUCAAGCAUUAUCGUUGUUCAUUUCCUUUUACACUUUGCAAAAUGAAAUGAAUGAUUCUGCCGCUUAUCCCGUGGGAGUU-U-CUU
.......((((((((....))))).....((..((((((((.((((.(.....).)))).))))))))..))...))).....(((....)))...-.-... ( -23.40)
>DroYak_CAF1 60325 101 + 1
GUAUGUAGGCUGCUUAUUCAAGCAUUAUCUUUGUUCAUUUCCUUUUACACUUUGCAAAAUGAAACGAAUGAUUCUGCCAUUUAUUCCAUGGGAGUUCU-UUU
.......((((((((....)))))......(..(((.((((.((((.(.....).)))).)))).)))..)....)))....(((((...)))))...-... ( -16.30)
>consensus
AUAUGUAGGCUGCUUAUUCAAGCAUUAUCUUUGUUCAUUUCCUUUUACACUUUGCAAAAUGAAAUGAAUGAUUCUGCCGCUUAUUCCGUUGGAGUUUUUAUU
.......((((((((....)))))......(..((((((((.((((.(.....).)))).))))))))..)....)))....(((((...)))))....... (-18.02 = -18.30 +   0.28)

alignment

secondary structure

dotplot

Window 0

Location	17,099,198 – 17,099,300
Length	102
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	93.13
Mean single sequence MFE	-20.54
Consensus MFE	-19.46
Energy contribution	-19.74
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-2.48
Structure conservation index	0.95
SVM decision value	4.55
SVM RNA-class probability	0.999918
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17099198 102 - 23771897
AAUAAAAACUCCAACGGAAUAAGCGGCAAAAUCAUUCAUUUCAUUUUGCAAAGUGUAAAAGGAAAUGAACAAAGAUAAUGCUUGAAUAAGCAGCCUACAUAU
.........(((...)))......(((.......((((((((.((((((.....)))))).)))))))).........(((((....))))))))....... ( -21.90)
>DroSec_CAF1 58791 102 - 1
AAUAAAAACUCCAACGGAAUAAGCCGCAGAAUCAUUCAUUUCAUUUUGCAAAGUGUAAAAGGAAAUGAACAAAGAUAAUGCUUGAAUAAGCAGCCUACAUAU
...............((......))((.......((((((((.((((((.....)))))).)))))))).........(((((....)))))))........ ( -19.00)
>DroSim_CAF1 60783 102 - 1
AAUAAAAACUCCAACGGAAUAAGCGGCAGAAUCAUUCACUUCAUUUCGCAAAGUGUAAAAGGAAAUGAACAAAGAUAAUGCUUGAAUAAGCAGCCUACAUAU
.........(((...)))......(((....(((((..((((((((....)))))...)))..)))))..........(((((....))))))))....... ( -15.90)
>DroEre_CAF1 57524 100 - 1
AAG-A-AACUCCCACGGGAUAAGCGGCAGAAUCAUUCAUUUCAUUUUGCAAAGUGUAAAAGGAAAUGAACAACGAUAAUGCUUGAAUAAGCAGCCUACAUAU
...-.-...(((....))).....(((.......((((((((.((((((.....)))))).)))))))).........(((((....))))))))....... ( -24.70)
>DroYak_CAF1 60325 101 - 1
AAA-AGAACUCCCAUGGAAUAAAUGGCAGAAUCAUUCGUUUCAUUUUGCAAAGUGUAAAAGGAAAUGAACAAAGAUAAUGCUUGAAUAAGCAGCCUACAUAC
...-.....(((...)))......(((.......((((((((.((((((.....)))))).)))))))).........(((((....))))))))....... ( -21.20)
>consensus
AAUAAAAACUCCAACGGAAUAAGCGGCAGAAUCAUUCAUUUCAUUUUGCAAAGUGUAAAAGGAAAUGAACAAAGAUAAUGCUUGAAUAAGCAGCCUACAUAU
.........(((...)))......(((.......((((((((.((((((.....)))))).)))))))).........(((((....))))))))....... (-19.46 = -19.74 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:08 2006