Locus 5583

Sequence ID 3R_DroMel_CAF1
Location 14,761,236 – 14,761,348
Length 112
Max. P 0.905577
window9101 window9102

overview

Window 1

Location 14,761,236 – 14,761,348
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 75.66
Mean single sequence MFE -31.12
Consensus MFE -23.52
Energy contribution -23.32
Covariance contribution -0.20
Combinations/Pair 1.20
Mean z-score -0.98
Structure conservation index 0.76
SVM decision value 0.04
SVM RNA-class probability 0.554017
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14761236 112 + 27905053
GCGUGUGUUUAUGCUCUGAUUUGAAUGCCACUGAUAAGGUGGCAUUACGCGCUCCUGCGGGCGGGGAGCGGUAUGUGGGGGGGGGGAGGGUUUAGAAUGUUCAGGGUGCGGA
(((((....)))(((((((....(((((((((.....))))))))).(.(.((((..((.((.(....).)).))..)))).).)...............)))))))))... ( -39.80)
>DroSec_CAF1 20077 89 + 1
GCGUGUGUUUAUGCUCUGAUUUGAAUGCCACUGAUAAGGUGGCAUUACGCGCUCCUGCGGGUGGGGAGUGGUAUG--UGGGGGGAGGGGGU---------------------
(((((....)))))(((.((...(((((((((.....)))))))))((.(((((((.......)))))))))..)--).))).........--------------------- ( -28.20)
>DroSim_CAF1 21214 91 + 1
GCGUGUGUUUAUGCUCUGAUUUGAAUGCCACUGAUAAGGUGGCAUUACGCGCUCCUGCGGGCGGGGAGUGGUAUGUAUGGGGGGAGGGGGU---------------------
.((((..(...(((((.......(((((((((.....))))))))).(.(((((....))))).))))))..)..))))............--------------------- ( -30.00)
>DroEre_CAF1 20434 96 + 1
GCGUGUGUUUAUGCUCUGAUUUGAAUGCCACUGAUAAGGUGGCAUUACGCGCUCCUGCGGGCGGGGAGUGGAAUGGGG-GGUGGGU-----CUAGGG----------AGGGA
.(.((..(((((.((((.((((.(((((((((.....)))))))))...(((((((.......)))))))))))))))-.))))).-----.)).).----------..... ( -31.80)
>DroPer_CAF1 20401 88 + 1
UCGUGUGUUUAUGCUCUGAUUUGACUGCCACUGAUAAGGAGGCACUACGCGCUUCUGCCAGCGGAGGGGGGUGAA--GCGGGGGAGU----------------------GGA
.......(((((.(((((.(((.(((.((.(((....((((((.......)))))).....)))..)).))).))--))))))..))----------------------))) ( -25.80)
>consensus
GCGUGUGUUUAUGCUCUGAUUUGAAUGCCACUGAUAAGGUGGCAUUACGCGCUCCUGCGGGCGGGGAGUGGUAUG__GGGGGGGAGGGGGU__________________GGA
(((((....)))))(((......(((((((((.....)))))))))...((((((((....)))).))))............)))........................... (-23.52 = -23.32 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,761,236 – 14,761,348
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 75.66
Mean single sequence MFE -19.11
Consensus MFE -12.52
Energy contribution -13.16
Covariance contribution 0.64
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.66
SVM decision value 1.04
SVM RNA-class probability 0.905577
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14761236 112 - 27905053
UCCGCACCCUGAACAUUCUAAACCCUCCCCCCCCCCACAUACCGCUCCCCGCCCGCAGGAGCGCGUAAUGCCACCUUAUCAGUGGCAUUCAAAUCAGAGCAUAAACACACGC
...((...((((...........................(((((((((..(....).)))))).)))(((((((.......))))))).....)))).))............ ( -26.80)
>DroSec_CAF1 20077 89 - 1
---------------------ACCCCCUCCCCCCA--CAUACCACUCCCCACCCGCAGGAGCGCGUAAUGCCACCUUAUCAGUGGCAUUCAAAUCAGAGCAUAAACACACGC
---------------------.....(((......--..((((.((((.........)))).).)))(((((((.......)))))))........)))............. ( -17.20)
>DroSim_CAF1 21214 91 - 1
---------------------ACCCCCUCCCCCCAUACAUACCACUCCCCGCCCGCAGGAGCGCGUAAUGCCACCUUAUCAGUGGCAUUCAAAUCAGAGCAUAAACACACGC
---------------------.....(((..........((((.((((..(....).)))).).)))(((((((.......)))))))........)))............. ( -17.70)
>DroEre_CAF1 20434 96 - 1
UCCCU----------CCCUAG-----ACCCACC-CCCCAUUCCACUCCCCGCCCGCAGGAGCGCGUAAUGCCACCUUAUCAGUGGCAUUCAAAUCAGAGCAUAAACACACGC
...((----------(.....-----.......-........(.((((..(....).)))).).(.((((((((.......)))))))))......)))............. ( -16.40)
>DroPer_CAF1 20401 88 - 1
UCC----------------------ACUCCCCCGC--UUCACCCCCCUCCGCUGGCAGAAGCGCGUAGUGCCUCCUUAUCAGUGGCAGUCAAAUCAGAGCAUAAACACACGA
...----------------------........((--((.......(((((((((..((.((((...)))).))....))))))).))........))))............ ( -17.46)
>consensus
UCC__________________ACCCCCUCCCCCCC__CAUACCACUCCCCGCCCGCAGGAGCGCGUAAUGCCACCUUAUCAGUGGCAUUCAAAUCAGAGCAUAAACACACGC
............................................(((...((.(((....))).))((((((((.......)))))))).......)))............. (-12.52 = -13.16 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:41 2006