Locus 8663

Sequence ID 3L_DroMel_CAF1
Location 22,474,459 – 22,474,593
Length 134
Max. P 0.703266
window14197 window14198

overview

Window 7

Location 22,474,459 – 22,474,575
Length 116
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.05
Mean single sequence MFE -14.60
Consensus MFE -8.93
Energy contribution -9.98
Covariance contribution 1.06
Combinations/Pair 1.06
Mean z-score -1.43
Structure conservation index 0.61
SVM decision value -0.02
SVM RNA-class probability 0.521335
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22474459 116 - 23771897
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGCGCCCGUUGUGUCUCUAUCCUAUGCGACUGCCACGCCCCUUUUCCCUUCUCAUCCUAUCACCAUCUCGCCUUCCU
.((((((((.....((((........))))......)))))))).(((.(((((.(........).))).)).)))........................................ ( -15.10)
>DroSec_CAF1 24570 116 - 1
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUCUCUAUCCUAUGCGACUGCCACGCCCCUUUUCCCUUCUCGUCCUAUCCCAUUCUCGCCUUCCU
.(((..(((.....((((..((((.....((((.......))))....))))..))))......(((.......))).........................)))..)))...... ( -14.20)
>DroSim_CAF1 24573 116 - 1
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUCUCUAUCCUAUGCGACUGCCACGCCCCUUUUCCCUUCUCGUCCUAUCCCAUUCUCGCCUUCCU
.(((..(((.....((((..((((.....((((.......))))....))))..))))......(((.......))).........................)))..)))...... ( -14.20)
>DroEre_CAF1 28244 93 - 1
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUCUCUAUCCUGUGCGACUGCCACGCCCCUUCCCCC---------------CU--------UCCU
.(((((((((......))))))).................(((.(.((((((.(........))))))).).)))))..........---------------..--------.... ( -14.10)
>DroYak_CAF1 30045 101 - 1
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUCUCUAUCCUAUGCGACUGCCACGCCCCUUCUCCC---------------CUUCGCACUUUCCU
.(((((((((......)))))))......((((.......)))).(((.(((((.(........).))).)).)))...........---------------....))........ ( -15.10)
>DroAna_CAF1 22251 97 - 1
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCGGCUGUCUCUUG-------------GCCACAC-----UUCCCUUUCACUCC-UUCCCCUCCUCGCCGUCGU
.(((((((((......)))))))......((((.......)))).(((((.....))-------------)))....-----..............-...........))...... ( -14.90)
>consensus
CGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUCUCUAUCCUAUGCGACUGCCACGCCCCUUUUCCCUUCUC_UCC_AUCCCCUUCUCGCCUUCCU
.(((((((((......))))))).................(((.(.((((..(.........)..)))).).)))))....................................... ( -8.93 =  -9.98 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 22,474,496 – 22,474,593
Length 97
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.01
Mean single sequence MFE -21.58
Consensus MFE -10.02
Energy contribution -9.93
Covariance contribution -0.08
Combinations/Pair 1.07
Mean z-score -1.99
Structure conservation index 0.46
SVM decision value 0.36
SVM RNA-class probability 0.703266
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22474496 97 - 23771897
----------AACUGCAGUCAACAAAGGCGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGCGCCCGUUGUGUC-UCUAUCCUAUGCGACUGCCACGCCC
----------....((((((.((((.((.((((((((.....((((........))))......)))))))))).))))((.-..........))))))))....... ( -24.10)
>DroVir_CAF1 69163 99 - 1
CAACGGCAACAACUGCAGUCAACAAAGACGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGCUCAG--CUCGCACACUUAGCCAU-------CCACAUUC
....(((......(((.(((......)))(((((((((......)))))))......(((.......)))...)--)..)))......)))..-------........ ( -19.70)
>DroGri_CAF1 26728 104 - 1
CAACAACGGCAACUGCAGUCAACAAAGAAGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGCUCAG--UGCGUCCACUUGGCCAC--CACGCCCACGCCC
.......(((.((((..........(((((.(((((((......))))))).)))))(((.......))).)))--)((((((....))....--.))))....))). ( -21.90)
>DroEre_CAF1 28258 97 - 1
----------AACUGCAGUCAACAAAGGCGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUC-UCUAUCCUGUGCGACUGCCACGCCC
----------....((((((.(((.(((((((((((((......)))))))......((((.......)))).....)))))-)......)))..))))))....... ( -24.30)
>DroYak_CAF1 30067 97 - 1
----------AACUGCAGUCAACAAAGGCGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCCGUUGUGUC-UCUAUCCUAUGCGACUGCCACGCCC
----------....((((((.....(((((((((((((......)))))))......((((.......)))).....)))))-)(........).))))))....... ( -21.70)
>DroAna_CAF1 22284 82 - 1
----------AACUGCAGUCAACAAAGACGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGUGCCGGCUGUCUC-UUG-------------GCCACAC--
----------....((.(((......)))))(((((((......)))))))......((((.......)))).(((((....-.))-------------)))....-- ( -17.80)
>consensus
__________AACUGCAGUCAACAAAGACGCGUAAAUUAUUUUAGAUUUACAUUUCUGCAUUUCAUUUGCGCCCGUUGUGUC_UCUAUCCUAU__GACUGCCACGCCC
.............(((((((......)))..(((((((......))))))).....))))................................................ (-10.02 =  -9.93 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:43 2006