Locus 7764

Sequence ID	2L_DroMel_CAF1
Location	21,904,468 – 21,904,628
Length	160
Max. P	0.778857

overview

Window 1

Location	21,904,468 – 21,904,588
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.22
Mean single sequence MFE	-38.27
Consensus MFE	-28.79
Energy contribution	-28.27
Covariance contribution	-0.52
Combinations/Pair	1.40
Mean z-score	-1.69
Structure conservation index	0.75
SVM decision value	0.55
SVM RNA-class probability	0.778857
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21904468 120 - 22407834
CUGACUUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUACUCCAGUUGGGUAACUUCCCAGCUUAUCGUGCGUACAGUCACACACAAAAAUGGGUGAAGCCAUUGG
..........(((((((((....)))))))))....(((((((..(((.(((((...(((((((......)))))))....))).))))).)))))))....(((((......))))).. ( -39.10)
>DroSec_CAF1 193133 120 - 1
CUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUAUCCCAGUUGGGUAACUUCCCAGCUUAUCGUGCGUACAGUCACACACAAAAGUGGGUGAAGCCAGUGG
(((((.(((((((((((((....)))))))))((.(((.((((....))))))).))(((((((......)))))))...)))).)).)))((((.(((....))).))))......... ( -38.30)
>DroSim_CAF1 137164 120 - 1
CUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUAUCCCAGUUGGGUAACUUCCCAGCUUAUCGUGCGUACAGUCACACACAAAAGUGGGUGAAGCCAGUGG
(((((.(((((((((((((....)))))))))((.(((.((((....))))))).))(((((((......)))))))...)))).)).)))((((.(((....))).))))......... ( -38.30)
>DroEre_CAF1 156736 120 - 1
UCGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUCACAACCCCAGUUGGGUAACUACCCAGCACAUCGUGAGUACACUCGCAAACAAAAGUGGGCGAGGCCAGUGG
(((((((.(.(((((((((....))))))))).).))))((((....))))...(((((((((((....))))))).....(((((....))))).........)))))))......... ( -43.80)
>DroYak_CAF1 153303 120 - 1
CCGACAUAUGGCAAUAGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUAUAACCCCAGUUGGGUAACUUCCCAGCACAUCGUGGGUACACUCGCAAACAAAAGUGGGUGAAGCCAGUGG
...((((((.(((((((((....)))))))))...))))))..............(((((((((......))))))......(((.(.(((((((........))))))).).))).))) ( -42.60)
>DroAna_CAF1 135694 114 - 1
CUCGUACUUUUCGAUGAUCUCCUCGUUUUUGGUGAAAGAAUGCAGGGUUAUGACCCCAGUUUGUUCAUUUCCCAGCUUUUCGUGGGUGAUGUCGUACACAAAAACCGGGAAAGU------
.(((.......))).....((((.((((((((((...((.....((((....)))).........((((.((((........)))).)))))).))).))))))).))))....------ ( -27.50)
>consensus
CUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUACCCCAGUUGGGUAACUUCCCAGCUUAUCGUGCGUACAGUCACACACAAAAGUGGGUGAAGCCAGUGG
...((((((.(((((((((....)))))))))...)))))).............((((((((((......)))))).....(((.((......)).))).....))))............ (-28.79 = -28.27 +  -0.52)

alignment

secondary structure

dotplot

Window 2

Location	21,904,508 – 21,904,628
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.06
Mean single sequence MFE	-40.00
Consensus MFE	-28.39
Energy contribution	-27.07
Covariance contribution	-1.32
Combinations/Pair	1.43
Mean z-score	-2.14
Structure conservation index	0.71
SVM decision value	0.39
SVM RNA-class probability	0.716086
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21904508 120 - 22407834
CGUUCCAAAUGGAGACGGAUGCGAAGGCCAACGAUUCGCACUGACUUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUACUCCAGUUGGGUAACUUCCCAGCUUAU
.........(((((......((....)).((((.(((((((...((....(((((((((....)))))))))))...))))))).))))....)))))((((((......)))))).... ( -42.20)
>DroSec_CAF1 193173 120 - 1
CGUUCCAAAUGGAGACGGAUGCAAAGGCCAGUGAUUCGCACUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUAUCCCAGUUGGGUAACUUCCCAGCUUAU
.(((((....))).))((((((....)).((((((...(((..((((.(.(((((((((....))))))))).).)))))))....)))))))))).(((((((......)))))))... ( -40.60)
>DroSim_CAF1 137204 120 - 1
CGUUCCAAAUGGAGACGGAUGCGAAGGCCAGUGAUUCGCACUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUAUCCCAGUUGGGUAACUUCCCAGCUUAU
.(((((....))).))((((((....)).((((((...(((..((((.(.(((((((((....))))))))).).)))))))....)))))))))).(((((((......)))))))... ( -43.30)
>DroEre_CAF1 156776 120 - 1
CGUUCCAAAUGGAGACGGAUGCGAAGGCCAGUGAUUCCCGUCGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUCACAACCCCAGUUGGGUAACUACCCAGCACAU
((((((..(((..(((((..((....)).(....)..)))))..)))...(((((((((....)))))))))))))))(((((....)))))......(((((((....))))))).... ( -47.20)
>DroYak_CAF1 153343 120 - 1
CGUUCCAAAUGGAGACGGAUGCGAAGGCCAUUGAUUCCCCCCGACAUAUGGCAAUAGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUAUAACCCCAGUUGGGUAACUUCCCAGCACAU
((((((....((((.(((..((....))..))).))))............(((((((((....)))))))))))))))....................((((((......)))))).... ( -37.60)
>DroAna_CAF1 135728 120 - 1
CGUUCCACGAGCAGACCGACUUGAAGGACAGAGUUUCCUUCUCGUACUUUUCGAUGAUCUCCUCGUUUUUGGUGAAAGAAUGCAGGGUUAUGACCCCAGUUUGUUCAUUUCCCAGCUUUU
......(((((.(((.((....((((((.......))))))(((.......))))).))).)))))..((((.((((((((((.((((....))))..))..)))).))))))))..... ( -29.10)
>consensus
CGUUCCAAAUGGAGACGGAUGCGAAGGCCAGUGAUUCCCACUGACAUAUGGCAAUGGCCUCCUGGUUAUUGCGGAAUGUGUGAAAUGUUACUACCCCAGUUGGGUAACUUCCCAGCUUAU
...(((....)))((((...((....))...............((((((.(((((((((....)))))))))...))))))....)))).........((((((......)))))).... (-28.39 = -27.07 +  -1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:23 2006