Locus 1542

Sequence ID	2L_DroMel_CAF1
Location	4,161,512 – 4,161,608
Length	96
Max. P	0.999311

overview

Window 3

Location	4,161,512 – 4,161,608
Length	96
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	96.05
Mean single sequence MFE	-22.38
Consensus MFE	-21.38
Energy contribution	-21.58
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.09
Structure conservation index	0.96
SVM decision value	3.50
SVM RNA-class probability	0.999311
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4161512 96 + 22407834
UUCCC--CCCCUUUCACAACGCCGACUUCUUCGGCUUCUCGACUGAGUGCUGUCGUUGUUUUGUUUUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
.....--........((((((((((.....))))).....(((........)))))))).((((...((((((((....)))))...)))...)))). ( -22.20)
>DroSec_CAF1 291739 95 + 1
UUCCC--C-CCGUUCACAACGCCGACUUCUUCGGCUUCUCGACUGAGUGCUGUCGUUGUUUUGUUAUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
.....--.-......((((((((((.....))))).....(((........)))))))).((((.(((..(((((....)))))...)))...)))). ( -22.90)
>DroSim_CAF1 294364 95 + 1
UUCCC--C-CCGUUCACAACGCCGACUUCUUCGGCUUCUCGACUGAGUGCUGUCGUUGUUUUGUUUUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
.....--.-......((((((((((.....))))).....(((........)))))))).((((...((((((((....)))))...)))...)))). ( -22.20)
>DroEre_CAF1 308908 95 + 1
UUCCC--C-CCGUUCACAACGCCGAUUUCUUCGGCUUCUCGACUGAGUGCUGUCGUUGUUUUGUUUUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
.....--.-......((((((((((.....))))).....(((........)))))))).((((...((((((((....)))))...)))...)))). ( -23.10)
>DroYak_CAF1 314031 97 + 1
UUUCCCCC-UCGUUCACAACGCCGAUUUCUUCGGCUUCUCAACUGAGUGCUGUCGUUGUUUUGUUUUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
........-......((((((((((.....)))))..(((....))).......))))).((((...((((((((....)))))...)))...)))). ( -21.50)
>consensus
UUCCC__C_CCGUUCACAACGCCGACUUCUUCGGCUUCUCGACUGAGUGCUGUCGUUGUUUUGUUUUAUACCACUUGCAAGUGGAUUUAUUUUGCAAU
...............((((((((((.....))))).....(((........)))))))).((((...((((((((....)))))...)))...)))). (-21.38 = -21.58 +   0.20)

alignment

secondary structure

dotplot

Window 4

Location	4,161,512 – 4,161,608
Length	96
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	96.05
Mean single sequence MFE	-22.46
Consensus MFE	-20.74
Energy contribution	-20.58
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-1.77
Structure conservation index	0.92
SVM decision value	2.20
SVM RNA-class probability	0.990190
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4161512 96 - 22407834
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAAAACAAAACAACGACAGCACUCAGUCGAGAAGCCGAAGAAGUCGGCGUUGUGAAAGGGG--GGGAA
.............(((.(((.(..((........))...((((((((........))).....(((((.....))))))))))....).))--)))). ( -22.50)
>DroSec_CAF1 291739 95 - 1
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAUAACAAAACAACGACAGCACUCAGUCGAGAAGCCGAAGAAGUCGGCGUUGUGAACGG-G--GGGAA
.((((((...........))))))...((.((((((.......((((........))))....(((((.....))))))))))).))..-.--..... ( -22.60)
>DroSim_CAF1 294364 95 - 1
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAAAACAAAACAACGACAGCACUCAGUCGAGAAGCCGAAGAAGUCGGCGUUGUGAACGG-G--GGGAA
..............(((((....)))))............(..(((((((.(((....)))..(((((.....))))))))))...)).-.--).... ( -22.10)
>DroEre_CAF1 308908 95 - 1
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAAAACAAAACAACGACAGCACUCAGUCGAGAAGCCGAAGAAAUCGGCGUUGUGAACGG-G--GGGAA
..............(((((....)))))............(..(((((((.(((....)))..(((((.....))))))))))...)).-.--).... ( -22.10)
>DroYak_CAF1 314031 97 - 1
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAAAACAAAACAACGACAGCACUCAGUUGAGAAGCCGAAGAAAUCGGCGUUGUGAACGA-GGGGGAAA
.............(((.((((...((........))...(((((..((((.....))))....(((((.....))))))))))...)))-)..))).. ( -23.00)
>consensus
AUUGCAAAAUAAAUCCACUUGCAAGUGGUAUAAAACAAAACAACGACAGCACUCAGUCGAGAAGCCGAAGAAGUCGGCGUUGUGAACGG_G__GGGAA
.((.(.........(((((....))))).................(((((.(((....)))..(((((.....))))))))))..........).)). (-20.74 = -20.58 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:06 2006