Locus 4532

Sequence ID	2L_DroMel_CAF1
Location	12,974,864 – 12,974,984
Length	120
Max. P	0.926463

overview

Window 7

Location	12,974,864 – 12,974,984
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.43
Mean single sequence MFE	-31.99
Consensus MFE	-25.78
Energy contribution	-26.38
Covariance contribution	0.60
Combinations/Pair	1.06
Mean z-score	-2.04
Structure conservation index	0.81
SVM decision value	1.18
SVM RNA-class probability	0.926463
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12974864 120 + 22407834
GCUCGCUUGCUCUCCCAUUUCGAAACUCGAAACAGAAGUGGGAGUUAUUCGUAUUCCGAUAAUGAAAAACCAAUAUGGAGAACGAGCGACGUAAAAAAGGCGGCCCAAAGAUUUUUACCA
((.(((((....(((((((((.............)))))))))((..(((((.((((.(((.((......)).))))))).)))))..)).......)))))))................ ( -34.12)
>DroSec_CAF1 19499 119 + 1
GCUCGCUUGCUCUCCCAUUUCGAAACUCGAAACAGAAGUGGGAGUUAUUCGUAUUCCGAUAAUGAAAAACCAAUAUGGAGAACGAGCGACGUAAA-AAGGCGGCCCAAUAAUUUUUACCA
((.(((((....(((((((((.............)))))))))((..(((((.((((.(((.((......)).))))))).)))))..)).....-.)))))))................ ( -34.12)
>DroSim_CAF1 20662 119 + 1
GCUCGCUUGCUCUCCCAUUUCGAAACUCGAAACAGAAGUGGGAGUUAUUCGUAUUCCGAUAAUGAAAAACCAAUAUGGAGAACGAGCGACGUAAA-AAGGCGGCCCAAUAAUUUUUACCA
((.(((((....(((((((((.............)))))))))((..(((((.((((.(((.((......)).))))))).)))))..)).....-.)))))))................ ( -34.12)
>DroEre_CAF1 8141 103 + 1
GCUCGCUUGCUCUCCCGUUUCGAAACUCCAAACAGAAGUGGAAGUUUUUCGUGCUCCGAUAAUGAAAAUCCAAUAUGGAGAACGAGCGAGUUGAA-AAGGCGGC----------------
(((((((((.(((((.((((.(.....).)))).....((((...(((((((.........)))))))))))....))))).)))))))))....-........---------------- ( -30.90)
>DroYak_CAF1 22488 119 + 1
GCUCGCUUGCUCUCCCGUUUAAAAACUCGAAAUACAAGUGGGAGUUUUUCGUAUGCCGAUAAUGAAAAACCAAUAUGGAGAACAAGAGAGCUGAA-AAGGCGCCCCCAAGAUUUUUACCA
((((.((((.(((((..........((((.........)))).(((((((((.........)))))))))......))))).)))).))))((((-((..(........).))))))... ( -26.70)
>consensus
GCUCGCUUGCUCUCCCAUUUCGAAACUCGAAACAGAAGUGGGAGUUAUUCGUAUUCCGAUAAUGAAAAACCAAUAUGGAGAACGAGCGACGUAAA_AAGGCGGCCCAAAAAUUUUUACCA
((.(((((...((((((((((.............))))))))))...(((((.((((.(((.((......)).))))))).)))))...........)))))))................ (-25.78 = -26.38 +   0.60)

alignment

secondary structure

dotplot

Window 8

Location	12,974,864 – 12,974,984
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.43
Mean single sequence MFE	-33.44
Consensus MFE	-24.63
Energy contribution	-24.95
Covariance contribution	0.32
Combinations/Pair	1.11
Mean z-score	-1.92
Structure conservation index	0.74
SVM decision value	0.51
SVM RNA-class probability	0.764923
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12974864 120 - 22407834
UGGUAAAAAUCUUUGGGCCGCCUUUUUUACGUCGCUCGUUCUCCAUAUUGGUUUUUCAUUAUCGGAAUACGAAUAACUCCCACUUCUGUUUCGAGUUUCGAAAUGGGAGAGCAAGCGAGC
..(((((((.....((....)).))))))).(((((.(((((((.((((.((.((((......)))).)).))))............((((((.....)))))).))))))).))))).. ( -35.00)
>DroSec_CAF1 19499 119 - 1
UGGUAAAAAUUAUUGGGCCGCCUU-UUUACGUCGCUCGUUCUCCAUAUUGGUUUUUCAUUAUCGGAAUACGAAUAACUCCCACUUCUGUUUCGAGUUUCGAAAUGGGAGAGCAAGCGAGC
..(((((((.....((....))))-))))).(((((.(((((((.((((.((.((((......)))).)).))))............((((((.....)))))).))))))).))))).. ( -33.80)
>DroSim_CAF1 20662 119 - 1
UGGUAAAAAUUAUUGGGCCGCCUU-UUUACGUCGCUCGUUCUCCAUAUUGGUUUUUCAUUAUCGGAAUACGAAUAACUCCCACUUCUGUUUCGAGUUUCGAAAUGGGAGAGCAAGCGAGC
..(((((((.....((....))))-))))).(((((.(((((((.((((.((.((((......)))).)).))))............((((((.....)))))).))))))).))))).. ( -33.80)
>DroEre_CAF1 8141 103 - 1
----------------GCCGCCUU-UUCAACUCGCUCGUUCUCCAUAUUGGAUUUUCAUUAUCGGAGCACGAAAAACUUCCACUUCUGUUUGGAGUUUCGAAACGGGAGAGCAAGCGAGC
----------------........-.....((((((.(((((((...(((((.(((((....(((((...(((....)))...)))))..))))).)))))....))))))).)))))). ( -32.20)
>DroYak_CAF1 22488 119 - 1
UGGUAAAAAUCUUGGGGGCGCCUU-UUCAGCUCUCUUGUUCUCCAUAUUGGUUUUUCAUUAUCGGCAUACGAAAAACUCCCACUUGUAUUUCGAGUUUUUAAACGGGAGAGCAAGCGAGC
............((..((....))-..))((((.((((((((((.....((((((((.............))))))))...(((((.....))))).........)))))))))).)))) ( -32.42)
>consensus
UGGUAAAAAUCAUUGGGCCGCCUU_UUUACGUCGCUCGUUCUCCAUAUUGGUUUUUCAUUAUCGGAAUACGAAUAACUCCCACUUCUGUUUCGAGUUUCGAAAUGGGAGAGCAAGCGAGC
...............................(((((.(((((((.((.(((....))).))(((((((.((((................)))).)))))))....))))))).))))).. (-24.63 = -24.95 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:17 2006