Locus 6543

Sequence ID 3R_DroMel_CAF1
Location 17,248,105 – 17,248,265
Length 160
Max. P 0.886846
window10649 window10650

overview

Window 9

Location 17,248,105 – 17,248,205
Length 100
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -29.14
Consensus MFE -23.08
Energy contribution -22.68
Covariance contribution -0.40
Combinations/Pair 1.11
Mean z-score -1.95
Structure conservation index 0.79
SVM decision value 0.94
SVM RNA-class probability 0.886846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17248105 100 - 27905053
CGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAAUGGGACAGUAGU--------AUACGCAACAGCGGGAGUU-------ACCCUA
.....(((((............((((.((((...((...((((((....))))))..))..)))).).)))..((--------....))....)))))....-------...... ( -25.50)
>DroSec_CAF1 44531 100 - 1
CGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAAUGGGACAGUAGU--------AUUUGCAACAGCGGGCGUU-------ACACUA
((((..(((....((((((...((((.((((...((...((((((....))))))..))..)))).).)))...)--------)))))...)))..))))..-------...... ( -29.30)
>DroSim_CAF1 45230 100 - 1
CGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAAUGGGACAGUAGU--------AUUUGCAGCAGCGGGCGUU-------ACACUA
((((..((((...((((((...((((.((((...((...((((((....))))))..))..)))).).)))...)--------)))))..))))..))))..-------...... ( -33.10)
>DroEre_CAF1 45294 97 - 1
CGUCUCCUGUAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAACGGGACAGU-----------AUAUGCAACAGCAGGCGAU-------CUACUA
((((((((((............(((((.......)))))((((((....)))))).......))))))....-----------...(((....)))))))..-------...... ( -26.90)
>DroYak_CAF1 67311 115 - 1
CGGCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAAUGGGACAGUAGUACAUACAUAUAUGCAACAGCAGGCGGUAUACUAUGUACUA
..((....))............((((.((((...((...((((((....))))))..))..)))).).)))(((((((((.((((.(((....)))....))))..))))))))) ( -30.90)
>consensus
CGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGUGCCGUUAAAGCGGCAACCAUAAAUGGGACAGUAGU________AUAUGCAACAGCGGGCGUU_______ACACUA
...(.(((((............(((((.......)))))((((((....)))))).((......))...........................))))).)............... (-23.08 = -22.68 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,248,165 – 17,248,265
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.93
Mean single sequence MFE -28.18
Consensus MFE -22.64
Energy contribution -21.29
Covariance contribution -1.35
Combinations/Pair 1.30
Mean z-score -2.39
Structure conservation index 0.80
SVM decision value 0.70
SVM RNA-class probability 0.827795
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17248165 100 - 27905053
-UUUUUUGCAUUU-UUGUGCGUAAAUUUGUAUUAUAAGAGUGCUGAUGUGUGCGUG------------------CAUGUGCGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
-....(((((...-..(((((((.((((((.........(..(......)..).((------------------((.(((...))).)))).....)))))).)))))))....))))). ( -26.90)
>DroSec_CAF1 44591 101 - 1
UUUUUUUGCGUUU-UUGUGCGUAAAUUUGUAUUAUAAGAGUGCUGAUGUGUGCGUG------------------CAUGUGCGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
.....(((((...-..(((((((.((((((.........(..(......)..).((------------------((.(((...))).)))).....)))))).)))))))....))))). ( -26.20)
>DroSim_CAF1 45290 102 - 1
UUUUUUUGCGUUUUUUGUGCGUAAAUUUGUAUUAUAAGAGUGCUGAUGUGUGCGUG------------------CAUGUGCGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
.....(((((..(...(((((((.((((((.........(..(......)..).((------------------((.(((...))).)))).....)))))).))))))).)..))))). ( -25.80)
>DroEre_CAF1 45351 100 - 1
U-UUUUUGCAUUU-UUGUGCGUAAAUUUGUAUUAUAACAGUGCUGAUGUGUGCGUG------------------CAUGUGCGUCUCCUGUAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
.-...(((((...-..(((((((.((((((...((.((((.(..((((((((....------------------)))..))))).))))).))...)))))).)))))))....))))). ( -27.30)
>DroYak_CAF1 67386 100 - 1
U-UUUCUGCAUUU-UUGUGCGUAAAUUUGUAUUAUAACAGUGCUGAUGUGUGCGUG------------------CAUGUGCGGCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
.-...(((((...-..(((((((.((((((.(((...((((((((((((((....)------------------))))).))))).)))....))))))))).)))))))....))))). ( -32.90)
>DroAna_CAF1 36380 116 - 1
---UUUUGCAUAU-CGGUGCGUAAAUUCGUAUUAUAACUGUGUCAGUGUGUGUGUGUGGUUGUGCCGCUGAAGGUGUGUGCGUCAUUUGUAAUUAAAUAAAUCUGUGCAUUGUUUGCAAC
---..(((((...-(((((((......(((((....(((...((((((.(..((......))..))))))).)))..)))))..((((((......))))))...)))))))..))))). ( -30.00)
>consensus
U_UUUUUGCAUUU_UUGUGCGUAAAUUUGUAUUAUAACAGUGCUGAUGUGUGCGUG__________________CAUGUGCGUCACCUGCAAUUAAAUAAAUCUGCGCAUUGUUUGCAGU
.....(((((......(((((((.((((((.(((......(((.(.((((..((((..................))))..)).)).).)))..))))))))).)))))))....))))). (-22.64 = -21.29 +  -1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:03 2006