Locus 7633

Sequence ID	X_DroMel_CAF1
Location	19,044,450 – 19,044,570
Length	120
Max. P	0.770011

overview

Window 7

Location	19,044,450 – 19,044,570
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	85.69
Mean single sequence MFE	-28.12
Consensus MFE	-18.39
Energy contribution	-19.20
Covariance contribution	0.81
Combinations/Pair	1.23
Mean z-score	-2.14
Structure conservation index	0.65
SVM decision value	0.53
SVM RNA-class probability	0.770011
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044450 120 + 22224390
UGAAUACAUAAACAAAAUCGGACUGAUAAGGCGUGCAGUGUAAUAAUGACACCCACUAAUAUAUAUAUAUACGUGAUAUGUGAUAUAUUGGGUAUACGAUAAGCGACUUAUUAUCACAAC
....................((.(((((((...(((.((((.......))))...(((((((((((((((.....)))))).)))))))))...........))).)))))))))..... ( -22.30)
>DroSec_CAF1 1602 120 + 1
UGUAUACAUAAACAAAAUCGGACUGAUAAGGCGAGCAGUGUAAUAAUGACGCCCACCAAUAUACAUACGUGAUAGAUACGUGAUAUAUUGGGUAUACGAUAAGCGAAUUAUUAUCACAGC
.((((((......................((((..((.........)).))))..((((((((..((((((.....)))))).))))))))))))))(((((........)))))..... ( -27.70)
>DroSim_CAF1 1689 120 + 1
UGUAUACAUAAACAAAAUCGGACUGAUAAGGCGUGCAGUGUAAUAAUGACGCCCACCAAUAUACAGACGUGAUAGAUACGUGAUAUAUUGGGUAUACGAUAAGCGACUUAUUGUCACAGC
.((((((......................(((((.((.........)))))))..((((((((...(((((.....)))))..)))))))))))))).....(.(((.....))).)... ( -29.10)
>DroYak_CAF1 1739 111 + 1
UGUAUACAUAAACAAAAUCGGACUGAUAAGGCGUGCAGCAUGAUAAUGCCGCCCACCAAUGUACGUA---------UACGUCAUAUAUUGCGUAUACGAUAAGCGGCUUAUUAGCACAAA
...................(..((((((((.(((((.((((....)))).))...........((((---------((((.((.....))))))))))....))).))))))))..)... ( -33.40)
>consensus
UGUAUACAUAAACAAAAUCGGACUGAUAAGGCGUGCAGUGUAAUAAUGACGCCCACCAAUAUACAUACGUGAUAGAUACGUGAUAUAUUGGGUAUACGAUAAGCGACUUAUUAUCACAAC
.((((((......................((.(((((.........)).))))).((((((((...(((((.....)))))..))))))))))))))(((((........)))))..... (-18.39 = -19.20 +   0.81)

alignment

secondary structure

dotplot

Window 8

Location	19,044,450 – 19,044,570
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	85.69
Mean single sequence MFE	-26.60
Consensus MFE	-17.84
Energy contribution	-18.84
Covariance contribution	1.00
Combinations/Pair	1.14
Mean z-score	-1.57
Structure conservation index	0.67
SVM decision value	0.03
SVM RNA-class probability	0.549244
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044450 120 - 22224390
GUUGUGAUAAUAAGUCGCUUAUCGUAUACCCAAUAUAUCACAUAUCACGUAUAUAUAUAUAUUAGUGGGUGUCAUUAUUACACUGCACGCCUUAUCAGUCCGAUUUUGUUUAUGUAUUCA
((.(((.(((((((.(((((((.(((((....((((((.((.......)))))))).)))))..))))))).).))))))))).)).................................. ( -16.80)
>DroSec_CAF1 1602 120 - 1
GCUGUGAUAAUAAUUCGCUUAUCGUAUACCCAAUAUAUCACGUAUCUAUCACGUAUGUAUAUUGGUGGGCGUCAUUAUUACACUGCUCGCCUUAUCAGUCCGAUUUUGUUUAUGUAUACA
...((((.......)))).....(((((((((((((((.((((.......))))..))))))))).(((((.((.........))..))))).....................)))))). ( -25.60)
>DroSim_CAF1 1689 120 - 1
GCUGUGACAAUAAGUCGCUUAUCGUAUACCCAAUAUAUCACGUAUCUAUCACGUCUGUAUAUUGGUGGGCGUCAUUAUUACACUGCACGCCUUAUCAGUCCGAUUUUGUUUAUGUAUACA
...(((((.....))))).....(((((((((((((((.((((.......))))..))))))))).((((((((.........)).)))))).....................)))))). ( -30.60)
>DroYak_CAF1 1739 111 - 1
UUUGUGCUAAUAAGCCGCUUAUCGUAUACGCAAUAUAUGACGUA---------UACGUACAUUGGUGGGCGGCAUUAUCAUGCUGCACGCCUUAUCAGUCCGAUUUUGUUUAUGUAUACA
.(((..((.((((((((((...((((((((((.....)).))))---------))))......)))))(((((((....)))))))....))))).))..)))................. ( -33.40)
>consensus
GCUGUGAUAAUAAGUCGCUUAUCGUAUACCCAAUAUAUCACGUAUCUAUCACGUAUGUAUAUUGGUGGGCGUCAUUAUUACACUGCACGCCUUAUCAGUCCGAUUUUGUUUAUGUAUACA
...(((((.....))))).....((((((..((((.(((((((((.......))))))..(((((((((((................)))).)))))))..)))..))))...)))))). (-17.84 = -18.84 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:52 2006