Locus 7345

Sequence ID	3L_DroMel_CAF1
Location	19,711,607 – 19,711,727
Length	120
Max. P	0.899215

overview

Window 9

Location	19,711,607 – 19,711,727
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.33
Mean single sequence MFE	-26.30
Consensus MFE	-22.08
Energy contribution	-22.56
Covariance contribution	0.48
Combinations/Pair	1.09
Mean z-score	-1.77
Structure conservation index	0.84
SVM decision value	1.01
SVM RNA-class probability	0.899215
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19711607 120 + 23771897
UCCUUUCGGCUUUGGAUCCGUGAAUAAUGACAGUUAAAGCUUGUAUUCAUUUCACGAGAUUUCAGUUUUUUUCUUUUUUCUUUUUUGUCGAACAAAUCGACAGCGAAACUGAAUCGAAAC
...((((((.....((((((((((.....(((((....)).)))......)))))).))))((((((((...............(((((((.....))))))).)))))))).)))))). ( -27.39)
>DroSec_CAF1 20870 108 + 1
UCCUUUCGGCUUUGAAUCCGUGAAUAAUGACAGUUAAAGCUUGUAUUCAUUUCACGAGAUGUCUGU------------UCUUUUUUUUCGAACUAAUCGACAGCGAAACUGAAUCGAAAC
((..(((((.((((.(((((((((.....(((((....)).)))......)))))).)))(((.((------------((.........)))).....)))..)))).)))))..))... ( -22.00)
>DroSim_CAF1 23029 108 + 1
UCCUUUCGGCUUUGAAUCCGUGAAUAAUGACAGUUAAAGCUUGUAUUCAUUUCACGAGAUUUCUGU------------UCUUUUUUUUCGAACUAAUCGACAGCGAAACUGAAUCGAAAC
((..(((((.((((..((((((((.....(((((....)).)))......)))))).((((...((------------((.........)))).))))))...)))).)))))..))... ( -21.50)
>DroEre_CAF1 21752 106 + 1
UCCUUUCGGCUUUGGAGCCGUGAAUAAUGACAGUUAAAGCUUGUAUUGAAUUCACGAGAUUUCGG--------------UUUUUUUGUCGAAUUAAUCGACGGCGAAACUGAAUCGAAAC
...((((((((....))))((((((....(((((....)).))).....))))))..((((.(((--------------((((.(((((((.....))))))).))))))))))))))). ( -32.60)
>DroYak_CAF1 21421 112 + 1
UCCUUUCGGCUUUGGAUCCGUGAAUAAUGACAGUUAAAGCUUGUAUUCAUUUCACGAGAUUUCGGGUUUU--------UUUUUUUUGUCGAAUUAAUCGACGACGAAACUAAAUCGAAAC
...((((((((..(((((((((((.....(((((....)).)))......)))))).)))))..)))...--------.((((.(((((((.....))))))).))))......))))). ( -28.00)
>consensus
UCCUUUCGGCUUUGGAUCCGUGAAUAAUGACAGUUAAAGCUUGUAUUCAUUUCACGAGAUUUCGGU____________UCUUUUUUGUCGAACUAAUCGACAGCGAAACUGAAUCGAAAC
((..(((((.((((((((((((((.....(((((....)).)))......)))))).)))).......................(((((((.....))))))))))).)))))..))... (-22.08 = -22.56 +   0.48)

alignment

secondary structure

dotplot

Window 0

Location	19,711,607 – 19,711,727
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.33
Mean single sequence MFE	-23.39
Consensus MFE	-18.78
Energy contribution	-19.30
Covariance contribution	0.52
Combinations/Pair	1.06
Mean z-score	-1.47
Structure conservation index	0.80
SVM decision value	0.12
SVM RNA-class probability	0.593179
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19711607 120 - 23771897
GUUUCGAUUCAGUUUCGCUGUCGAUUUGUUCGACAAAAAAGAAAAAAGAAAAAAACUGAAAUCUCGUGAAAUGAAUACAAGCUUUAACUGUCAUUAUUCACGGAUCCAAAGCCGAAAGGA
(..((((((((((((...((((((.....)))))).................)))))).)))).((((((((((.....((......)).))))..))))))))..)....((....)). ( -25.45)
>DroSec_CAF1 20870 108 - 1
GUUUCGAUUCAGUUUCGCUGUCGAUUAGUUCGAAAAAAAAGA------------ACAGACAUCUCGUGAAAUGAAUACAAGCUUUAACUGUCAUUAUUCACGGAUUCAAAGCCGAAAGGA
...((((..(((.....)))))))...((((.........))------------)).((.(((.((((((((((.....((......)).))))..)))))))))))....((....)). ( -23.20)
>DroSim_CAF1 23029 108 - 1
GUUUCGAUUCAGUUUCGCUGUCGAUUAGUUCGAAAAAAAAGA------------ACAGAAAUCUCGUGAAAUGAAUACAAGCUUUAACUGUCAUUAUUCACGGAUUCAAAGCCGAAAGGA
...((((..(((.....)))))))...((((.........))------------)).(((.((.((((((((((.....((......)).))))..)))))))))))....((....)). ( -23.20)
>DroEre_CAF1 21752 106 - 1
GUUUCGAUUCAGUUUCGCCGUCGAUUAAUUCGACAAAAAAA--------------CCGAAAUCUCGUGAAUUCAAUACAAGCUUUAACUGUCAUUAUUCACGGCUCCAAAGCCGAAAGGA
.((((((..(((((..((.(((((.....))))).......--------------..(((.((....)).))).......))...))))))).........((((....))))))))... ( -22.70)
>DroYak_CAF1 21421 112 - 1
GUUUCGAUUUAGUUUCGUCGUCGAUUAAUUCGACAAAAAAAA--------AAAACCCGAAAUCUCGUGAAAUGAAUACAAGCUUUAACUGUCAUUAUUCACGGAUCCAAAGCCGAAAGGA
((((((.(((..(((..(.(((((.....))))).)..))).--------.)))..)))))).(((((((((((.....((......)).))))..)))))))........((....)). ( -22.40)
>consensus
GUUUCGAUUCAGUUUCGCUGUCGAUUAGUUCGACAAAAAAGA____________ACAGAAAUCUCGUGAAAUGAAUACAAGCUUUAACUGUCAUUAUUCACGGAUCCAAAGCCGAAAGGA
.((((((((((.((((((.(((((.....))))).......................((....)))))))))))))....(((((..((((........))))....))))))))))... (-18.78 = -19.30 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:33 2006