Locus 4359

Sequence ID	2R_DroMel_CAF1
Location	14,327,978 – 14,328,068
Length	90
Max. P	0.714687

overview

Window 7

Location	14,327,978 – 14,328,068
Length	90
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	96.28
Mean single sequence MFE	-23.16
Consensus MFE	-19.05
Energy contribution	-19.13
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.61
Structure conservation index	0.82
SVM decision value	0.29
SVM RNA-class probability	0.672238
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14327978 90 + 20766785
--UGUCAAGUGCUAAUGAAUUUGCAUGCCGGC-CACUUGGCGCCCGAUAAUUGCACGCAGCUCUAAAUAAAGAUAUUCGAUUUAUUAGCGUUA
--........(((((((((((.((.(((..((-(....)))((.........))..)))))(((......))).....))))))))))).... ( -20.50)
>DroSec_CAF1 4402 91 + 1
--UGUCAAGUGCUAAUGAAUUUGCAUGCAGGCGCACUUGGCGCCCGAUAAUUGCACGCAGCUCCAAAUAAAGAUAUUCGAUUUAUUAGCAAUA
--.......(((((((((((((((.(((((((((.....))))).......)))).)))............(.....)))))))))))))... ( -26.41)
>DroSim_CAF1 4534 91 + 1
--UGUCAAGUGCUAAUGAAUUUGCAUGCAGGCGCACUUGGCGCCCGAUAAUUGCACGCAGCUCUAAAUAAAGAUAUUCGAUUUAUUAGCGAUA
--.......(((((((((((((((.(((((((((.....))))).......)))).)))..(((......))).....))))))))))))... ( -27.11)
>DroEre_CAF1 4469 90 + 1
--UGUCAAGUGCUAAUGAAUUUGCAUGCAGGC-CACUUGGCGCCCGAUAAUUGCACGCAGCUCUAAAUAAAGAUAUUCGAUUUAUUAGUGAUA
--........((((((((((((((.(((((((-(....))).........))))).)))..(((......))).....))))))))))).... ( -19.70)
>DroYak_CAF1 4596 92 + 1
UUUGUCAAGUGCUAAUGAAUUUGCAUGCAGGC-CACUUGGCGCCCGAUAAUUGCACGCAGCUCUAAAUAAAGAUAUUCGAUUUAUUAGCGAUA
.........(((((((((((((((.(((((((-(....))).........))))).)))..(((......))).....))))))))))))... ( -22.10)
>consensus
__UGUCAAGUGCUAAUGAAUUUGCAUGCAGGC_CACUUGGCGCCCGAUAAUUGCACGCAGCUCUAAAUAAAGAUAUUCGAUUUAUUAGCGAUA
.........(((((((((((((((.(((((((.(.....).))).......)))).)))..(((......))).....))))))))))))... (-19.05 = -19.13 +   0.08)

alignment

secondary structure

dotplot

Window 8

Location	14,327,978 – 14,328,068
Length	90
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	96.28
Mean single sequence MFE	-24.34
Consensus MFE	-18.75
Energy contribution	-19.15
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.77
SVM decision value	0.38
SVM RNA-class probability	0.714687
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14327978 90 - 20766785
UAACGCUAAUAAAUCGAAUAUCUUUAUUUAGAGCUGCGUGCAAUUAUCGGGCGCCAAGUG-GCCGGCAUGCAAAUUCAUUAGCACUUGACA--
....((((((.....(((((....))))).(((.(((((((......(((.(((...)))-.))))))))))..)))))))))........-- ( -23.80)
>DroSec_CAF1 4402 91 - 1
UAUUGCUAAUAAAUCGAAUAUCUUUAUUUGGAGCUGCGUGCAAUUAUCGGGCGCCAAGUGCGCCUGCAUGCAAAUUCAUUAGCACUUGACA--
...(((((((...(((((((....)))))))...((((((((.......(((((.....))))))))))))).....))))))).......-- ( -29.51)
>DroSim_CAF1 4534 91 - 1
UAUCGCUAAUAAAUCGAAUAUCUUUAUUUAGAGCUGCGUGCAAUUAUCGGGCGCCAAGUGCGCCUGCAUGCAAAUUCAUUAGCACUUGACA--
....((((((.....(((((....))))).(((.((((((((.......(((((.....)))))))))))))..)))))))))........-- ( -26.91)
>DroEre_CAF1 4469 90 - 1
UAUCACUAAUAAAUCGAAUAUCUUUAUUUAGAGCUGCGUGCAAUUAUCGGGCGCCAAGUG-GCCUGCAUGCAAAUUCAUUAGCACUUGACA--
.....(((((.....(((((....))))).(((.((((((((......((.(((...)))-.))))))))))..)))))))).........-- ( -18.50)
>DroYak_CAF1 4596 92 - 1
UAUCGCUAAUAAAUCGAAUAUCUUUAUUUAGAGCUGCGUGCAAUUAUCGGGCGCCAAGUG-GCCUGCAUGCAAAUUCAUUAGCACUUGACAAA
....((((((.....(((((....))))).(((.((((((((......((.(((...)))-.))))))))))..))))))))).......... ( -23.00)
>consensus
UAUCGCUAAUAAAUCGAAUAUCUUUAUUUAGAGCUGCGUGCAAUUAUCGGGCGCCAAGUG_GCCUGCAUGCAAAUUCAUUAGCACUUGACA__
....((((((.....(((((....))))).(((.((((((((.......(((.........)))))))))))..))))))))).......... (-18.75 = -19.15 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:46 2006