Locus 2514

Sequence ID	2L_DroMel_CAF1
Location	6,940,874 – 6,940,975
Length	101
Max. P	0.994902

overview

Window 1

Location	6,940,874 – 6,940,975
Length	101
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	75.13
Mean single sequence MFE	-29.45
Consensus MFE	-18.27
Energy contribution	-17.67
Covariance contribution	-0.61
Combinations/Pair	1.32
Mean z-score	-2.40
Structure conservation index	0.62
SVM decision value	2.15
SVM RNA-class probability	0.989224
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6940874 101 + 22407834
GGGCACAACUGGUCGCCUUUCAGCGAUGGGUACAGAUGAUGCAUCUGUUCUCGUACAACUUAUCAGCUUUUCUUUUUCUGCAAGAGUUGAAG--UGUGAAG-UC
..((((.(((.(((((......))))).)))(((((((...)))))))..............((((((((((.......).))))))))).)--)))....-.. ( -28.60)
>DroVir_CAF1 10081 97 + 1
GGGCAGAGCUGAUCGCCUUUCAGCGAUGGGUACAGAUGAUGCAUCUGUUCUUAAAUGAAUAAUCAGCUUUGCCUUCUCUGUAAGUU--CA-GG-AAAAAAA---
.(((((((((((((((......))))((((.(((((((...))))))).)))).........)))))))))))(((.(((......--))-))-)).....--- ( -36.90)
>DroGri_CAF1 26259 100 + 1
GGGCAGAGCUGAUCGCCUUUCAGCGAUGGGUACAGAUGAUGCAUCUGUCUUUAUAUAAAUUGUCAGCUUUGCCUUUUCUGUAAAUU--AU-CG-AAACAAAUUU
((((((((((((((((......)))(((((.(((((((...))))))).))))).......)))))))))))))............--..-..-.......... ( -32.00)
>DroWil_CAF1 9392 100 + 1
GGGCACAAUUGAUCGCCCUUCAGCGAUGGGUACAGAUGAUGCAUCUGUUUUUAUGAAAUUGAUCAGCUUUUCUUUUUCUGUGAAAGACAAAA--AGAAAAG-A-
........((((((((((.........))))(((((((...)))))))............))))))(((((((((((((.....)))..)))--)))))))-.- ( -27.10)
>DroYak_CAF1 8446 103 + 1
GGGCACAGCUGGUCGCCUUUCAGCGAUGGGUACAGAUGAUGCAUCUGUUCUCGUACAACUUAUCCGCUUUUCUUUUUCUGCAAGAGUUGAACGUUGUGAAG-UU
...((((((..(((((......)))))(((.(((((((...))))))).)))((.((((((....((............))..)))))).))))))))...-.. ( -30.30)
>DroAna_CAF1 7753 84 + 1
GGGCAGAGCUGAUCGCCUUUCAGCGAUGGAUACAGAUGAUGCAUCUGAUCUCGUACAACUUGUUAGCUUUUCUUUUUCUGUAAA--------------------
..((((((((((.......))))).((((((.((((((...))))))))).)))......................)))))...-------------------- ( -21.80)
>consensus
GGGCACAGCUGAUCGCCUUUCAGCGAUGGGUACAGAUGAUGCAUCUGUUCUCAUACAACUUAUCAGCUUUUCUUUUUCUGUAAAAG__AA_C__AGAAAAG_U_
(((...((((((((((......)))(((((.(((((((...))))))).))))).......)))))))...))).............................. (-18.27 = -17.67 +  -0.61)

alignment

secondary structure

dotplot

Window 2

Location	6,940,874 – 6,940,975
Length	101
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	75.13
Mean single sequence MFE	-26.47
Consensus MFE	-16.95
Energy contribution	-17.40
Covariance contribution	0.45
Combinations/Pair	1.06
Mean z-score	-2.81
Structure conservation index	0.64
SVM decision value	2.52
SVM RNA-class probability	0.994902
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6940874 101 - 22407834
GA-CUUCACA--CUUCAACUCUUGCAGAAAAAGAAAAGCUGAUAAGUUGUACGAGAACAGAUGCAUCAUCUGUACCCAUCGCUGAAAGGCGACCAGUUGUGCCC
((-(((..((--(((....((((.......)))).))).))..)))))((((((..(((((((...))))))).....(((((....)))))....)))))).. ( -23.70)
>DroVir_CAF1 10081 97 - 1
---UUUUUUU-CC-UG--AACUUACAGAGAAGGCAAAGCUGAUUAUUCAUUUAAGAACAGAUGCAUCAUCUGUACCCAUCGCUGAAAGGCGAUCAGCUCUGCCC
---.....((-((-((--......))).)))((((.((((((..............(((((((...))))))).....(((((....))))))))))).)))). ( -33.90)
>DroGri_CAF1 26259 100 - 1
AAAUUUGUUU-CG-AU--AAUUUACAGAAAAGGCAAAGCUGACAAUUUAUAUAAAGACAGAUGCAUCAUCUGUACCCAUCGCUGAAAGGCGAUCAGCUCUGCCC
...(((((..-..-..--.....)))))...((((.((((((..............(((((((...))))))).....(((((....))))))))))).)))). ( -31.70)
>DroWil_CAF1 9392 100 - 1
-U-CUUUUCU--UUUUGUCUUUCACAGAAAAAGAAAAGCUGAUCAAUUUCAUAAAAACAGAUGCAUCAUCUGUACCCAUCGCUGAAGGGCGAUCAAUUGUGCCC
-.-(((((((--((((.(.......).))))))))))).(((((............(((((((...))))))).(((.((...)).))).)))))......... ( -23.70)
>DroYak_CAF1 8446 103 - 1
AA-CUUCACAACGUUCAACUCUUGCAGAAAAAGAAAAGCGGAUAAGUUGUACGAGAACAGAUGCAUCAUCUGUACCCAUCGCUGAAAGGCGACCAGCUGUGCCC
..-...((((.(((.(((((.((((............))))...))))).)))...(((((((...))))))).....(((((....))))).....))))... ( -25.30)
>DroAna_CAF1 7753 84 - 1
--------------------UUUACAGAAAAAGAAAAGCUAACAAGUUGUACGAGAUCAGAUGCAUCAUCUGUAUCCAUCGCUGAAAGGCGAUCAGCUCUGCCC
--------------------....((((...((.....)).....((((...(.(((((((((...)))))).))))((((((....))))))))))))))... ( -20.50)
>consensus
_A_CUUCUCU__C_UC__CUCUUACAGAAAAAGAAAAGCUGAUAAGUUGUACAAGAACAGAUGCAUCAUCUGUACCCAUCGCUGAAAGGCGAUCAGCUCUGCCC
....................................(((((...............(((((((...))))))).....(((((....))))).)))))...... (-16.95 = -17.40 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:41 2006