Locus 6510

Sequence ID	3L_DroMel_CAF1
Location	17,265,434 – 17,265,634
Length	200
Max. P	0.999959

overview

Window 5

Location	17,265,434 – 17,265,554
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.67
Mean single sequence MFE	-35.38
Consensus MFE	-34.80
Energy contribution	-34.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.98
SVM decision value	1.55
SVM RNA-class probability	0.963300
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17265434 120 + 23771897
GCGAAAAUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((((....((.((.(((....))).))))))))(((..((..((((((((....))))))))..))............((((((......))))))....((((((....)))))).))) ( -34.80)
>DroSec_CAF1 148942 120 + 1
GCGAAACUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((....(((((((((((....)))..(((((((......))))......((((((((....(((......)))...))))))))))).))))))))....((((((....)))))).)). ( -37.70)
>DroSim_CAF1 143975 120 + 1
GCGAAAAUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((((....((.((.(((....))).))))))))(((..((..((((((((....))))))))..))............((((((......))))))....((((((....)))))).))) ( -34.80)
>DroEre_CAF1 152004 120 + 1
GCGAAAAUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((((....((.((.(((....))).))))))))(((..((..((((((((....))))))))..))............((((((......))))))....((((((....)))))).))) ( -34.80)
>DroYak_CAF1 156487 120 + 1
GCGAAAAUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((((....((.((.(((....))).))))))))(((..((..((((((((....))))))))..))............((((((......))))))....((((((....)))))).))) ( -34.80)
>consensus
GCGAAAAUGUCGUAGCUUUUCAGCAACACUCGCAGCAAAGUGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCU
((((....((.((.(((....))).))))))))(((..((..((((((((....))))))))..))............((((((......))))))....((((((....)))))).))) (-34.80 = -34.80 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	17,265,474 – 17,265,594
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.54
Mean single sequence MFE	-33.68
Consensus MFE	-33.84
Energy contribution	-33.68
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.57
Structure conservation index	1.00
SVM decision value	4.89
SVM RNA-class probability	0.999959
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17265474 120 + 23771897
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUUUAAC
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))............ ( -33.30)
>DroSec_CAF1 148982 116 + 1
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU----
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))........---- ( -33.30)
>DroSim_CAF1 144015 116 + 1
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU----
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))........---- ( -33.30)
>DroEre_CAF1 152044 119 + 1
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCCAUUCUUUUCCCCACAUUUC-C
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))..........-. ( -35.20)
>DroYak_CAF1 156527 116 + 1
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUCCACUUU----
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))........---- ( -33.30)
>consensus
UGAAACUAAUGGCAGUUAGUUUUGUUAAGUCGAUAAAACUGUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU____
.((((..(((((..(.((((((((((.....)))))))))).)(((((...((((((.((((((((....))))))....)).)))))).)))))..)))))..))))............ (-33.84 = -33.68 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	17,265,514 – 17,265,634
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.59
Mean single sequence MFE	-22.52
Consensus MFE	-22.02
Energy contribution	-22.02
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.93
Structure conservation index	0.98
SVM decision value	1.68
SVM RNA-class probability	0.971895
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17265514 120 + 23771897
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUUUAACCGCUUUUUUUUCACUCCUGCCUGCUCCCCUUAACCCUCAC
(..(((((...((((((.((((((((....))))))....)).)))))).)))))..).............................................................. ( -22.10)
>DroSec_CAF1 149022 109 + 1
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU-----------UUUUCACUCCUCCCUGCCCCCCUCCCCCCACAA
(..(((((...((((((.((((((((....))))))....)).)))))).)))))..)..................-----------................................. ( -22.10)
>DroSim_CAF1 144055 108 + 1
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU------------UUUCACUCCUGCCUGCCCUCCUGCCCCCUCAC
....((((...((((((..(((.(((((.((((....)...))))))))..)))..))).................------------..........(....)......)))...)))) ( -23.50)
>DroEre_CAF1 152084 112 + 1
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCCAUUCUUUUCCCCACAUUUC-CCA-CUUUUUUCCACUCCUGGCUGCCUCCUUCC------CC
...........(((((...(((.(((((.((((....)...))))))))..)))........................-...-.......(((....)))))))).......------.. ( -22.80)
>DroYak_CAF1 156567 90 + 1
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUCCACUUU--------UUUUUGCCACUC----------------------CC
(..(((((...((((((.((((((((....))))))....)).)))))).)))))..)..................--------............----------------------.. ( -22.10)
>consensus
GUCAGUGAUAUGGCAGAUUGUGUGGCAGCAGCCGCAAGCUCGCUCUGCCUUCAUUUUCUAUUCUUUUCUACACUUU________UUUUUUUCACUCCUGCCUGCCCCCCUCC_CCC_CAC
(..(((((...((((((.((((((((....))))))....)).)))))).)))))..).............................................................. (-22.02 = -22.02 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:05 2006