Locus 2918

Sequence ID	2R_DroMel_CAF1
Location	10,132,451 – 10,132,553
Length	102
Max. P	0.934139

overview

Window 1

Location	10,132,451 – 10,132,553
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.60
Mean single sequence MFE	-34.06
Consensus MFE	-24.65
Energy contribution	-24.98
Covariance contribution	0.34
Combinations/Pair	1.31
Mean z-score	-1.75
Structure conservation index	0.72
SVM decision value	1.23
SVM RNA-class probability	0.934139
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10132451 102 + 20766785
--------GA----GCCCUCCUUAAGCAGUUCGUCGUCGAGGUACUUGCCAUGGAAGAGCUUUUGGAAAAUGUCCGCAUCAAUCGACGACGAGUUGCUCGAGUCUGAUGAAA------UG
--------..----......((..((((..(((((((((((((....)))......((((....(((.....))))).))..))))))))))..))))..))..........------.. ( -33.80)
>DroSec_CAF1 1100 102 + 1
--------GA----GCCCUCCUUAAGCAGUUCGUCGUCGAGGUACUUGCCAUGGAAGAGCUUCUGGAAAAUGUCCGCAUCAAUCGACGACGAGCUGCUCGAGUCUGAUGAAA------UG
--------..----......((..((((((((((((((((......(((...((((....))))(((.....))))))....))))))))))))))))..))..........------.. ( -39.90)
>DroAna_CAF1 1222 114 + 1
AUAAAUCGCAACUCACUUUCGUUGAAGAGCUCAUCGUCGAUGAUCUUGCCGUGGAACAGCUUCUGGAAAAUGUCGGCAUCAAUGGAGGAGGAGUUGCUCGAGUCUGACGAUA------UU
.......(((((((.((((((((((.(((.(((((...))))).)))((((.....(((...)))........)))).))))))))))..)))))))(((.......)))..------.. ( -35.32)
>DroSim_CAF1 11682 102 + 1
--------GA----GCCCUCCUUAAGCAGUUCGUCGUCGAGGUACUUGCCAUGGAAGAGCUUCUGGAAAAUGUCCGCAUCAAUCGACGACGAGCUGCUCGAGUCCGAUGAAA------UG
--------..----......((..((((((((((((((((......(((...((((....))))(((.....))))))....))))))))))))))))..))..........------.. ( -39.90)
>DroWil_CAF1 803 116 + 1
UUAAAUUGGU----ACUUUUUGUAGGCAGCUCAUCGUCAGUAAAUUUGCCAUGGAACAACUUUUGGAAUAUAUCCGCAUCAAUGGACGAUGAAUUAGUCGAAUCCGAUGAAAGACGUCUG
....((((((----((.....)))(((((.((((((((........(((...(......)....(((.....))))))......)))))))).)).)))....)))))............ ( -21.74)
>DroYak_CAF1 1424 102 + 1
--------GA----GCCCUCGUUAAGCAGUUCGUCGUCGAGGUACUUGCCAUGAAAAAGCUUCUGGAAAAUGUCCGCAUCAAUCGACGACGAGUUGCUCGAGUCUGAUGAAA------UG
--------..----...((((...((((..(((((((((((((....)))..............(((.....))).......))))))))))..))))))))..........------.. ( -33.70)
>consensus
________GA____GCCCUCCUUAAGCAGUUCGUCGUCGAGGUACUUGCCAUGGAAGAGCUUCUGGAAAAUGUCCGCAUCAAUCGACGACGAGUUGCUCGAGUCUGAUGAAA______UG
.................(((....((((((((((((((((......(((...((((....))))(((.....))))))....)))))))))))))))).))).................. (-24.65 = -24.98 +   0.34)

alignment

secondary structure

dotplot

Window 2

Location	10,132,451 – 10,132,553
Length	102
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.60
Mean single sequence MFE	-30.27
Consensus MFE	-21.11
Energy contribution	-22.00
Covariance contribution	0.89
Combinations/Pair	1.25
Mean z-score	-1.47
Structure conservation index	0.70
SVM decision value	0.76
SVM RNA-class probability	0.843678
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10132451 102 - 20766785
CA------UUUCAUCAGACUCGAGCAACUCGUCGUCGAUUGAUGCGGACAUUUUCCAAAAGCUCUUCCAUGGCAAGUACCUCGACGACGAACUGCUUAAGGAGGGC----UC--------
..------.....((...((..((((..((((((((((..(.((((((.....)))....(((.......)))..))).)))))))))))..))))..))...)).----..-------- ( -31.10)
>DroSec_CAF1 1100 102 - 1
CA------UUUCAUCAGACUCGAGCAGCUCGUCGUCGAUUGAUGCGGACAUUUUCCAGAAGCUCUUCCAUGGCAAGUACCUCGACGACGAACUGCUUAAGGAGGGC----UC--------
..------.....((...((..(((((.((((((((((..(.((((((.....)))....(((.......)))..))).))))))))))).)))))..))...)).----..-------- ( -34.60)
>DroAna_CAF1 1222 114 - 1
AA------UAUCGUCAGACUCGAGCAACUCCUCCUCCAUUGAUGCCGACAUUUUCCAGAAGCUGUUCCACGGCAAGAUCAUCGACGAUGAGCUCUUCAACGAAAGUGAGUUGCGAUUUAU
..------.(((((..(((((((((.................((((((((.(((....))).)))....)))))...(((((...)))))))))....((....)))))))))))).... ( -28.80)
>DroSim_CAF1 11682 102 - 1
CA------UUUCAUCGGACUCGAGCAGCUCGUCGUCGAUUGAUGCGGACAUUUUCCAGAAGCUCUUCCAUGGCAAGUACCUCGACGACGAACUGCUUAAGGAGGGC----UC--------
..------.....((...((..(((((.((((((((((..(.((((((.....)))....(((.......)))..))).))))))))))).)))))..))..))..----..-------- ( -34.60)
>DroWil_CAF1 803 116 - 1
CAGACGUCUUUCAUCGGAUUCGACUAAUUCAUCGUCCAUUGAUGCGGAUAUAUUCCAAAAGUUGUUCCAUGGCAAAUUUACUGACGAUGAGCUGCCUACAAAAAGU----ACCAAUUUAA
.....((..(((((((((..(((((....(((((.....))))).(((.....)))...))))).)))..((........))...))))))..))...........----.......... ( -20.20)
>DroYak_CAF1 1424 102 - 1
CA------UUUCAUCAGACUCGAGCAACUCGUCGUCGAUUGAUGCGGACAUUUUCCAGAAGCUUUUUCAUGGCAAGUACCUCGACGACGAACUGCUUAACGAGGGC----UC--------
..------..........((((((((..((((((((((..(.((((((.....)))....(((.......)))..))).)))))))))))..))))...))))...----..-------- ( -32.30)
>consensus
CA______UUUCAUCAGACUCGAGCAACUCGUCGUCGAUUGAUGCGGACAUUUUCCAGAAGCUCUUCCAUGGCAAGUACCUCGACGACGAACUGCUUAAGGAGGGC____UC________
..................((((((((..((((((((((.......(((.....)))....(((.......))).......))))))))))..)))))...)))................. (-21.11 = -22.00 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:42 2006