Locus 6159

Sequence ID	X_DroMel_CAF1
Location	15,721,586 – 15,721,827
Length	241
Max. P	0.999643

overview

Window 8

Location	15,721,586 – 15,721,698
Length	112
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	99.29
Mean single sequence MFE	-17.68
Consensus MFE	-17.54
Energy contribution	-17.74
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.29
Structure conservation index	0.99
SVM decision value	0.36
SVM RNA-class probability	0.703102
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15721586 112 + 22224390
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGUUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAACAACUAUAGCU
........................((((((.(((((.(.((((((....)))))).).))))).)))))).....((((........)))).(((((((....))))))).. ( -18.20)
>DroSec_CAF1 5100 112 + 1
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGUUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAACAACUAUAGCU
........................((((((.(((((.(.((((((....)))))).).))))).)))))).....((((........)))).(((((((....))))))).. ( -18.20)
>DroSim_CAF1 4780 112 + 1
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGUUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAAUAACUAUAGCU
........................((((((.(((((.(.((((((....)))))).).))))).)))))).....((((........)))).(((((((....))))))).. ( -18.20)
>DroEre_CAF1 5484 112 + 1
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGAUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAACAACUAUAGCU
.................((((((((..((((((((....((((((....))))))(((((...)))))...........)))).))))..)))))))).............. ( -15.60)
>DroYak_CAF1 4591 112 + 1
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGUUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAACAACUAUAGCU
........................((((((.(((((.(.((((((....)))))).).))))).)))))).....((((........)))).(((((((....))))))).. ( -18.20)
>consensus
CUCCUCCUUAAAUAAUUUUAUGAUUUCCGUUUGUUACAUUUGUAUGAAUAUACGACUAUAAUAUAUGGAACAAGAUCACAUCACAACGUGAAUUAUAGUAACAACUAUAGCU
........................((((((.(((((.(.((((((....)))))).).))))).)))))).....((((........)))).(((((((....))))))).. (-17.54 = -17.74 +   0.20)

alignment

secondary structure

dotplot

Window 9

Location	15,721,698 – 15,721,799
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	95.25
Mean single sequence MFE	-20.34
Consensus MFE	-18.18
Energy contribution	-18.18
Covariance contribution	-0.00
Combinations/Pair	1.07
Mean z-score	-2.24
Structure conservation index	0.89
SVM decision value	3.09
SVM RNA-class probability	0.998409
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15721698 101 - 22224390
CGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAAAAGAAUUUAAAACAGAUAAAAUCGUUUUUGAAUGUUAUUCUUAGAGUGCAGCCUUGACAAA
........(((((((.((((((((....(((.....)))...))))))))((((..(((((....)))))..))))..............))))))).... ( -19.30)
>DroSec_CAF1 5212 101 - 1
CGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAGCAGAUAAAAUCGUUUUUGAAUGUUAUUCUUAGAGUGCAGCCUUGACAAA
........(((((((.((((((((.((.(((.....))))).))))))))((((..(((((....)))))..))))..............))))))).... ( -21.30)
>DroSim_CAF1 4892 101 - 1
CGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAACAGAUAAAAUCGUUUUUGAAUGUUAUUCUUAGAGUGCAGCCUUGACAAA
........(((((((.((((((((.((.(((.....))))).))))))))((((..(((((....)))))..))))..............))))))).... ( -21.30)
>DroEre_CAF1 5596 98 - 1
CAUACAAAUCAAGGCAUUAAAUUUAUCAUGAACAUUUCAGAAGAAUUUAAAACAAAUACAAUCGUUUUUGAAUGUUAU---UAGAGUGCAGCCUUGACAAA
........(((((((.((((((((.((.(((.....))))).))))))))..((((.((....)).))))........---.........))))))).... ( -20.00)
>DroYak_CAF1 4703 101 - 1
CAUACAAAUCAAGGCAUUAAAUUUAUCAUGAACAUUUCAAAAGAAUUUAAAACAGAUGCAAUCGUUUUUGAAUGUUAUUCUUAGAGUGCAGCCUUGACAAA
........(((((((.((((((((....(((.....)))...))))))))......((((.((......((((...))))...)).))))))))))).... ( -19.80)
>consensus
CGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAACAGAUAAAAUCGUUUUUGAAUGUUAUUCUUAGAGUGCAGCCUUGACAAA
........(((((((......((((.....(((((((.((((((.((((.......)))).)).)))).))))))).....)))).....))))))).... (-18.18 = -18.18 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	15,721,736 – 15,721,827
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	94.95
Mean single sequence MFE	-20.06
Consensus MFE	-19.10
Energy contribution	-18.86
Covariance contribution	-0.24
Combinations/Pair	1.05
Mean z-score	-2.17
Structure conservation index	0.95
SVM decision value	3.82
SVM RNA-class probability	0.999643
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15721736 91 + 22224390
GAUUUUAUCUGUUUUAAAUUCUUUUGAAAUGUUCACGAUAAAUUUAAUGCCUUGAUUUGUACGGUUCAAAUUGGGGCGUGUUCUUUAAAUG
...((((((.((((((((....))))))))(....)))))))....((((((..(((((.......)))))..))))))............ ( -20.60)
>DroSec_CAF1 5250 91 + 1
GAUUUUAUCUGCUUUAAAUUCUUCUGAAAUGUUCACGAUAAAUUUAAUGCCUUGAUUUGUACGGUUCAAAUUGGGGCGUGUUCUUUAAAUG
.((((.....((..((((((..(((((.....))).))..))))))((((((..(((((.......)))))..)))))))).....)))). ( -20.00)
>DroSim_CAF1 4930 91 + 1
GAUUUUAUCUGUUUUAAAUUCUUCUGAAAUGUUCACGAUAAAUUUAAUGCCUUGAUUUGUACGGUUCAAAUUGGGGCGUGUUUUUUAAAUG
..............((((((..(((((.....))).))..))))))((((((..(((((.......)))))..))))))............ ( -19.90)
>DroEre_CAF1 5631 91 + 1
GAUUGUAUUUGUUUUAAAUUCUUCUGAAAUGUUCAUGAUAAAUUUAAUGCCUUGAUUUGUAUGGUUCAAAUUGGGGCGUAUUUUUUAAAUG
.....((((((...((((((..(((((.....))).))..))))))((((((..(((((.......)))))..))))))......)))))) ( -20.20)
>DroYak_CAF1 4741 91 + 1
GAUUGCAUCUGUUUUAAAUUCUUUUGAAAUGUUCAUGAUAAAUUUAAUGCCUUGAUUUGUAUGGUUCAAAUUGGGGCGUGUUCUUUAAAUG
..........((((((((....))))))))...(((..((((....((((((..(((((.......)))))..))))))....)))).))) ( -19.60)
>consensus
GAUUUUAUCUGUUUUAAAUUCUUCUGAAAUGUUCACGAUAAAUUUAAUGCCUUGAUUUGUACGGUUCAAAUUGGGGCGUGUUCUUUAAAUG
..............((((((..(((((.....))).))..))))))((((((..(((((.......)))))..))))))............ (-19.10 = -18.86 +  -0.24)

alignment

secondary structure

dotplot

Window 1

Location	15,721,736 – 15,721,827
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	94.95
Mean single sequence MFE	-11.72
Consensus MFE	-10.10
Energy contribution	-10.50
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.86
SVM decision value	2.17
SVM RNA-class probability	0.989652
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15721736 91 - 22224390
CAUUUAAAGAACACGCCCCAAUUUGAACCGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAAAAGAAUUUAAAACAGAUAAAAUC
..............(((...(((((.......)))))...)))......((((((((......(((....)))......)).))))))... ( -11.10)
>DroSec_CAF1 5250 91 - 1
CAUUUAAAGAACACGCCCCAAUUUGAACCGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAGCAGAUAAAAUC
..............(((...(((((.......)))))...))).((((((((.((.(((.....))))).))))))))............. ( -12.30)
>DroSim_CAF1 4930 91 - 1
CAUUUAAAAAACACGCCCCAAUUUGAACCGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAACAGAUAAAAUC
..............(((...(((((.......)))))...))).((((((((.((.(((.....))))).))))))))............. ( -12.30)
>DroEre_CAF1 5631 91 - 1
CAUUUAAAAAAUACGCCCCAAUUUGAACCAUACAAAUCAAGGCAUUAAAUUUAUCAUGAACAUUUCAGAAGAAUUUAAAACAAAUACAAUC
..............(((...(((((.......)))))...))).((((((((.((.(((.....))))).))))))))............. ( -12.30)
>DroYak_CAF1 4741 91 - 1
CAUUUAAAGAACACGCCCCAAUUUGAACCAUACAAAUCAAGGCAUUAAAUUUAUCAUGAACAUUUCAAAAGAAUUUAAAACAGAUGCAAUC
(((((.........(((...(((((.......)))))...))).((((((((....(((.....)))...))))))))...)))))..... ( -10.60)
>consensus
CAUUUAAAGAACACGCCCCAAUUUGAACCGUACAAAUCAAGGCAUUAAAUUUAUCGUGAACAUUUCAGAAGAAUUUAAAACAGAUAAAAUC
..............(((...(((((.......)))))...))).((((((((.((.(((.....))))).))))))))............. (-10.10 = -10.50 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:58 2006