Locus 4895

Sequence ID	X_DroMel_CAF1
Location	12,722,940 – 12,723,038
Length	98
Max. P	0.999531

overview

Window 8

Location	12,722,940 – 12,723,038
Length	98
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	87.72
Mean single sequence MFE	-18.83
Consensus MFE	-15.61
Energy contribution	-15.65
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-2.05
Structure conservation index	0.83
SVM decision value	1.48
SVM RNA-class probability	0.957486
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12722940 98 + 22224390
UGUUUGUGUGGGCCAAACAAUGGAGAAAUAUUAUAAAGAAAAUAAAGA--AGAAAAAACGAUACAAGAUCCCCAGCAUUUGGCCCAAAUUAAGUUCUGUU
..((((..(((((((((...(((.....((((........))))....--.........(((.....))).)))...)))))))))...))))....... ( -18.50)
>DroSec_CAF1 75192 97 + 1
UGUUUGUGUGGGCCAAACAAUGGAGAAAUAUUAAAAAAAAAA-GAAGA--AAAAAAAACGAUACAAGAUCUCCAGCAUUUGGCCCAAAUUAAGUUCUGUU
..((((..(((((((((...((((((................-.....--..................))))))...)))))))))...))))....... ( -22.53)
>DroSim_CAF1 60343 98 + 1
UGUUUGUGUGGGGCAAACAAUGGAGAAAUAUUAAAAAAAAAA-AGAGAA-GAAAAAAACGAUACAAGAUCUCCAGCAUUUGGCCCAAAUUAAGUUCUGUU
..((((..((((.((((...((((((................-......-..................))))))...)))).))))...))))....... ( -17.90)
>DroEre_CAF1 74496 88 + 1
UGUUUGUGUGGGGCAAACAGUGGAGAAAUAUUAAAUGAAAA------------UAAAACGAAAUAAGAUCUCCAGCAUUUGGCCCAAAUUAGGUUCUGUU
........((((.((((...((((((..((((.........------------........))))...))))))...)))).)))).............. ( -17.13)
>DroYak_CAF1 78860 99 + 1
UGUUUGUGUGGGGCAAACAAUGGAGAAAUAUUAAAUGGAAAA-AAAAAAGAAAAAAAACGAAAUAAGAUCUCCAGCAUUUGGCCCAAAUUAAGUUCUGUU
..((((..((((.((((...((((((..((((..........-..................))))...))))))...)))).))))...))))....... ( -18.09)
>consensus
UGUUUGUGUGGGGCAAACAAUGGAGAAAUAUUAAAAAAAAAA_AAAGA__AAAAAAAACGAUACAAGAUCUCCAGCAUUUGGCCCAAAUUAAGUUCUGUU
..((((..((((.((((...((((((..........................................))))))...)))).))))...))))....... (-15.61 = -15.65 +   0.04)

alignment

secondary structure

dotplot

Window 9

Location	12,722,940 – 12,723,038
Length	98
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	87.72
Mean single sequence MFE	-20.82
Consensus MFE	-17.23
Energy contribution	-17.07
Covariance contribution	-0.16
Combinations/Pair	1.07
Mean z-score	-3.68
Structure conservation index	0.83
SVM decision value	3.69
SVM RNA-class probability	0.999531
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12722940 98 - 22224390
AACAGAACUUAAUUUGGGCCAAAUGCUGGGGAUCUUGUAUCGUUUUUUCU--UCUUUAUUUUCUUUAUAAUAUUUCUCCAUUGUUUGGCCCACACAAACA
..............((((((((((..((((((..(((((...........--.............)))))....))))))..))))))))))........ ( -24.96)
>DroSec_CAF1 75192 97 - 1
AACAGAACUUAAUUUGGGCCAAAUGCUGGAGAUCUUGUAUCGUUUUUUUU--UCUUC-UUUUUUUUUUAAUAUUUCUCCAUUGUUUGGCCCACACAAACA
..............((((((((((..((((((....((((..........--.....-...........)))).))))))..))))))))))........ ( -24.47)
>DroSim_CAF1 60343 98 - 1
AACAGAACUUAAUUUGGGCCAAAUGCUGGAGAUCUUGUAUCGUUUUUUUC-UUCUCU-UUUUUUUUUUAAUAUUUCUCCAUUGUUUGCCCCACACAAACA
..............((((.(((((..((((((....((((..........-......-...........)))).))))))..))))).))))........ ( -17.33)
>DroEre_CAF1 74496 88 - 1
AACAGAACCUAAUUUGGGCCAAAUGCUGGAGAUCUUAUUUCGUUUUA------------UUUUCAUUUAAUAUUUCUCCACUGUUUGCCCCACACAAACA
..............((((.(((((..((((((...((((........------------.........))))..))))))..))))).))))........ ( -18.93)
>DroYak_CAF1 78860 99 - 1
AACAGAACUUAAUUUGGGCCAAAUGCUGGAGAUCUUAUUUCGUUUUUUUUCUUUUUU-UUUUCCAUUUAAUAUUUCUCCAUUGUUUGCCCCACACAAACA
..............((((.(((((..((((((...((((..................-..........))))..))))))..))))).))))........ ( -18.39)
>consensus
AACAGAACUUAAUUUGGGCCAAAUGCUGGAGAUCUUGUAUCGUUUUUUUU__UCUUU_UUUUUUUUUUAAUAUUUCUCCAUUGUUUGCCCCACACAAACA
..............((((.(((((..((((((..........................................))))))..))))).))))........ (-17.23 = -17.07 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:34 2006