Locus 9044

Sequence ID	3R_DroMel_CAF1
Location	24,193,977 – 24,194,117
Length	140
Max. P	0.921857

overview

Window 5

Location	24,193,977 – 24,194,081
Length	104
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.33
Mean single sequence MFE	-21.32
Consensus MFE	-11.52
Energy contribution	-11.67
Covariance contribution	0.14
Combinations/Pair	1.20
Mean z-score	-2.11
Structure conservation index	0.54
SVM decision value	1.14
SVM RNA-class probability	0.921857
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24193977 104 - 27905053
CUUAUGGCGUUGUCUUCAGCCUGCUGCU--------------AGCUUCCUUCCUG--CCCGCAGCAUUUAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUACUCAAAAGUUUCAACC
......((((((....)))).((((((.--------------.((.........)--)..)))))).......))..((((((.....))))))(((((((((......))))))))).. ( -23.90)
>DroPse_CAF1 17929 90 - 1
CUUAUGGCGCAG----CAGC-ACCUCCU--------------AG---------AG--CCCAGAGCAUUUAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUGCUUCAAAGUUUUAACA
.....((.((..----..))-.))...(--------------((---------((--..((((.......))))..))))).............(((((((((......))))))))).. ( -14.90)
>DroSim_CAF1 20453 104 - 1
CUUAUGGCGUUGUCUUCAGCCUGCUGCU--------------AGCUUCCUUCCUG--CCCGCAGCAUUUAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUACUCAAAAGUUUCAACC
......((((((....)))).((((((.--------------.((.........)--)..)))))).......))..((((((.....))))))(((((((((......))))))))).. ( -23.90)
>DroEre_CAF1 19909 94 - 1
CUUAUGGCGUUGUCUUCAGCCUGCUGCCU---------------------UC-----CUGGCAGCAUUUAUCUGCAUUUUAUUCCGUUAAUAAAUUGAAACUUACUCAAAAGUUUCGAGC
......((((((....)))).(((((((.---------------------..-----..))))))).......))...................(((((((((......))))))))).. ( -25.20)
>DroYak_CAF1 17850 118 - 1
CUUAUGGCGUUGUCUUCAGCCUGCUGCCUGCUGCCUGCUAGCAGCUUCCUUCCUG--CUCGCAGCAUUUAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUACUCAAAAGUUUCAACC
.....(((((((....))))..(((((..((.....))..))))).........)--)).((((.......))))..((((((.....))))))(((((((((......))))))))).. ( -28.90)
>DroAna_CAF1 15525 90 - 1
CUUAUGGCGUUGUCUUCUAAC------------------------------CCGGCCCCCAAAGCAUUCAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUGCUGAAAAGUUUGAACU
....(((.((((.....))))------------------------------))).........(((......)))..((((((.....))))))((.((((((......)))))).)).. ( -11.10)
>consensus
CUUAUGGCGUUGUCUUCAGCCUGCUGCU______________AG______UCCUG__CCCGCAGCAUUUAUCUGCAUUUUAUUUCGUUAAUAAAUUGAAACUUACUCAAAAGUUUCAACC
....((((((((....))))...........................................(((......)))..........)))).....(((((((((......))))))))).. (-11.52 = -11.67 +   0.14)

alignment

secondary structure

dotplot

Window 6

Location	24,194,017 – 24,194,117
Length	100
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	80.65
Mean single sequence MFE	-27.77
Consensus MFE	-17.31
Energy contribution	-18.14
Covariance contribution	0.84
Combinations/Pair	1.14
Mean z-score	-1.55
Structure conservation index	0.62
SVM decision value	0.03
SVM RNA-class probability	0.550757
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24194017 100 - 27905053
UGACGAGGCCAUCAAAAGUUUUGACACCGACUGAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCU--------------AGCUUCCUUCCUG--CCCGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((((((........))))))))))))).)))))..(((..((((((.--------------.((.........)--)..)))))).....)))...... ( -28.90)
>DroSec_CAF1 16879 100 - 1
UGACGAGGCCAUCAAAAGUUUUGACACCGACUGAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCU--------------AGCUUCCUUCCUG--CCCGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((((((........))))))))))))).)))))..(((..((((((.--------------.((.........)--)..)))))).....)))...... ( -28.90)
>DroSim_CAF1 20493 100 - 1
UGACGAGGCCAUCAAAAGUUUUGACACCGACUGAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCU--------------AGCUUCCUUCCUG--CCCGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((((((........))))))))))))).)))))..(((..((((((.--------------.((.........)--)..)))))).....)))...... ( -28.90)
>DroEre_CAF1 19949 90 - 1
UGACGAGGCCAUCAAAAGUUCUGACAGCGACUAAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCCU---------------------UC-----CUGGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((..((........))..))))))))).)))))..(((..(((((((.---------------------..-----..))))))).....)))...... ( -29.90)
>DroYak_CAF1 17890 114 - 1
UGACGAGGCCAUCAAAAGUUCUGACACCGACUAAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCCUGCUGCCUGCUAGCAGCUUCCUUCCUG--CUCGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((..((........))..))))))))).)))))........(((((..((.....))..)))))..........--...((((.......))))..... ( -32.70)
>DroAna_CAF1 15565 86 - 1
UGACGGGACCAUCAAAAGUUUCCACAUCGACUGCGGCUUAUGGCGUUGUCUUCUAAC------------------------------CCGGCCCCCAAAGCAUUCAUCUGCAUUUU
....(((.((.......((....))...(((.(((.(....).))).))).......------------------------------..))))).....(((......)))..... ( -17.30)
>consensus
UGACGAGGCCAUCAAAAGUUUUGACACCGACUGAGGCUUAUGGCGUUGUCUUCAGCCUGCUGCU______________AGCUUCCUUCCUG__CCCGCAGCAUUUAUCUGCAUUUU
.(((((.(((((...((((..((........))..))))))))).))))).......((((((.................................)))))).............. (-17.31 = -18.14 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:26 2006