Locus 8365

Sequence ID	X_DroMel_CAF1
Location	20,776,020 – 20,776,175
Length	155
Max. P	0.721704

overview

Window 6

Location	20,776,020 – 20,776,115
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	89.68
Mean single sequence MFE	-29.76
Consensus MFE	-20.72
Energy contribution	-20.88
Covariance contribution	0.16
Combinations/Pair	1.17
Mean z-score	-2.38
Structure conservation index	0.70
SVM decision value	0.40
SVM RNA-class probability	0.721704
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20776020 95 + 22224390
GGCACUGCCAACAGCAGCAAAAAGCUACCGAGCAAAAUCGCUGCCUUAACGGAUCUCAUAUUCCAAAUGGGCAAGCCCCAAAGAGGGGUACCUUC
((...((((....(((((.....(((....)))......)))))......(((........))).....)))).(((((.....))))).))... ( -28.50)
>DroSec_CAF1 89908 95 + 1
GGCAGUGCCAACAGAAGCAAACAGCUACCGAGCAAAAUCGCUGCCUUAACGGAUCUCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGGUACCUUC
((((((((........)).....(((....)))......)))))).....((..((((((.....))))))...(((((.....))))).))... ( -26.90)
>DroSim_CAF1 35226 95 + 1
GGCAGUGCCAACAGAAGCAAACAGCUACUGAGCAAAAUCGCUGCCUUAACGGAUCUCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGUUACCUUC
(((((((....(((.(((.....))).)))........))))))).....(((........)))...((((.....))))..((((....)))). ( -26.80)
>DroEre_CAF1 27384 95 + 1
GGCAGUGCCAACAGCAGCAAACUGCCAGCGAGCAAAAUUGCUGCCUUGACGGAUCUCAUUUUCCAAAUUGGCAAGCCCCAAAGGCGGUUACCGCC
(((..((((((..(((((((..(((......)))...)))))))......(((........)))...)))))).))).....(((((...))))) ( -35.10)
>DroYak_CAF1 77082 95 + 1
GGCAGUGCCAACAGUAGCAAACAGCUACCGAGGAAAAUCGCUGCCUCAACGGAUCUCAUUUUUGAAAUGGGCAAACCCCAACGGGGGUUACCUCC
(((((((((....(((((.....)))))...)).....))))))).....((..((((((.....))))))..((((((....)))))).))... ( -31.50)
>consensus
GGCAGUGCCAACAGAAGCAAACAGCUACCGAGCAAAAUCGCUGCCUUAACGGAUCUCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGUUACCUUC
(((..((((....(((((.....(((....)))......)))))......(((........))).....)))).))).....(((((...))))) (-20.72 = -20.88 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	20,776,020 – 20,776,115
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	89.68
Mean single sequence MFE	-33.28
Consensus MFE	-24.58
Energy contribution	-25.42
Covariance contribution	0.84
Combinations/Pair	1.14
Mean z-score	-1.74
Structure conservation index	0.74
SVM decision value	0.18
SVM RNA-class probability	0.619790
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20776020 95 - 22224390
GAAGGUACCCCUCUUUGGGGCUUGCCCAUUUGGAAUAUGAGAUCCGUUAAGGCAGCGAUUUUGCUCGGUAGCUUUUUGCUGCUGUUGGCAGUGCC
...((((((((.....)))(((.(((....((((........))))....)))))).....(((((((((((.....)))))))..))))))))) ( -35.20)
>DroSec_CAF1 89908 95 - 1
GAAGGUACCCCUCUUUGGGGCUUGCCCAUUUGGAAAAUGAGAUCCGUUAAGGCAGCGAUUUUGCUCGGUAGCUGUUUGCUUCUGUUGGCACUGCC
...((((((((.....))))..)))).....(((........))).....(((((......(((((((.(((.....))).)))..))))))))) ( -27.70)
>DroSim_CAF1 35226 95 - 1
GAAGGUAACCCUCUUUGGGGCUUGCCCAUUUGGAAAAUGAGAUCCGUUAAGGCAGCGAUUUUGCUCAGUAGCUGUUUGCUUCUGUUGGCACUGCC
...((((.(((.....)))(((.(((....((((........))))....)))))).....(((((((.(((.....))).)))..)))).)))) ( -28.40)
>DroEre_CAF1 27384 95 - 1
GGCGGUAACCGCCUUUGGGGCUUGCCAAUUUGGAAAAUGAGAUCCGUCAAGGCAGCAAUUUUGCUCGCUGGCAGUUUGCUGCUGUUGGCACUGCC
(((((...))))).....(((.(((((((..(((........))).....((((((((..(((((....))))).)))))))))))))))..))) ( -39.50)
>DroYak_CAF1 77082 95 - 1
GGAGGUAACCCCCGUUGGGGUUUGCCCAUUUCAAAAAUGAGAUCCGUUGAGGCAGCGAUUUUCCUCGGUAGCUGUUUGCUACUGUUGGCACUGCC
((((((((((((....)))).)))))..(((((....)))))))).....(((((.(.....((.(((((((.....)))))))..))).))))) ( -35.60)
>consensus
GAAGGUAACCCUCUUUGGGGCUUGCCCAUUUGGAAAAUGAGAUCCGUUAAGGCAGCGAUUUUGCUCGGUAGCUGUUUGCUGCUGUUGGCACUGCC
...((((.(((.....)))(((.(((....((((........))))....)))))).....(((((((((((.....)))))))..)))).)))) (-24.58 = -25.42 +   0.84)

alignment

secondary structure

dotplot

Window 8

Location	20,776,075 – 20,776,175
Length	100
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.38
Mean single sequence MFE	-20.08
Consensus MFE	-9.61
Energy contribution	-8.62
Covariance contribution	-1.00
Combinations/Pair	1.47
Mean z-score	-1.70
Structure conservation index	0.48
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20776075 100 + 22224390
UCAUAUUCCAAAUGGGCAAGCCCCAAAGAGGGGUACCUUCUUAUAUAGAUUGG--CAUUUUACUUAAUUUAUAACA--CCUUCAUUAUCUGUACUUAACGAAUA----------------
...(((((.....(..((.(((((.....))))).........((((((((((--........))))))))))...--...........))..).....)))))---------------- ( -16.60)
>DroSec_CAF1 89963 100 + 1
UCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGGUACCUUCUUAUAUAGAAUGG--CGGUUUACUUAAUUUAUAACA--CCUCCAUUAUCUGUACUUAACCAAUA----------------
............(((....(((((.....))))).........((((((((((--.(((................)--)).))))..)))))).....)))...---------------- ( -21.79)
>DroSim_CAF1 35281 100 + 1
UCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGUUACCUUCUUAUAUAGAAUGG--CGGUUUACUUAAUUUAUAACA--CCUUCAUUAUCUGUACUUAACCAAUA----------------
............(((..(((.....(((((((...))))))).((((((((((--.(((................)--)).))))..)))))))))..)))...---------------- ( -18.29)
>DroEre_CAF1 27439 100 + 1
UCAUUUUCCAAAUUGGCAAGCCCCAAAGGCGGUUACCGCCUUAUAUAGAUUGG--CAUUUUAACUAAUUUAUAACA--CUUCCACUAUCUGUACUUAACCAAUA----------------
...........(((((.........(((((((...))))))).((((((((((--........))))))))))...--....................))))).---------------- ( -21.20)
>DroYak_CAF1 77137 100 + 1
UCAUUUUUGAAAUGGGCAAACCCCAACGGGGGUUACCUCCUUAUAUAGAUUGG--CAUUUAACUUAAUUUAUAACA--CUUGCACUAUCUGCACUUAACCAGUA----------------
.......((..(((((((((((((....)))))).........((((((((((--........))))))))))...--..))).))))...))...........---------------- ( -19.10)
>DroAna_CAF1 32963 114 + 1
UCAGUUCGCAAAUGGGCAAAUCCCCGGCGGGGCGGACCCCUUUUAUAAAGCAGCCCAGU---CUUGAUUUACAACCGAACUAAAAUA---GUACAUAAAUAGUACGACUAUCUAAUCACG
..((((((.....(((......)))(((.((((...................)))).))---)............))))))......---((((.......))))............... ( -23.51)
>consensus
UCAUUUUCCAAAUGGGCAAGCCCCAAAGAGGGUUACCUCCUUAUAUAGAUUGG__CAGUUUACUUAAUUUAUAACA__CCUCCAUUAUCUGUACUUAACCAAUA________________
............((((.....))))((((((.....)))))).((((((.(((..........))).))))))............................................... ( -9.61 =  -8.62 +  -1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:09 2006