Locus 7390

Sequence ID X_DroMel_CAF1
Location 18,410,995 – 18,411,107
Length 112
Max. P 0.763008
window12113 window12114

overview

Window 3

Location 18,410,995 – 18,411,085
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 80.35
Mean single sequence MFE -21.52
Consensus MFE -12.42
Energy contribution -12.28
Covariance contribution -0.14
Combinations/Pair 1.07
Mean z-score -2.13
Structure conservation index 0.58
SVM decision value 0.51
SVM RNA-class probability 0.763008
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18410995 90 - 22224390
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCCUGCGCCCGCACAAAGCAAAAGGGGCAGCUCGAGCCCCAG-
...........(((......((......))((((((((((....))))))))))))).((.....))....(((((.......)))))..- ( -29.20)
>DroGri_CAF1 37054 78 - 1
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACAGCACAAUAAGAUCG-A------------
(((........(((...(((((......))))).((((((....))))))....))).((...))))).........-.------------ ( -12.60)
>DroSec_CAF1 33877 90 - 1
UGUAAGCAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCCUGCGCCCGCACAAAGCAAAAGGGGCAGCCCGAGCCGCAG-
...........(((....((..........((((((((((....))))))))))((((((.....)).....)))).))....)))....- ( -26.20)
>DroEre_CAF1 36219 77 - 1
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGCAGGAGAUUAAAAAGUUUCCUGCGCCCGCACA-AGCAAAAGGGGCA-------------G
............((....))((......))((((((((((....))))))))))((((((...-.)).....)))).-------------. ( -22.80)
>DroMoj_CAF1 11217 77 - 1
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACUGUACGACGGGAGCG--------------
...........(((...(((((......))))).((((((....))))))....)))(((.(((.....)))..)))-------------- ( -17.50)
>DroAna_CAF1 11670 90 - 1
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACAAAAGCAGGGGGUAAAAGCAGGACGCAG-
.................((((....(((((......)))))....((((..(((.(((((......)).))).))).))))....)))).- ( -20.80)
>consensus
UGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACAAAACAAAAGGGGCA______________
...........(((...(((((......))))).((((((....))))))....))).................................. (-12.42 = -12.28 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 4

Location 18,411,010 – 18,411,107
Length 97
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 81.16
Mean single sequence MFE -25.08
Consensus MFE -15.89
Energy contribution -16.12
Covariance contribution 0.22
Combinations/Pair 1.09
Mean z-score -1.59
Structure conservation index 0.63
SVM decision value 0.06
SVM RNA-class probability 0.564812
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18411010 97 - 22224390
CUCCUCCUCC-ACCAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCCUGCGCCCGCACAAAGCAAAAGGGG
(((((.((((-.((((.(((((....))))).))))....(((((......)))))))))........((((..(((....)))..))))...))))) ( -27.60)
>DroVir_CAF1 31965 97 - 1
CCCCGUUCCA-UUCGUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGUGCCCGCACAGCACAACGGAGC
....(((((.-((.((((((((((....))))))((((..(((((......))))).((((((....))))))...))))......)))))).))))) ( -26.60)
>DroGri_CAF1 37057 97 - 1
ACCCUUUGCC-UUCAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACAGCACAAUAAGAU
.........(-((..((((((.((((........(((...(((((......))))).((((((....))))))....))).))))))))))..))).. ( -21.40)
>DroEre_CAF1 36222 96 - 1
CUCCUGCUCC-GCCAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGCAGGAGAUUAAAAAGUUUCCUGCGCCCGCACA-AGCAAAAGGGG
((((((((..-(((((.(((((....))))).)))))...((((.((....))((((((((((....))))))))))...))))..-)))...))))) ( -35.10)
>DroWil_CAF1 30465 90 - 1
CCCCCUCUCUAUUCAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAGG---CCGCAUAUAC-AUAG----
........((((..((((((((((....))))..(((...(((((......))))).((((((....))))))..)---))))))))..-))))---- ( -19.70)
>DroMoj_CAF1 11219 93 - 1
CCA-GCU----CUUAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACUGUACGACGGGAG
((.-..(----(.(((((((((((....))))..(((...(((((......))))).((((((....))))))....))).)))).))).))..)).. ( -20.10)
>consensus
CCCCUUCUCC_UUCAUGUGUUUGUGUAAACAAAUGGCAAAUGCGAGAAUAAUCGUAGGAGAUUAAAAAGUUUCAUGCGCCCGCACAGAACAAAAGGGG
...............(((((((((....))))..(((...(((((......))))).((((((....))))))....))).)))))............ (-15.89 = -16.12 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:43 2006