Locus 2735

Sequence ID	3R_DroMel_CAF1
Location	7,328,497 – 7,328,598
Length	101
Max. P	0.993500

overview

Window 7

Location	7,328,497 – 7,328,598
Length	101
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	92.54
Mean single sequence MFE	-29.20
Consensus MFE	-22.14
Energy contribution	-22.74
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-1.95
Structure conservation index	0.76
SVM decision value	0.47
SVM RNA-class probability	0.749173
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7328497 101 + 27905053
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUGGGCGGUGGAGCUGCAGCAACAAUAGCGCCAAUA---------GCACCACCACCCACAUAAAUCACUUGGCCG
..(((((((.((.....)))))))))....((((..((((.(((((.(((((.((.......))))....)---------)).))))).))))...........)))).. ( -32.82)
>DroSec_CAF1 4777 101 + 1
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUAGGCGGUGGAGCUGCAGCACCAAUAGCGCCAAUA---------GCCACACCACCCACAUAAAUCACUUGGCCG
..((((.((((....(((((......(((((((.....)))))))..((....)).))))).)))).))))---------((((....................)))).. ( -27.85)
>DroSim_CAF1 8558 101 + 1
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUGGGCGGUGGAGCUGCAGCACCAAUAGCGCCAAUA---------GCCACACCACCCACAUAAAUCACUUGGCCG
..(((((((.((.....)))))))))....((((..((((.((((..((((..((.(.....).))...))---------))..)))).))))...........)))).. ( -30.92)
>DroEre_CAF1 8509 101 + 1
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUGGGCGGCGGAGCUGCAGCACCAAUAGCACCAAUA---------GCACCACCACCCACAUAAAUCACUUGUCCG
..(((((((.((.....)))))))))..........((((.((.((.((((..((.......)).....))---------)).)).)).))))................. ( -24.40)
>DroYak_CAF1 8774 110 + 1
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUGGGCGGUGGAGCUGCAGCACCAAUGGCACCAAUAGCACAUAUAGCACCACCACCCACAUAAAUCACUUGGUCG
..(((((((.((.....)))))))))....((((..((((.(((((.((((((.......))((.......)).....)))).))))).))))...........)))).. ( -30.02)
>consensus
AUUAUUAGCGCAUUAGUUGGCUAAUACAUCGCCAUUUGGGCGGUGGAGCUGCAGCACCAAUAGCGCCAAUA_________GCACCACCACCCACAUAAAUCACUUGGCCG
..(((((((.((.....)))))))))....((((..((((.(((((.(((((..........)))...............)).))))).))))...........)))).. (-22.14 = -22.74 +   0.60)

alignment

secondary structure

dotplot

Window 8

Location	7,328,497 – 7,328,598
Length	101
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	92.54
Mean single sequence MFE	-39.52
Consensus MFE	-31.05
Energy contribution	-31.09
Covariance contribution	0.04
Combinations/Pair	1.10
Mean z-score	-3.16
Structure conservation index	0.79
SVM decision value	2.40
SVM RNA-class probability	0.993500
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7328497 101 - 27905053
CGGCCAAGUGAUUUAUGUGGGUGGUGGUGC---------UAUUGGCGCUAUUGUUGCUGCAGCUCCACCGCCCAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
..((((...........((((((((((.((---------(...(((((....).))))..))).))))))))))..))))....(((((((((.....)).))))))).. ( -38.92)
>DroSec_CAF1 4777 101 - 1
CGGCCAAGUGAUUUAUGUGGGUGGUGUGGC---------UAUUGGCGCUAUUGGUGCUGCAGCUCCACCGCCUAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
..((((...........(((((((((..((---------(...(((((.....)))))..)))..)))))))))..))))....(((((((((.....)).))))))).. ( -38.22)
>DroSim_CAF1 8558 101 - 1
CGGCCAAGUGAUUUAUGUGGGUGGUGUGGC---------UAUUGGCGCUAUUGGUGCUGCAGCUCCACCGCCCAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
..((((...........(((((((((..((---------(...(((((.....)))))..)))..)))))))))..))))....(((((((((.....)).))))))).. ( -40.52)
>DroEre_CAF1 8509 101 - 1
CGGACAAGUGAUUUAUGUGGGUGGUGGUGC---------UAUUGGUGCUAUUGGUGCUGCAGCUCCGCCGCCCAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
.......((.(((....((((((((((.((---------(...((..(.....)..))..))).))))))))))))).))....(((((((((.....)).))))))).. ( -37.50)
>DroYak_CAF1 8774 110 - 1
CGACCAAGUGAUUUAUGUGGGUGGUGGUGCUAUAUGUGCUAUUGGUGCCAUUGGUGCUGCAGCUCCACCGCCCAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
((.(((...........((((((((((.(((.((.(..(((.((....)).)))..))).))).))))))))))..)))))...(((((((((.....)).))))))).. ( -42.42)
>consensus
CGGCCAAGUGAUUUAUGUGGGUGGUGGUGC_________UAUUGGCGCUAUUGGUGCUGCAGCUCCACCGCCCAAAUGGCGAUGUAUUAGCCAACUAAUGCGCUAAUAAU
.......((.(((....((((((((((.((.............(((((.....)))))...)).))))))))))))).))....(((((((((.....)).))))))).. (-31.05 = -31.09 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:38 2006