Locus 7463

Sequence ID	3L_DroMel_CAF1
Location	20,023,401 – 20,023,500
Length	99
Max. P	0.998932

overview

Window 1

Location	20,023,401 – 20,023,500
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	93.13
Mean single sequence MFE	-16.20
Consensus MFE	-13.14
Energy contribution	-13.74
Covariance contribution	0.60
Combinations/Pair	1.09
Mean z-score	-1.74
Structure conservation index	0.81
SVM decision value	0.85
SVM RNA-class probability	0.865768
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20023401 99 + 23771897
AUUAGCUAAUCAAGCAUUAUAUUUCAUUUCUUUCGCACACAAGCAGAUAGACCAUAAAUGUAUCUCAUCCAAUUAUCGCCAUCAGCCUGUGCUUACCUU
...........(((((((((((((....(((.((((......)).)).)))....)))))))...............((.....))..))))))..... ( -12.20)
>DroSec_CAF1 15132 99 + 1
AUUAGCUAAUCAAGUAUUAUAUUUCAUUUAUUUUGCACACAAGCAGAUGGACCAUUAAUGUAUCUCAUCCAAUUAUCGCCAUCAGCCUGUGCUCACCUU
.............(((..(((.......)))..))).((((.((.(((((.....((((............))))...))))).)).))))........ ( -15.40)
>DroSim_CAF1 9790 99 + 1
AUUAGCUAAUCAAGUAUUAUAUUUCAUUUAUUUUGCACACAAGCAGAUGGACCAUAAAUGUAUCUCAUCCAAUUAUCGCCAUCCGCAUGUGCUUACCUU
.............(((..(((.......)))..))).((((.((.(((((.(.((((.((.........)).)))).)))))).)).))))........ ( -17.10)
>DroEre_CAF1 14474 97 + 1
AUUAGCUAAUCAAGCAUUAUAUUUCAUUUUUCUUGCACGCAGGCAGAGGGACCAUAAAUGUAUCUCUUCCAAUUAUCGCCAUCAGCCU--GCUUACCUU
....(((.....))).......................((((((.((.((.(.((((.((.........)).)))).))).)).))))--))....... ( -18.40)
>DroYak_CAF1 16639 99 + 1
AUUAGCUAAUCAAGCAUUAUAUUUCAUUUUUCUUGCACACAAGCAGAUGGACCAUAAAUGUAUCUCAUCCAAUUAUCGCCAUCAGCCUGUGCUUACCUU
....(((.....)))...................(((((...((.(((((.(.((((.((.........)).)))).)))))).)).)))))....... ( -17.90)
>consensus
AUUAGCUAAUCAAGCAUUAUAUUUCAUUUAUUUUGCACACAAGCAGAUGGACCAUAAAUGUAUCUCAUCCAAUUAUCGCCAUCAGCCUGUGCUUACCUU
....(((.....)))...................(((((...((.(((((.(.((((.((.........)).)))).)))))).)).)))))....... (-13.14 = -13.74 +   0.60)

alignment

secondary structure

dotplot

Window 2

Location	20,023,401 – 20,023,500
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	93.13
Mean single sequence MFE	-25.66
Consensus MFE	-22.02
Energy contribution	-22.18
Covariance contribution	0.16
Combinations/Pair	1.19
Mean z-score	-2.61
Structure conservation index	0.86
SVM decision value	3.29
SVM RNA-class probability	0.998932
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20023401 99 - 23771897
AAGGUAAGCACAGGCUGAUGGCGAUAAUUGGAUGAGAUACAUUUAUGGUCUAUCUGCUUGUGUGCGAAAGAAAUGAAAUAUAAUGCUUGAUUAGCUAAU
.(((((.((((((((.((((((.((((.((.........)).)))).).))))).)))))))).(....).............)))))........... ( -26.10)
>DroSec_CAF1 15132 99 - 1
AAGGUGAGCACAGGCUGAUGGCGAUAAUUGGAUGAGAUACAUUAAUGGUCCAUCUGCUUGUGUGCAAAAUAAAUGAAAUAUAAUACUUGAUUAGCUAAU
....((.((((((((.((((((.((.....((((.....)))).)).).))))).)))))))).))................................. ( -22.40)
>DroSim_CAF1 9790 99 - 1
AAGGUAAGCACAUGCGGAUGGCGAUAAUUGGAUGAGAUACAUUUAUGGUCCAUCUGCUUGUGUGCAAAAUAAAUGAAAUAUAAUACUUGAUUAGCUAAU
.......(((((((((((((((.((((.((.........)).)))).).))))))))..)))))).................................. ( -26.40)
>DroEre_CAF1 14474 97 - 1
AAGGUAAGC--AGGCUGAUGGCGAUAAUUGGAAGAGAUACAUUUAUGGUCCCUCUGCCUGCGUGCAAGAAAAAUGAAAUAUAAUGCUUGAUUAGCUAAU
...(((.((--((((.((.(((.((((.((.........)).)))).).)).)).)))))).)))...................(((.....))).... ( -25.30)
>DroYak_CAF1 16639 99 - 1
AAGGUAAGCACAGGCUGAUGGCGAUAAUUGGAUGAGAUACAUUUAUGGUCCAUCUGCUUGUGUGCAAGAAAAAUGAAAUAUAAUGCUUGAUUAGCUAAU
.((.(((((((((((.((((((.((((.((.........)).)))).).))))).)))))))).((((....((........)).)))).))).))... ( -28.10)
>consensus
AAGGUAAGCACAGGCUGAUGGCGAUAAUUGGAUGAGAUACAUUUAUGGUCCAUCUGCUUGUGUGCAAAAAAAAUGAAAUAUAAUGCUUGAUUAGCUAAU
.(((((.((((((((.((((((.((((.((.........)).)))).).))))).)))))))).((.......))........)))))........... (-22.02 = -22.18 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:48 2006