Locus 1523

Sequence ID	2L_DroMel_CAF1
Location	4,128,549 – 4,128,643
Length	94
Max. P	0.999928

overview

Window 6

Location	4,128,549 – 4,128,643
Length	94
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	90.93
Mean single sequence MFE	-27.30
Consensus MFE	-23.42
Energy contribution	-24.42
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.64
Structure conservation index	0.86
SVM decision value	3.29
SVM RNA-class probability	0.998943
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4128549 94 + 22407834
--UUGGCUGCUCCAGCAACUGUGCUCCUCUUCAGAACCAGCUCCUGAUUCUGCAGGAUGCUGCCAGCUCC---GUUUCCCAUUCUCCUGCAACAUUCCC
--.((((.(((((((((....))))......(((((.(((...))).)))))..))).)).))))((...---...............))......... ( -21.37)
>DroSec_CAF1 257515 96 + 1
ACUUGGCUGCUCCAGCAACUGUGCUCCUCUCCAGAACCAGCUCCUGGUUCUGCAGGAUGCUGCCAGCUCC---GUUUCCCAUUCUCCUGCAGCAUUCCC
...((((.(((((((((....))))......(((((((((...)))))))))..))).)).))))(((.(---(.............)).)))...... ( -29.22)
>DroSim_CAF1 261188 96 + 1
ACUUGGCUGCUCCAGCAACUGUGCUCCUCUCCAGAACCAGCUCCUGGUUCUGCAGGAUGCUGCCAGCUCC---GUUUCCCAUUCUCCGGCAGCAUUCCC
...((((.(((((((((....))))......(((((((((...)))))))))..))).)).))))(((((---(............))).)))...... ( -34.00)
>DroEre_CAF1 268669 94 + 1
ACUUGGCUGCUCCAGCAACUGUGCUCCU--CCAGAACCUGCUCCUGGUUCUGCAGGAUGCUGCCAGCUCC---GUUUCCCAACCUCCUGCAGCAUUCCC
.....(((((..(((((.......((((--.(((((((.......))))))).)))))))))........---(((....))).....)))))...... ( -28.61)
>DroYak_CAF1 276113 97 + 1
ACUUGGCCGCUCCAGCAACUGUGCUCCU--CCAGAACCUCCUCCUGGUUCAGCAGGAUGCUGCCAGCUUCCCAGUUACCCAACCUCCUGCAACAUUCCC
...((((.(((((((((....))))...--...(((((.......)))))....))).)).))))((......(((....))).....))......... ( -23.30)
>consensus
ACUUGGCUGCUCCAGCAACUGUGCUCCUCUCCAGAACCAGCUCCUGGUUCUGCAGGAUGCUGCCAGCUCC___GUUUCCCAUUCUCCUGCAGCAUUCCC
..(((((.(((((((((....))))......(((((((((...)))))))))..))).)).)))))................................. (-23.42 = -24.42 +   1.00)

alignment

secondary structure

dotplot

Window 7

Location	4,128,549 – 4,128,643
Length	94
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	90.93
Mean single sequence MFE	-38.40
Consensus MFE	-33.84
Energy contribution	-34.04
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-3.55
Structure conservation index	0.88
SVM decision value	4.61
SVM RNA-class probability	0.999928
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4128549 94 - 22407834
GGGAAUGUUGCAGGAGAAUGGGAAAC---GGAGCUGGCAGCAUCCUGCAGAAUCAGGAGCUGGUUCUGAAGAGGAGCACAGUUGCUGGAGCAGCCAA--
((...((((((((((.....(....)---...((.....)).))))))....((((.((((((((((.....))))).))))).)))))))).))..-- ( -34.70)
>DroSec_CAF1 257515 96 - 1
GGGAAUGCUGCAGGAGAAUGGGAAAC---GGAGCUGGCAGCAUCCUGCAGAACCAGGAGCUGGUUCUGGAGAGGAGCACAGUUGCUGGAGCAGCCAAGU
((...((((((((((.....(....)---...((.....)).))))))....((((.((((((((((.....))))).))))).)))))))).)).... ( -39.90)
>DroSim_CAF1 261188 96 - 1
GGGAAUGCUGCCGGAGAAUGGGAAAC---GGAGCUGGCAGCAUCCUGCAGAACCAGGAGCUGGUUCUGGAGAGGAGCACAGUUGCUGGAGCAGCCAAGU
((((.(((((((((....(.(....)---.)..)))))))))))))((.(..((((.((((((((((.....))))).))))).))))..).))..... ( -44.50)
>DroEre_CAF1 268669 94 - 1
GGGAAUGCUGCAGGAGGUUGGGAAAC---GGAGCUGGCAGCAUCCUGCAGAACCAGGAGCAGGUUCUGG--AGGAGCACAGUUGCUGGAGCAGCCAAGU
.....((((((...((.((.(....)---.)).)).))))))((((.(((((((.......))))))).--)))).....(((((....)))))..... ( -40.10)
>DroYak_CAF1 276113 97 - 1
GGGAAUGUUGCAGGAGGUUGGGUAACUGGGAAGCUGGCAGCAUCCUGCUGAACCAGGAGGAGGUUCUGG--AGGAGCACAGUUGCUGGAGCGGCCAAGU
............((.(.((.(((((((((((.((.....)).)))((((...((((((.....))))))--...)))))))))))).)).)..)).... ( -32.80)
>consensus
GGGAAUGCUGCAGGAGAAUGGGAAAC___GGAGCUGGCAGCAUCCUGCAGAACCAGGAGCUGGUUCUGGAGAGGAGCACAGUUGCUGGAGCAGCCAAGU
((((.((((((.((......(....).......)).))))))))))((.(..((((.((((((((((.....))))).))))).))))..).))..... (-33.84 = -34.04 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:40 2006