Locus 1353

Sequence ID	2L_DroMel_CAF1
Location	3,588,362 – 3,588,463
Length	101
Max. P	0.962266

overview

Window 2

Location	3,588,362 – 3,588,463
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	90.93
Mean single sequence MFE	-30.61
Consensus MFE	-24.85
Energy contribution	-26.93
Covariance contribution	2.08
Combinations/Pair	1.04
Mean z-score	-1.62
Structure conservation index	0.81
SVM decision value	0.62
SVM RNA-class probability	0.802113
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3588362 101 + 22407834
GUUGUUGUCUUCGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACAUGGCAACAUAGCAACAGCAACAUGGACAACAGCACCAGCAGCAGAUGCACUCG
((((((((((.......((((((((.((.(((.((.......))...(((....))).)))))))))))))))))))))))....(((.....)))..... ( -35.01)
>DroSec_CAF1 56076 98 + 1
GUUGUUGUCUUCGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACACGGCAACAUAGCAACAGCAACAUGGACAACAGCAA---CAGCAGAUGCACUCA
((((((((((.......((((((((.((.(((.((.......)).....(....)...)))))))))))))))))))))))..---..((....))..... ( -31.91)
>DroSim_CAF1 59491 98 + 1
GUUGUUGUCUUCGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACACGGCAACAUAGCAACAGCAACAUGGACAACAGCAA---CAGCAGAUGCACUCG
((((((((((.......((((((((.((.(((.((.......)).....(....)...)))))))))))))))))))))))..---..((....))..... ( -31.91)
>DroEre_CAF1 58169 87 + 1
-----------CGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACACGGCAACAUAGCAACAGCAACAUGGACAACAGCAC---CAGCGGAUGCACUGG
-----------.((((.((((((((.((.(((.((.......)).....(....)...))))))))))))).)).....)).(---(((.(....).)))) ( -25.70)
>DroYak_CAF1 59013 98 + 1
GUUGUUGUCUUCGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACACGGCAACAUAGCAACAGCAACAUGGCCAACAACAC---CAGCAGAUGCACUGA
(((((((.....(((..((((((((.((.(((.((.......)).....(....)...)))))))))))))))))))))))..---..((....))..... ( -28.50)
>consensus
GUUGUUGUCUUCGCUCGAUGUUGCUUGUCUGCAGCGCCGCCAGCAACACGGCAACAUAGCAACAGCAACAUGGACAACAGCAC___CAGCAGAUGCACUCG
((((((((((.......((((((((.((.(((.((.......)).....(....)...))))))))))))))))))))))).......((....))..... (-24.85 = -26.93 +   2.08)

alignment

secondary structure

dotplot

Window 3

Location	3,588,362 – 3,588,463
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	90.93
Mean single sequence MFE	-37.46
Consensus MFE	-30.12
Energy contribution	-30.00
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-2.12
Structure conservation index	0.80
SVM decision value	1.54
SVM RNA-class probability	0.962266
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3588362 101 - 22407834
CGAGUGCAUCUGCUGCUGGUGCUGUUGUCCAUGUUGCUGUUGCUAUGUUGCCAUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCGAAGACAACAAC
.....(((((.......)))))(((((((..(((((((.((((..((((((((......))))))))..))))...)))))))((....)).))))))).. ( -39.80)
>DroSec_CAF1 56076 98 - 1
UGAGUGCAUCUGCUG---UUGCUGUUGUCCAUGUUGCUGUUGCUAUGUUGCCGUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCGAAGACAACAAC
.....((....))((---(((((.(((..(((((((((.((((..((((((((......))))))))..))))...)))))))).)..))))).))))).. ( -36.30)
>DroSim_CAF1 59491 98 - 1
CGAGUGCAUCUGCUG---UUGCUGUUGUCCAUGUUGCUGUUGCUAUGUUGCCGUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCGAAGACAACAAC
.....((....))((---(((((.(((..(((((((((.((((..((((((((......))))))))..))))...)))))))).)..))))).))))).. ( -36.30)
>DroEre_CAF1 58169 87 - 1
CCAGUGCAUCCGCUG---GUGCUGUUGUCCAUGUUGCUGUUGCUAUGUUGCCGUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCG-----------
((((((....)))))---).......(..(((((((((.((((..((((((((......))))))))..))))...)))))))).)..).----------- ( -35.10)
>DroYak_CAF1 59013 98 - 1
UCAGUGCAUCUGCUG---GUGUUGUUGGCCAUGUUGCUGUUGCUAUGUUGCCGUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCGAAGACAACAAC
(((((......))))---)(((((((.(((((((((((.((((..((((((((......))))))))..))))...)))))))).).))...))))))).. ( -39.80)
>consensus
CGAGUGCAUCUGCUG___GUGCUGUUGUCCAUGUUGCUGUUGCUAUGUUGCCGUGUUGCUGGCGGCGCUGCAGACAAGCAACAUCGAGCGAAGACAACAAC
....(((....((.......)).....((.((((((((.((((..((((((((......))))))))..))))...)))))))).)))))........... (-30.12 = -30.00 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:26 2006