Locus 2164

Sequence ID	3L_DroMel_CAF1
Location	5,875,949 – 5,876,103
Length	154
Max. P	0.734434

overview

Window 0

Location	5,875,949 – 5,876,068
Length	119
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.28
Mean single sequence MFE	-36.13
Consensus MFE	-20.25
Energy contribution	-20.00
Covariance contribution	-0.25
Combinations/Pair	1.31
Mean z-score	-1.61
Structure conservation index	0.56
SVM decision value	0.42
SVM RNA-class probability	0.730965
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5875949 119 - 23771897
AAUAUUAACA-UUUCAAACAGGUGCGCGAGUACCUGGUCCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGAGUUCAAGCAGAGAGUUCCAGUUUUCGGCGAACUCACGUUU
..........-.......(((((((....)))))))((((....(((....)))....((((((....))))))))))((((((..((.(((((......))))).))))))))...... ( -40.60)
>DroVir_CAF1 2203 101 - 1
-------------------AGGUGCGCAACUACCUGGUGAAUUCGUUAAAUGGGCUUGGCUUUCAAACGGAAGUGGACGAGUUUAAGCAACGUGUGCCAAUUUUUGGUGAGCUAACGUUU
-------------------.((..(((..(((..(..((....))..)..)))(((((((((....((....))....))).))))))...)))..))..........((((....)))) ( -25.80)
>DroPse_CAF1 2178 102 - 1
------------------CAGGUGCGUGACUACCUGGUGCAGUCACUCAAUGGCCUUGGCUUCCAAACGGAAGUCGAUGAGUUCAAGCAGCGUGUGCCAGUUUUAGGCGAACUAACUUUC
------------------..(.(((((((((.(.....).))))))....((..((((((((((....)))))))...)))..)).))).)((.((((.......)))).))........ ( -30.50)
>DroGri_CAF1 2225 101 - 1
-------------------AGGUGCGCAAUUACCUGGUCAACUCACUAAAUGGCCUUGGCUUCCACACGGAAGUGGAUGAGUUUAGGCAACGGGUGCCCGUCUUUGGUGAGCUGACGUUU
-------------------(((((......))))).((((.(((((((((..((((..((((...(((....)))...))))..)))).((((....)))).))))))))).)))).... ( -43.10)
>DroYak_CAF1 2419 119 - 1
AAAAUUAACA-UUGCGAGCAGGUGCGCGAGUACCUGGUGCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGAGUUCAAGCAGAGAGUGCCAGUUUUCGGAGAGCUCACCUUC
.........(-(((((..(((((((....))))))).)))))).(((((((..(.((.((((((....)))))).)).).)))).)))...((((.((.......))...))))...... ( -44.70)
>DroAna_CAF1 2629 120 - 1
AAAAUUAAAAAAAACCAACAGGUACGCGACUAUCUGGUGCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUAAGUUCAAACAGCGGGUUCCCGUCCUCGGUGAGCUGACGUUC
..................((((((......)))))).......(((((...(..((((((((((....))))))...))))..)...)))))((((((((....))).)))))....... ( -32.10)
>consensus
__________________CAGGUGCGCGACUACCUGGUGCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGAGUUCAAGCAGCGAGUGCCAGUUUUCGGUGAGCUAACGUUC
..................((((((......))))))((....((((((((.(((.((.((((((....)))))).))...((....))...........)))))))))))....)).... (-20.25 = -20.00 +  -0.25)

alignment

secondary structure

dotplot

Window 1

Location	5,875,989 – 5,876,103
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.76
Mean single sequence MFE	-34.00
Consensus MFE	-24.91
Energy contribution	-24.78
Covariance contribution	-0.14
Combinations/Pair	1.17
Mean z-score	-1.99
Structure conservation index	0.73
SVM decision value	0.43
SVM RNA-class probability	0.734434
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5875989 114 - 23771897
---GGUGAUAAAGCU-UCAAGU-GUAUUACUUGGCGUUAUAAUAUUAACA-UUUCAAACAGGUGCGCGAGUACCUGGUCCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGA
---..(((....((.-.(((((-(...))))))))((((......)))).-..)))..(((((((....)))))))((((....(((....)))....((((((....)))))))))).. ( -36.20)
>DroSec_CAF1 2443 106 - 1
---GGUGAUAAAGCU-UAAA---------CUUGGCUUUAUAAAAUUAACA-UUGCAAACAGGUGCGCGAGUACCUGGUCCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGA
---....((((((((-....---------...))))))))..........-.......(((((((....)))))))((((....(((....)))....((((((....)))))))))).. ( -36.10)
>DroSim_CAF1 2449 114 - 1
---GGUGAUAAAGCU-UCAAUU-GUAUUUCUUUGCGUUUUAAAAUUAACA-UUGCAAACAGGUGCGCGAGUACCUGGUCCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGA
---(((.....(((.-......-.......((((((..............-.))))))(((((((....)))))))........))).....)))((.((((((....)))))).))... ( -32.66)
>DroEre_CAF1 2659 114 - 1
---GGUGAUAAAGCU-GAAAGU-GUAUUUAUUGGCGUUUUAAAAUCAACA-UUGCGCACAGGUGCGCGAGUACCUGGUACAAUCGCUGAGCGGCCUUGGCUUCCAAACGGAAGUGGAUGA
---(((.....(((.-((...(-((((......((((.............-..)))).(((((((....)))))))))))).))))).....)))((.((((((....)))))).))... ( -37.06)
>DroYak_CAF1 2459 115 - 1
---GGUGAUAAAGUUUUAAACU-GUAUUGCUUGGCAUUAUAAAAUUAACA-UUGCGAGCAGGUGCGCGAGUACCUGGUGCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGA
---((..(((.(((.....)))-.)))..)).(((..............(-(((((..(((((((....))))))).))))))((.....)))))((.((((((....)))))).))... ( -38.10)
>DroAna_CAF1 2669 119 - 1
GGGGGGGAUAACAUA-AAAAGUCGUCAAAGCACAAAUGACAAAAUUAAAAAAAACCAACAGGUACGCGACUAUCUGGUGCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUAA
...((.(((..(((.-...((((((((.........)))).............(((....)))....)))).....)))..))).))........((.((((((....)))))).))... ( -23.90)
>consensus
___GGUGAUAAAGCU_UAAAGU_GUAUUACUUGGCGUUAUAAAAUUAACA_UUGCAAACAGGUGCGCGAGUACCUGGUCCAAUCGCUGAACGGCCUUGGCUUCCAAACGGAAGUGGAUGA
...((((((...((...................)).......................(((((((....))))))).....))))))........((.((((((....)))))).))... (-24.91 = -24.78 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:52 2006