Locus 6088

Sequence ID	2L_DroMel_CAF1
Location	17,087,289 – 17,087,409
Length	120
Max. P	0.763010

overview

Window 5

Location	17,087,289 – 17,087,409
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.75
Mean single sequence MFE	-34.05
Consensus MFE	-21.02
Energy contribution	-21.88
Covariance contribution	0.86
Combinations/Pair	1.04
Mean z-score	-1.72
Structure conservation index	0.62
SVM decision value	-0.01
SVM RNA-class probability	0.530859
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17087289 120 + 22407834
CGUCGGCCUUCUUUUUGCUGCAGUGGCAGUUGCAGUGGCAGUGGCAGUCGCAGUCGCAGUCGCAUUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
.(((((..((((..(((.(((((..((..(((..(((((.(((((.......))))).)))))....((((....))))...)))....))..))))).)))..)))).)))))...... ( -41.60)
>DroPse_CAF1 42062 94 + 1
-UUUUGAUUUCUUUUCGCUGCAGUUGCAGUUGCAUUCGC-------------------------UUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
-...............((((((((((((((.((......-------------------------((..(((....)))..)).......)).))))))))....(....))).))))... ( -25.82)
>DroSec_CAF1 51113 114 + 1
GGUCGGCCUUCUUUUUGCUGCAGUGGCAGUUGCAGUGGCAGUGGCAGUCG------CAGUCGCAUUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAAAAACCGGAAACUGACAGCAAA
((....)).....(((((((((((((...((((((..((.(((((.....------..)))))....((((....))))..........))..))))))...))....)))).))))))) ( -38.50)
>DroSim_CAF1 46909 114 + 1
GGUCGGCCUUCUUUUUGCUGCAGUGGCAGUUGCAGUGGCAGUGGCAGUCG------CAGUCGCAUUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
((....)).....(((((((((((((..(((((((..((.(((((.....------..)))))....((((....))))..........))..)))))))..))....)))).))))))) ( -41.20)
>DroYak_CAF1 51542 114 + 1
GUUCGGCCUUUUUUUUGCUGCAGUGGCAGUGGCACUUGCAUUCGCAG------UCGCAGUCGCAUUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
.............(((((((((((.((((..((..((((....))))------..(((..(((....)))....)))............))..))))...........)))).))))))) ( -33.10)
>DroPer_CAF1 40469 94 + 1
-UUUUGAUUUCUUUUCGCUGCAAUUGCAGUUGCAUUCGU-------------------------UUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
-...............((((((.(((((((.((....((-------------------------((.((((....))))))))......)).))))))).....(....))).))))... ( -24.10)
>consensus
GGUCGGCCUUCUUUUUGCUGCAGUGGCAGUUGCAGUGGCAGUGGCAG_________CAGUCGCAUUCGUGUUCAUGCAUAAACAAAAUGGCUGCUGCAACAACCGGAAACUGACAGCAAA
.............((((((((((((((((((((....))............................((((....)))).........))))))))).......(....))).))))))) (-21.02 = -21.88 +   0.86)

alignment

secondary structure

dotplot

Window 6

Location	17,087,289 – 17,087,409
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.75
Mean single sequence MFE	-33.63
Consensus MFE	-23.39
Energy contribution	-24.53
Covariance contribution	1.14
Combinations/Pair	1.06
Mean z-score	-1.93
Structure conservation index	0.70
SVM decision value	0.51
SVM RNA-class probability	0.763010
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17087289 120 - 22407834
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAAUGCGACUGCGACUGCGACUGCCACUGCCACUGCAACUGCCACUGCAGCAAAAAGAAGGCCGACG
(((((((.((((....(((.((((((((((((((((((((((....)))))).))))).).))))...)))))).)))..(((....)))......)))))))))))............. ( -38.70)
>DroPse_CAF1 42062 94 - 1
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAA-------------------------GCGAAUGCAACUGCAACUGCAGCGAAAAGAAAUCAAAA-
(((((((.(((((....((.((((((...((..((.((((((....)))))).)).-------------------------))...)))))).))))))))))))))............- ( -28.20)
>DroSec_CAF1 51113 114 - 1
UUUGCUGUCAGUUUCCGGUUUUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAAUGCGACUG------CGACUGCCACUGCCACUGCAACUGCCACUGCAGCAAAAAGAAGGCCGACC
(((((((.((((....(((..((((((..((.((((((((((....)))))).))))))..)))------)))..)))..(((....)))......)))))))))))............. ( -35.10)
>DroSim_CAF1 46909 114 - 1
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAAUGCGACUG------CGACUGCCACUGCCACUGCAACUGCCACUGCAGCAAAAAGAAGGCCGACC
(((((((.((((....(((.(((((((..((.((((((((((....)))))).))))))..)))------)))).)))..(((....)))......)))))))))))............. ( -37.80)
>DroYak_CAF1 51542 114 - 1
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAAUGCGACUGCGA------CUGCGAAUGCAAGUGCCACUGCCACUGCAGCAAAAAAAAGGCCGAAC
(((((((.((((...((((.(((((((..((.((((((((((....)))))).))))))..))))))------)(((....)))......))))..)))))))))))............. ( -35.30)
>DroPer_CAF1 40469 94 - 1
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAA-------------------------ACGAAUGCAACUGCAAUUGCAGCGAAAAGAAAUCAAAA-
((((((((..(((((.((((((....))))))....((((((....)))))).)))-------------------------))...(((....)))...))))))))............- ( -26.70)
>consensus
UUUGCUGUCAGUUUCCGGUUGUUGCAGCAGCCAUUUUGUUUAUGCAUGAACACGAAUGCGACUG_________CUGCCACUGCCACUGCAACUGCCACUGCAGCAAAAAGAAGGCCGAAC
(((((((.((((....(((.((((((...(((((((((((((....)))))).))))).......................))...)))))).))))))))))))))............. (-23.39 = -24.53 +   1.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:04 2006