Locus 7329

Sequence ID	2L_DroMel_CAF1
Location	20,474,740 – 20,474,895
Length	155
Max. P	0.875038

overview

Window 3

Location	20,474,740 – 20,474,855
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.13
Mean single sequence MFE	-31.56
Consensus MFE	-24.98
Energy contribution	-24.30
Covariance contribution	-0.68
Combinations/Pair	1.12
Mean z-score	-1.43
Structure conservation index	0.79
SVM decision value	0.02
SVM RNA-class probability	0.544655
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20474740 115 - 22407834
GGUAAUUGCAGGGAAAAAGGGGCAAGCUGCAAAACAUUUGCCACAGUCUUUUGUGGCUGCAUUUGGGCAAUUCCUUUUUGCU-----UCUACUUUGUGCGCGGCAAAUCCUUAUGCUUAU
.......(((......(((((....(((((.........(((((((....))))))).((((..((((((.......)))).-----....))..)))))))))...))))).))).... ( -32.50)
>DroSec_CAF1 27727 104 - 1
GGUAAUUGCAGGGAAAAAGCGGCAAGCUGCAAAACAUUUGCCACAGUCUUUUGUGGCUGCAUUUGGGCAAUUCCUUUU----------------UGUGCGCGGCAAAUCCUUAUGCUUAU
.......(((((((....((((....))))......((((((.(((((......))))((((..(((.....)))...----------------.))))).))))))))))..))).... ( -30.20)
>DroSim_CAF1 31518 104 - 1
GGUAAUUGCAGGGAAAAAGGGGCAAGCUGCAAAACAUUUGCCACAGUCUUUUGUGGCUGCAUUUGGGCAAUUCCUUUU----------------UGUGCGCGGCACAUCCUUAUGCUUAU
.......(((((((((((((((...(((.((((......(((((((....)))))))....)))))))...)))))))----------------)((((...)))).))))..))).... ( -31.20)
>DroEre_CAF1 30047 115 - 1
GGUAAUUGCAAGGAAAAAGGAGCAAGCUGCAAAACAUUUGCCACAGUCUUUUGUGGUUGCAUUUGGGCAAUUCCUUUUUGCU-----CUUACUUUGUGCGAGGCAAAUCCUUAUGCUUAU
.......(((((((.(((((((...(((.((((......(((((((....)))))))....)))))))..)))))))((((.-----((..(.....)..)))))).))))..))).... ( -30.80)
>DroYak_CAF1 27105 120 - 1
GGUAAUUGCAAGGAAAAAGGAGCAAACUGCAAAACAUUUGCCACAGUCUUUUGUGGUUGCAUUUGGGCAAUUCCUUUUUGCUUUUUGCUUACUUUGUGCGAGGCAAAUCCUUAUGCUUAU
((...((((..(.(.(((((((((((..((((((.....(((((((....)))))))(((......)))......))))))..))))))).)))).).)...))))..)).......... ( -33.10)
>consensus
GGUAAUUGCAGGGAAAAAGGGGCAAGCUGCAAAACAUUUGCCACAGUCUUUUGUGGCUGCAUUUGGGCAAUUCCUUUUUGCU_______UACUUUGUGCGCGGCAAAUCCUUAUGCUUAU
.......((((((((((((((((.((.((((........(((((((....))))))))))).))..))...)))))))..................(((...)))..))))..))).... (-24.98 = -24.30 +  -0.68)

alignment

secondary structure

dotplot

Window 4

Location	20,474,775 – 20,474,895
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.49
Mean single sequence MFE	-29.64
Consensus MFE	-26.02
Energy contribution	-26.86
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.55
Structure conservation index	0.88
SVM decision value	0.89
SVM RNA-class probability	0.875038
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20474775 120 + 22407834
CAAAAAGGAAUUGCCCAAAUGCAGCCACAAAAGACUGUGGCAAAUGUUUUGCAGCUUGCCCCUUUUUCCCUGCAAUUACCGUCAGUCGUUGUCAUUAUUCAGCAGAUUAUAUGGUUUUGC
.(((((((....((.((((.(((((((((......))))))...)))))))..)).....)))))))....((((..(((((.((((((((........)))).))))..))))).)))) ( -30.10)
>DroSec_CAF1 27753 118 + 1
--AAAAGGAAUUGCCCAAAUGCAGCCACAAAAGACUGUGGCAAAUGUUUUGCAGCUUGCCGCUUUUUCCCUGCAAUUACCGUCAGUCGUUGUCAUUAUUCAGCAGAUUAUAUGGUUUUGC
--....((((..((.(((.((((((((((......))))))........))))..)))..))...))))..((((..(((((.((((((((........)))).))))..))))).)))) ( -30.80)
>DroSim_CAF1 31544 118 + 1
--AAAAGGAAUUGCCCAAAUGCAGCCACAAAAGACUGUGGCAAAUGUUUUGCAGCUUGCCCCUUUUUCCCUGCAAUUACCGUCAGUCGUUGUCAUUAUUCAGCAGAUUAUAUGGUUUUGC
--((((((....((.((((.(((((((((......))))))...)))))))..)).....)))))).....((((..(((((.((((((((........)))).))))..))))).)))) ( -28.90)
>DroEre_CAF1 30082 120 + 1
CAAAAAGGAAUUGCCCAAAUGCAACCACAAAAGACUGUGGCAAAUGUUUUGCAGCUUGCUCCUUUUUCCUUGCAAUUACCGUCAGUCGUUGUCAUUACUCAGCAGAUUAUAUGGUUUUGC
.((((((((...((.....((((((((((......)))))........)))))....))))))))))....((((..(((((.((((((((........)))).))))..))))).)))) ( -29.00)
>DroYak_CAF1 27145 120 + 1
CAAAAAGGAAUUGCCCAAAUGCAACCACAAAAGACUGUGGCAAAUGUUUUGCAGUUUGCUCCUUUUUCCUUGCAAUUACCGUCAGUCGUUGUCAUUAUUCAGCAGAUUAUAUGGUUUUGC
.((((((((.((((......)))).((((......))))((((((........))))))))))))))....((((..(((((.((((((((........)))).))))..))))).)))) ( -29.40)
>consensus
CAAAAAGGAAUUGCCCAAAUGCAGCCACAAAAGACUGUGGCAAAUGUUUUGCAGCUUGCCCCUUUUUCCCUGCAAUUACCGUCAGUCGUUGUCAUUAUUCAGCAGAUUAUAUGGUUUUGC
.(((((((....((.((((.(((((((((......))))))...)))))))..)).....)))))))....((((..(((((.((((((((........)))).))))..))))).)))) (-26.02 = -26.86 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:48 2006