Locus 6915

Sequence ID	2L_DroMel_CAF1
Location	19,279,430 – 19,279,610
Length	180
Max. P	0.661300

overview

Window 4

Location	19,279,430 – 19,279,540
Length	110
Sequences	4
Columns	112
Reading direction	reverse
Mean pairwise identity	83.44
Mean single sequence MFE	-34.95
Consensus MFE	-22.66
Energy contribution	-25.23
Covariance contribution	2.56
Combinations/Pair	1.07
Mean z-score	-1.82
Structure conservation index	0.65
SVM decision value	0.27
SVM RNA-class probability	0.661300
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19279430 110 - 22407834
CCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAACCCAUUCCUUAAGCGAGACGAA--AAAGGAAGGGUUUGCGGAGCUGAGGAACUGAGGAGCUGGGGAAAUGAAGACAUU
((.((((...((.(..(....((((((((((((((((.((((((...((...))..--.))))))))))))).)))).)).))).)..).)).))))))............. ( -42.20)
>DroSec_CAF1 20536 104 - 1
CCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAGCCCAUUCCUUAAGCGAGACGAAUGAAGGGAAGGGUUUGCGGAGCUGA--------GGAGCUGGGAAAAUGAAGACAUU
...((((.((((....)))).((((((((((((((((.((((((...((...))....)))))).))))))).)))).)).--------))).))))............... ( -35.60)
>DroSim_CAF1 27489 104 - 1
CCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAGCCCAUUCCUUAAGCGAGACGAAUGAAGGGAAGGGUUUGCGGAGCUGA--------GGAGCUGGGGAAAUGAAGACAUU
((.((((.((((....)))).((((((((((((((((.((((((...((...))....)))))).))))))).)))).)).--------))).))))))............. ( -38.00)
>DroEre_CAF1 26979 90 - 1
CCGGCGGGAAUCGUUGGAUUGUCCCACUCCCAC-----------UAUCCAGACGAA---AAGGAAGGGUUUGUGGAGCCGU--------GGAGCUGUGGAAAUGAAGACAUU
((((((.....))))))..((((((((..((((-----------.((((...(...---..)...))))..))))(((...--------...))))))).......)))).. ( -24.01)
>consensus
CCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAGCCCAUUCCUUAAGCGAGACGAA__AAAGGAAGGGUUUGCGGAGCUGA________GGAGCUGGGGAAAUGAAGACAUU
((.((((...((..(((......)))(((((((((((.((((((...(.....)....)))))).))))))).)))).............)).))))))............. (-22.66 = -25.23 +   2.56)

alignment

secondary structure

dotplot

Window 5

Location	19,279,500 – 19,279,610
Length	110
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	82.11
Mean single sequence MFE	-27.06
Consensus MFE	-17.64
Energy contribution	-18.00
Covariance contribution	0.36
Combinations/Pair	1.05
Mean z-score	-1.66
Structure conservation index	0.65
SVM decision value	0.04
SVM RNA-class probability	0.555869
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19279500 110 - 22407834
AAAACUUUGGGGCUGAAGCGACCGAAAAACCCUGCCAACGAACCAAACUCUGAAUUUGUCUGCCGGAAAUCCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAACCCAUU
.....((((((..((..((((.............(((((((..((((.......))))((((.(((....))).))))..))))))).))))..))..))))))...... ( -27.44)
>DroPse_CAF1 32 94 - 1
GAAA-CUUGGAGCGGAAAAAACCGAAAAACCAAGCCAACGAACCAAACUCAGAAUUUGUCUGCCGGAAGUCCGCAGGAAAUCGUUGGAUUCUCAU---------------
(((.-(((((..(((......))).....)))))(((((((..((((.......))))(((((.((....)))))))...))))))).)))....--------------- ( -26.20)
>DroSim_CAF1 27553 109 - 1
AAAACUUUGGGGCUGAAGCGACCGAA-AACCCUGCCAACGAACCAAACUCUGAAUUUGUCUGCCGGAAAUCCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAAGCCCAUU
.....((((((..((..((((.....-.......(((((((..((((.......))))((((.(((....))).))))..))))))).))))..))..))))))...... ( -27.22)
>DroEre_CAF1 27036 103 - 1
AAAACUUUGGGGCUGCAGCGACCGAAAAACCCUGCCAACGAGCCAAACUCUGAAUUUGUCUGCCGGAAAUCCGGCGGGAAUCGUUGGAUUGUCCCACUCCCAC-------
.......((((((.((((.(..........)))))((((((..((((.......))))((((((((....))))))))..))))))....)))))).......------- ( -33.40)
>DroYak_CAF1 26765 103 - 1
AAAACUUUUGGGCUGAACCGACCGAAAAACCCUGCCAACGAACCAAACUCUGAAUUUGUCUGCCGGAAAUCCGCCGGAAAUCGUUGGAUUGUCCCACUCCCAC-------
.....((((((..........)))))).......(((((((..((((.......))))((((.(((....))).))))..)))))))................------- ( -21.90)
>DroPer_CAF1 400 94 - 1
GAAA-CUUGGAGCGGAAAAAACCGAAAAACCAAGCCAACGAACCAAACUCAGAAUUUGUCUGCCGGAAGUCCGCAGGAAAUCGUUGGAUUCUCAU---------------
(((.-(((((..(((......))).....)))))(((((((..((((.......))))(((((.((....)))))))...))))))).)))....--------------- ( -26.20)
>consensus
AAAACUUUGGGGCUGAAGCGACCGAAAAACCCUGCCAACGAACCAAACUCUGAAUUUGUCUGCCGGAAAUCCGCCGGAAAUCGUUGGAUUGUCCCACUCCCA________
......((((...........)))).........(((((((..((((.......))))((((.(((....))).))))..)))))))....................... (-17.64 = -18.00 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:49 2006