Locus 2131

Sequence ID	2L_DroMel_CAF1
Location	5,757,206 – 5,757,340
Length	134
Max. P	0.565232

overview

Window 2

Location	5,757,206 – 5,757,301
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	82.75
Mean single sequence MFE	-25.74
Consensus MFE	-21.92
Energy contribution	-22.00
Covariance contribution	0.08
Combinations/Pair	1.09
Mean z-score	-1.48
Structure conservation index	0.85
SVM decision value	0.06
SVM RNA-class probability	0.565232
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5757206 95 + 22407834
UCCUGGUACGAAUUCAAUUGCACUUGCAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGUCCGAAGG-ACCCUUUUUCGCGGCCAUGCACA
..((..(((((((((...(((....)))..(((((....)))))))))).))))..))...(((((((((((-(...))))))).)))))...... ( -28.10)
>DroSec_CAF1 33161 77 + 1
UC------------------CACUUGCAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCGAAGG-ACCCUUUUUCGCGGCCAUGCACA
..------------------........(((((((....)))))))....(((((......(((((((((((-(...))))))).))))).))))) ( -25.10)
>DroSim_CAF1 28941 77 + 1
UC------------------CACUUGCAUUGCCUACUUAUGGGCGAAUAAUGUGUUGGUUUUGGCCCGAAGG-ACCCUUUUUCGCGGCCAUGCACA
..------------------........(((((((....)))))))....(((((......(((((((((((-(...))))))).))))).))))) ( -25.10)
>DroEre_CAF1 31703 96 + 1
CCUAGGUACGUAUUCCAUUGCACUUGCAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCAAAAGGACCCUUUUUCGCGGCCAUGCACA
.........(((..(((..((((.....(((((((....))))))).....)))))))...(((((((((((....)))))..).))))))))... ( -25.60)
>DroYak_CAF1 30046 96 + 1
UCUCGGUACGAAUUCAAUUGCACUCGUAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCAAAGGACCCCUUUUUCGCGGCCACGCACA
....((..((((..((...((((.....(((((((....))))))).....))))))..))))..))(((((...)))))...(((....)))... ( -24.80)
>consensus
UC__GGUACG_AUUC_AUUGCACUUGCAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCGAAGG_ACCCUUUUUCGCGGCCAUGCACA
............................(((((((....)))))))....(((((......(((((((((((......)))))).))))).))))) (-21.92 = -22.00 +   0.08)

alignment

secondary structure

dotplot

Window 3

Location	5,757,232 – 5,757,340
Length	108
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	83.58
Mean single sequence MFE	-29.15
Consensus MFE	-21.88
Energy contribution	-24.03
Covariance contribution	2.14
Combinations/Pair	1.18
Mean z-score	-1.55
Structure conservation index	0.75
SVM decision value	-0.01
SVM RNA-class probability	0.526947
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5757232 108 + 22407834
CAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGUCCGAAGG-ACCCUUUUUCGCGGCCA--------UGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....))))))).((((((((......(((((((((((-(...))))))).)))))--------.))))))))...((((((((.......)).))))))......... ( -30.80)
>DroPse_CAF1 52476 99 + 1
CAUUGCCUACUUACAGGCGAAAUUU-------------UCCA-----UUCCCUUGUUGUAGCCGUUGCAUGUUGCACAUAAAAUCCAUUGCUAAAUAACGGUUAAUGCAAAACAGCG
..((((((......)))))).....-------------....-----.....((((..(((((((((......(((............)))....)))))))))..))))....... ( -20.10)
>DroSec_CAF1 33169 108 + 1
CAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCGAAGG-ACCCUUUUUCGCGGCCA--------UGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....))))))).((((((((......(((((((((((-(...))))))).)))))--------.))))))))...((((((((.......)).))))))......... ( -33.50)
>DroSim_CAF1 28949 108 + 1
CAUUGCCUACUUAUGGGCGAAUAAUGUGUUGGUUUUGGCCCGAAGG-ACCCUUUUUCGCGGCCA--------UGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....)))))))...((((((......(((((((((((-(...))))))).)))))--------.)))))).....((((((((.......)).))))))......... ( -31.10)
>DroEre_CAF1 31729 109 + 1
CAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCAAAAGGACCCUUUUUCGCGGCCA--------UGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....))))))).((((((((......(((((((((((....)))))..).)))))--------.))))))))...((((((((.......)).))))))......... ( -30.40)
>DroYak_CAF1 30072 109 + 1
UAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCAAAGGACCCCUUUUUCGCGGCCA--------CGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....))))))).((((((((((((..(((...(((((...))))).)))..))))--------.))))))))...((((((((.......)).))))))......... ( -29.00)
>consensus
CAUUGCCUACUUAUGGGCGAAUUAUGUGUUGGUUUUGGCCCAAAGG_ACCCUUUUUCGCGGCCA________UGCACAUGAAAUGCAUUGCGUAAUAACUGUUAAUGCUUAACAUCG
..(((((((....))))))).((((((((......(((((((((((......)))))).))))).........))))))))...((((((((.......)).))))))......... (-21.88 = -24.03 +   2.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:24 2006