Locus 7072

Sequence ID	2L_DroMel_CAF1
Location	19,803,659 – 19,803,893
Length	234
Max. P	0.952048

overview

Window 6

Location	19,803,659 – 19,803,774
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.31
Mean single sequence MFE	-43.52
Consensus MFE	-36.18
Energy contribution	-36.34
Covariance contribution	0.16
Combinations/Pair	1.11
Mean z-score	-1.27
Structure conservation index	0.83
SVM decision value	-0.03
SVM RNA-class probability	0.520558
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19803659 115 + 22407834
CACGCGACCAGGUUUGUGGGCGUUUCCCGGGCUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGGGGAUCUGGGGGACAGGACG-----UCGUCCAAAUGGAGACCUUACGUU
...(((...((((((.(((((((..((((((..((...((((((((((((....)))...)))))))))..))..))))))..))..(...-----.)))))).....))))))..))). ( -44.20)
>DroSec_CAF1 70275 115 + 1
CACGCGACCAGGUUUGUGGGCGUUCCCCGGGCUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGGGGAUCUGGGGGCCAGGACG-----UCGUCCGAAUGGAGACCUUACGUU
...(((...((((((.((..((..(((((((..((...((((((((((((....)))...)))))))))..))..)))))))..).((((.-----..)))))..)).))))))..))). ( -44.70)
>DroSim_CAF1 71506 115 + 1
CACGCGACCAGGUUUGUGGGCGUUCCCCGGGCUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGGGGAUCUGGGGGCCAGGACG-----UCGUCCGAAUGGAGACCUUACGUU
...(((...((((((.((..((..(((((((..((...((((((((((((....)))...)))))))))..))..)))))))..).((((.-----..)))))..)).))))))..))). ( -44.70)
>DroEre_CAF1 71722 120 + 1
CACGCGACCAAAUUUGUGGGCGUUCCUCGGGCUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGGGGAUCUGGGGGCCAGAAUGCAAUGGAGUCCGAAUGGAGACCUUACGUU
...............(((((..(((((((((((((((..(((((((((((....)))...))))))))(((....(((((...))))).))).)))))))))))..))))..)))))... ( -44.70)
>DroYak_CAF1 73327 114 + 1
CACGUGACCAAAUUUGUGGGCGUACACCGGGUUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGG-GAUCUGGGGGCCAGGACG-----UCGUCCAAAUGGAGACCUUGCGUU
.(((..(......((.(((.(.....(((((((((...((((((((((((....)))...))))))))).))-))))))).).))).)).(-----((.(((....)))))).)..))). ( -39.30)
>consensus
CACGCGACCAGGUUUGUGGGCGUUCCCCGGGCUCUAUCUUAUCCUGGUGAUUUUUCACACCCAGGAUAGCGGGGAUCUGGGGGCCAGGACG_____UCGUCCGAAUGGAGACCUUACGUU
.((((..(((......))))))).(((((((.(((...((((((((((((....)))...)))))))))...))))))))))....(((((......)))))....(....)........ (-36.18 = -36.34 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	19,803,774 – 19,803,893
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.75
Mean single sequence MFE	-30.88
Consensus MFE	-23.15
Energy contribution	-23.79
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.60
Structure conservation index	0.75
SVM decision value	1.42
SVM RNA-class probability	0.952048
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19803774 119 - 22407834
GCUCCCAGGCAGGCAGUGUCCAAA-AAACACGAAGAACUCUUCAAUUAAUUCGCUGAACUCCACUCUAAAAACACACAGCAAAGCGACGGAGCACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..(((.((..((((((...-......((((....)))).......(((((...........................))))).))).)))......)).)))..)))))...... ( -28.63)
>DroSec_CAF1 70390 119 - 1
GCUCCCAGGCAGGCAGUGUCCAAA-AAACACGAAAAACUCUUCAAUUAAUUUGCUGAACUCCACUCGAAAAACACACAGCAAAGCGACGGAGCACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..(((..((.((((.....-..))))..................(((((((....................)))))))))...(((.........))).)))..)))))...... ( -27.45)
>DroSim_CAF1 71621 119 - 1
GCUCCCAGGCAGGCAGUGUCCAAA-AAACACGGAAAACUCUUCAAUUAAUUUGCCGAACUCCACUCGAAAAACACACAGCAAAGCGACGGAGCACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..(((.((((((((.....-..)))).(((.....)))........))))...((((..(((.....(.....).....))).))))............)))..)))))...... ( -28.20)
>DroEre_CAF1 71842 109 - 1
GCUCCCAGGCUGGCAUUGUCCAAA-AAACACGAAA-------CAAUUAAUUUGCUGAGCUCUGCUC---AGGCAAACAGCAAAGCGACGGAGCACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..((((((.((((......-..........-------.......((((((((((...))))---).))))).......((......))....))))))))))..)))))...... ( -35.30)
>DroYak_CAF1 73441 116 - 1
GCUCCCAGGCUGGCAUUGUCCAAAAAAACACGAAA-ACUCUUCAAUUAAUUUGUUGAGCUCUGCUC---AAACAAACAGCAAAGCGACGGAGAACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..((((((.(((((((..............-.....(((((......)))))(((.((((.---........)))).)))...)))......))))))))))..)))))...... ( -34.80)
>consensus
GCUCCCAGGCAGGCAGUGUCCAAA_AAACACGAAAAACUCUUCAAUUAAUUUGCUGAACUCCACUC_AAAAACACACAGCAAAGCGACGGAGCACAUCAAUCCAGUCGAGGAGCAAGUCA
(((((..(((..((.((((........))))..................(((((((....................)))))))))...(((.........))).)))..)))))...... (-23.15 = -23.79 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:36 2006