Locus 268

Sequence ID	3L_DroMel_CAF1
Location	762,936 – 763,038
Length	102
Max. P	0.778480

overview

Window 0

Location	762,936 – 763,038
Length	102
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	79.10
Mean single sequence MFE	-33.33
Consensus MFE	-18.49
Energy contribution	-19.27
Covariance contribution	0.78
Combinations/Pair	1.03
Mean z-score	-2.45
Structure conservation index	0.55
SVM decision value	0.55
SVM RNA-class probability	0.778480
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 762936 102 + 23771897
AUUGCUUUUGCU---GCUUUGGCUGCAACUUCGAUUCCAGCCCAGCUCUGAGCUCUGAGCUUGAGAUUUCAGU--------------UUUAAGUUUUCAGUUUUGAGCUUAGCGCCAGG
....((..((((---(....(((((.((......)).))))).(((((.(((((..(((((((((((....))--------------)))))))))..))))).))))))))))..)). ( -32.20)
>DroSim_CAF1 120097 116 + 1
AUUGCUUUUGCU---GCUUUGGCUGCGACUUCGAUUCCAGCCCAGCUCUGAGCUCUGAGCUUGAGAUUUCAGUUUUAAGUUUUCAGUUUUAAGUUUUCAGUUUUGAGCUUAGCGCCAGG
.........(((---(....(((((.((.......))))))))))).(((.((.(((((((..(((((.....((((((........)))))).....)))))..))))))).))))). ( -36.20)
>DroEre_CAF1 124023 112 + 1
UUUGCUGUGACUAUGGCUUUGGCUGCGACUUUGGUUGCAACCUAGGUCU-------GAGCUUGAGUUUUCAGUUUUCAGUUUUCAGCUUUAAGUUUUCAGUUUUGAGCUUAGCGCCAGG
...((((.((((..(((((.((((..(((((.(((....))).))))).-------.)))).)))))...))))..)))).....((.((((((((........)))))))).)).... ( -31.60)
>consensus
AUUGCUUUUGCU___GCUUUGGCUGCGACUUCGAUUCCAGCCCAGCUCUGAGCUCUGAGCUUGAGAUUUCAGUUUU_AGUUUUCAG_UUUAAGUUUUCAGUUUUGAGCUUAGCGCCAGG
..................(((((.((((((..((((.((....(((((........))))))).))))..))))...............(((((((........)))))))))))))). (-18.49 = -19.27 +   0.78)

alignment

secondary structure

dotplot

Window 1

Location	762,936 – 763,038
Length	102
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	79.10
Mean single sequence MFE	-24.10
Consensus MFE	-15.87
Energy contribution	-15.77
Covariance contribution	-0.11
Combinations/Pair	1.11
Mean z-score	-1.64
Structure conservation index	0.66
SVM decision value	0.20
SVM RNA-class probability	0.628660
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 762936 102 - 23771897
CCUGGCGCUAAGCUCAAAACUGAAAACUUAAA--------------ACUGAAAUCUCAAGCUCAGAGCUCAGAGCUGGGCUGGAAUCGAAGUUGCAGCCAAAGC---AGCAAAAGCAAU
.(((((.((.((((((....))).........--------------..(((....))).))).)).)).))).(((.(((((.(((....))).)))))..)))---.((....))... ( -25.80)
>DroSim_CAF1 120097 116 - 1
CCUGGCGCUAAGCUCAAAACUGAAAACUUAAAACUGAAAACUUAAAACUGAAAUCUCAAGCUCAGAGCUCAGAGCUGGGCUGGAAUCGAAGUCGCAGCCAAAGC---AGCAAAAGCAAU
.(((((.((.((((((....))).........................(((....))).))).)).)).))).(((.(((((((.......)).)))))..)))---.((....))... ( -24.20)
>DroEre_CAF1 124023 112 - 1
CCUGGCGCUAAGCUCAAAACUGAAAACUUAAAGCUGAAAACUGAAAACUGAAAACUCAAGCUC-------AGACCUAGGUUGCAACCAAAGUCGCAGCCAAAGCCAUAGUCACAGCAAA
..((((.....)).))................((((...((((....((((..........))-------)).....((((((.((....)).)))))).......))))..))))... ( -22.30)
>consensus
CCUGGCGCUAAGCUCAAAACUGAAAACUUAAA_CUGAAAACU_AAAACUGAAAUCUCAAGCUCAGAGCUCAGAGCUGGGCUGGAAUCGAAGUCGCAGCCAAAGC___AGCAAAAGCAAU
....(((((..(((............................................(((((........))))).(((((............)))))..)))...)))....))... (-15.87 = -15.77 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:53 2006