Locus 2814

Sequence ID	2L_DroMel_CAF1
Location	8,029,184 – 8,029,304
Length	120
Max. P	0.994722

overview

Window 2

Location	8,029,184 – 8,029,304
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	71.98
Mean single sequence MFE	-21.86
Consensus MFE	-10.92
Energy contribution	-13.28
Covariance contribution	2.36
Combinations/Pair	1.22
Mean z-score	-2.39
Structure conservation index	0.50
SVM decision value	2.50
SVM RNA-class probability	0.994722
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8029184 120 + 22407834
AAUCUAAAACGGUCAUGUAAAAUACCAUACAUCAAACCAUGUAAGCAUACAUCUUACAUGUAAAAUAUUGCUGGCAUUUGACCUAAGUAGAUUAAGUAGAUUACAAAAAUAUGUAAUCCG
((((((....(((((((((........))))......((((((((.......))))))))..................)))))....)))))).....(((((((......))))))).. ( -25.70)
>DroSec_CAF1 6327 100 + 1
AAUCUUUAACGGUCAUGUACAAUUCCAUACAUCAAGCCAUGUAAGCAUUCAUUUUACAUGUAAAAUAUUGCUGGUACUUGACCUAAGUAGAUUACACAAA--------------------
(((((.....(((((.((((.......(((((......)))))((((...((((((....))))))..)))).)))).))))).....))))).......-------------------- ( -24.00)
>DroSim_CAF1 6702 100 + 1
AAUCUUUAACGGUCAUGUAAACUACCAUACAUCAAGCCAUGUAAGCAUUCAUUUUACAUGUAAAAUAUUGCUGGUAUUUGACCUAAGUAGAUUACACAAA--------------------
(((((.....(((((.......((((.(((((......)))))((((...((((((....))))))..))))))))..))))).....))))).......-------------------- ( -20.60)
>DroEre_CAF1 4832 106 + 1
AAUCCAUAACGGUUGUGUAAAAUAC-----AUCAAACAAUGUAAGUAUACUUCCUACGUGUAAUAGUUCGGUGGUAUUUAACUUGAGUAAAUUACAAAAA---------UGUGUGAUGCG
.(((((((..((..(((((...(((-----((......)))))..)))))..))....((((((..((((((........)).))))...))))))....---------)))).)))... ( -18.10)
>DroYak_CAF1 7078 111 + 1
AAUCCAUAACGGUCAUGUAAAAUACCGUGGACCAAACAAUGUAAGUAUACAUCUUACAUGUCAUAAUUGGCCGGUAUUCAACUUAAGUAAAUUACAAAAA---------UGUCCUACGCG
..........((.(((((..((((((..((.(((((((.((((((.......))))))))).....))))))))))))..))....(((...)))....)---------)).))...... ( -20.90)
>consensus
AAUCUAUAACGGUCAUGUAAAAUACCAUACAUCAAACCAUGUAAGCAUACAUCUUACAUGUAAAAUAUUGCUGGUAUUUGACCUAAGUAGAUUACAAAAA_________U_U___A__CG
(((((((...(((((.....(((((((..........((((((((.......))))))))...........))))))))))))...)))))))........................... (-10.92 = -13.28 +   2.36)

alignment

secondary structure

dotplot

Window 3

Location	8,029,184 – 8,029,304
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	71.98
Mean single sequence MFE	-24.16
Consensus MFE	-14.76
Energy contribution	-15.92
Covariance contribution	1.16
Combinations/Pair	1.35
Mean z-score	-1.96
Structure conservation index	0.61
SVM decision value	1.65
SVM RNA-class probability	0.970213
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8029184 120 - 22407834
CGGAUUACAUAUUUUUGUAAUCUACUUAAUCUACUUAGGUCAAAUGCCAGCAAUAUUUUACAUGUAAGAUGUAUGCUUACAUGGUUUGAUGUAUGGUAUUUUACAUGACCGUUUUAGAUU
.((((((((......))))))))....((((((....((((((((((((...(((((...((((((((.......))))))))....))))).))))))).....)))))....)))))) ( -37.20)
>DroSec_CAF1 6327 100 - 1
--------------------UUUGUGUAAUCUACUUAGGUCAAGUACCAGCAAUAUUUUACAUGUAAAAUGAAUGCUUACAUGGCUUGAUGUAUGGAAUUGUACAUGACCGUUAAAGAUU
--------------------.......(((((.....(((((.((((.((((.(((((((....)))))))..))))(((((......))))).......)))).))))).....))))) ( -22.80)
>DroSim_CAF1 6702 100 - 1
--------------------UUUGUGUAAUCUACUUAGGUCAAAUACCAGCAAUAUUUUACAUGUAAAAUGAAUGCUUACAUGGCUUGAUGUAUGGUAGUUUACAUGACCGUUAAAGAUU
--------------------.(..(((((.(((((((.(((((...((((((.(((((((....)))))))..))).....))).))))).)).))))).)))))..)............ ( -22.30)
>DroEre_CAF1 4832 106 - 1
CGCAUCACACA---------UUUUUGUAAUUUACUCAAGUUAAAUACCACCGAACUAUUACACGUAGGAAGUAUACUUACAUUGUUUGAU-----GUAUUUUACACAACCGUUAUGGAUU
.((((((.(((---------....(((((..(((((..((.....)).......((((.....))))).))))...))))).))).))))-----))...........((.....))... ( -14.70)
>DroYak_CAF1 7078 111 - 1
CGCGUAGGACA---------UUUUUGUAAUUUACUUAAGUUGAAUACCGGCCAAUUAUGACAUGUAAGAUGUAUACUUACAUUGUUUGGUCCACGGUAUUUUACAUGACCGUUAUGGAUU
..(((((((((---------....)))...........((.((((((((((((.....((((((((((.......)))))).))))))))...)))))))).))....))..)))).... ( -23.80)
>consensus
CG__U___A_A_________UUUGUGUAAUCUACUUAGGUCAAAUACCAGCAAUAUUUUACAUGUAAGAUGUAUGCUUACAUGGUUUGAUGUAUGGUAUUUUACAUGACCGUUAUAGAUU
...........................((((((....((((((((((((...........((((((((.......))))))))..........))))))).....)))))....)))))) (-14.76 = -15.92 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:54 2006