Locus 3155

Sequence ID	3L_DroMel_CAF1
Location	9,172,160 – 9,172,251
Length	91
Max. P	0.967204

overview

Window 2

Location	9,172,160 – 9,172,251
Length	91
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	89.59
Mean single sequence MFE	-17.65
Consensus MFE	-14.39
Energy contribution	-14.17
Covariance contribution	-0.22
Combinations/Pair	1.06
Mean z-score	-1.99
Structure conservation index	0.82
SVM decision value	0.13
SVM RNA-class probability	0.596586
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9172160 91 + 23771897
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAACGUAG-CUGUCACUGGCUGACUUUUGACUGUCCGGUUUUC------GUUUUCG
..........((((((..((((....))))..)))))).....(((((((-((......)))))......((((....))))..)------))).... ( -17.40)
>DroSim_CAF1 27749 85 + 1
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAACGUAG-CUGUCACUGGCUGACUUUUGACUGUCCGGUUUUC------G------
..........((((((..((((....))))..))))))...((.....((-((......))))(((........))).)).....------.------ ( -17.20)
>DroEre_CAF1 39921 97 + 1
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAACGUAG-CUGUCACUGACUGACUUUUGACUGCCCAGUUUUCGUUUUCGUUUUCG
..........((((((..((((....))))..)))))).....((((.((-(.((((.....))))....((((....))))...)))..)))).... ( -17.40)
>DroWil_CAF1 41343 85 + 1
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCC-CAACGUUGCCUGUCAGUGGCUGACUUUUGACUGUCCAGUUUUC------G------
.........(((....((((((..(((((.....(((((..-..)))))....))))).))))))....))).............------.------ ( -18.40)
>DroAna_CAF1 29372 85 + 1
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAGCGCUG-CUGUCACUAGCUGACUUUUGACUGUCCAGUUUUC------G------
..........((((((..((((....))))..))))))....((((...)-))).....(((((((........)).)))))...------.------ ( -17.60)
>DroPer_CAF1 32012 85 + 1
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAACGCUG-CUGUCACUGUCUGACUUUUGACUGUCCAGUUUUC------G------
..........((((((..((((....))))..)))))).......((..(-(((..((.(((........))).)).))))...)------)------ ( -17.90)
>consensus
UCAACUUUUUCAUUUAUCAGCCUUUUGGCUUUUAAAUGUCCCCAACGUAG_CUGUCACUGGCUGACUUUUGACUGUCCAGUUUUC______G______
..........((((((..((((....))))..))))))...............((((.....))))....((((....))))................ (-14.39 = -14.17 +  -0.22)

alignment

secondary structure

dotplot

Window 3

Location	9,172,160 – 9,172,251
Length	91
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	89.59
Mean single sequence MFE	-19.67
Consensus MFE	-17.26
Energy contribution	-17.10
Covariance contribution	-0.16
Combinations/Pair	1.14
Mean z-score	-2.28
Structure conservation index	0.88
SVM decision value	1.61
SVM RNA-class probability	0.967204
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9172160 91 - 23771897
CGAAAAC------GAAAACCGGACAGUCAAAAGUCAGCCAGUGACAG-CUACGUUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
....(((------.....((.(((.((.....((((.....))))..-..))))).))..((((((..((((....))))..)))))).....))).. ( -19.90)
>DroSim_CAF1 27749 85 - 1
------C------GAAAACCGGACAGUCAAAAGUCAGCCAGUGACAG-CUACGUUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
------.------.....((.(((.((.....((((.....))))..-..))))).))..((((((..((((....))))..)))))).......... ( -19.00)
>DroEre_CAF1 39921 97 - 1
CGAAAACGAAAACGAAAACUGGGCAGUCAAAAGUCAGUCAGUGACAG-CUACGUUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
..........(((...(((..(((.((((...(.....)..)))).)-))..))).....((((((..((((....))))..)))))).....))).. ( -18.50)
>DroWil_CAF1 41343 85 - 1
------C------GAAAACUGGACAGUCAAAAGUCAGCCACUGACAGGCAACGUUG-GGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
------.------.....((.(((........(((((...))))).(....)))).-)).((((((..((((....))))..)))))).......... ( -22.10)
>DroAna_CAF1 29372 85 - 1
------C------GAAAACUGGACAGUCAAAAGUCAGCUAGUGACAG-CAGCGCUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
------.------...((((.(((........)))..((((((.(..-..)))))))...((((((..((((....))))..))))))....)))).. ( -20.40)
>DroPer_CAF1 32012 85 - 1
------C------GAAAACUGGACAGUCAAAAGUCAGACAGUGACAG-CAGCGUUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
------.------.....((.(((.(((........))).((....)-)...))).))..((((((..((((....))))..)))))).......... ( -18.10)
>consensus
______C______GAAAACUGGACAGUCAAAAGUCAGCCAGUGACAG_CAACGUUGGGGACAUUUAAAAGCCAAAAGGCUGAUAAAUGAAAAAGUUGA
..................((.(((.((.....((((.....)))).....))))).))..((((((..((((....))))..)))))).......... (-17.26 = -17.10 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:56 2006