Locus 1053

Sequence ID	2L_DroMel_CAF1
Location	2,936,555 – 2,936,710
Length	155
Max. P	0.968439

overview

Window 6

Location	2,936,555 – 2,936,670
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.92
Mean single sequence MFE	-20.41
Consensus MFE	-17.90
Energy contribution	-17.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.88
SVM decision value	1.63
SVM RNA-class probability	0.968439
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2936555 115 - 22407834
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGUUUCCGUUGUGCACAGAAAACUGCAAA----UUAAGUAUAU
........(((((((((......((((......((((......))))..-....))))(((((((((((.........))))..))))))).........)).)))----))))...... ( -19.90)
>DroSec_CAF1 51964 119 - 1
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGUUUCCGUUGUGCACAGAAAACUCCAAAGGAAAUAAAUAUAU
.......(((.(((((.......((((......((((......))))..-....))))(((((((((((.........))))..)))))))................))))).))).... ( -20.00)
>DroSim_CAF1 53643 119 - 1
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGUUUCCGUUGUGCGCAGAAAACUCCAAAGGAAAUAAAUAUAU
.......(((.(((((.......((((((....))))))....(.(((.-........(((((((((((.........))))..)))))))........))))....))))).))).... ( -20.73)
>DroEre_CAF1 53942 114 - 1
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGGUGAAAACCAGCGCAACAAACAUGUCUAUGGUUUCCGUUGUGCACAGAAAACUACAAAGGUAAUA------U
............((((.......((((((....))))))....((..(((....))).(((((((((((.........))))..))))))))).))))...............------. ( -21.70)
>DroYak_CAF1 53848 113 - 1
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGUUUCCGUUGUGCAAAGAAAACUCCAAGGGAAAUA------U
...........(((((.......((((......((((......))))..-....))))(((((((((((.........))))..)))))))................))))).------. ( -19.70)
>consensus
UUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG_AAAAACAAGCGCAACAAACAUGUUUAUGGUUUCCGUUGUGCACAGAAAACUCCAAAGGAAAUAA_UAUAU
............((((.......((((((....))))))...(....)..........(((((((((((.........))))..)))))))...))))...................... (-17.90 = -17.90 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	2,936,591 – 2,936,710
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.31
Mean single sequence MFE	-25.41
Consensus MFE	-22.54
Energy contribution	-22.86
Covariance contribution	0.32
Combinations/Pair	1.06
Mean z-score	-1.47
Structure conservation index	0.89
SVM decision value	0.82
SVM RNA-class probability	0.859729
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2936591 119 + 22407834
ACCAUAAACAUGUUUGUUGCGCUUGUUUUU-CCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGUUGAAAACGUUUUUAUUGCCCAGCGCUUGCUGAUGAUU
..(((.((((....))))(((((.((....-....((((((((((((....)))))))(((((..(......)..))))).......))))).......))..)))))......)))... ( -21.96)
>DroSec_CAF1 52004 119 + 1
ACCAUAAACAUGUUUGUUGCGCUUGUUUUU-CCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGUUGAAAACGUUUUUAUUGCCCAGCGCUUGCUGAUGGUU
(((((.((((....))))(((((.((....-....((((((((((((....)))))))(((((..(......)..))))).......))))).......))..)))))......))))). ( -25.66)
>DroSim_CAF1 53683 119 + 1
ACCAUAAACAUGUUUGUUGCGCUUGUUUUU-CCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGUUGAAAACGUUUUUAUUGCCCAGCGAUUGCUGAUGGUU
(((((...((...((((((.((.(((((((-....((((((((((((....)))))).(((((((....))))))).)))))).)))))))........)).)))))).))...))))). ( -24.40)
>DroEre_CAF1 53976 120 + 1
ACCAUAGACAUGUUUGUUGCGCUGGUUUUCACCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGCUGAAAACGUUUUUAUUGCCAGGCGCUUGCUGAUGGUU
(((((.((((....))))((((((((.........((((((((((((....)))))))(((((..(......)..))))).......))))).......)))).))))......))))). ( -30.09)
>DroYak_CAF1 53882 119 + 1
ACCAUAAACAUGUUUGUUGCGCUUGUUUUU-CCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGCUGAAAACGUUUUUAUUGCCUUGCGCUUGCUGAUGGUU
(((((.((((....))))((((..((....-....((((((((((((....)))))))(((((..(......)..))))).......))))).......))...))))......))))). ( -24.96)
>consensus
ACCAUAAACAUGUUUGUUGCGCUUGUUUUU_CCUCACGUUGUUGUGAUUUUUCACAAUUUAAUUGAAAUUAAUUGAUUAAUGUUGAAAACGUUUUUAUUGCCCAGCGCUUGCUGAUGGUU
(((((.((((....))))(((((............((((((((((((....)))))))(((((..(......)..))))).......)))))...........)))))......))))). (-22.54 = -22.86 +   0.32)

alignment

secondary structure

dotplot

Window 8

Location	2,936,591 – 2,936,710
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.31
Mean single sequence MFE	-20.52
Consensus MFE	-18.13
Energy contribution	-18.77
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	0.88
SVM decision value	1.56
SVM RNA-class probability	0.963967
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2936591 119 - 22407834
AAUCAUCAGCAAGCGCUGGGCAAUAAAAACGUUUUCAACAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGU
.(((((.((((.(((((...........(((((...............(((((....))))).((((((....)))))).)))))....-.......)))))........)))).))))) ( -19.25)
>DroSec_CAF1 52004 119 - 1
AACCAUCAGCAAGCGCUGGGCAAUAAAAACGUUUUCAACAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGU
.(((((.((((.(((((...........(((((...............(((((....))))).((((((....)))))).)))))....-.......)))))........)))).))))) ( -21.85)
>DroSim_CAF1 53683 119 - 1
AACCAUCAGCAAUCGCUGGGCAAUAAAAACGUUUUCAACAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGU
.(((((.((((...(.((.((.........((.....)).............((((.......((((((....))))))...(....))-))).....)).)).).....)))).))))) ( -18.30)
>DroEre_CAF1 53976 120 - 1
AACCAUCAGCAAGCGCCUGGCAAUAAAAACGUUUUCAGCAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGGUGAAAACCAGCGCAACAAACAUGUCUAUGGU
.(((((..(((.((.....)).........((((...((...............(((......((((((....)))))).....)))(((....)))...))...)))).)))..))))) ( -23.20)
>DroYak_CAF1 53882 119 - 1
AACCAUCAGCAAGCGCAAGGCAAUAAAAACGUUUUCAGCAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG-AAAAACAAGCGCAACAAACAUGUUUAUGGU
.(((((.((((.((((...((...(((....)))...)).............((((.......((((((....))))))...(....))-))).....))))........)))).))))) ( -20.00)
>consensus
AACCAUCAGCAAGCGCUGGGCAAUAAAAACGUUUUCAACAUUAAUCAAUUAAUUUCAAUUAAAUUGUGAAAAAUCACAACAACGUGAGG_AAAAACAAGCGCAACAAACAUGUUUAUGGU
.(((((.((((.(((((.(.........(((((...............(((((....))))).((((((....)))))).)))))..........).)))))........)))).))))) (-18.13 = -18.77 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:12 2006