Locus 4243

Sequence ID	2L_DroMel_CAF1
Location	12,119,744 – 12,119,910
Length	166
Max. P	0.649431

overview

Window 1

Location	12,119,744 – 12,119,855
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.99
Mean single sequence MFE	-31.08
Consensus MFE	-21.96
Energy contribution	-21.68
Covariance contribution	-0.28
Combinations/Pair	1.11
Mean z-score	-1.30
Structure conservation index	0.71
SVM decision value	0.22
SVM RNA-class probability	0.640673
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12119744 111 - 22407834
C----CCAUCCAAAGUUAUUAGAGCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCAGC-----UCUGUGUUCUUGCCUCUUUUUUUUU
.----.......(((....((((((...(((((((((.....)))))...((....)).)))).......((((((.....)))))).))-----))))....))).............. ( -29.20)
>DroPse_CAF1 30989 107 - 1
-----GCGUACAAAGUUAUUAGAGCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCAGAGUUCUUCUCGCUUGUUGCCUGU--------
-----(((.((((.((....((((((..(((((((((.....)))))...((....)).)))).......((((((.....)))))).).)))))....)))))))))....-------- ( -30.40)
>DroSec_CAF1 208 109 - 1
C----CCAACCAAAGUUAUUAGAGCCGCGAGGGCCCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCAGC-----UCUGUAUUCUUGCCUUUU--UUUUA
.----.......(((....((((((...(((((((((.....)))))...((....)).)))).......((((((.....)))))).))-----))))....))).......--..... ( -32.20)
>DroEre_CAF1 205 104 - 1
C----CCAUCCAAAGUUAUUAGAGCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCGUCAUCGGCGAUUGCACAGAUCGCAGC-----UCCGUGUUUUUGCUUUUU-------
.----.....(((((.(((..((((.(((((((((((.....)))))...((....)).)))))).....((((((.....)))))).))-----)).))).)))))......------- ( -29.40)
>DroAna_CAF1 182 102 - 1
CCUCCCUCCCAGCAGCCAUUGGGCCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCGGU------------UUUUGUUUUU------UA
.........(((.(((((((((((((....)))))))))....((((((.....)))).)).........((((((.....)))))))))------------).))).....------.. ( -34.90)
>DroPer_CAF1 30862 108 - 1
-----GCGUACAAAGUUAUUAGAGCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCAGAGUUCUUCUCGCUUGUUGCCUGUU-------
-----(((.((((.((....((((((..(((((((((.....)))))...((....)).)))).......((((((.....)))))).).)))))....))))))))).....------- ( -30.40)
>consensus
C____CCAUCCAAAGUUAUUAGAGCCGCGAGGGCUCAAUAAAUGGGCGUCGUUUAUGCACCUCAUCAUCAGCGAUUGCACAGAUCGCAGC_____UCUGUCUUCUUGCCUUUU_______
..........................(((((((((((.....)))))...((....)).)))).......((((((.....))))))...................))............ (-21.96 = -21.68 +  -0.28)

alignment

secondary structure

dotplot

Window 2

Location	12,119,819 – 12,119,910
Length	91
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	69.62
Mean single sequence MFE	-39.79
Consensus MFE	-14.38
Energy contribution	-17.06
Covariance contribution	2.68
Combinations/Pair	1.19
Mean z-score	-1.78
Structure conservation index	0.36
SVM decision value	0.24
SVM RNA-class probability	0.649431
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12119819 91 + 22407834
UAUUGAGCCCUCGCGGCUCUAAUAACUUUGGAUGG----GGAUCGGGUUGGGGAGUCU------CCGACUGCAGAUCGACGAUC--------------GCGGGCUGGAAAAAA-----AU
..((.(((((..((((.(((((.....)))))((.----.((((.((((((((...))------))))))...))))..)).))--------------))))))).)).....-----.. ( -31.40)
>DroSec_CAF1 281 90 + 1
UAUUGGGCCCUCGCGGCUCUAAUAACUUUGGUUGG----GGCUCGGGAUGGGGAGUCU------CCGACUCCAGAUCGCCGAUC--------------GCGCGCCUGAAA-AA-----AU
..(..(((...((((((((((((.......)))))----)))(((((((..((((((.------..))))))..))).)))).)--------------))).)))..)..-..-----.. ( -39.00)
>DroSim_CAF1 286 90 + 1
UAUUGAGCCCUCGCGGCUCUAAUAACUUUGGUUGG----GGCUCGGGAUGGGGAGUCU------CCGACUCCAGAUCGCCGAUC--------------GCGGGCUGGAAA-AA-----AU
..((.(((((..(((((((((((.......)))))----)))(((((((..((((((.------..))))))..))).)))).)--------------))))))).))..-..-----.. ( -40.10)
>DroEre_CAF1 273 110 + 1
UAUUGAGCCCUCGCGGCUCUAAUAACUUUGGAUGG----GGUGCGGGAUGGGGAGUCC------CCGGCUCCAGAUCGUCGAUCGCCGAUCGUCGAUCGCCGGCUGGAAAUGGAGGUGGA
....(((((((((((.(((..............))----).))))))..((((...))------)))))))..(((((.(((((...))))).))))).(((.((........)).))). ( -44.04)
>DroAna_CAF1 244 105 + 1
UAUUGAGCCCUCGCGGGCCCAAUGGCUGCUGGGAGGGAGGGGUCUGGAGCGGAUGACUCUGGAGCUGCCUCCAGAUCGUUGAUC--------------GCUGACUUGGCCCAAAGG-GGC
....((.(((((.(...((((........)))).).))))).))...(((((((((.(((((((....))))))))))))...)--------------)))......((((....)-))) ( -44.40)
>consensus
UAUUGAGCCCUCGCGGCUCUAAUAACUUUGGAUGG____GGCUCGGGAUGGGGAGUCU______CCGACUCCAGAUCGCCGAUC______________GCGGGCUGGAAA_AA_____AU
..(..((((..(((...(((((.....)))))..........(((((((..((((((.........))))))..))).))))................)))))))..)............ (-14.38 = -17.06 +   2.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:19 2006