Locus 71

Sequence ID	2R_DroMel_CAF1
Location	1,324,191 – 1,324,391
Length	200
Max. P	0.908142

overview

Window 7

Location	1,324,191 – 1,324,311
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.75
Mean single sequence MFE	-33.02
Consensus MFE	-31.14
Energy contribution	-30.98
Covariance contribution	-0.16
Combinations/Pair	1.08
Mean z-score	-1.19
Structure conservation index	0.94
SVM decision value	0.34
SVM RNA-class probability	0.694176
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1324191 120 - 20766785
CACGUUGAUUGGUUUUUGCCCGGAGUAAAAGCGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGCCUG
....((((((((((.(((((.(((((((..(((((.(((((((((......)))))))))..........)))))..)).....))))).)))))..))))))))))............. ( -33.60)
>DroSec_CAF1 42730 120 - 1
CACGUUGAUUGGUUUUUGCCCGGAGUAGAAGCGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGCCUG
....((((((((((.(((((.(((((.((((((((.(((((((((......)))))))))..........)))))..)))....))))).)))))..))))))))))............. ( -33.70)
>DroSim_CAF1 21811 120 - 1
CACGUUGAUUGGUUUUUGCCCGGAGUAGAAGCGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGCCUG
....((((((((((.(((((.(((((.((((((((.(((((((((......)))))))))..........)))))..)))....))))).)))))..))))))))))............. ( -33.70)
>DroEre_CAF1 24080 120 - 1
CACGUUGAUUGGUUCUUGCCUGGAGCAAAAACGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGCCUG
....((((((((((.(((((.((((((((..((((.(((((((((......)))))))))..........))))...))))....)))).)))))..))))))))))............. ( -30.90)
>DroYak_CAF1 10166 120 - 1
UACGUUGAUUGGUUUUUGCCUGGAGUGAAAUCGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGGCUG
.....(((((((((.(((((.(((((.((((((((.(((((((((......)))))))))..........))))..))))....))))).)))))..)))))))))((((.....)))). ( -33.20)
>consensus
CACGUUGAUUGGUUUUUGCCCGGAGUAAAAGCGAUGGCUUUUGGUCACGUAAUUAAGAGCAAACUUAUUAAUCGCCGUUUGACAACUCCCGGCAGCCAGCUAAUUAAGUCAAAUUGCCUG
....((((((((((.(((((.(((((((((((....)))))))((((.(..((((((((....))).)))))..)....))))..)))).)))))..))))))))))............. (-31.14 = -30.98 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	1,324,271 – 1,324,391
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	74.76
Mean single sequence MFE	-24.01
Consensus MFE	-12.91
Energy contribution	-13.99
Covariance contribution	1.08
Combinations/Pair	1.12
Mean z-score	-1.99
Structure conservation index	0.54
SVM decision value	1.06
SVM RNA-class probability	0.908142
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1324271 120 + 20766785
AAGCCAUCGCUUUUACUCCGGGCAAAAACCAAUCAACGUGAAAGUCGUCACAAAGACGACCCAUGACGGUCACCUUAAAAAUGCCCCACCAUCGCCCAUCCCCGAUCCCAGAUCCCCGAU
.....((((..........((((.............((((...((((((.....)))))).))))..(((.................)))...))))......((((...))))..)))) ( -24.33)
>DroSec_CAF1 42810 104 + 1
AAGCCAUCGCUUCUACUCCGGGCAAAAACCAAUCAACGUGAAAGUCGUCACAAAGACGACCCAUGACG-G---------------CCACCAUCGCCCAUCCCCGAUCCCCGAUCCUCGAU
.....((((..........((((.............((((...((((((.....)))))).))))..(-(---------------...))...))))......((((...))))..)))) ( -23.20)
>DroSim_CAF1 21891 98 + 1
AAGCCAUCGCUUCUACUCCGGGCAAAAACCAAUCAACGUGAAAGUCGUCACAAAGACGACCCAUGACGGG---------------CUACCAUCGCCCAUCGCCCAUCCCCGA-------U
((((....)))).......((((.............((((...((((((.....)))))).))))..(((---------------(.......))))...))))........-------. ( -29.50)
>DroEre_CAF1 24160 105 + 1
AAGCCAUCGUUUUUGCUCCAGGCAAGAACCAAUCAACGUGAAAGUCCUCACAAAGACGACCCAA-CCGGCCACGUUAGAAGUGCCCCACCACUGCCCAUUCCGGAU--------------
...((...((((((((.....))))))))...((((((((...(((.((.....)).)))((..-..)).)))))).))((((......)))).........))..-------------- ( -23.10)
>DroYak_CAF1 10246 106 + 1
AAGCCAUCGAUUUCACUCCAGGCAAAAACCAAUCAACGUAAAAGUUGUCACAAAGACGGCCCAUGACGGCCACGUUAAAAAUGCCCCACCAUUGCCAAUUCCGGAU--------------
...((...(....)......(((...........(((((.......(((.....)))((((......)))))))))...((((......)))))))......))..-------------- ( -19.90)
>consensus
AAGCCAUCGCUUUUACUCCGGGCAAAAACCAAUCAACGUGAAAGUCGUCACAAAGACGACCCAUGACGGCCAC_UUA_AA_UGCCCCACCAUCGCCCAUCCCCGAUCCC_GA_______U
...................((((.............((((...((((((.....)))))).))))..((...................))...))))....................... (-12.91 = -13.99 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:36 2006