Locus 3831

Sequence ID	2L_DroMel_CAF1
Location	11,184,194 – 11,184,327
Length	133
Max. P	0.657716

overview

Window 7

Location	11,184,194 – 11,184,295
Length	101
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	81.66
Mean single sequence MFE	-26.75
Consensus MFE	-17.34
Energy contribution	-18.43
Covariance contribution	1.09
Combinations/Pair	1.22
Mean z-score	-1.82
Structure conservation index	0.65
SVM decision value	0.26
SVM RNA-class probability	0.655774
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11184194 101 + 22407834
AAAGCAUA----UGUGAACGGGUUUAGAAGCAUAACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUAGGGCAAAGUUGGAUGUGCACUGCGAAAAAAUA------
...(((((----(......(((....((((((.....)))).))....))).((((.((((.((......)).))))...)))).))))))..............------ ( -27.20)
>DroSec_CAF1 20695 101 + 1
AAAGCAUA----UGUGAACGGGUUUAGAAGCAUAACUUGCUCUCAUUUCCCACAAUGGCCCCAUUGUGGUGUGGGACAAAGUCGGAUGUGCACUGAGAAAAAAUA------
...(((((----(.(((....((.....((((.....))))(((((...((((((((....)))))))).)))))))....))).))))))..............------ ( -31.60)
>DroSim_CAF1 20469 101 + 1
AAAGCAUA----UGUGAACGGGUUUAGAAGCAUAACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUGGGACACAGUCGGAUGUGCACUGAGAAAAAUUA------
...(((((----(.(((...(........(((.....)))((((((...(((((((......))))))).))))))..)..))).))))))..............------ ( -28.50)
>DroEre_CAF1 21318 101 + 1
AAAGCAUA----UGUGAACGAGUUUAGAGGCAUAACUUGCUCCCAUUUCCCACAAUGGCCCAAUUGUGGAGUGGGGCAAAGUCGGAUGUGCACUGCGAUAAAAAA------
...(((((----(.(((....(((....))).....((((.((((((..(((((((......)))))))))))))))))..))).))))))..............------ ( -32.30)
>DroYak_CAF1 22048 105 + 1
AAAGCAUAUGUAUGUGAACGAGCUUAGAAGCAUAACUUGCUCCCAUUUCCCACAAUGGCCCAAUUGUGGUGUAGGACCAAGUCGGAUGUGCACUGAGAAAAUAUA------
...((((....)))).......(((((..((((((((((.(((.((...(((((((......))))))).)).))).)))))....))))).)))))........------ ( -27.10)
>DroAna_CAF1 18506 107 + 1
ACAUCAUA----UGCCGACAAUAUUAGACAUAUAACUUGCUCUCAUUUCCCACAAUUGCCAAAAUCUGUAUCGAGAUGGAGUCACAAGUACACUGAAAAAAAUGAACAAAA
...(((((----((.(..........).))))).((((((((.((((((..((((((.....))).)))...)))))))))...))))).....))............... ( -13.80)
>consensus
AAAGCAUA____UGUGAACGAGUUUAGAAGCAUAACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUGGGACAAAGUCGGAUGUGCACUGAGAAAAAAUA______
......................(((((..(((((((((..((((((...(((((((......))))))).))))))..))))....))))).))))).............. (-17.34 = -18.43 +   1.09)

alignment

secondary structure

dotplot

Window 8

Location	11,184,223 – 11,184,327
Length	104
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	69.30
Mean single sequence MFE	-21.49
Consensus MFE	-12.91
Energy contribution	-13.55
Covariance contribution	0.64
Combinations/Pair	1.24
Mean z-score	-1.24
Structure conservation index	0.60
SVM decision value	0.26
SVM RNA-class probability	0.657716
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11184223 104 + 22407834
AACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUAGGGCAAAGUUGGAUGUGCACUGCGAAAAAAUA-------UUUUACAUAA-------AGUUUCCUAGUCAUGAUAACAA
...(((((((((....(((((((......))))))))).))))))).((((...(((.((((.((((...((-------(.....))).-------..)))).)))))))..)))).. ( -25.30)
>DroSec_CAF1 20724 102 + 1
AACUUGCUCUCAUUUCCCACAAUGGCCCCAUUGUGGUGUGGGACAAAGUCGGAUGUGCACUGAGAAAAAAUA-------UUUGAAAGGA----U--AAUAUCAU---AAUGAUAACAA
...(((.((((((...((((((((....)))))))).)))))))))..((((((((.............)))-------))))).....----.--..((((..---...)))).... ( -25.52)
>DroSim_CAF1 20498 88 + 1
AACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUGGGACACAGUCGGAUGUGCACUGAGAAAAAUUA-------UUUGC-----------------------CAUGAUAACAA
.......(((((..(((((((.(.((......)).))))))))((((......))))...)))))....(((-------((...-----------------------...)))))... ( -19.80)
>DroEre_CAF1 21347 84 + 1
AACUUGCUCCCAUUUCCCACAAUGGCCCAAUUGUGGAGUGGGGCAAAGUCGGAUGUGCACUGCGAUAAAAAA-------CU---------------------------AUCAUAAAAA
...((((.((((((..(((((((......))))))))))))))))).((((.(.(....)).))))......-------..---------------------------.......... ( -23.70)
>DroYak_CAF1 22081 104 + 1
AACUUGCUCCCAUUUCCCACAAUGGCCCAAUUGUGGUGUAGGACCAAGUCGGAUGUGCACUGAGAAAAUAUA-------UUUACCACGA-------AGUUUUUUGAUCUUCAUAGAAA
..((((.(((.((...(((((((......))))))).)).))).))))((((.......)))).........-------........((-------((.........))))....... ( -20.20)
>DroAna_CAF1 18535 117 + 1
AACUUGCUCUCAUUUCCCACAAUUGCCAAAAUCUGUAUCGAGAUGGAGUCACAAGUACACUGAAAAAAAUGAACAAAACUCUAAUAUGAAGACUAAACUUUACU-GCCAGAAUUAUAA
.((((((((.((((((..((((((.....))).)))...)))))))))...)))))...(((........((.......)).....(((((......)))))..-..)))........ ( -14.40)
>consensus
AACUUGCUCUCAUUUCCCACAAUGGCCCAAUUGUGGUGUGGGACAAAGUCGGAUGUGCACUGAGAAAAAAUA_______UUUAA_A_GA_______A_UUU__U___CAUGAUAACAA
.((((..((((((...(((((((......))))))).))))))..))))..................................................................... (-12.91 = -13.55 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:30 2006