Locus 5913

Sequence ID	X_DroMel_CAF1
Location	15,240,374 – 15,240,468
Length	94
Max. P	0.929138

overview

Window 7

Location	15,240,374 – 15,240,468
Length	94
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	76.47
Mean single sequence MFE	-24.94
Consensus MFE	-15.94
Energy contribution	-16.74
Covariance contribution	0.80
Combinations/Pair	1.24
Mean z-score	-1.55
Structure conservation index	0.64
SVM decision value	0.15
SVM RNA-class probability	0.608841
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15240374 94 + 22224390
AACAGUUGG----AAUGUU-----CA-UUAC-----AUAUCUA-UCA--AGUGAGAAUACAGUGUUGCAAAGAAAGUGGGUU-UGAAGCCCCAUGCCUACGUCACUGUAUCUU
....(.(((----(((((.-----..-..))-----)).))))-.).--...((((.(((((((...........((((((.-((......)).))))))..))))))))))) ( -22.52)
>DroSec_CAF1 60714 93 + 1
CACAGUUGG----AAUGUU-----CA-UUAC-----AUAUCCA-UCA--AGUGAGAAUACAGUGCUGCA-AGGAAGUGGGUU-UGAAGCCCCCUGCCUACGUCACUGUAUCUU
(((...(((----(((((.-----..-..))-----)).))))-...--.)))(((.(((((((.((..-(((.((.((((.-....)))).)).))).)).)))))))))). ( -29.40)
>DroSim_CAF1 69532 93 + 1
CACAGUUGG----AAUGUU-----CA-UUAC-----AUAUCCA-UCA--AGUGGGAAUACAGUGUUGAA-AGGAAGUGGGCU-UGAAGCCCCCUGCCUACGUCACUGUAUCUU
(((...(((----(((((.-----..-..))-----)).))))-...--.)))(((.(((((((.((..-(((.((.((((.-....)))).)).))).)).)))))))))). ( -31.30)
>DroEre_CAF1 61663 104 + 1
AACAGUUGG----AAUGGUCAAAGCAUUUACUUAACAUAUCUA-UCA--AGUGAGAAUACAGUCAUUUA-UGAAAGAGGGUU-UGAAGCCCCCUGUCUACGUCACUGUAUCUU
....(.(((----((((....(((......)))..))).))))-.).--...((((.((((((.((.((-.((.((.((((.-....)))).)).)))).)).)))))))))) ( -19.70)
>DroYak_CAF1 61344 110 + 1
AACAGUUGGCAACAGUUGUCAA-UCA-CUACAUAACAAACUUGAUGGAUGGUAAGAAUACAGUAAUUUA-UGAAAGAGGGUUUUCAAACCCACUGACUACGUCACUGUAGCUU
.(((((((....))((.((((.-...-............(((.((((((.(((....)))....)))))-)..))).(((((....)))))..)))).))...)))))..... ( -21.80)
>consensus
AACAGUUGG____AAUGUU_____CA_UUAC_____AUAUCUA_UCA__AGUGAGAAUACAGUGAUGCA_AGAAAGUGGGUU_UGAAGCCCCCUGCCUACGUCACUGUAUCUU
....................................................((((.(((((((......(((.((.(((((....))))).)).)))....))))))))))) (-15.94 = -16.74 +   0.80)

alignment

secondary structure

dotplot

Window 8

Location	15,240,374 – 15,240,468
Length	94
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	76.47
Mean single sequence MFE	-26.00
Consensus MFE	-14.34
Energy contribution	-15.14
Covariance contribution	0.80
Combinations/Pair	1.18
Mean z-score	-2.10
Structure conservation index	0.55
SVM decision value	1.20
SVM RNA-class probability	0.929138
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15240374 94 - 22224390
AAGAUACAGUGACGUAGGCAUGGGGCUUCA-AACCCACUUUCUUUGCAACACUGUAUUCUCACU--UGA-UAGAUAU-----GUAA-UG-----AACAUU----CCAACUGUU
..(((((((((..(((((..((((......-..)))).....)))))..)))))))))......--.((-(((..((-----((..-..-----.)))).----....))))) ( -20.80)
>DroSec_CAF1 60714 93 - 1
AAGAUACAGUGACGUAGGCAGGGGGCUUCA-AACCCACUUCCU-UGCAGCACUGUAUUCUCACU--UGA-UGGAUAU-----GUAA-UG-----AACAUU----CCAACUGUG
..(((((((((..(((((.((((((.....-..))).))).))-)))..)))))))))..(((.--.(.-((((.((-----((..-..-----.)))))----))).).))) ( -30.20)
>DroSim_CAF1 69532 93 - 1
AAGAUACAGUGACGUAGGCAGGGGGCUUCA-AGCCCACUUCCU-UUCAACACUGUAUUCCCACU--UGA-UGGAUAU-----GUAA-UG-----AACAUU----CCAACUGUG
..(((((((((..(.(((.(((((((....-.)))).))))))-..)..)))))))))..(((.--.(.-((((.((-----((..-..-----.)))))----))).).))) ( -31.50)
>DroEre_CAF1 61663 104 - 1
AAGAUACAGUGACGUAGACAGGGGGCUUCA-AACCCUCUUUCA-UAAAUGACUGUAUUCUCACU--UGA-UAGAUAUGUUAAGUAAAUGCUUUGACCAUU----CCAACUGUU
..((((((((.(..((((.((((((.....-..)))))).)).-))..).))))))))...(((--(((-((....))))))))................----......... ( -25.00)
>DroYak_CAF1 61344 110 - 1
AAGCUACAGUGACGUAGUCAGUGGGUUUGAAAACCCUCUUUCA-UAAAUUACUGUAUUCUUACCAUCCAUCAAGUUUGUUAUGUAG-UGA-UUGACAACUGUUGCCAACUGUU
..((.(((((....(((((((.(((((....))))).)...((-(((...(((...................)))...)))))...-)))-)))...))))).))........ ( -22.51)
>consensus
AAGAUACAGUGACGUAGGCAGGGGGCUUCA_AACCCACUUUCU_UACAACACUGUAUUCUCACU__UGA_UAGAUAU_____GUAA_UG_____AACAUU____CCAACUGUU
..(((((((((....(((.((.(((........))).)).)))......)))))))))....................................................... (-14.34 = -15.14 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:28 2006