Locus 7132

Sequence ID	X_DroMel_CAF1
Location	17,905,144 – 17,905,241
Length	97
Max. P	0.611110

overview

Window 0

Location	17,905,144 – 17,905,241
Length	97
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	70.90
Mean single sequence MFE	-27.17
Consensus MFE	-14.44
Energy contribution	-15.50
Covariance contribution	1.06
Combinations/Pair	1.22
Mean z-score	-1.46
Structure conservation index	0.53
SVM decision value	0.12
SVM RNA-class probability	0.591568
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17905144 97 + 22224390
UCAAGGAUGCCGAGAAGGUCUCCUUUGAGGAGCAGUGGAGCAAGGCCAUUGCCCAGCAUCCGAAUAUGACGUAAGAAUG-UUUGC--------UGUAGU---UACCAAA
(((((((.(((.....))).))).))))((.(((((((.......))))))))).(((..(((((((..(....).)))-)))).--------)))...---....... ( -29.70)
>DroVir_CAF1 6168 89 + 1
UAAAAGAUGCCGAGAAAUUGUCCUUCGAGGACUUUUGGGGCAGGGCCAUGGCCGUUCAUCCGAAUAUGGAGUGAGUAUCAGAAAAAA--------------------AA
.......((((..((((..((((.....))))))))..)))).(((....))).(((((((......))).))))............--------------------.. ( -22.30)
>DroSec_CAF1 5442 97 + 1
UCAAGGAUGCCGAGAAGGUGUCCUUCGAGGAGCAGUGGAGCAAGGCCAUUGCCCAACAUCCGAAUAUGACGUAAGAAUG-GUGGC--------UGUAGU---UACCAAA
(((((((((((.....))))))))).))((.(((((((.......)))))))))...............(....)..((-(((((--------....))---))))).. ( -34.70)
>DroEre_CAF1 5447 93 + 1
UCAAGGAUGCCGAGAAGAUGUCCUUCGAGGAGCAGUGGAGCAAGGCGAUUGCCCAACAUCCAAAUAUGAUGUGAGAAUG-UUGGC--------UUUAAU---UA----U
((((((((..(.....)..)))))).))(((((..(((.((((.....)))))))(((((.......))))).......-...))--------)))...---..----. ( -22.80)
>DroWil_CAF1 5543 105 + 1
UAAAGGAUCCAGAGAAAAUCUCAUUCGAAGAGCAAUGGAGUCGUGCCAUGGCUUUGCAUCCCAAUAUGGAGUAAGU-UG-GCGGU--UUUUUCUUUUUUGAUUUCAAAA
..........((((((((((((((((.....).)))))......((((..((((.((.(((......)))))))))-))-)))))--))))))).(((((....))))) ( -22.30)
>DroYak_CAF1 5452 93 + 1
UCAAAGAUGCCGAGAAGGUGUCCUUCGAGGAGCAGUGGAGUAAGGCCAUUGCCCUACAUCCGAAUAUGAGGUAAGAAUG-GUGGC--------CUUACU---UA----U
.((..(...((..(((((...)))))..))..)..))((((((((((((((..((....((........))..))..))-)))))--------))))))---).----. ( -31.20)
>consensus
UCAAGGAUGCCGAGAAGGUGUCCUUCGAGGAGCAGUGGAGCAAGGCCAUUGCCCAACAUCCGAAUAUGAAGUAAGAAUG_GUGGC________UUUAGU___UA___AA
....(((((((..((((.....))))..)).(((((((.......)))))))....)))))................................................ (-14.44 = -15.50 +   1.06)

alignment

secondary structure

dotplot

Window 1

Location	17,905,144 – 17,905,241
Length	97
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	70.90
Mean single sequence MFE	-21.89
Consensus MFE	-12.86
Energy contribution	-13.70
Covariance contribution	0.84
Combinations/Pair	1.27
Mean z-score	-1.29
Structure conservation index	0.59
SVM decision value	0.16
SVM RNA-class probability	0.611110
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17905144 97 - 22224390
UUUGGUA---ACUACA--------GCAAA-CAUUCUUACGUCAUAUUCGGAUGCUGGGCAAUGGCCUUGCUCCACUGCUCCUCAAAGGAGACCUUCUCGGCAUCCUUGA
.......---......--------.....-..................((((((((((((.(((.......))).))((((.....)))).....)))))))))).... ( -23.00)
>DroVir_CAF1 6168 89 - 1
UU--------------------UUUUUUCUGAUACUCACUCCAUAUUCGGAUGAACGGCCAUGGCCCUGCCCCAAAAGUCCUCGAAGGACAAUUUCUCGGCAUCUUUUA
..--------------------.............(((.(((......))))))..(((....))).((((......((((.....))))........))))....... ( -18.24)
>DroSec_CAF1 5442 97 - 1
UUUGGUA---ACUACA--------GCCAC-CAUUCUUACGUCAUAUUCGGAUGUUGGGCAAUGGCCUUGCUCCACUGCUCCUCGAAGGACACCUUCUCGGCAUCCUUGA
..((((.---......--------)))).-..................((((((((((((.(((.......))).))))....(((((...))))).)))))))).... ( -24.70)
>DroEre_CAF1 5447 93 - 1
A----UA---AUUAAA--------GCCAA-CAUUCUCACAUCAUAUUUGGAUGUUGGGCAAUCGCCUUGCUCCACUGCUCCUCGAAGGACAUCUUCUCGGCAUCCUUGA
.----..---......--------.((((-(((((.............)))))))))......(((..((......)).....((((.....))))..)))........ ( -20.52)
>DroWil_CAF1 5543 105 - 1
UUUUGAAAUCAAAAAAGAAAAA--ACCGC-CA-ACUUACUCCAUAUUGGGAUGCAAAGCCAUGGCACGACUCCAUUGCUCUUCGAAUGAGAUUUUCUCUGGAUCCUUUA
(((((....)))))........--.....-..-..............(((((.((.(((.((((.......)))).)))........(((.....))))).)))))... ( -16.80)
>DroYak_CAF1 5452 93 - 1
A----UA---AGUAAG--------GCCAC-CAUUCUUACCUCAUAUUCGGAUGUAGGGCAAUGGCCUUACUCCACUGCUCCUCGAAGGACACCUUCUCGGCAUCUUUGA
.----..---((((((--------((((.-...((((((.((.......)).))))))...))))))))))....((((....(((((...)))))..))))....... ( -28.10)
>consensus
UU___UA___ACUAAA________GCCAC_CAUUCUUACGUCAUAUUCGGAUGUAGGGCAAUGGCCUUGCUCCACUGCUCCUCGAAGGACACCUUCUCGGCAUCCUUGA
................................................(((((((((((....))).................((((.....)))).)))))))).... (-12.86 = -13.70 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:58 2006