Locus 6505

Sequence ID	X_DroMel_CAF1
Location	16,309,156 – 16,309,258
Length	102
Max. P	0.999135

overview

Window 5

Location	16,309,156 – 16,309,258
Length	102
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	70.55
Mean single sequence MFE	-24.61
Consensus MFE	-14.63
Energy contribution	-14.99
Covariance contribution	0.36
Combinations/Pair	1.16
Mean z-score	-2.29
Structure conservation index	0.59
SVM decision value	2.58
SVM RNA-class probability	0.995463
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16309156 102 + 22224390
UCAGGACUUGCACUUGAAUGAAUUCUGAUUUGAUUUUAUGUACAGUACAGCUAGGGCUUGUCUCUGA-------UUUUUUUUUAU-GUUUUUUUGGACAAGCCCUUUGCU
(((((.......)))))(((((.((......)).))))).........(((.(((((((((((..((-------...........-....))..)))))))))))..))) ( -26.36)
>DroPse_CAF1 13418 94 + 1
--------------UGAAUGAAUUC-GAUUCGAUAUUAUAUACAAU-CUGCAAGAGUUUGUCUUCGGAGGUCGGUCUCCCUUGGUAGAUCGGUUCGACAAACUCUUGUUU
--------------.((((......-.))))...............-..(((((((((((((...(((..(((((((((...)).))))))))))))))))))))))).. ( -26.80)
>DroSec_CAF1 10861 90 + 1
UCAGGACUUGCACUUGAAUGAAUUCUGAUCUGAUUUUAUGUACAGU-CAGCUAGGGGUUGUCUUUGA-------UUUU------------UUUUGGACAAGCCCUUCGCU
....((((((((......((((.((......)).)))))))).)))-)(((.((((.((((((..((-------....------------))..)))))).))))..))) ( -24.60)
>DroEre_CAF1 11343 89 + 1
UCAGGACUUGCAUUUGAAUGAAUUCUGAUCUGAUUUUAUGUACAUU-CUGCUAGGGCUUGUCUCUGC-------UUU-------------CUUUGGACAAACCCUUCGCU
..((((..(((((..((((.(.........).)))).)))))..))-))((.((((.((((((....-------...-------------....)))))).))))..)). ( -17.80)
>DroYak_CAF1 10686 89 + 1
UCAGGACUUGCAUUGGAAUGAAUUCUGAUCUGAUAUUAUGUACAGU-CUGCUAGGGCUUGUCUCUGC-------UUU-------------UUAUGGACAAGCCCUUCGCU
...((((((((((..(((....)))..)..........)))).)))-))((.(((((((((((.((.-------...-------------.)).)))))))))))..)). ( -27.50)
>consensus
UCAGGACUUGCACUUGAAUGAAUUCUGAUCUGAUUUUAUGUACAGU_CUGCUAGGGCUUGUCUCUGA_______UUU_____________UUUUGGACAAGCCCUUCGCU
.................(((((.((......)).)))))..........((.((((((((((.................................))))))))))..)). (-14.63 = -14.99 +   0.36)

alignment

secondary structure

dotplot

Window 6

Location	16,309,156 – 16,309,258
Length	102
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	70.55
Mean single sequence MFE	-21.40
Consensus MFE	-13.89
Energy contribution	-13.89
Covariance contribution	-0.00
Combinations/Pair	1.25
Mean z-score	-2.64
Structure conservation index	0.65
SVM decision value	3.39
SVM RNA-class probability	0.999135
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16309156 102 - 22224390
AGCAAAGGGCUUGUCCAAAAAAAC-AUAAAAAAAAA-------UCAGAGACAAGCCCUAGCUGUACUGUACAUAAAAUCAAAUCAGAAUUCAUUCAAGUGCAAGUCCUGA
(((..(((((((((((........-...........-------...).)))))))))).)))(((((..........((......)).........)))))......... ( -21.96)
>DroPse_CAF1 13418 94 - 1
AAACAAGAGUUUGUCGAACCGAUCUACCAAGGGAGACCGACCUCCGAAGACAAACUCUUGCAG-AUUGUAUAUAAUAUCGAAUC-GAAUUCAUUCA--------------
...((((((((((((((.....)).......((((......))))...))))))))))))...-...............((((.-(....))))).-------------- ( -23.90)
>DroSec_CAF1 10861 90 - 1
AGCGAAGGGCUUGUCCAAAA------------AAAA-------UCAAAGACAACCCCUAGCUG-ACUGUACAUAAAAUCAGAUCAGAAUUCAUUCAAGUGCAAGUCCUGA
(((..((((.(((((.....------------....-------.....))))).)))).)))(-(((((((..........................)))).)))).... ( -18.71)
>DroEre_CAF1 11343 89 - 1
AGCGAAGGGUUUGUCCAAAG-------------AAA-------GCAGAGACAAGCCCUAGCAG-AAUGUACAUAAAAUCAGAUCAGAAUUCAUUCAAAUGCAAGUCCUGA
.((..(((((((((((....-------------...-------...).)))))))))).)).(-((((......................)))))............... ( -19.95)
>DroYak_CAF1 10686 89 - 1
AGCGAAGGGCUUGUCCAUAA-------------AAA-------GCAGAGACAAGCCCUAGCAG-ACUGUACAUAAUAUCAGAUCAGAAUUCAUUCCAAUGCAAGUCCUGA
.((..(((((((((((....-------------...-------...).)))))))))).))..-.(((..........))).((((.((((((....)))..))).)))) ( -22.50)
>consensus
AGCGAAGGGCUUGUCCAAAA_____________AAA_______GCAGAGACAAGCCCUAGCAG_ACUGUACAUAAAAUCAGAUCAGAAUUCAUUCAAAUGCAAGUCCUGA
.((..((((((((((.................................)))))))))).))................................................. (-13.89 = -13.89 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:32 2006