Locus 5782

Sequence ID	2L_DroMel_CAF1
Location	16,397,271 – 16,397,368
Length	97
Max. P	0.991546

overview

Window 4

Location	16,397,271 – 16,397,368
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.40
Mean single sequence MFE	-34.33
Consensus MFE	-12.90
Energy contribution	-14.18
Covariance contribution	1.28
Combinations/Pair	1.19
Mean z-score	-2.53
Structure conservation index	0.38
SVM decision value	1.15
SVM RNA-class probability	0.922626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16397271 97 + 22407834
UAUCCCCUUGGGG--------GCUAUAUGGCAUUCUGUGUUUGGUUUCUCACUGUCUAAUUGACUUGUGAGUGGAGCUUGGAAUUUUAUU------UAGUUUGGGGGGGCC---------
..((((((..(..--------((((.((((.((((((.((((.(...(((((.(((.....)))..)))))).)))).)))))).)))).------)))))..))))))..--------- ( -33.00)
>DroSec_CAF1 21734 101 + 1
UACCCCCUUGGGG--------GCUAUAUGGCAUUCUGUGUUUGGUUUCUCACUGUCUAAUUGACUUGUGAGUGGAGUUUGGAAUUUGAAAUGCCCCUAGGUUGG--GGGCC---------
..(((((((((((--------((........((((((..(((.(...(((((.(((.....)))..)))))).)))..)))))).......)))))))))..))--))...--------- ( -36.86)
>DroSim_CAF1 20489 101 + 1
UACCCCCUUGGGG--------GCUUUAUGGCAUUCUGUGUUUGGUUUCUCACUGUCUAAUUGACUUGUGAGUAGAGUUUGGAAUUUUAUUUGCCCCUAGGUUGG--GGCCC---------
..(((((((((((--------((...((((.((((((..(((.....(((((.(((.....)))..)))))..)))..)))))).))))..)))))))))..))--))...--------- ( -39.40)
>DroEre_CAF1 18100 98 + 1
UAACCCCUGGGG---------GCUGUGUGGCAUUCAGUGUUUGGCUUCUCACUGUCUAAUUGACUUGUGAGUGGAGUUGGGAAUGUGAUUUGCCUC-AGUUUGG--GA-AA---------
....(((..(((---------((...((.((((((.....(..(((((((((.(((.....)))..)))))..))))..))))))).))..)))))-.....))--).-..--------- ( -35.20)
>DroYak_CAF1 22365 107 + 1
UACCCCCUUGGGGGCUAUUUGGCUAUGUGGCAUUCAGUGUUUGGUUUCUCACUGUCUAAUUGACUUGGGAGUGCAGUUCGGAAUUUGAUUUGCCUC-AGAUUGG--GA-AA---------
..((((....))))...((..(...((.((((.((((..(((((.((((((..(((.....))).))))))......)))))..))))..)))).)-)..)..)--).-..--------- ( -28.50)
>DroAna_CAF1 17141 111 + 1
GGCCCCCCAGGGG--------GCAAUAUGCCAUUCAGUGUUUGGUUUCUCACUGUCUAAUUGACUUCUGAAUGGGAAAUGGACAUGCAUUUGGUCCAAGGAUGAGGGA-GGCUUUAAAUU
(((((((((..((--------((...((((......((((.(.((((((((..(((.....))).......)))))))).)))))))))...)))).....)).))).-))))....... ( -33.00)
>consensus
UACCCCCUUGGGG________GCUAUAUGGCAUUCAGUGUUUGGUUUCUCACUGUCUAAUUGACUUGUGAGUGGAGUUUGGAAUUUGAUUUGCCCCUAGGUUGG__GA_CC_________
..((((...))))...............((((......((((.(...(((((.(((.....)))..))))).......).))))......)))).......................... (-12.90 = -14.18 +   1.28)

alignment

secondary structure

dotplot

Window 5

Location	16,397,271 – 16,397,368
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.40
Mean single sequence MFE	-25.72
Consensus MFE	-10.61
Energy contribution	-11.58
Covariance contribution	0.97
Combinations/Pair	1.12
Mean z-score	-2.98
Structure conservation index	0.41
SVM decision value	2.27
SVM RNA-class probability	0.991546
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16397271 97 - 22407834
---------GGCCCCCCCAAACUA------AAUAAAAUUCCAAGCUCCACUCACAAGUCAAUUAGACAGUGAGAAACCAAACACAGAAUGCCAUAUAGC--------CCCCAAGGGGAUA
---------.....((((......------...................(((((..(((.....))).)))))................((......))--------......))))... ( -16.90)
>DroSec_CAF1 21734 101 - 1
---------GGCCC--CCAACCUAGGGGCAUUUCAAAUUCCAAACUCCACUCACAAGUCAAUUAGACAGUGAGAAACCAAACACAGAAUGCCAUAUAGC--------CCCCAAGGGGGUA
---------(((((--((......)))).....................(((((..(((.....))).)))))................))).....((--------(((....))))). ( -30.00)
>DroSim_CAF1 20489 101 - 1
---------GGGCC--CCAACCUAGGGGCAAAUAAAAUUCCAAACUCUACUCACAAGUCAAUUAGACAGUGAGAAACCAAACACAGAAUGCCAUAAAGC--------CCCCAAGGGGGUA
---------(((((--((......)))))....................(((((..(((.....))).)))))...))...................((--------(((....))))). ( -32.00)
>DroEre_CAF1 18100 98 - 1
---------UU-UC--CCAAACU-GAGGCAAAUCACAUUCCCAACUCCACUCACAAGUCAAUUAGACAGUGAGAAGCCAAACACUGAAUGCCACACAGC---------CCCCAGGGGUUA
---------..-..--.......-..((((...................(((((..(((.....))).)))))....((.....))..))))....(((---------((....))))). ( -21.10)
>DroYak_CAF1 22365 107 - 1
---------UU-UC--CCAAUCU-GAGGCAAAUCAAAUUCCGAACUGCACUCCCAAGUCAAUUAGACAGUGAGAAACCAAACACUGAAUGCCACAUAGCCAAAUAGCCCCCAAGGGGGUA
---------..-..--.......-..((((...........((..((......))..)).......(((((..........)))))..)))).............(((((....))))). ( -22.00)
>DroAna_CAF1 17141 111 - 1
AAUUUAAAGCC-UCCCUCAUCCUUGGACCAAAUGCAUGUCCAUUUCCCAUUCAGAAGUCAAUUAGACAGUGAGAAACCAAACACUGAAUGGCAUAUUGC--------CCCCUGGGGGGCC
........(((-((((.......(((((.........)))))....((((((((..(((.....))).((.....))......))))))))........--------.....))))))). ( -32.30)
>consensus
_________GG_CC__CCAACCUAGGGGCAAAUCAAAUUCCAAACUCCACUCACAAGUCAAUUAGACAGUGAGAAACCAAACACAGAAUGCCAUAUAGC________CCCCAAGGGGGUA
..........................((((...................(((((..(((.....))).)))))....(.......)..))))...............(((....)))... (-10.61 = -11.58 +   0.97)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:42 2006