Locus 3347

Sequence ID	3L_DroMel_CAF1
Location	9,816,955 – 9,817,171
Length	216
Max. P	0.918545

overview

Window 6

Location	9,816,955 – 9,817,057
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	97.25
Mean single sequence MFE	-21.64
Consensus MFE	-21.06
Energy contribution	-21.26
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.37
Structure conservation index	0.97
SVM decision value	1.12
SVM RNA-class probability	0.918545
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9816955 102 + 23771897
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAGAUCUAUAGAAAAGUGGGUAUAUAGAGGGAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((....((.......))..)))))))...))..).))))).. ( -19.80)
>DroSec_CAF1 111035 102 + 1
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAAAUCUAUAGAAGAGGAGGUAUAUAGAGGAAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((...(((.....)))...)))))))...))..).))))).. ( -21.30)
>DroSim_CAF1 114371 102 + 1
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAAAUCUAUAGAAGAGGAGGUAUAUAGAGGGAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((...(((.....)))...)))))))...))..).))))).. ( -22.10)
>DroEre_CAF1 113898 100 + 1
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAAAUCUAUAGAAGAG--GGUAUAUAGAGGGAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((...(((.....))).--)))))))...))..).))))).. ( -22.50)
>DroYak_CAF1 123947 100 + 1
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAAAUCUAUAGAAGAG--GGUAUAUAGAGGGAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((...(((.....))).--)))))))...))..).))))).. ( -22.50)
>consensus
AAAGUUUUGGUAUUAGAAUAAAACGAAGCGUAAUCAACCAAAUGCCUUGGGUGGGAUAUGCCAAAUCUAUAGAAGAG__GGUAUAUAGAGGGAGCAUUGCAC
...((((((.(((....)))...))))))((((((..((.....(((.....)))(((((((...(((.....)))...)))))))...))..).))))).. (-21.06 = -21.26 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	9,817,057 – 9,817,171
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.29
Mean single sequence MFE	-37.27
Consensus MFE	-24.00
Energy contribution	-25.76
Covariance contribution	1.76
Combinations/Pair	1.13
Mean z-score	-2.39
Structure conservation index	0.64
SVM decision value	0.77
SVM RNA-class probability	0.847008
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9817057 114 - 23771897
AAU-GUUU-UUACUUUUGAUACUCUGUAGAUGCGCGAUCCCCCUGAUUUGGUUCGAGAAA--CU--UGCCCAAUCAGAGGGGAUGCCCUGUAGCCUCUAGAAAAUAUCGAUUGGUGGACU
...-...(-(((((.((((((.(.(.((((.((((.((((((((((((.(((..(.....--).--.))).)))))).))))))))......)).)))).).).))))))..)))))).. ( -35.00)
>DroSec_CAF1 111137 115 - 1
GAG-GUUUUUUACUUUUUAUGCUCUUUAGAUGCGCGAUCCCCCUGAUUUGGUUCGAAAAA--CU--UGCCCAAUCAGUGGGGAUGGCCUGUAGCCUCUAGAAAAUAUCGAUUGGUGGACU
(((-(((.............((((....)).))((.((((((((((((.(((..(.....--).--.))).)))))).)))))).))....))))))....................... ( -35.20)
>DroSim_CAF1 114473 117 - 1
GAG-GUUUUCUACUUUUGAUGCUAUUUAGAUGCGCGAUCCCCCUGAUUUGGUUCCAAAAA--UCAGUGCCCAAUCAGUGGGGGUGGCCUGUAGCCUCUAGAAAAUAUCGAUUGGUGGACU
...-....((((((.((((((.(.((((((.((((.((((((((((((.(((........--.....))).)))))).)))))).)).....)).)))))).).))))))..)))))).. ( -41.12)
>DroEre_CAF1 113998 112 - 1
GAG-GUUU-UUACAUUUGCUACUCUUCAGAUG--CGAUCCCCCUGAUUGGGUAGGGAAAA--CU--UGCCUAAUCAGAGGGGAUUCCCUGUAGCCCCUAGAAAAUAUCAAUUGGUGGACU
((.-((((-((......(((((((....))..--.((((((((((((((((((((.....--))--))))))))))).)))))))....))))).....)))))).))............ ( -40.40)
>DroYak_CAF1 124047 115 - 1
GAUUGUUU-UUACUUUUGGAACUCUUCAGAUG--CGAUCCCCCUGAUUGGGUACGGAAAAACCU--GGCCUAAUCAGCGGAGAUUCCCUGUAGCCUCUAGAGAAUAUCGAUUGGUGGAUU
.......(-(((((..(.((..(((..(((.(--(((((.((((((((((((.(((......))--))))))))))).)).)))).......)).)))..)))...)).)..)))))).. ( -34.61)
>consensus
GAG_GUUU_UUACUUUUGAUACUCUUUAGAUGCGCGAUCCCCCUGAUUUGGUUCGAAAAA__CU__UGCCCAAUCAGAGGGGAUGCCCUGUAGCCUCUAGAAAAUAUCGAUUGGUGGACU
.........(((((.((((((.(.((((((.(((((((((((((((((.(((...............))).)))))).))))))....))).)).)))))).).))))))..)))))... (-24.00 = -25.76 +   1.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:38 2006