Locus 4277

Sequence ID	2L_DroMel_CAF1
Location	12,224,592 – 12,224,718
Length	126
Max. P	0.816015

overview

Window 5

Location	12,224,592 – 12,224,687
Length	95
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	82.56
Mean single sequence MFE	-24.38
Consensus MFE	-15.85
Energy contribution	-17.27
Covariance contribution	1.42
Combinations/Pair	1.12
Mean z-score	-2.14
Structure conservation index	0.65
SVM decision value	0.29
SVM RNA-class probability	0.671017
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12224592 95 + 22407834
CCUUAGG------------CUAAAAAUGGUUGAAUGGUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUU
.((((((------------(...(((((.(.....).))))))).......((((((((((((((((..........)))))))))))))))).)))))........ ( -26.30)
>DroPse_CAF1 76578 107 + 1
CCUGGGGGGCCUCUGGGCGGCAAAAUUUGUUGAGAAUUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUAGCAUUUAAUUAAAUGCCUGACAUGUGUGACUGGUUU
((..(((...)))..))(((((.....))))).((((((.(..((((....((((((((((((((((..........))))))))))))))))))))..).)))))) ( -36.50)
>DroSec_CAF1 48203 95 + 1
CCUUAGG------------CUAAAAAUGGUUGAAUGGUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUU
.((((((------------(...(((((.(.....).))))))).......((((((((((((((((..........)))))))))))))))).)))))........ ( -26.30)
>DroSim_CAF1 46973 95 + 1
CCUUAGG------------CUAAAAAUGGUUGAAUGGUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGUCUGACAUCUGGGACUGAUUU
.((((((------------(...(((((.(.....).))))))).......((((((((((((((((..........)))))))))))))))).)))))........ ( -23.60)
>DroEre_CAF1 46155 92 + 1
CCUAAGG------------CUACAAAUUGUUCAACGAUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUCGCAUUUAAUUAAAACUCUGUCAUCUGGGGCUGA---
.....((------------(..(..((((.....))))..........((.((.((((..(((((((..........)))))))..)))).)).)))..)))..--- ( -12.70)
>DroYak_CAF1 47098 94 + 1
CCCAAGG------------CUAAAAAUUGUUAAACAAUAUUUGCAUAUAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAA-AUGCUGUCAUCUGGGGCUGAAUU
(((...(------------(.(((.((((.....)))).)))))...(((.((.(((.(((((((((..........))))))-)))))).)).))))))....... ( -20.90)
>consensus
CCUUAGG____________CUAAAAAUGGUUGAAUGGUAUUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUU
(((.........................((.((......)).))....((.((((((((((((((((..........)))))))))))))))).)))))........ (-15.85 = -17.27 +   1.42)

alignment

secondary structure

dotplot

Window 6

Location	12,224,619 – 12,224,718
Length	99
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	81.57
Mean single sequence MFE	-26.29
Consensus MFE	-15.80
Energy contribution	-17.13
Covariance contribution	1.33
Combinations/Pair	1.06
Mean z-score	-2.52
Structure conservation index	0.60
SVM decision value	0.66
SVM RNA-class probability	0.816015
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12224619 99 + 22407834
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUUUAAAUUCUAA-GGUGGAGAUGA-------GUGCGUGAUG
.(..(....((.((((((((((((((((..........)))))))))))))))).)).(.(((.(((((.........-....))))).)-------)).))..).. ( -29.92)
>DroPse_CAF1 76617 107 + 1
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUAGCAUUUAAUUAAAUGCCUGACAUGUGUGACUGGUUUUUGGAUCCAAUGCCAGAGAUGAGAGACGAGUGCGUGAUG
...((((.....((((((((((((((((..........))))))))))))))))..(((..((.((((((((........)))))))).))..))).))))...... ( -37.40)
>DroSec_CAF1 48230 99 + 1
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUUUAAAUUCUAA-GGUGGAGAUGA-------GUGCGUGAUU
.(..(....((.((((((((((((((((..........)))))))))))))))).)).(.(((.(((((.........-....))))).)-------)).))..).. ( -29.92)
>DroSim_CAF1 47000 99 + 1
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGUCUGACAUCUGGGACUGAUUUUAAAUUCUAA-GGUGGAGAUGA-------GUGCGUGAUG
.(..(....((.((((((((((((((((..........)))))))))))))))).)).(.(((.(((((.........-....))))).)-------)).))..).. ( -27.22)
>DroEre_CAF1 46182 85 + 1
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUCGCAUUUAAUUAAAACUCUGUCAUCUGGGGCUGA--------UGGAA-GGUGGAGAUGA-------------GAUG
(((.(((....(..((((...(((((((..........))))))).(((........))).))))--------..)..-.))).)))...-------------.... ( -13.40)
>DroYak_CAF1 47125 92 + 1
UUUGCAUAUAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAA-AUGCUGUCAUCUGGGGCUGAAUUUAAACUAUAA-GGUGGAGAUGA-------------AAUG
((..(.(((((((.((((((((((((((..........))))))-)))))(((......)))))).....))))))).-.)..)).....-------------.... ( -19.90)
>consensus
UUUGCAUAAAGUUGUCAGGCAUUUGAUUUAUUGCUUUUAAUUAAAUGCCUGACAUCUGGGACUGAUUUUAAAUUCUAA_GGUGGAGAUGA_______GUGCGUGAUG
.........((.((((((((((((((((..........)))))))))))))))).)).................................................. (-15.80 = -17.13 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:00 2006