Locus 5626

Sequence ID	3L_DroMel_CAF1
Location	15,441,216 – 15,441,322
Length	106
Max. P	0.988383

overview

Window 6

Location	15,441,216 – 15,441,322
Length	106
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	96.07
Mean single sequence MFE	-20.33
Consensus MFE	-18.56
Energy contribution	-18.62
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-1.28
Structure conservation index	0.91
SVM decision value	0.73
SVM RNA-class probability	0.834931
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15441216 106 + 23771897
UGAAAAUUUCGACGUAAAAAA-GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAACGUCAAAGCAGACGAUGACUAUAAA--AAUAU
........(((.(((......-((((.(((((((....((((((...)))))).))))))).).)))...(((....)))........))).))).......--..... ( -20.30)
>DroSec_CAF1 172512 106 + 1
UGAAAAUUUCGACGUAAAAAA-GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAACGUCAAAGCAGACGAUGACUAUAAA--AAUAU
........(((.(((......-((((.(((((((....((((((...)))))).))))))).).)))...(((....)))........))).))).......--..... ( -20.30)
>DroSim_CAF1 174255 106 + 1
UGAAAAUUUCGACGUAAAAAA-GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAACGUCAAAGCAGACGAUGACUAUAAA--AAUAU
........(((.(((......-((((.(((((((....((((((...)))))).))))))).).)))...(((....)))........))).))).......--..... ( -20.30)
>DroEre_CAF1 168980 106 + 1
UGAAAAUUUCGACGUAAAAAA-GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGGCACAGACACAACGGCAACGUCACAGCAGACGAUGACUAUAAA--AAUAU
....................(-((((((((.(((((..((((((...))))))......)))))......(((....))).......)))).))))).....--..... ( -21.30)
>DroYak_CAF1 174588 107 + 1
UGAAAAUUUCAACGUAAAAAACGUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAACGUCACAGCAGACGAUGACUAUAAA--AAUAU
.....................(((((((((((((....((((((...)))))).))))))).........(((....)))....)).))))...........--..... ( -21.20)
>DroAna_CAF1 310882 108 + 1
UGAAAAUUUCGCAGUAAAAAA-GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAGCGACAAAGCAUACGAUGACUAUAAAAAAACAU
........((((.((......-((((.(((((((....((((((...)))))).))))))).).)))......)).))))............................. ( -18.60)
>consensus
UGAAAAUUUCGACGUAAAAAA_GUCGCGUCAUGUGCAAAAUUAUUGGGUAAUUAACGUGACACAGACACAACGGCAACGUCAAAGCAGACGAUGACUAUAAA__AAUAU
........(((.(((.......((((.(((((((....((((((...)))))).))))))).).)))...(((....)))........))).))).............. (-18.56 = -18.62 +   0.06)

alignment

secondary structure

dotplot

Window 7

Location	15,441,216 – 15,441,322
Length	106
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	96.07
Mean single sequence MFE	-23.95
Consensus MFE	-21.60
Energy contribution	-21.72
Covariance contribution	0.11
Combinations/Pair	1.12
Mean z-score	-2.00
Structure conservation index	0.90
SVM decision value	2.12
SVM RNA-class probability	0.988383
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15441216 106 - 23771897
AUAUU--UUUAUAGUCAUCGUCUGCUUUGACGUUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC-UUUUUUACGUCGAAAUUUUCA
.....--..................((((((((....(((((((((((((.(.((((.........)))).).))))).))))))))-......))))))))....... ( -24.40)
>DroSec_CAF1 172512 106 - 1
AUAUU--UUUAUAGUCAUCGUCUGCUUUGACGUUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC-UUUUUUACGUCGAAAUUUUCA
.....--..................((((((((....(((((((((((((.(.((((.........)))).).))))).))))))))-......))))))))....... ( -24.40)
>DroSim_CAF1 174255 106 - 1
AUAUU--UUUAUAGUCAUCGUCUGCUUUGACGUUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC-UUUUUUACGUCGAAAUUUUCA
.....--..................((((((((....(((((((((((((.(.((((.........)))).).))))).))))))))-......))))))))....... ( -24.40)
>DroEre_CAF1 168980 106 - 1
AUAUU--UUUAUAGUCAUCGUCUGCUGUGACGUUGCCGUUGUGUCUGUGCCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC-UUUUUUACGUCGAAAUUUUCA
.....--...(((((........)))))(((((....(((((((((((((...((((.........))))...))))).))))))))-......))))).......... ( -25.50)
>DroYak_CAF1 174588 107 - 1
AUAUU--UUUAUAGUCAUCGUCUGCUGUGACGUUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGACGUUUUUUACGUUGAAAUUUUCA
....(--((((..(((((.(....).))))).....((((((((((((((.(.((((.........)))).).))))).)))))))))..........)))))...... ( -23.60)
>DroAna_CAF1 310882 108 - 1
AUGUUUUUUUAUAGUCAUCGUAUGCUUUGUCGCUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC-UUUUUUACUGCGAAAUUUUCA
......(((..((((....(((.((......))))).(((((((((((((.(.((((.........)))).).))))).))))))))-......))))..)))...... ( -21.40)
>consensus
AUAUU__UUUAUAGUCAUCGUCUGCUUUGACGUUGCCGUUGUGUCUGUGUCACGUUAAUUACCCAAUAAUUUUGCACAUGACGCGAC_UUUUUUACGUCGAAAUUUUCA
.........................((((((((....(((((((((((((...((((.........))))...))))).)))))))).......))))))))....... (-21.60 = -21.72 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:54 2006