Locus 7367

Sequence ID	2L_DroMel_CAF1
Location	20,519,891 – 20,520,037
Length	146
Max. P	0.987381

overview

Window 0

Location	20,519,891 – 20,520,006
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.30
Mean single sequence MFE	-24.64
Consensus MFE	-13.38
Energy contribution	-14.18
Covariance contribution	0.81
Combinations/Pair	1.13
Mean z-score	-1.99
Structure conservation index	0.54
SVM decision value	0.10
SVM RNA-class probability	0.582908
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20519891 115 + 22407834
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUU--UUUCCUUGCACUCUUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUU--UUUCAAAACUGCUCAUCAAAC
.....((((((.........))))))...(((((((....((((((((--(...(((((((....)).)))))....)-))))))))((((((....--..))))))....))))))).. ( -26.20)
>DroSec_CAF1 41222 118 + 1
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUUUUUUUCCCUGCACUCUUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUU-UUUUCAAAACGUCUUAUCAAAC
.....((((((.........))))))...(((((((((..(((((((((.....(((((((....)).)))))....)-))))))))((((((....-...)))))).))).)))))).. ( -27.30)
>DroSim_CAF1 42088 117 + 1
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUU--UUUCCCUGCACUCAUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUUUUUUUCAAAACGUCUUAUCAAAC
.....((((((.........))))))...(((((((((..((((((((--(...(((((((....)).)))))....)-))))))))((((((........)))))).))).)))))).. ( -27.80)
>DroEre_CAF1 34775 109 + 1
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUU--UUUCCCUGCACUCUUGUCGCGGGCACUGCAAAAUAUAUGU------A--U-UUCAAACGGAUAAGCAGUC
.....((((((.........))))))(((((...((((..((((((((--....(((((((....)).)))))......))))))))...------)--)-))..))))).......... ( -22.60)
>DroYak_CAF1 36433 116 + 1
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUU--UUUCCCUGCACUCUUGUUGCGGGCACUGGAAAAUAUAUUUUGAUUUA--UUUUGGAGCUGAUGAGCAAUC
.....((((((.........))))))(((..((((((((.((((((((--((..(((((((....).))))))....))))))))))....))))))--)).))).(((....))).... ( -27.60)
>DroAna_CAF1 32932 97 + 1
UCUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUGAUGGUUU--UUUCCUUCCAAACUAGUA--GGACACUA-AGAAAAGGGUU---------U-UAGAAAAAAAU--------
.....((((((.........))))))((((..(.....)..))))(((--((((...((.......((--(....)))-.......))..---------.-..)))))))..-------- ( -16.34)
>consensus
UUUUUGUUGAAUGUUGCAAUUUCAACCCGUUGAUGGAUUUUAUGUUUU__UUUCCCUGCACUCUUGUCGCGGGCACUG_AAAACAUAUUUUGAUUUU__UUUCAAAACGGAUUAUCAAAC
..((..(..(..((((......))))...)..)..))...((((((((......(((((((....)).)))))......))))))))................................. (-13.38 = -14.18 +   0.81)

alignment

secondary structure

dotplot

Window 1

Location	20,519,931 – 20,520,037
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	73.86
Mean single sequence MFE	-17.74
Consensus MFE	-13.32
Energy contribution	-13.16
Covariance contribution	-0.16
Combinations/Pair	1.29
Mean z-score	-1.87
Structure conservation index	0.75
SVM decision value	2.08
SVM RNA-class probability	0.987381
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20519931 106 + 22407834
UAUGUUUU--UUUCCUUGCACUCUUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUU--UUUCAAAACUGCUCAUCAAACACACCCCUAUACA----AAUUU-----AAGAUAUCUAUGA
((((((((--(...(((((((....)).)))))....)-))))))))((((((....--..))))))..........................----.....-----............. ( -15.60)
>DroSec_CAF1 41262 108 + 1
UAUGUUUUUUUUUCCCUGCACUCUUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUU-UUUUCAAAACGUCUUAUCAAACAUCCCCCUAUACA----CAUUU-----ACGAUAUCUAUG-
(((((((((.....(((((((....)).)))))....)-))))))))((((((....-...))))))..........................----.....-----............- ( -17.70)
>DroSim_CAF1 42128 107 + 1
UAUGUUUU--UUUCCCUGCACUCAUGUCGCGGGCACUG-AAAACAUAUUUUGAUUUUUUUUUCAAAACGUCUUAUCAAACAUCCCCCUAUACA----CAUUU-----ACGAUAUCUAUG-
((((((((--(...(((((((....)).)))))....)-))))))))((((((........))))))..........................----.....-----............- ( -18.20)
>DroEre_CAF1 34815 109 + 1
UAUGUUUU--UUUCCCUGCACUCUUGUCGCGGGCACUGCAAAAUAUAUGU------A--U-UUCAAACGGAUAAGCAGUCAUUUAAUUAUAUAUUUAAAUCUAUCGAAAAAUAUCUAUCU
.(((((((--((..(((((((....)).))))).(((((....(((.(((------.--.-.....))).))).))))).((((((........)))))).....)))))))))...... ( -16.00)
>DroYak_CAF1 36473 98 + 1
UAUGUUUU--UUUCCCUGCACUCUUGUUGCGGGCACUGGAAAAUAUAUUUUGAUUUA--UUUUGGAGCUGAUGAGCAAUCAUAUAAUUUU------------------AAAUAUCUAUCU
((((((((--((..(((((((....).))))))....))))))))))....(((.((--(((..((....((((....))))....))..------------------)))))...))). ( -21.20)
>consensus
UAUGUUUU__UUUCCCUGCACUCUUGUCGCGGGCACUG_AAAACAUAUUUUGAUUUU__UUUCAAAACGGCUUAUCAAACAUACCCCUAUACA____AAUUU_____AAGAUAUCUAUG_
((((((((......(((((((....)).)))))......))))))))((((((........))))))..................................................... (-13.32 = -13.16 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:56 2006