Locus 4394

Sequence ID	X_DroMel_CAF1
Location	11,565,978 – 11,566,093
Length	115
Max. P	0.976098

overview

Window 7

Location	11,565,978 – 11,566,093
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.65
Mean single sequence MFE	-24.97
Consensus MFE	-12.67
Energy contribution	-13.73
Covariance contribution	1.06
Combinations/Pair	1.11
Mean z-score	-1.81
Structure conservation index	0.51
SVM decision value	0.15
SVM RNA-class probability	0.608119
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11565978 115 + 22224390
AU----AAUGAGGCUUCAAAAAAGAAAAGGGUCAACCCUAUCCUGCCAGCCAUCGAAGCCCAUCUAAUGGUAAUGGCUAACUACUAAUGGGUAGUCCAGCCCCAACGUUCACCCU-AAUA
..----.(((.((((((..........((((....)))).....(....)....)))))))))....(((....((((.((((((....))))))..)))))))...........-.... ( -28.10)
>DroSec_CAF1 7591 114 + 1
AU----AAUGAGGCUUCAAAAAA-AAAAGGGUCAACAUUAUCCUGCCAACCAUCGAAGCCCGUCUAAUGGUAAUGGCUAACUACUAAUGGGUAGUCCAGCCCCAACGUUCACCCU-AAUA
..----.................-...(((((.(((.......(((((.....((.....)).....)))))..((((.((((((....))))))..)))).....))).)))))-.... ( -26.60)
>DroSim_CAF1 8403 112 + 1
AU----AAUGAGGCUUCAAAA---AAAAGGGUCAACAUUAUCCUGCCAACCAUCGAAGCCCAUCUAAUGGUAAUGGCUAACUACUAAUGGGUAGUCCAGCCCCAACGUUCACCCU-AAUA
..----.(((.((((((....---...(((((.......)))))..........)))))))))....(((....((((.((((((....))))))..)))))))...........-.... ( -25.83)
>DroEre_CAF1 7155 106 + 1
AU----AUUGAGGCUACAA-----AAAAGGGUCAACAUUAUCCUGCCAGCCAUCCAAGCCCAUC----GGUAAUGGCUAACUACUAAUGGGUAGCCCAGCCCCAACGUCAACCCU-AAUA
..----.(((.((((((..-----...(((((.......)))))...((((((....(((....----))).))))))............)))))))))................-.... ( -23.70)
>DroYak_CAF1 7654 107 + 1
AU----AUUGAGGCUAAAA---A-AAAAGGGUCAACACUAUCCUGCCAGCCAUCCAAGCCCAUC----GGUAAUGGCUAACUACUAAUGGGUGACCCAGGCCCAACGUCAACCCU-AAUA
.(----((((.((......---.-....((((((...((((...(..((((((....(((....----))).))))))..).....)))).)))))).(((.....)))..)).)-)))) ( -25.20)
>DroAna_CAF1 8913 97 + 1
AUUGCCCAAAACGCAUAACA--A-AAAAAUGUCAUCGCUGCUGUGCGAACCAUCCAACCCCAUC----GG---GGGCC--------AGGAGUGCUUCAGCCCCAA-----ACGCCAAUUA
...((.......((((.(((--.-.....))).)).)).((((.(((.....(((..((((...----.)---)))..--------.))).)))..)))).....-----..))...... ( -20.40)
>consensus
AU____AAUGAGGCUUCAAA__A_AAAAGGGUCAACACUAUCCUGCCAACCAUCCAAGCCCAUC____GGUAAUGGCUAACUACUAAUGGGUAGUCCAGCCCCAACGUUCACCCU_AAUA
...........................(((((..((........(((((((.................)))..))))...........((((......))))....))..)))))..... (-12.67 = -13.73 +   1.06)

alignment

secondary structure

dotplot

Window 8

Location	11,565,978 – 11,566,093
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.65
Mean single sequence MFE	-36.03
Consensus MFE	-23.31
Energy contribution	-24.12
Covariance contribution	0.81
Combinations/Pair	1.30
Mean z-score	-2.24
Structure conservation index	0.65
SVM decision value	1.76
SVM RNA-class probability	0.976098
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11565978 115 - 22224390
UAUU-AGGGUGAACGUUGGGGCUGGACUACCCAUUAGUAGUUAGCCAUUACCAUUAGAUGGGCUUCGAUGGCUGGCAGGAUAGGGUUGACCCUUUUCUUUUUUGAAGCCUCAUU----AU
....-..(((((.(....)(((((.(((((......)))))))))).)))))....((((((((((((..(.....((((.((((....)))).)))))..)))))))).))))----.. ( -37.70)
>DroSec_CAF1 7591 114 - 1
UAUU-AGGGUGAACGUUGGGGCUGGACUACCCAUUAGUAGUUAGCCAUUACCAUUAGACGGGCUUCGAUGGUUGGCAGGAUAAUGUUGACCCUUUU-UUUUUUGAAGCCUCAUU----AU
....-..(((((.(((((((((((.(((((......))))))))))....)))....)))((((((((.(((..(((......)))..))).....-....)))))))))))))----.. ( -36.30)
>DroSim_CAF1 8403 112 - 1
UAUU-AGGGUGAACGUUGGGGCUGGACUACCCAUUAGUAGUUAGCCAUUACCAUUAGAUGGGCUUCGAUGGUUGGCAGGAUAAUGUUGACCCUUUU---UUUUGAAGCCUCAUU----AU
....-..(((((.(....)(((((.(((((......)))))))))).)))))....((((((((((((.(((..(((......)))..))).....---..)))))))).))))----.. ( -38.40)
>DroEre_CAF1 7155 106 - 1
UAUU-AGGGUUGACGUUGGGGCUGGGCUACCCAUUAGUAGUUAGCCAUUACC----GAUGGGCUUGGAUGGCUGGCAGGAUAAUGUUGACCCUUUU-----UUGUAGCCUCAAU----AU
....-(((((..(((((((((........))).......((((((((((.((----....))....))))))))))....))))))..)))))...-----.............----.. ( -35.90)
>DroYak_CAF1 7654 107 - 1
UAUU-AGGGUUGACGUUGGGCCUGGGUCACCCAUUAGUAGUUAGCCAUUACC----GAUGGGCUUGGAUGGCUGGCAGGAUAGUGUUGACCCUUUU-U---UUUUAGCCUCAAU----AU
....-(((((..((((((..((((((...))).......((((((((((.((----....))....))))))))))))).))))))..)))))...-.---.............----.. ( -35.80)
>DroAna_CAF1 8913 97 - 1
UAAUUGGCGU-----UUGGGGCUGAAGCACUCCU--------GGCCC---CC----GAUGGGGUUGGAUGGUUCGCACAGCAGCGAUGACAUUUUU-U--UGUUAUGCGUUUUGGGCAAU
........((-----(..((((.(((.((.(((.--------(((((---(.----...))))))))))).)))........((.((((((.....-.--))))))))))))..)))... ( -32.10)
>consensus
UAUU_AGGGUGAACGUUGGGGCUGGACUACCCAUUAGUAGUUAGCCAUUACC____GAUGGGCUUCGAUGGCUGGCAGGAUAAUGUUGACCCUUUU_U__UUUGAAGCCUCAUU____AU
.....(((((.((((((((((........))).......((((((((((.((.......)).....))))))))))....))))))).)))))........................... (-23.31 = -24.12 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:55 2006