Locus 3391

Sequence ID	2L_DroMel_CAF1
Location	9,825,234 – 9,825,367
Length	133
Max. P	0.782193

overview

Window 4

Location	9,825,234 – 9,825,338
Length	104
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	76.44
Mean single sequence MFE	-23.55
Consensus MFE	-15.97
Energy contribution	-16.13
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.33
Structure conservation index	0.68
SVM decision value	0.56
SVM RNA-class probability	0.782193
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9825234 104 - 22407834
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---UUGUGACAACACAAUAUCACAACUAUU---CUUUUGUGAUU------
.((((((((((((((.(((((((......)))))))))))))))..((((..(((....((((...---...))))...)))...))))......)---)))))......------ ( -25.20)
>DroVir_CAF1 46757 102 - 1
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCAGCCGUCAAAUUUGU-----------CUAGCACCUGUU---UGUCUGUCUUUCUUAUC
((.(((((.(((((..(((((((......))))))).....(((....((((..................)))-----------)....)))....---.)))))...))))).)) ( -21.87)
>DroPse_CAF1 36077 104 - 1
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---GUGUGUC---UCAUCUUCACAGCUUUCUUGCUUCUUUCAUU------
((((.(((..((((...(((((((((((((.(((......((........))...))))).)))))---))).)))---..)))).....((......)))))))))...------ ( -24.80)
>DroWil_CAF1 49323 100 - 1
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUCA---A-AUCU-A--UC-AUUUAGCACCUGUU---GUGUGUCAAUU---U--
.......((((((((.(((((((......)))))))))))))))...(((((..((.(.(..(..(---(-((..-.--..-))))..)..).).)---)..)))))...---.-- ( -23.50)
>DroAna_CAF1 33925 98 - 1
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---CAGUGUUACC-----AUCACAACUAAU---UA-UUAGGCUU------
.....((((((((((.(((((((......)))))))))))))))..(((((((..((.....))..---..))))))).-----.)).........---..-........------ ( -21.10)
>DroPer_CAF1 36599 104 - 1
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---GUGUGUC---UCAUCUUCACAGCUUUCUUGCUUCUUUCAUU------
((((.(((..((((...(((((((((((((.(((......((........))...))))).)))))---))).)))---..)))).....((......)))))))))...------ ( -24.80)
>consensus
GAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU___GUGUGUC___UC___UUCACAACUAUU___CUUCUUUCAUU______
.......((((((((.(((((((......)))))))))))))))....(((........)))...................................................... (-15.97 = -16.13 +   0.17)

alignment

secondary structure

dotplot

Window 5

Location	9,825,261 – 9,825,367
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.83
Mean single sequence MFE	-24.13
Consensus MFE	-18.39
Energy contribution	-18.03
Covariance contribution	-0.36
Combinations/Pair	1.12
Mean z-score	-1.09
Structure conservation index	0.76
SVM decision value	-0.04
SVM RNA-class probability	0.512144
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9825261 106 - 22407834
--ACAAU---------UAUUGAUUGCGUCUCUUAUAGGAUGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---UUGUGACAACA
--.((((---------(...)))))(((((......)))))......((((((((.(((((((......)))))))))))))))..((.(((...((.....))..---.))).)).... ( -22.50)
>DroVir_CAF1 46786 111 - 1
--ACAGUUAAAUUUACGAGUUCUUGCGUUUUUUAUAGGACGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCAGCCGUCAAAUUUGU-------
--((((((..((((((..((((((.((((((....))))))..))))))((((((.(((((((......)))))))))))))))))))))).)))..................------- ( -26.00)
>DroGri_CAF1 37820 111 - 1
--ACAGUUAAAUUUACGAGUUCUUGCGUUUUUUAUAGGACGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCAGCCGUCAAAUUUGU-------
--((((((..((((((..((((((.((((((....))))))..))))))((((((.(((((((......)))))))))))))))))))))).)))..................------- ( -26.00)
>DroWil_CAF1 49350 104 - 1
AUACAAU---------UAACGCUUGCGUUUUUUAUAGGAUGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUCA---A-AUCU-A--U
....((.---------.((((....))))..))...((((.......((((((((.(((((((......)))))))))))))))...(((((((....))).))))---.-))))-.--. ( -23.30)
>DroMoj_CAF1 43821 102 - 1
--AUA---------AUGAGUUCUUGCGUUUUUUAUAGGACGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCAGCCGUCAAAUUUGU-------
--...---------......((((.((((((....))))))..))))((((((((.(((((((......)))))))))))))))...((((..((....)).)))).......------- ( -22.70)
>DroAna_CAF1 33947 105 - 1
--ACAAU---------UAUUGAUUGCGUCUCUUAUAGGAUGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCCGUCGUUU---CAGUGUUACC-
--.((((---------(...)))))(((((......)))))......((((((((.(((((((......)))))))))))))))..(((((((..((.....))..---..))))))).- ( -24.30)
>consensus
__ACAAU_________GAGUGCUUGCGUUUUUUAUAGGACGAAAAGAAUCAGAUUCUGACCACAAAUGCGUGGUUAAAUUUGGUAAGUGACAUGUACCAGCCGUCA___UUGU_______
.........................(((((......)))))......((((((((.(((((((......)))))))))))))))...((((...........)))).............. (-18.39 = -18.03 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:18 2006