Locus 6116

Sequence ID	2R_DroMel_CAF1
Location	19,241,631 – 19,241,730
Length	99
Max. P	0.979119

overview

Window 4

Location	19,241,631 – 19,241,730
Length	99
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	74.54
Mean single sequence MFE	-20.14
Consensus MFE	-12.19
Energy contribution	-11.41
Covariance contribution	-0.78
Combinations/Pair	1.25
Mean z-score	-2.15
Structure conservation index	0.60
SVM decision value	1.83
SVM RNA-class probability	0.979119
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19241631 99 + 20766785
-CA--AUUCAAAGAUGUGAUUUUACCGAAUAUAUAUACAG-GCACA-UGUAUUCCUUUGCAAAUAACUAA---UACAUAGAACAAGUAUAUAUAUUUGGCCU-A-------GAUA----
-..--.............((((..((((((((((((((..-(..((-((((((..((.......))..))---))))).)..)..))))))))))))))...-)-------))).---- ( -19.10)
>DroPse_CAF1 33988 107 + 1
-AAAGAUUCAAAGAUGUGAUUAAAGCAAAUAUAUAUAGAACAAAAA-UGUAUUCCUUUGCACAUAAACAAG--UACAUGAAAUGAGUAUAUAUAUUUGCGAU-A-------GCUAAUAG
-.......................(((((((((((((........(-((((((..((((....))))..))--)))))........)))))))))))))...-.-------........ ( -19.49)
>DroGri_CAF1 42396 101 + 1
ACC--AUUCAAAGAUGUGAUUUUAACAAAUAUAUAUA--C-GCAAG-CGUAUACCUUUGCUUAUACGUAGCUAUACACAAAGUGAGUAUAUAUAUUUGAUAU-A-------GUUA----
...--...........(((((.((.((((((((((((--(-((..(-((((((........))))))).))....(((...))).))))))))))))).)).-)-------))))---- ( -23.00)
>DroYak_CAF1 32349 99 + 1
-CA--AUUCAAAGAUGUGAUUUUACCGAAUAUAUAUACAG-GCACA-UGUAUUCCUUUGCAAAUAAUUGA---UACACAGAACAAGUAUAUAUAUUUGGCCU-A-------GGUA----
-..--...................((((((((((((((..-.....-((((......)))).....(((.---....))).....))))))))))))))...-.-------....---- ( -17.60)
>DroAna_CAF1 31568 109 + 1
-CA--AUUCAAAGAUGUGAUUUUACCGAAUAUAUAUACAU-ACGCAGUGUAUUCCUUUGCAAAUAACCAAG--UACAUCGAUUGAGUAUAUAUAUUUGGCAUUAGUUGUUAGCUC----
-..--......((..(..(((...((((((((((((((..-...(.(((((((................))--))))).).....))))))))))))))....)))..)...)).---- ( -20.99)
>DroPer_CAF1 33063 107 + 1
-AGAGAUUCAAAGAUGUGAUCAAAGCAAAUAUAUAUAGAACAAAAA-UGUAUUCCUUUGCACAUAAACAAG--UACAUGAAAUGAGUAUAUAUAUUUGCGAU-A-------GCUAAUAG
-...((((((....)).))))...(((((((((((((........(-((((((..((((....))))..))--)))))........)))))))))))))...-.-------........ ( -20.69)
>consensus
_CA__AUUCAAAGAUGUGAUUUUACCAAAUAUAUAUACAA_ACAAA_UGUAUUCCUUUGCAAAUAAACAAG__UACAUAAAAUGAGUAUAUAUAUUUGGCAU_A_______GCUA____
........................(((((((((((((..........((((.....(((........)))...)))).........))))))))))))).................... (-12.19 = -11.41 +  -0.78)

alignment

secondary structure

dotplot

Window 5

Location	19,241,631 – 19,241,730
Length	99
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	74.54
Mean single sequence MFE	-20.97
Consensus MFE	-7.45
Energy contribution	-7.39
Covariance contribution	-0.05
Combinations/Pair	1.18
Mean z-score	-2.38
Structure conservation index	0.36
SVM decision value	0.83
SVM RNA-class probability	0.860838
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19241631 99 - 20766785
----UAUC-------U-AGGCCAAAUAUAUAUACUUGUUCUAUGUA---UUAGUUAUUUGCAAAGGAAUACA-UGUGC-CUGUAUAUAUAUUCGGUAAAAUCACAUCUUUGAAU--UG-
----....-------.-..(((.(((((((((((..((..((((((---((..((.......))..))))))-)).))-..))))))))))).)))..................--..- ( -21.00)
>DroPse_CAF1 33988 107 - 1
CUAUUAGC-------U-AUCGCAAAUAUAUAUACUCAUUUCAUGUA--CUUGUUUAUGUGCAAAGGAAUACA-UUUUUGUUCUAUAUAUAUUUGCUUUAAUCACAUCUUUGAAUCUUU-
........-------.-...((((((((((((..........((((--(........)))))..((((((..-....)))))))))))))))))).......................- ( -20.80)
>DroGri_CAF1 42396 101 - 1
----UAAC-------U-AUAUCAAAUAUAUAUACUCACUUUGUGUAUAGCUACGUAUAAGCAAAGGUAUACG-CUUGC-G--UAUAUAUAUUUGUUAAAAUCACAUCUUUGAAU--GGU
----..((-------(-((..(((((((((((((.((....(((((((.((..((....))..)).))))))-).)).-)--))))))))))))......(((......)))))--))) ( -25.10)
>DroYak_CAF1 32349 99 - 1
----UACC-------U-AGGCCAAAUAUAUAUACUUGUUCUGUGUA---UCAAUUAUUUGCAAAGGAAUACA-UGUGC-CUGUAUAUAUAUUCGGUAAAAUCACAUCUUUGAAU--UG-
----....-------.-..(((.(((((((((((..((...(((((---((((....))).......)))))-)..))-..))))))))))).)))..................--..- ( -18.51)
>DroAna_CAF1 31568 109 - 1
----GAGCUAACAACUAAUGCCAAAUAUAUAUACUCAAUCGAUGUA--CUUGGUUAUUUGCAAAGGAAUACACUGCGU-AUGUAUAUAUAUUCGGUAAAAUCACAUCUUUGAAU--UG-
----..............((((.(((((((((((..((((((....--.))))))....(((..(.....)..)))..-..))))))))))).)))).................--..- ( -19.40)
>DroPer_CAF1 33063 107 - 1
CUAUUAGC-------U-AUCGCAAAUAUAUAUACUCAUUUCAUGUA--CUUGUUUAUGUGCAAAGGAAUACA-UUUUUGUUCUAUAUAUAUUUGCUUUGAUCACAUCUUUGAAUCUCU-
........-------.-...((((((((((((..........((((--(........)))))..((((((..-....))))))))))))))))))...(((((......)).)))...- ( -21.00)
>consensus
____UAGC_______U_AUGCCAAAUAUAUAUACUCAUUCUAUGUA__CUUAGUUAUUUGCAAAGGAAUACA_UGUGC_CUGUAUAUAUAUUCGGUAAAAUCACAUCUUUGAAU__UG_
...................(((.((((((((((.........((((......................))))..........)))))))))).)))....................... ( -7.45 =  -7.39 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:10 2006