Locus 1043

Sequence ID	3L_DroMel_CAF1
Location	3,079,888 – 3,079,990
Length	102
Max. P	0.990053

overview

Window 5

Location	3,079,888 – 3,079,990
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	86.16
Mean single sequence MFE	-32.93
Consensus MFE	-29.80
Energy contribution	-29.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.32
Structure conservation index	0.90
SVM decision value	0.07
SVM RNA-class probability	0.570528
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3079888 102 + 23771897
AAAAGCCAACGUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUUGUUUU-UUGC-AAUU-UUCU
....((.((((.(((((((..((((.......))))...........((((....))))(((((.......)))))))))))).))))..-..))-....-.... ( -33.30)
>DroVir_CAF1 29911 98 + 1
GAGCGUCCGCAUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUGAUUUU-UU-----UA-UAUU
..((....))..(((((((..((((.......))))...........((((....))))(((((.......)))))))))))).......-..-----..-.... ( -31.50)
>DroPse_CAF1 15379 102 + 1
-CGUCAGAAUGUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUGAUUUU-UUUUUUGUU-UUUU
-....(((((..(((((((..((((.......))))...........((((....))))(((((.......))))))))))))..)))))-.........-.... ( -30.90)
>DroYak_CAF1 13505 104 + 1
GGCAGCCAACGUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUUGUUUUUUUGCAAAUU-UUGU
.((((..((((.(((((((..((((.......))))...........((((....))))(((((.......)))))))))))).))))...)))).....-.... ( -36.10)
>DroAna_CAF1 12279 104 + 1
GGGUUUCAACAUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUUGUUUU-UUGCUUAUUUUUAU
((((((.(((.(((((((...((((.......)))).((((((....).)))))..)))))))))).))))))(((....))).......-.............. ( -34.90)
>DroPer_CAF1 15545 100 + 1
-CGUCAGAAUGUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUGAUUUU---UUUUGUU-UUUU
-....(((((..(((((((..((((.......))))...........((((....))))(((((.......))))))))))))..)))))---.......-.... ( -30.90)
>consensus
GAGUGACAACGUGGGGAUAUAGCUCAGUGGUAGAGCAUUCGACUGCAGAUCGAGAGGUCCCCGGUUCAAACCCGGGUGUCCCCUGAUUUU_UUGCUUAUU_UUUU
............(((((((..((((.......))))...........((((....))))(((((.......))))))))))))...................... (-29.80 = -29.80 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	3,079,888 – 3,079,990
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	86.16
Mean single sequence MFE	-31.00
Consensus MFE	-28.90
Energy contribution	-28.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.39
Structure conservation index	0.93
SVM decision value	2.19
SVM RNA-class probability	0.990053
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3079888 102 - 23771897
AGAA-AAUU-GCAA-AAAACAAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCACGUUGGCUUUU
....-....-((..-..(((..(((((..(((((.......)))))......(((((.....)))))..((((.......))))....)))))..))).)).... ( -31.30)
>DroVir_CAF1 29911 98 - 1
AAUA-UA-----AA-AAAAUCAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCAUGCGGACGCUC
....-..-----..-....(((((((...(((((.......)))))..))))).))(((((((..((..((((.......))))....))..).))))))..... ( -30.80)
>DroPse_CAF1 15379 102 - 1
AAAA-AACAAAAAA-AAAAUCAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCACAUUCUGACG-
....-.........-.......(((((..(((((.......)))))......(((((.....)))))..((((.......))))....)))))...........- ( -28.90)
>DroYak_CAF1 13505 104 - 1
ACAA-AAUUUGCAAAAAAACAAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCACGUUGGCUGCC
....-.....(((....(((..(((((..(((((.......)))))......(((((.....)))))..((((.......))))....)))))..)))...))). ( -31.80)
>DroAna_CAF1 12279 104 - 1
AUAAAAAUAAGCAA-AAAACAAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCAUGUUGAAACCC
..............-.......(((....)))((((((.(((.(((((....(((((.....)))))..((((.......))))....)))))..))).)))))) ( -34.30)
>DroPer_CAF1 15545 100 - 1
AAAA-AACAAAA---AAAAUCAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCACAUUCUGACG-
....-.......---.......(((((..(((((.......)))))......(((((.....)))))..((((.......))))....)))))...........- ( -28.90)
>consensus
AAAA_AAUAAGCAA_AAAACAAGGGGACACCCGGGUUUGAACCGGGGACCUCUCGAUCUGCAGUCGAAUGCUCUACCACUGAGCUAUAUCCCCACGUUGACACCC
......................(((((..(((((.......)))))......(((((.....)))))..((((.......))))....)))))............ (-28.90 = -28.90 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:38 2006