Locus 4981

Sequence ID	2L_DroMel_CAF1
Location	14,366,981 – 14,367,133
Length	152
Max. P	0.899901

overview

Window 3

Location	14,366,981 – 14,367,101
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.92
Mean single sequence MFE	-32.02
Consensus MFE	-28.42
Energy contribution	-28.70
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-1.47
Structure conservation index	0.89
SVM decision value	1.01
SVM RNA-class probability	0.899901
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14366981 120 - 22407834
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCAGAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAUGAAAAUGAAGCGAUAGUGGUGGCCAUUAAAGCCU
((..(((((...........(((((.....)))))..((((.((((((.(....(....).).))))).)....)))).))).))..))......((..((((((...))))))..)).. ( -32.00)
>DroSec_CAF1 14957 120 - 1
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCAGAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAUGAAAAUCAAGCGAUAGAGGUGGGCACUAAAGCCU
...((((((((....(((..(((((.....)))))...((((((((((.(....(....).).)))..(....)))))))).((.((.....)).)))))....))))))))........ ( -35.30)
>DroSim_CAF1 17068 120 - 1
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCAGAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAUGAAAAUCAAGCGAUAGAGGUGGGCAUUCAAGCCU
...((((((((....(((..(((((.....)))))...((((((((((.(....(....).).)))..(....)))))))).((.((.....)).)))))....))))))))........ ( -33.10)
>DroEre_CAF1 15972 120 - 1
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCACAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAAGAAAAUGAAGCGAUAGGGGUGAGCGUGAAAACCC
((..((..(((..(......(((((.....))))).((((((((.(((.(.......).))).)))))........((....))...........)))...)..)))..))..))..... ( -29.90)
>DroYak_CAF1 15177 120 - 1
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCACAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAUGAAAAUGAAGCGAUAGAGGUGAGCAUGAAAGCCC
((..((..(((..(......(((((.....))))).((((((((.(((.(.......).))).)))))...............(((....)))..)))...)..)))..))..))..... ( -29.80)
>consensus
UUUGUGUCCGCAACGAUUAAGUAAAAACAAUUUACACGCCUGCCUGCCAGAAAACGAGAGGCCGGCAGUGAAAAAGGCAGGAGCAUGAAAAUGAAGCGAUAGAGGUGGGCAUUAAAGCCU
...((((((((..(......(((((.....))))).((((((((.(((...........))).)))))........((....))...........)))...)..))))))))........ (-28.42 = -28.70 +   0.28)

alignment

secondary structure

dotplot

Window 4

Location	14,367,021 – 14,367,133
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.59
Mean single sequence MFE	-30.94
Consensus MFE	-29.20
Energy contribution	-29.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.07
Structure conservation index	0.94
SVM decision value	0.02
SVM RNA-class probability	0.545230
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14367021 112 + 22407834
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUCUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAACAGCAC--------
............(((((.(((...........))).)))))((..(((((.....)))))......((((.((...(((((((....).)))))).)).)))).....))..-------- ( -31.60)
>DroSec_CAF1 14997 109 + 1
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUCUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAAC---AC--------
..((((......(((((((...........)))))))..))))(((((((.....)))))......((((.((...(((((((....).)))))).)).))))..))---..-------- ( -29.80)
>DroSim_CAF1 17108 109 + 1
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUCUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAAC---AC--------
..((((......(((((((...........)))))))..))))(((((((.....)))))......((((.((...(((((((....).)))))).)).))))..))---..-------- ( -29.80)
>DroEre_CAF1 16012 109 + 1
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUGUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAAC---AC--------
............(((((.(((.(.......).))).)))))..(((((((.....)))))......((((.((...(((((((....).)))))).)).))))..))---..-------- ( -30.30)
>DroYak_CAF1 15217 117 + 1
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUGUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAAC---ACAGCACACA
.(((........(((((.(((.(.......).))).)))))..((((.....((....))......((((.((...(((((((....).)))))).)).))))..))---)).))).... ( -33.20)
>consensus
CUGCCUUUUUCACUGCCGGCCUCUCGUUUUCUGGCAGGCAGGCGUGUAAAUUGUUUUUACUUAAUCGUUGCGGACACAAACGCACAUGUUGUUUGGCCACAGCAAAC___AC________
............(((((.(((...........))).)))))....(((((.....)))))......((((.((...(((((((....).)))))).)).))))................. (-29.20 = -29.20 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:36 2006