Locus 5333

Sequence ID	2L_DroMel_CAF1
Location	15,091,882 – 15,092,029
Length	147
Max. P	0.999861

overview

Window 9

Location	15,091,882 – 15,091,989
Length	107
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	79.91
Mean single sequence MFE	-22.64
Consensus MFE	-14.00
Energy contribution	-18.20
Covariance contribution	4.20
Combinations/Pair	1.17
Mean z-score	-2.29
Structure conservation index	0.62
SVM decision value	1.32
SVM RNA-class probability	0.941230
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15091882 107 + 22407834
ACUUUAUUUGGUCCAAAGCUAAACAAUACAGAAUUUGAAUGAAAUUUGCCUGUAGGUUAAUAAU---AUUAAGUUACCGGCAAAUUUCAUUUAGAUUUUCUAACGUUUAG
..................((((((..((.(((((((((((((((((((((.((((.(((((...---))))).)))).))))))))))))))))))))).))..)))))) ( -35.00)
>DroSec_CAF1 36410 110 + 1
ACUUUAUUUGGUCCAAAGCUAAACAAUACAGAAGUUGAAUGAAAUUUACCUGUAGAUUAACAAUGCUAAUAAUCUAAAGGCAAAUUUCACUUAGAUUUUCUAAUGUUUAG
..................(((((((.((.((((.((((.((((((((.(((.(((((((..........))))))).))).)))))))).)))).)))).)).))))))) ( -24.60)
>DroSim_CAF1 33995 110 + 1
ACUUUAUUUGGUCCAAAGCUAAGCAAUUGAGAAGUUGAAUGAAAUUUACCUGUAGAUUAACAAUGCUAAUAAUGUACAGGCAAAUUUCACUUAGAUUUUCUAAUGUUUAG
..................(((((((...(((((.((((.((((((((.((((((.((((..........)))).)))))).)))))))).)))).)))))...))))))) ( -29.00)
>DroEre_CAF1 37271 97 + 1
AUUUUAUUCGGUCCAAUGCUAAACGAUACAGAACUUGAAAGAAAUUUACCUGCAGUUUAACACCGCUAGUA------------AUUCCAUUCAGAU-UUCUAAGGUUUAG
..................((((((.....((((.(((((.(((..((((..((.((.....)).))..)))------------))))..)))))..-))))...)))))) ( -11.70)
>DroYak_CAF1 44400 110 + 1
ACUUUAUUUGGUUUAGAGAUAAACGAUACAGAACUUAAAAGAAAUUUACCUGCAGAUUAACAACGCUAGUAACCUACAGGCCAAUUCCAUUAAAAUUUUCUAACGUUUAU
.(((((.......)))))(((((((.((.((((.((.((.(.((((..((((.((.(((.(.......)))).)).))))..)))).).)).)).)))).)).))))))) ( -12.90)
>consensus
ACUUUAUUUGGUCCAAAGCUAAACAAUACAGAACUUGAAUGAAAUUUACCUGUAGAUUAACAAUGCUAAUAAUCUACAGGCAAAUUUCAUUUAGAUUUUCUAACGUUUAG
..................(((((((.((.((((.(((((((((((((.(((((((.(((..........))).))))))).))))))))))))).)))).)).))))))) (-14.00 = -18.20 +   4.20)

alignment

secondary structure

dotplot

Window 0

Location	15,091,882 – 15,091,989
Length	107
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	79.91
Mean single sequence MFE	-27.56
Consensus MFE	-19.46
Energy contribution	-22.06
Covariance contribution	2.60
Combinations/Pair	1.24
Mean z-score	-3.82
Structure conservation index	0.71
SVM decision value	3.62
SVM RNA-class probability	0.999457
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15091882 107 - 22407834
CUAAACGUUAGAAAAUCUAAAUGAAAUUUGCCGGUAACUUAAU---AUUAUUAACCUACAGGCAAAUUUCAUUCAAAUUCUGUAUUGUUUAGCUUUGGACCAAAUAAAGU
(((((((.(((((......(((((((((((((.(((..(((((---...)))))..))).)))))))))))))....)))))...)))))))(((((.......))))). ( -27.50)
>DroSec_CAF1 36410 110 - 1
CUAAACAUUAGAAAAUCUAAGUGAAAUUUGCCUUUAGAUUAUUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUCUGUAUUGUUUAGCUUUGGACCAAAUAAAGU
(((((((.(((((......((((((((((((((.(((((((..........))))))).))))))))))))))....)))))...)))))))(((((.......))))). ( -31.50)
>DroSim_CAF1 33995 110 - 1
CUAAACAUUAGAAAAUCUAAGUGAAAUUUGCCUGUACAUUAUUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUCUCAAUUGCUUAGCUUUGGACCAAAUAAAGU
((((.((..((((......(((((((((((((((((.((((..........)))).)))))))))))))))))....))))....)).))))(((((.......))))). ( -25.10)
>DroEre_CAF1 37271 97 - 1
CUAAACCUUAGAA-AUCUGAAUGGAAU------------UACUAGCGGUGUUAAACUGCAGGUAAAUUUCUUUCAAGUUCUGUAUCGUUUAGCAUUGGACCGAAUAAAAU
((((((..(((((-...((((.(((((------------((((.(((((.....))))).))).)))))).))))..)))))....)))))).................. ( -24.20)
>DroYak_CAF1 44400 110 - 1
AUAAACGUUAGAAAAUUUUAAUGGAAUUGGCCUGUAGGUUACUAGCGUUGUUAAUCUGCAGGUAAAUUUCUUUUAAGUUCUGUAUCGUUUAUCUCUAAACCAAAUAAAGU
(((((((.(((((...(((((.((((((.(((((((((((((.......).)))))))))))).))))))..))))))))))...))))))).................. ( -29.50)
>consensus
CUAAACAUUAGAAAAUCUAAAUGAAAUUUGCCUGUAGAUUACUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUCUGUAUUGUUUAGCUUUGGACCAAAUAAAGU
(((((((.(((((......(((((((((((((((((.((((..........)))).)))))))))))))))))....)))))...))))))).................. (-19.46 = -22.06 +   2.60)

alignment

secondary structure

dotplot

Window 1

Location	15,091,912 – 15,092,029
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	76.07
Mean single sequence MFE	-24.81
Consensus MFE	-11.70
Energy contribution	-14.30
Covariance contribution	2.60
Combinations/Pair	1.24
Mean z-score	-3.63
Structure conservation index	0.47
SVM decision value	4.29
SVM RNA-class probability	0.999861
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15091912 117 - 22407834
UUCACUGGAAAACGAAACCAAAAAAAAAAACAGACCAAGACUAAACGUUAGAAAAUCUAAAUGAAAUUUGCCGGUAACUUAAU---AUUAUUAACCUACAGGCAAAUUUCAUUCAAAUUC
(((.(((.......................))).....(((.....))).)))......(((((((((((((.(((..(((((---...)))))..))).)))))))))))))....... ( -20.20)
>DroSec_CAF1 36440 114 - 1
UUCACUGGGG----AAAUC--AAAAAAAAACAGACCAAAACUAAACAUUAGAAAAUCUAAGUGAAAUUUGCCUUUAGAUUAUUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUC
....(((...----.....--.........)))..............((((.....))))(((((((((((((.(((((((..........))))))).)))))))))))))........ ( -23.93)
>DroSim_CAF1 34025 116 - 1
UUCACUGGGA----AAACCCAAAAAAAAAACAGACCAAGACUAAACAUUAGAAAAUCUAAGUGAAAUUUGCCUGUACAUUAUUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUC
.....((((.----...))))..........................((((.....))))((((((((((((((((.((((..........)))).))))))))))))))))........ ( -27.20)
>DroEre_CAF1 37301 97 - 1
UACAAUGGGA-----AACC-----AAAAAUCAGACCAUAACUAAACCUUAGAA-AUCUGAAUGGAAU------------UACUAGCGGUGUUAAACUGCAGGUAAAUUUCUUUCAAGUUC
.....(((..-----..))-----).........................(((-...((((.(((((------------((((.(((((.....))))).))).)))))).))))..))) ( -22.30)
>DroYak_CAF1 44430 110 - 1
UACACUGGGA-----AACC-----AAAGAGCACACGAAGAAUAAACGUUAGAAAAUUUUAAUGGAAUUGGCCUGUAGGUUACUAGCGUUGUUAAUCUGCAGGUAAAUUUCUUUUAAGUUC
.....(((..-----..))-----)..((((....((((((....(((((((....)))))))......(((((((((((((.......).))))))))))))....))))))...)))) ( -30.40)
>consensus
UUCACUGGGA____AAACC__AAAAAAAAACAGACCAAGACUAAACAUUAGAAAAUCUAAAUGAAAUUUGCCUGUAGAUUACUAGCAUUGUUAAUCUACAGGUAAAUUUCAUUCAACUUC
...........................................................(((((((((((((((((.((((..........)))).)))))))))))))))))....... (-11.70 = -14.30 +   2.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:36 2006