Locus 1397

Sequence ID 3L_DroMel_CAF1
Location 4,062,265 – 4,062,389
Length 124
Max. P 0.740520
window2170 window2171

overview

Window 0

Location 4,062,265 – 4,062,356
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -29.52
Consensus MFE -21.35
Energy contribution -22.38
Covariance contribution 1.03
Combinations/Pair 1.09
Mean z-score -1.14
Structure conservation index 0.72
SVM decision value 0.45
SVM RNA-class probability 0.740520
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4062265 91 - 23771897
UUUC-CAGGCUGCUUGGGGCGGUGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUA--------AGUU-UUUAGAAAA-
....-...((((((..(.((((((((((..(((((..((....))..))))).....)))))))).)).)..)))))).--------....-.........- ( -31.00)
>DroVir_CAF1 8912 97 - 1
UCUAACAGGCUGCUUGGGGCGGUGGAUUGCUGAUGUCGCGCAAGCAUCGCCAUCCCAGAUUCACAGGCGUUGAACGGUAAGUACUAUCUAG-UC----UAAU
......((((((((((.(((((((..((((((....)).)))).)))))))(((...)))...))))).......((((.....)))).))-))----)... ( -26.70)
>DroPse_CAF1 6492 100 - 1
UUUUAAAGGCUGCUUGGGGCGGCGGUCUGUUGAUGUCUCGCAAGCAUCGUCAUCCCAGAUUCACUGGCGUUGAGCGGUAAGUAGAAGAAAU-UC-AAGAGGU
........((((((..(.((((.((((((.(((((...(....)...)))))...)))).)).)).)).)..)))))).....(((....)-))-....... ( -30.80)
>DroEre_CAF1 6580 101 - 1
UUUCACAGGCUGCUUGGGGCGGCGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUAAGUAAGAGAGUUUUUUAAGAAA-
((((((..((((((..(.((((..((((..(((((..((....))..))))).....))))..)).)).)..))))))..))..)))).............- ( -30.10)
>DroWil_CAF1 6668 100 - 1
UCCUACAGGCUGCUUGGGGUGGUGGCCUAAUGAUGUCCCGCAAGCAUCGUCAUCCCAGAUUUACUGGAGUUGAGCGGUAAGUUCAAUGAAU-AC-UAUAAGU
......((((..((......))..)))).((((((...(....)...)))))).((((.....)))).(((((((.....)))))))....-..-....... ( -29.20)
>DroYak_CAF1 6669 87 - 1
UUUCACAGGCUGCUUGGGGCGGCGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUAAGUAAGAG---------------
....((..((((((..(.((((..((((..(((((..((....))..))))).....))))..)).)).)..))))))..)).....--------------- ( -29.30)
>consensus
UUUCACAGGCUGCUUGGGGCGGCGGAUUGUUGAUGUCGCGCAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUAAGUAAAAGAAAU_UC_AA_AAA_
........((((((..(.((...(((....(((((..((....))..))))))))(((.....))))).)..))))))........................ (-21.35 = -22.38 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,062,278 – 4,062,389
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.27
Mean single sequence MFE -30.73
Consensus MFE -24.96
Energy contribution -25.77
Covariance contribution 0.81
Combinations/Pair 1.19
Mean z-score -1.21
Structure conservation index 0.81
SVM decision value 0.41
SVM RNA-class probability 0.723410
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4062278 111 - 23771897
---AUUGUAAUAUUAAUUACUAAU-UU---UUUCUGAUUUUUUC-CAGGCUGCUUGGGGCGGUGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUA-
---...(((((....)))))....-..---...(((........-)))((((((..(.((((((((((..(((((..((....))..))))).....)))))))).)).)..)))))).- ( -34.10)
>DroVir_CAF1 8929 111 - 1
---UUGA--AUAUUUAAUAGAGUU-UUCUGUUCG---UGCUCUAACAGGCUGCUUGGGGCGGUGGAUUGCUGAUGUCGCGCAAGCAUCGCCAUCCCAGAUUCACAGGCGUUGAACGGUAA
---....--........((((((.-.........---.))))))....((((.(..(.((.(((((((...((((.(((....))...).))))...)))))))..)).)..).)))).. ( -30.10)
>DroGri_CAF1 6693 115 - 1
---CUUAACUUUUCUAAUGCAAUU-UUUGGUUUCAA-UUUCUUUACAGGCUGCUUGGGGCGGUGGUUUGUUGAUGUCGCGAAAGCAUCGCCAUCCCAGAUUCACCGGAAUCGAACGGCAA
---..............(((....-(((((((((..-...........(((......)))(((((((((..((((..((((.....)))))))).)))).))))))))))))))..))). ( -29.40)
>DroSec_CAF1 6642 112 - 1
---AUUGUAAUAUUAAUGACCAAU-UU---UUUCUUAUUUUUUC-CAGGCUGCUUGGGGCGGUGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGGGUUGAGCGGUAA
---...............(((...-..---............((-(..(((((.....))))))))..(((((((..((....))..))))(((((((.....)))))))..)))))).. ( -30.60)
>DroSim_CAF1 6636 112 - 1
---AUUAUAAUAUUAAUGACAAAU-UU---UUUGUAAUUUUUUC-UAGGCUGCUUGGGGCGGUGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUGA
---(((((((....(((.....))-).---.)))))))......-...((((((..(.((((((((((..(((((..((....))..))))).....)))))))).)).)..)))))).. ( -32.00)
>DroEre_CAF1 6601 116 - 1
CAUAUUU-UAUAUUCAUUCCAAAUUUU---UUUAAUUUUUUUUCACAGGCUGCUUGGGGCGGCGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUAA
.......-...................---..................((((((..(.((((..((((..(((((..((....))..))))).....))))..)).)).)..)))))).. ( -28.20)
>consensus
___AUUAUAAUAUUAAUUACAAAU_UU___UUUCUAAUUUUUUC_CAGGCUGCUUGGGGCGGUGGAUUGUUGAUGUCGCGUAAGCAUCGUCAUCCCAGAUUUACUGGUGUUGAGCGGUAA
................................................(((((((((.((((((((((..(((((..((....))..))))).....)))))))).)).))))))))).. (-24.96 = -25.77 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:28 2006