Locus 1700

Sequence ID 2L_DroMel_CAF1
Location 4,650,411 – 4,650,508
Length 97
Max. P 0.905383
window2726 window2727

overview

Window 6

Location 4,650,411 – 4,650,508
Length 97
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.09
Mean single sequence MFE -29.62
Consensus MFE -20.38
Energy contribution -20.02
Covariance contribution -0.36
Combinations/Pair 1.18
Mean z-score -1.63
Structure conservation index 0.69
SVM decision value 1.04
SVM RNA-class probability 0.905383
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4650411 97 + 22407834
---GAUC---------------UGAGGCAGCGUGAAAGCGGGCGUU-UGCCU-CCGGUUAAUGAUGAUACCGGAUAACCGGCACUUAAAGGAUAUUUAUGCUGCAAUGCCGAUCGCG
---((((---------------.(..((((((((((...((((...-.))))-(((((((.((.......))..))))))).............))))))))))....).))))... ( -32.00)
>DroVir_CAF1 90903 88 + 1
-----------------------GCAGCAGCGUGAAAGCGGGCGUU-UGGCUGCUGGUUAAUGAUGAUACCGGAUAACCGGCACUUAAAGGAUAUUUAUGCUACA--AGUGUAC---
-----------------------.(((((((....((((....)))-).))))))).............((((....))))(((((..((.((....)).))..)--))))...--- ( -24.00)
>DroPse_CAF1 101783 111 + 1
UUCCAUCCUGCGACAGGGGAACGGCAGUAGCGUGAAAGCGAGCGUU-UGCCU-CCGGUUAAUGAUGAUACCGGAUAACCAGCACUUAAAGGAUAUUUAUGCUGCAAUGUGAG----C
((((..((((...)))))))).(((((...(((....))).....)-))))(-(((((..........))))))....(((((..((((.....))))))))).........----. ( -29.70)
>DroGri_CAF1 87224 88 + 1
-----------------------GUAGCAGCGUGAAAGCGGGCGUU-UGGCUGCUGGUUAAUGAUGAUACCGGAUAACCGGCACUUAAAGGAUAUUUAUGCUGUA--AGUAUAC---
-----------------------...((((((((((......(.((-(((.(((((((((.((.......))..))))))))).))))).)...)))))))))).--.......--- ( -26.90)
>DroMoj_CAF1 102147 91 + 1
-----------------------GCAGCAGCGUGAAAGCAGGCGUUUUGGCUGCUGGUUAAUGAUGAUACCAGAUAACCGGCACUUAAAGGAUAUUUAUGCUGCAAAAGUGAAC---
-----------------------((((((((.((....)).)).((((((.(((((((((.((.......))..))))))))).))))))........))))))..........--- ( -29.50)
>DroAna_CAF1 84310 95 + 1
---GGUU-------------GGUGCUGUAGCGUGAAAGCGGGCGUU-UGCCU-CCGGUUAAUGAUGAUACCGGAUAACCGGCACUUAAAGGAUAUUUAUGCUGCAAUGCCAG----C
---.(((-------------(((..(((((((((((...((((...-.))))-(((((((.((.......))..))))))).............)))))))))))..)))))----) ( -35.60)
>consensus
_______________________GCAGCAGCGUGAAAGCGGGCGUU_UGCCU_CCGGUUAAUGAUGAUACCGGAUAACCGGCACUUAAAGGAUAUUUAUGCUGCAAUAGUAAAC___
..........................((((((((((.((.((.(......)..(((((..........)))))....)).)).((....))...))))))))))............. (-20.38 = -20.02 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,650,411 – 4,650,508
Length 97
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.09
Mean single sequence MFE -23.46
Consensus MFE -13.83
Energy contribution -13.97
Covariance contribution 0.14
Combinations/Pair 1.19
Mean z-score -1.48
Structure conservation index 0.59
SVM decision value 0.08
SVM RNA-class probability 0.575706
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4650411 97 - 22407834
CGCGAUCGGCAUUGCAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCCGGUAUCAUCAUUAACCGG-AGGCA-AACGCCCGCUUUCACGCUGCCUCA---------------GAUC---
...((((......(((((...............(((((((....)))))))...........((-((((.-.......))))))..)))))....---------------))))--- ( -28.70)
>DroVir_CAF1 90903 88 - 1
---GUACACU--UGUAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCCGGUAUCAUCAUUAACCAGCAGCCA-AACGCCCGCUUUCACGCUGCUGC-----------------------
---...((((--((.((.((....)).)).))))))((((....)))).............(((((((..-...............))))))).----------------------- ( -19.93)
>DroPse_CAF1 101783 111 - 1
G----CUCACAUUGCAGCAUAAAUAUCCUUUAAGUGCUGGUUAUCCGGUAUCAUCAUUAACCGG-AGGCA-AACGCUCGCUUUCACGCUACUGCCGUUCCCCUGUCGCAGGAUGGAA
.----.........((((((.............))))))....((((((..........)))))-)((((-...((..........))...)))).((((((((...))))..)))) ( -26.12)
>DroGri_CAF1 87224 88 - 1
---GUAUACU--UACAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCCGGUAUCAUCAUUAACCAGCAGCCA-AACGCCCGCUUUCACGCUGCUAC-----------------------
---.......--..((((...............(((((((....)))))))...........(((.((..-...))..))).....))))....----------------------- ( -18.00)
>DroMoj_CAF1 102147 91 - 1
---GUUCACUUUUGCAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCUGGUAUCAUCAUUAACCAGCAGCCAAAACGCCUGCUUUCACGCUGCUGC-----------------------
---..........(((((...............(((((((....)))))))...........(((((.(.....).))))).....)))))...----------------------- ( -22.20)
>DroAna_CAF1 84310 95 - 1
G----CUGGCAUUGCAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCCGGUAUCAUCAUUAACCGG-AGGCA-AACGCCCGCUUUCACGCUACAGCACC-------------AACC---
(----(((((...))(((...............(((((((....)))))))...........((-((((.-.......))))))..))).))))...-------------....--- ( -25.80)
>consensus
___GUACACCAUUGCAGCAUAAAUAUCCUUUAAGUGCCGGUUAUCCGGUAUCAUCAUUAACCAG_AGCCA_AACGCCCGCUUUCACGCUGCUGC_______________________
.............(((((.((((.....)))).(((((((....)))))))...................................))))).......................... (-13.83 = -13.97 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:53 2006