Locus 6203

Sequence ID	X_DroMel_CAF1
Location	15,798,655 – 15,798,751
Length	96
Max. P	0.768145

overview

Window 5

Location	15,798,655 – 15,798,751
Length	96
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	74.91
Mean single sequence MFE	-30.72
Consensus MFE	-17.63
Energy contribution	-19.13
Covariance contribution	1.50
Combinations/Pair	1.12
Mean z-score	-1.63
Structure conservation index	0.57
SVM decision value	0.52
SVM RNA-class probability	0.768145
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15798655 96 + 22224390
CGUUGCAGGUAUGGAAUGCUGCACUGGCUCCGGGAUAAUCCUUUACGGUGCCAUGAUAGUAGCAGUGCUCGAUAUCCUGCAAA-GAGUU--------------UAGUUU--UU
..((((((((((.((..(((((((((((.(((((.....))....))).))).....))).)))))..)).))).))))))).-.....--------------......--.. ( -34.60)
>DroGri_CAF1 3279 98 + 1
CGUUGCAAGUAUGAAAGGCAGCACUGGCACCAGGAUAAUCCUUGACUGUACCAUGAUAGUAACAGUGUUCGAUGUCCUGGAAA-AAAAAAGA---CAAA--U-C-A-------
.(((((...........))))).......((((((((.((....(((((((.......)).)))))....))))))))))...-........---....--.-.-.------- ( -22.70)
>DroSec_CAF1 2470 109 + 1
CGUUGCAGGUAUGGAAUGCUGCACUGGCUCCGGGAUAAUCCUUGACGGUGCCGUGAUAGUAGCAGUGCUCGAUAUCCUGCAAA-GAGUU-GA-GCAAGCCAUUU-GUUAAUUU
..((((((((((.((..(((((((((((.(((((.....))....))).))).....))).)))))..)).))).))))))).-(((((-((-.((((...)))-)))))))) ( -36.70)
>DroEre_CAF1 2439 107 + 1
CGUUGCAGGUGUGGAAUGCUGCACUGGCUCCGGGAUAAUCCUUCACGGUCCCGUGGUAGUAGCAGUGCUCGAUAUCCUGCAAA-AAGUC-GAU-CAAAGAGGUUAGUUCA---
..((((((((((.((..(((((((((.(..((((((...........))))))..))))).)))))..)).))).))))))).-.....-(((-(.....))))......--- ( -38.90)
>DroWil_CAF1 2264 94 + 1
CGUUGCAGGUAUGAAAAGCUGCACUAGCUCCUGGAUAAUCCUUUACGGUUCCAUGAUAGUAACAGUGCUCAAUAUCCUAAUAAAAAUAU-GC---AAA---------------
..((((((((((.....((((.((((..((.((((....((.....)).)))).))))))..)))).....)))))............)-))---)).--------------- ( -18.00)
>DroYak_CAF1 2440 107 + 1
CGUUGCACGUGUGGAAUGCUGCACUGGCUCCGGGAUAAUCCUUCACGGUGCCGUGGUAGUAGCAGUGCUCGAUAUCCUGCAAC-AAGUC-AAU-CCAAUGGUUUAGUUCA---
.((((((.((((.((..(((((((((((.((((((......))).))).))).....))).)))))..)).))))..))))))-((..(-(..-....))..))......--- ( -33.40)
>consensus
CGUUGCAGGUAUGGAAUGCUGCACUGGCUCCGGGAUAAUCCUUCACGGUGCCAUGAUAGUAGCAGUGCUCGAUAUCCUGCAAA_AAGUU_GA___AAA___U_U_GUU_____
..((((((((((.((..(((((((((.(....((.....((.....))..))..).)))).)))))..)).))).)))))))............................... (-17.63 = -19.13 +   1.50)

alignment

secondary structure

dotplot

Window 6

Location	15,798,655 – 15,798,751
Length	96
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	74.91
Mean single sequence MFE	-25.42
Consensus MFE	-18.05
Energy contribution	-18.88
Covariance contribution	0.84
Combinations/Pair	1.29
Mean z-score	-0.97
Structure conservation index	0.71
SVM decision value	0.27
SVM RNA-class probability	0.660900
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15798655 96 - 22224390
AA--AAACUA--------------AACUC-UUUGCAGGAUAUCGAGCACUGCUACUAUCAUGGCACCGUAAAGGAUUAUCCCGGAGCCAGUGCAGCAUUCCAUACCUGCAACG
..--......--------------.....-.(((((((.(((.(((..((((.(((.....(((.(((....((.....))))).))))))))))..))).)))))))))).. ( -29.10)
>DroGri_CAF1 3279 98 - 1
-------U-G-A--UUUG---UCUUUUUU-UUUCCAGGACAUCGAACACUGUUACUAUCAUGGUACAGUCAAGGAUUAUCCUGGUGCCAGUGCUGCCUUUCAUACUUGCAACG
-------.-.-.--....---........-...((((((.(((....(((((.(((.....))))))))....)))..))))))(((.((((.((.....)))))).)))... ( -20.50)
>DroSec_CAF1 2470 109 - 1
AAAUUAAC-AAAUGGCUUGC-UC-AACUC-UUUGCAGGAUAUCGAGCACUGCUACUAUCACGGCACCGUCAAGGAUUAUCCCGGAGCCAGUGCAGCAUUCCAUACCUGCAACG
........-...........-..-.....-.(((((((.(((.(((..((((.(((.....(((.(((....((.....))))).))))))))))..))).)))))))))).. ( -29.10)
>DroEre_CAF1 2439 107 - 1
---UGAACUAACCUCUUUG-AUC-GACUU-UUUGCAGGAUAUCGAGCACUGCUACUACCACGGGACCGUGAAGGAUUAUCCCGGAGCCAGUGCAGCAUUCCACACCUGCAACG
---................-...-.....-.(((((((.....(((..((((.(((.(..(((((((.....))....)))))..)..)))))))..)))....))))))).. ( -28.20)
>DroWil_CAF1 2264 94 - 1
---------------UUU---GC-AUAUUUUUAUUAGGAUAUUGAGCACUGUUACUAUCAUGGAACCGUAAAGGAUUAUCCAGGAGCUAGUGCAGCUUUUCAUACCUGCAACG
---------------.((---((-(((((((....))))))....((((((......((.((((.((.....))....)))).))..)))))).............))))).. ( -17.80)
>DroYak_CAF1 2440 107 - 1
---UGAACUAAACCAUUGG-AUU-GACUU-GUUGCAGGAUAUCGAGCACUGCUACUACCACGGCACCGUGAAGGAUUAUCCCGGAGCCAGUGCAGCAUUCCACACGUGCAACG
---....((((....))))-...-.....-(((((((((...(..((((((((.((..((((....))))..((......)))))).)))))).)...))).....)))))). ( -27.80)
>consensus
_____AAC_A_A___UUU___UC_AACUU_UUUGCAGGAUAUCGAGCACUGCUACUAUCACGGCACCGUAAAGGAUUAUCCCGGAGCCAGUGCAGCAUUCCAUACCUGCAACG
...............................(((((((.(((.(((..((((.(((.....(((.(((....((.....))))).))))))))))..))).)))))))))).. (-18.05 = -18.88 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:08 2006