sexM-vs-NRRL1555genome.TFASTX

# tfastx36 -E 1e-8 sexM.fa ../../ZyGoLife/datasets/genomes/DNA/Phycomyces_blakesleeanus_NRRL_1555.Phybl2.v2.fasta
TFASTX compares a protein to a translated DNA data bank
 version 36.3.7a Jan, 2015(preload9)
Please cite:
 Pearson et al, Genomics (1997) 46:24-36

Query: sexM.fa
  1>>>tr|B0F2G8|B0F2G8_PHYBL Sex minus OS=Phycomyces blakesleeanus GN=sexM PE=4 SV=1 - 188 aa
Library: ../../ZyGoLife/datasets/genomes/DNA/Phycomyces_blakesleeanus_NRRL_1555.Phybl2.v2.fasta
  53939167 residues in    80 sequences

Statistics: Altschul/Gish params: n0: 188 Lambda: 0.188 K: 0.034 H: 0.170
 statistics sampled from 29 (34) to 29 sequences
Algorithm: TFASTX (3.8 June 2014) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20
 ktup: 2, E-join: 0.5 (0.165), E-opt: 0.1 (0.0411), width:  16
 Scan time:  3.580

The best scores are:                             initn opt bits E(414)
Phybl2|scaffold_1                     (4452461) [f]  227  253 74.3   5e-13

>>Phybl2|scaffold_1                                       (4452461 aa)
Frame: f initn: 227 init1: 227 opt: 253  Z-score: 313.4  bits: 74.3 E(414): 5e-13
Smith-Waterman score: 258; 31.1% identity (57.5% similar) in 212 aa overlap (1-185:3985605-3986237)

               10          20             30        40        50
tr|B0F MSLFIFVDESITNNRSSSS--NEEISSHQAD-----TTKEKTPRPKNAFMLYRQEKQKGL
       :  :.::.:  .. .  :.  .: :::  .      ..  :  :::::::::::  . ..
Phybl2 MESFMFVNEFKNSYQPPSDILTESISSTPVRQKCIISSTVKIRRPKNAFMLYRQAVHPSI
      3985620   3985650   3985680   3985710   3985740   3985770

            60        70        80        90       100
tr|B0F PLSKTKLLSKDFSKIAAEMWRRESNEVRMYYHRLAEEEKLRHLAKHPGYKYCPK----RQ
         :.. . .:..:. :..::. :..::: ::.: :.:::: :  : ::: : :.    :.
Phybl2 LSSNSTIHNKEISRTAGKMWKNEKEEVRKYYERKADEEKLYHSKKFPGYIYKPQQRKTRR
      3985800   3985830   3985860   3985890   3985920   3985950

     110       120       130                  140          150
tr|B0F SLAHVDKNEYQVLADTTPIVGEMDN-----------QMAFVH---RNVSFDEVSPSSPPS
         . : :   .  .:   :  . ..           :  ..:   .... ::.  ..::.
Phybl2 PQSTVCKPFLRSTSDIQLIYQKTESKSPSEKLSATSQDYIIHCRDESTNEDEIL-NTPPT
      3985980   3986010   3986040   3986070   3986100    3986130

         160         170       180
tr|B0F SMVQD--LQIFPEGTNLDALSLVDYEFYLLLS
       . ..:  :. : .  ..: .: .:  .. : :
Phybl2 QCLDDSILKTFLDDLSFDIFSPIDELIFSLCS
       3986160   3986190   3986220



188 residues in 1 query   sequences
53939167 residues in 80 library sequences
 Tcomplib [36.3.7a Jan, 2015(preload9)] (32 proc in memory [0G])
 start: Tue Oct 11 21:58:12 2016 done: Tue Oct 11 21:58:13 2016
 Total Scan time:  3.580 Total Display time:  0.030

Function used was TFASTX [36.3.7a Jan, 2015(preload9)]

sexM-vs-NRRL1555pep.FASTA

fasta36 -E 1e-8 sexM.fa  ZyGoLife/datasets/genomes/pep/Phycomyces_blakesleeanus_NRRL_1555.Phybl2.v2.aa.fasta | more
# fasta36 -E 1e-8 sexM.fa ZyGoLife/datasets/genomes/pep/Phycomyces_blakesleeanus_NRRL_1555.Phybl2.v2.aa.fasta
FASTA searches a protein or DNA sequence data bank
 version 36.3.7a Jan, 2015(preload9)
Please cite:
 W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: sexM.fa
  1>>>tr|B0F2G8|B0F2G8_PHYBL Sex minus OS=Phycomyces blakesleeanus GN=sexM PE=4 SV=1 - 188 aa
Library: ../../ZyGoLife/datasets/genomes/pep/Phycomyces_blakesleeanus_NRRL_1555.Phybl2.v2.aa.fasta
  5831043 residues in 16528 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 6.5022+/-0.00239; mu= 10.1257+/- 0.129
 mean_var=59.3897+/-12.015, 0's: 0 Z-trim(93.6): 31  B-trim: 0 in 0/38
 Lambda= 0.166425
 statistics sampled from 2807 (2816) to 2807 sequences
Algorithm: FASTA (3.8 Nov 2011) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.519), E-opt: 0.2 (0.17), width:  16
 Scan time:  0.310

The best scores are:                                      opt bits E(16528)
Phybl2|Phybl2_154054 fgenesh1_pm.1_#_199           ( 212)  257 69.6 7.5e-13

>>Phybl2|Phybl2_154054 fgenesh1_pm.1_#_199                (212 aa)
 initn: 289 init1: 243 opt: 257  Z-score: 339.0  bits: 69.6 E(16528): 7.5e-13
Smith-Waterman score: 272; 32.4% identity (56.8% similar) in 213 aa overlap (1-185:1-211)

               10        20                30        40        50
tr|B0F MSLFIFVDESITNNRSSSSN---EEISSHQAD-----TTKEKTPRPKNAFMLYRQEKQKG
       :  :.::.: . :. .  :.   : :::  .      ..  :  :::::::::::  . .
Phybl2 MESFMFVNE-FKNSYQPPSDILTESISSTPVRQKCIISSTVKIRRPKNAFMLYRQAVHPS
                10        20        30        40        50

             60        70        80        90       100
tr|B0F LPLSKTKLLSKDFSKIAAEMWRRESNEVRMYYHRLAEEEKLRHLAKHPGYKYCPK----R
       .  :.. . .:..:. :..::. :..::: ::.: :.:::: :  : ::: : :.    :
Phybl2 ILSSNSTIHNKEISRTAGKMWKNEKEEVRKYYERKADEEKLYHSKKFPGYIYKPQQRKTR
      60        70        80        90       100       110

      110       120       130                  140          150
tr|B0F QSLAHVDKNEYQVLADTTPIVGEMDN-----------QMAFVH-RNVSF--DEVSPSSPP
       .  . : :   .  .:   :  . ..           :  ..: :. :   ::.  ..::
Phybl2 RPQSTVCKPFLRSTSDIQLIYQKTESKSPSEKLSATSQDYIIHCRDESTNEDEIL-NTPP
     120       130       140       150       160       170

          160         170       180
tr|B0F SSMVQD--LQIFPEGTNLDALSLVDYEFYLLLSIMS
       .. ..:  :. : .  ..: .: .:  .. : :
Phybl2 TQCLDDSILKTFLDDLSFDIFSPIDELIFSLCS*
      180       190       200       210



188 residues in 1 query   sequences
5831043 residues in 16528 library sequences
 Tcomplib [36.3.7a Jan, 2015(preload9)] (32 proc in memory [0G])
 start: Tue Oct 11 21:57:39 2016 done: Tue Oct 11 21:57:39 2016
 Total Scan time:  0.310 Total Display time:  0.010

Function used was FASTA [36.3.7a Jan, 2015(preload9)]

sexM.fa

>tr|B0F2G8|B0F2G8_PHYBL Sex minus OS=Phycomyces blakesleeanus GN=sexM PE=4 SV=1
MSLFIFVDESITNNRSSSSNEEISSHQADTTKEKTPRPKNAFML
YRQEKQKGLPLSKTKLLSKDFSKIAAEMWRRESNEVRMYYHRLAEEEKLRHLAKHPGY
KYCPKRQSLAHVDKNEYQVLADTTPIVGEMDNQMAFVHRNVSFDEVSPSSPPSSMVQD
LQIFPEGTNLDALSLVDYEFYLLLSIMS