Table 2.
Prediction of ORFs length in the individual scaffold for prediction of coding sequence for nitrilase using IMG/ER.
| Name of organism | Scaffold or genome length (bp) with accession number | Total number of ORF's predicted in scaffold of complete genome | Predicted coding region for nitrilase | Number of base-pairs |
|---|---|---|---|---|
|
Acaryochloris marina MBIC11017 |
NC_009925 (6503724 bp) |
152 | 200001–200999 | 999 |
|
| ||||
|
Acetobacter pasteurianus IFO 3283-32 |
AP011157 (191443 bp) |
120 | 174107–173133 | 974 |
|
| ||||
|
Achromobacter xylosoxidans A8 |
NC_014640 (7013095 bp) |
406 | 200001–200960 | 960 |
|
| ||||
|
Acidovorax avenae avenae ATCC 19860 |
NC_015138 (5482170 bp) |
188 | 201035–200001 | 1035 |
|
| ||||
|
Acidothermus cellulolyticus 11B |
NC_008578 (2443540 bp) |
403 | 200001–201131 | 1131 |
|
| ||||
|
Acidaminococcus fermentans VR4 |
NC_013740 (2329769 bp) |
293 | 200924–200001 | 924 |
|
| ||||
|
Alcanivorax dieselolei B5 |
CP003466 (4928223 bp) |
343 | 200001–200981 | 981 |
|
| ||||
|
Arthrobacter aurescens TC1 |
NC_008711 (4597686 bp) |
385 | 200001–200930 | 930 |
|
| ||||
|
Azorhizobium caulinodans ORS 571 |
NC_009937 (5369772 bp) |
262 | 89665–88580 | 1083 |
|
| ||||
|
Azospirillum sp. B510 |
NC_013854 (3311395 bp) |
402 | 200001–200921 | 921 |
|
| ||||
|
Bacillus pumilus SAFR-032 |
NC_009848 (3704465 bp) |
73 | 201026–200001 | 1026 |
|
| ||||
|
Bradyrhizobium japonicum USDA 110 |
NC_004463 (9105828 bp) |
387 | 200001–200966 | 966 |
|
| ||||
|
Bradyrhizobium sp. BTAi1 |
NC_009485 (8264687 bp) |
392 | 201146–200001 | 1146 |
|
| ||||
|
Bradyrhizobium sp. ORS278 |
NC_009445 (7456587 bp) |
395 | 201041–200001 | 1041 |
|
| ||||
|
Brevibacillus brevis NBRC 100599 |
NC_012491 (6296436 bp) |
182 | 200001–200960 | 960 |
|
| ||||
|
Flavobacterium indicum GPTSA100-9 |
HE774682 (2993089 bp) |
317 | 200001–200981 | 981 |
|
| ||||
|
Saccharomonospora viridis P101 |
NC_013159 (4308349 bp) |
315 | 200001–200996 | 996 |
|
| ||||
|
Sphingopyxis alaskensis DSM13593 |
NC_008048 (3345170 bp) |
387 | 200001–201017 | 1017 |
|
| ||||
|
Burkholderia cenocepacia J2315 |
NC_011000 (3870082 bp) |
393 | 199944–201050 | 1050 |
|
| ||||
|
Burkholderia glumae BGR1 |
NC_012720 (141067 bp) |
154 | 47491–48477 | 1017 |
|
| ||||
|
Burkholderia gladioli BSR3 |
NC_015376 (3700833 bp) |
338 | 200001–201014 | 1014 |
|
| ||||
| Burkholderia phymatum |
NC_010623 (2697374 bp) |
375 | 199971–201023 | 1023 |
|
| ||||
| Burkholderia phytofirmans |
NC_010681 (4467537 bp) |
357 | 200001–201035 | 1035 |
|
| ||||
|
Burkholderia sp. CCGE1002 |
NC_014119 (1282816 bp) |
280 | 72013–73041 | 1020 |
|
| ||||
|
Burkholderia sp. CCGE1003 |
NC_014540 (2966498 bp) |
344 | 200019–201041 | 1022 |
|
| ||||
| Burkholderia vietnamiensis G4 |
NC_009254 (1241007 bp) |
436 | 199986–201023 | 1037 |
|
| ||||
|
Burkholderia xenovorans LB400 |
NC_007951 (4895836 bp) |
396 | 200001–200996 | 996 |
|
| ||||
| Caulobacter sp. K31 |
NC_010335 (233649 bp) |
219 | 180936–181871 | 935 |
|
| ||||
|
Chlorobium phaeobacteroides BS1 |
NC_010831 (2736403 bp) |
382 | 200001–200936 | 936 |
|
| ||||
| Clostridium difficile 630 |
NC_009089 (4290252 bp) |
364 | 200001–200927 | 927 |
|
| ||||
|
Clostridium difficile CD196 |
NC_013315 (4110554 bp) |
308 | 200001–200927 | 927 |
|
| ||||
|
Clostridium difficile R20291 |
NC_013316 (4191339 bp) |
329 | 200001–200927 | 927 |
|
| ||||
|
Clostridium kluyveri NBRC 12016 |
NC_011837 (3896121 bp) |
442 | 200001–200930 | 957 |
|
| ||||
|
Clostridium kluyveri ATCC 8527 |
NC_009706 (3964618 bp) |
491 | 200001–200930 | 930 |
|
| ||||
|
Conexibacter woesei DSM 14684 |
NC_013739 (6359369 bp) |
388 | 200001–200942 | 942 |
|
| ||||
|
Cupriavidus necator ATCC 17699 |
NC_008313 (4052032 bp) |
318 | 200001–201017 | 1017 |
|
| ||||
|
Cupriavidus necator ATCC 43291 |
NC_015726 (3872936 bp) |
318 | 200001–201017 | 1017 |
|
| ||||
|
Cyanobium gracile ATCC 27147 |
Cyagr_Contig81 (3342364 bp) |
405 | 200001–200999 | 999 |
|
| ||||
|
Deinococcus deserti (strain VCD115) |
NC_012529 (314317 bp) |
269 | 200001–200951 | 951 |
|
| ||||
|
Deinococcus peraridilitoris DSM 19664 |
Deipe_Contig72.1 (3881839 bp) |
412 | 200001–200951 | 951 |
|
| ||||
|
Desulfomonile tiedjei ATCC 49306 |
Desti_Contig107.1 (6500104 bp) |
379 | 200001–201029 | 1029 |
|
| ||||
| Dickeya zeae Ech1591 |
NC_012912 (4813854 bp) |
194 | 200001–200927 | 927 |
|
| ||||
| Erwinia billingiae Eb661 |
NC_014305 (169778 bp) |
194 | 87964–88965 | 1001 |
|
| ||||
|
Erythrobacter litoralis HTCC2594 |
NC_007722 (3052398 bp) |
411 | 200001–200969 | 969 |
|
| ||||
|
Flavobacterium indicum DSM 17447 |
HE774682 (2993089 bp) |
317 | 200001–200981 | 981 |
|
| ||||
|
Frateuria aurantia ATCC 33424 |
Fraau_Contig24.1 (3603458 bp) |
366 | 200001–200924 | 924 |
|
| ||||
|
Geobacillus sp. Y4.1MC1 |
NC_014650 (3840330 bp) |
434 | 200001–200966 | 966 |
|
| ||||
|
Geobacillus thermoglucosidasius C56-YS93 |
NC_015660 (3893306 bp) |
446 | 200001–200966 | 966 |
|
| ||||
|
Geodermatophilus obscurus DSM 43160 |
NC_013757 (5322497 bp) |
244 | 54102–54884 | 783 |
|
| ||||
|
Gluconacetobacter diazotrophicus ATCC 49037 |
NC_010125 (3944163 bp) |
333 | 200001–200960 | 960 |
|
| ||||
|
Haliangium ochraceum DSM 14365 |
CP002175 (2309262 bp) |
377 | 200001–200957 | 957 |
|
| ||||
|
Halanaerobium praevalens ATCC 33744 |
NC_013440 (9446314 bp) |
262 | 200001–200999 | 999 |
|
| ||||
|
Hyphomicrobium sp. MC1 |
NC_015717 (4757528 bp) |
392 | 200001–200984 | 984 |
|
| ||||
|
Janthinobacterium sp. Marseille |
NC_009659 (4110251 bp) |
398 | 200001–201068 | 1068 |
|
| ||||
|
Jannaschia sp. CCS1 |
NC_007802 (4317977 bp) |
382 | 200001–201026 | 1026 |
|
| ||||
|
Maricaulis maris MCS10 |
NC_008347 (3368780 bp) |
392 | 200001–200933 | 933 |
|
| ||||
| Methylobacterium extorquens CM4 |
NC_011758 (380207 bp) |
211 | 7191–8267 | 1077 |
|
| ||||
|
Methylobacterium extorquens ATCC 14718 |
NC_012811 (1261460 bp) |
436 | 200001–201077 | 1077 |
|
| ||||
| Methylobacterium extorquens DM4 |
NC_012988 (5943768 bp) |
378 | 200001–200918 | 918 |
|
| ||||
| Methylobacterium extorquens PA1 |
NC_010172 (5471154 bp) |
354 | 200001–201110 | 1110 |
|
| ||||
|
Methylomonas methanica MC09 |
Contig38 (5051681 bp) |
402 | 200001–200996 | 996 |
|
| ||||
| Methylobacterium nodulans ORS2060 |
NC_011892 (487734 bp) |
425 | 200001–201116 | 1116 |
|
| ||||
|
Methylobacterium populi ATCC BAA-705 |
NC_010725 (5800441 bp) |
193 | 61617–62693 | 1077 |
|
| ||||
| Methylibium petroleiphilum PM1 |
NC_008825 (4044195 bp) |
364 | 200001–201074 | 1074 |
|
| ||||
|
Methylobacterium radiotolerans ATCC 27329 |
NC_010505 (6077833 bp) |
377 | 200001–201077 | 1077 |
|
| ||||
|
Methylocella silvestris BL2 |
NC_011666 (4305430 bp) |
439 | 199971–201029 | 1029 |
|
| ||||
|
Mycobacterium intracellulare ATCC 13950 |
CP003322 (5402402 bp) |
383 | 199938–200897 | 897 |
|
| ||||
|
Mycobacterium liflandii 128FXT |
CP003899 (6208955 bp) |
405 | 200001–201059 | 1059 |
|
| ||||
| Mycobacterium rhodesiae NBB3 | MycrhN_Contig54.1 (6415739 bp) |
267 | 200001–200957 | 957 |
|
| ||||
|
Mycobacterium smegmatis ATCC 700084 |
CP001663 (6988208 bp) |
377 | 200001–200978 | 978 |
|
| ||||
|
Natranaerobius thermophilus ATCC BAA-1301 |
NC_010718 (3165557 bp) |
387 | 200001–200930 | 930 |
|
| ||||
|
Nocardia farcinica IFM 10152 |
NC_006361 (6021225 bp) |
390 | 198993–199811 | 818 |
|
| ||||
|
Nocardiopsis dassonvillei DSM 43111 |
NC_014211 (775354 bp) |
353 | 201134–200001 | 843 |
|
| ||||
|
Oligotropha carboxidovorans ATCC 49405 |
CP002826 (3595748 bp) |
372 | 200001–201065 | 1065 |
|
| ||||
| Pantoea sp. At-9b |
NC_014839 (394054 bp) |
349 | 114577–115581 | 1005 |
|
| ||||
|
Peptoniphilus duerdenii ATCC BAA-1640 |
NZ_AEEH01000050 (96694 bp) |
80 | 52942–53863 | 921 |
|
| ||||
|
Photorhabdus asymbiotica ATCC 43949 |
NC_012962 (5064808 bp) |
338 | 200001–201050 | 1050 |
|
| ||||
|
Pirellula staleyi ATCC 27377 |
NC_013720 (6196199 bp) |
338 | 200001–200909 | 909 |
|
| ||||
|
Polaromonas naphthalenivorans CJ2 |
NC_008781 (4410291 bp) |
389 | 200001–201041 | 1062 |
|
| ||||
| Polaromonas sp. JS666 |
NC_007948 (5200264 bp) |
398 | 200001–200942 | 942 |
|
| ||||
|
Pseudomonas syringae pv. lachrymans M302278PT |
Lac106_115287.20 (115287 bp) |
107 | 47704–48747 | 1043 |
|
| ||||
|
Pseudoalteromonas atlantica ATCC BAA-1087 |
NC_008228 (5187005 bp) |
397 | 200001–200921 | 921 |
|
| ||||
|
Pseudomonas aeruginosa P7-L633/96 |
Ga0060317_132 (369634 bp) |
270 | 91986–92801 | 816 |
|
| ||||
|
Pseudomonas brassicacearum NFM421 |
NC_015379 (6843248 bp) |
377 | 200001–201026 | 1026 |
|
| ||||
| Pseudomonas sp. TJI-51 |
AEWE01000051 (6502 bp) |
05 | 1482–2498 | 1017 |
|
| ||||
|
Pseudomonas fluorescens Pf-5 |
NC_007492 (6438405 bp) |
349 | 200001–200924 | 924 |
|
| ||||
|
Pseudomonas fluorescens SBW25 |
NC_012660 (6722539 bp) |
376 | 200043–200930 | 888 |
|
| ||||
|
Pseudomonas mendocina NK-01 |
NC_015410 (5434353 bp) |
376 | 200001–200883 | 883 |
|
| ||||
|
Pseudomonas syringae pv. tomato DC 3000 |
PSPTOimg_DC3000 (6397126 bp) |
377 | 200001–201011 | 1011 |
|
| ||||
|
Pseudomonas syringae pv. syringae B728a |
NC_007005 (6093698 bp) |
196 | 8233–9231 | 999 |
|
| ||||
| Pseudoxanthomonas suwonensis11-1 |
NC_014924 (3419049 bp) |
362 | 200001–200885 | 885 |
|
| ||||
|
Pseudonocardia dioxanivorans ATCC 55486 |
CP002593 (7096571 bp) |
386 | 200001–201008 | 1008 |
|
| ||||
|
Ralstonia solanacearum GMI1000 |
NC_003295 (3716413 bp) |
343 | 200001–201032 | 1032 |
|
| ||||
|
Rhizobium hainanense CCBAU 57015 |
Ga0061100_113 (148344 bp) |
146 | 61240–62280 | 1040 |
|
| ||||
| Rhizobium leguminosarum bv. Viciae 3841 |
NC_008380 (5057142 bp) |
397 | 200001–201047 | 1047 |
|
| ||||
|
Rhizobium leguminosarum bv. trifolii WSM1325 |
NC_012850 (4767043 bp) |
210 | 18450–19442 | 993 |
|
| ||||
|
Rhodopseudomonaspalustris TIE-1 |
NC_011004 (5744041 bp) |
387 | 199980–201050 | 1070 |
|
| ||||
|
Rhodopseudomonas palustris DX-1 |
NC_014834 (5404117 bp) |
390 | 200001–200954 | 954 |
|
| ||||
|
Rubrobacter xylanophilus DSM 9941 |
NC_008148 (3225748 bp) |
385 | 200001–201080 | 1080 |
|
| ||||
|
Ruegeria pomeroyi ATCC 700808 |
NC_006569 (491611 bp) |
308 | 118859–119893 | 1035 |
|
| ||||
|
Runella slithyformis ATCC 29530 |
Unknown (6568739 bp) |
362 | 200001–200933 | 933 |
|
| ||||
|
Saccharothrix espanaensis ATCC 51144 |
HE804045 (9360653 bp) |
347 | 200001–201020 | 1020 |
|
| ||||
| Saccharomonospora viridis ATCC 15386 |
NC_013159 (4308349 bp) |
315 | 200001–200996 | 996 |
|
| ||||
|
Shewanella halifaxensis HAW-EB4 |
NC_010334 (5226917 bp) |
337 | 200001–200945 | 945 |
|
| ||||
|
Shewanella pealeana ATCC 700345 |
NC_009901 (5174581 bp) |
333 | 200001–200945 | 945 |
|
| ||||
| Shewanella sediminis HAW-EB3 |
NC_009831 (5517674 bp) |
337 | 200001–200954 | 954 |
|
| ||||
|
Shewanella violacea JCM 1017 |
NC_014012 (4962103 bp) |
307 | 200001–200936 | 936 |
|
| ||||
|
Shewanella woodyi ATCC 51908 |
NC_010506 (5935403 bp) |
327 | 200001–201005 | 1005 |
|
| ||||
|
Shimwellia blattae ATCC 29907 |
EBLc (4158725 bp) | 376 | 200001–201029 | 1029 |
|
| ||||
|
Singulisphaera acidiphila ATCC 1392 |
Sinac_Contig49.1 (9629675 bp) |
337 | 200001–201014 | 1014 |
|
| ||||
| Sorangium cellulosum Soce56 |
NC_010162 (13033779 bp) |
329 | 200001–201029 | 1029 |
|
| ||||
|
Sphingopyxis alaskensis DSM 13593 |
NC_008048 (3345170 bp) |
387 | 200001–201017 | 1016 |
|
| ||||
|
Sphaerobacter thermophilus DSM 20745 |
NC_013524 (1252731 bp) |
335 | 200097–201092 | 995 |
|
| ||||
|
Sphingomonas wittichii RW1 |
NC_009511 (5382261 bp) |
354 | 200001–201026 | 1026 |
|
| ||||
|
Spirosoma linguale ATCC 33905 |
NC_013730 (8078757 bp) |
339 | 200001–200906 | 906 |
|
| ||||
|
Starkeya novella ATCC 8093 |
NC_007604 (2695903 bp) |
402 | 200001–201005 | 1005 |
|
| ||||
| Streptomyces albus J1074 |
CP004370 (6841649 bp) |
252 | 1635309–1636256 | 948 |
|
| ||||
|
Synechococcus elongatus PCC 7942 |
NC_007604 (2695903 bp) |
402 | 200001–201005 | 1005 |
|
| ||||
|
Syntrophobacter fumaroxidans DSM 10017 |
NC_008554 (4990251 bp) |
337 | 200001–200987 | 987 |
|
| ||||
|
Synechococcus sp. ATCC 27264 |
NC_010475 (3008047 bp) |
431 | 200001–201008 | 1008 |
|
| ||||
|
Synechococcus elongatus PCC 6301 |
NC_006576 (2696255 bp) |
402 | 200001–201005 | 1005 |
|
| ||||
|
Synechococcus sp. PCC 7002 |
NC_010475 (3008047 bp) |
431 | 200001–201008 | 1008 |
|
| ||||
|
Synechococcus sp. WH8102 |
NC_005070 (2434428 bp) |
537 | 200001–201017 | 1017 |
|
| ||||
| Synechocystis sp. |
CP003265 (3569561 bp) |
371 | 200001–201026 | 1026 |
|
| ||||
|
Synechocystis sp. PCC 6803 |
NC_017052 (3570103 bp) |
374 | 200001–201026 | 1026 |
|
| ||||
|
Terriglobus roseus KBS 63 |
Terro_Contig51.1 (5227858 bp) |
354 | 200001–200873 | 873 |
|
| ||||
|
Tistrella mobilis KA081020-065 |
CP003239 (1126962 bp) |
379 | 200001–201077 | 1077 |
|
| ||||
| Variovorax paradoxus (strain EPS) |
NC_014931 (6550056 bp) |
360 | 200001–201035 | 1035 |
|
| ||||
|
Variovorax paradoxus S110 |
NC_012791 (5626353 bp) |
420 | 200001–201053 | 1053 |
|
| ||||
| Verminephrobacter eiseniae EF01-2 |
NC_008786 (5566749 bp) |
337 | 200001–200987 | 1020 |
|
| ||||
|
Zobellia galactanivorans DSM 12802 |
FG20DRAFT (5340688 bp) |
331 | 200001–200951 | 951 |
|
| ||||
|
Zymomonas mobilis subsp. Mobilis ATCC 10988 |
NZ_ACQU01000006 (113352 bp) |
113 | 82520–83509 | 990 |