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{"sheet":"M1gRODsummary.txt","index":0,"n_rows":134,"n_cols":12,"rows_kept":134,"merged":[[0,2,0,4],[57,11,59,11]],"flags":["formulas_cached_only"]}
[null,null,"position in M1 genome "]
["Region of Difference (ROD)","absent from / different in","start ","finish","location",null,"CDS (CJM1_*)","gene name","expression ","notes"]
["ROD-1 ",1336,36791,42866,"36791:42866","MW:215884","-",null,"rRNA, not annotated","difference to 1336"]
["ROD-1 ",11168,43011,59751,"43011:59751","MW:607239","0034-0041","CJM1_0034-0041","mainly upregulated","variation to 11168"]
["ROD-1 ",414,55164,60348,"55164:60348","MW:191941","0040-0041","CJM1_0040-0041","some up and down ","variation to 414"]
[]
["ROD-2",414,74523,76143,"74523:76143","MW:57840","0055-0057","CJM1_0055-0057","upregulation "]
[]
["ROD-3",414,93315,95826,"93315:95826","MW:89842","0077-0079","cdtC,cdtB, cdtA","downregulation "]
[]
["ROD-4",414,105870,108381,"105870:108381","MW:86794","0091-0092","CJM1_0091, CJM1_0092","some donregulation "]
["ROD-4",1336,106273,107002,"106273:107002","MW:25932",91,"CJM1_0091","downregulation "]
[]
["ROD-5",414,111054,158358,"111054:158358","MW:1711657","0097-0149","fmt, birA, parA, parB, atpF, atpH, atpA, atpG, atpD, atpC, exbB3, exbD3, CJM1_0110, tolB, pal, CJM1_0113, slyD, fabD, mtnN, CJM1_0118, yciA, CJM1_0120, CJM1_0121, dus, CJM1_0123, CJM1_0124, rlmH, accD, CJM1_0127, omp85, tyrA, CJM1_0130, lpxC, CJM1_0132, thrB, CJM1_0134, infB, rbfA, CJM1_0137, CJM1_0138, CJM1_0139, CJM1_0140, CJM1_0141, CJM1_0142, CJM1_0143, CJM1_0144, CJM1_0145, CJM1_0146, CJM1_0147, CJM1_0147, CJM1_0148, trxB ","both up and down regulation ","rearrangement betweenM1 and 414"]
["ROD-5",11168,129439,130656,"129439:130656","MW:44006",121,"CJM1_0121","upregulation ","deletion in 11168"]
["ROD-5 A",1336,145396,148069,"145396:148069","MW:101719","0138-0139","CJM_0138, CJM1_0139","downregulation "]
["ROD-5 B",1336,155116,157789,"155116:157789","MW:96941","0146-0148","CJM1_0146, CJM1_0147, CJM1_0148","upregulation "]
[]
["ROD-6",1336,207118,210763,"207118:210763","MW:129790","0203-0206","CJM1_0203, CJM1_0204, CJM1_0205, CJM1_0205, CJM1_0206","upregulation"]
["ROD-6",414,207607,210928,"207607:210928","MW:117452","0203-0206","CJM1_0203, CJM1_0204, CJM1_0205, CJM1_0205, CJM1_0206","upregulation"]
[]
["ROD-7",1336,240652,242596,"240652:242596","MW:68998",245,"CJM1_0245","no sig change "]
["ROD-7",414,240655,247135,"240655:247135","MW:234046","0245-0249","CJM1_0245, zupT, zupT, torZ, torC","up and downregulation ","indel in 414"]
[]
["ROD-8",414,267992,274391,"267992:274391","MW:229568","0272-0279","peb3, CJM1_0273, CJM1_0274, surE, CJM1_0277, CJM1_0278","mainly upregulated ","variation in 414"]
["ROD-8",1336,268127,274202,"268127:274202","MW:218873","0272-0279","peb3, CJM1_0273, CJM1_0274, surE, CJM1_0277, CJM1_0278","mainly upregulated ","insertions and variations compared to 1336"]
["ROD-8",11168,270600,283800,"270600:283800","MW:477584","0275-0293","surE, CJM1_0276, CJM1_0277, CJM1_0278, modC, modB, CJM1_0281, modA, bioC, CJM1_0284, bioF, CJM1_0286, bioA, bioD, CJM1_0289, CJM1_0290, rply, pth, CJM1_0293","mainly upregulated, some downregulation ","variable region compared to 11168"]
[]
["ROD-9",414,308411,310841,"308411:310841","MW:89685","0319-0320","CJM1_0319, CJM1_0320","some upregulation "]
[]
["ROD-10",414,380206,408070,"380206:408070","MW:1003198","0392-0423","CJM1_0392-CJM1_0409, murD, mraY, gpmI, fabG, CJM1_0420, sdhA, sdhB, sdhC","both up and downregulation "]
["ROD-10",11168,386009,387469,"386009:387469","MW:53963","0401-0403","CJM1_0401, CJM1_0402, CJM1_0403","mainly upregulated","variation in 11168"]
["ROD-10 A",1336,386575,387304,"386575:387304","MW:27279",402,"CJM1_0402","both up and down ","insertion compared to 1336"]
["ROD-10 B",1336,392893,399454,"392893:399454","MW:234075","-","rRNA ","no data ","insertion compared to 1336"]
[]
["ROD-11",414,417790,419167,"417790:419167","MW:51177",435,"thiC","some downregulation "]
[]
["ROD-12",1336,454615,462148,"454615:462148","MW:269815","0476-0481","ybbB, CJM1_0477, CJM1_0478, CJM1_0479, CJM1_0480, hemH","no sig change, hemH down ","insertion compared to1336"]
["ROD-12",414,454953,462243,"454953:462243","MW:256773","0476-0481","CJM1_0477, CJM1_0478, CJM1_0479, CJM1_0480, hemH",null,"deletion in 414"]
["ROD-12",11168,454953,462243,"454953:462243","MW:256773","0476-0481","CJM1_0477, CJM1_0478, CJM1_0479, CJM1_0480, hemH",null,"deletion in 11168"]
[]
["ROD-13",1336,510019,512206,"510019:512206","MW:75374","0527-0529","CJM1_0527, CJM1_0528, CJM1_0529","no sig change ","insertion compared to1336"]
["ROD-13",414,510019,512206,"510019:512206","MW:75374","0527-0529","CJM1_0527, CJM1_0528, CJM1_0529",null,"insertion compared to 414"]
[]
["ROD-14",1336,522169,527272,"522169:527272","MW:183637","0538-0546","CJM1_0538- CJM1_0546","some change "]
["ROD-14",414,522169,527272,"522169:527272","MW:183637","0538-0546","CJM1_0538- CJM1_0546",null,"deletion in 414"]
["ROD-14",11168,522580,525660,"522580:525660","MW:114355","0540-0543","CJM1_0540-CJM1_0543","no sig change ","deletion in 11168"]
[]
["ROD-15",414,542072,542639,"542072:542639","MW:19861",564,"CJM1_0564","some downregulation ","deletion in 414"]
[]
["ROD-16",414,556085,556328,"556085:556328","MW:8922",580,"dsdD","no sig change ","deletion in 414, inside gene"]
[]
["ROD-17",11168,580972,581865,"580972:581865","MW:32200",604,"CJM1_0604","strongly downregulated","variation in 11168"]
["ROD-17",1336,581485,582457,"581485:582457","MW:35378","04-0605","CJM1_0604, holA","strongly downregulated, no change in holA"]
[]
["ROD-18",414,619575,625812,"619575:625812","MW:222176","0644-0649","CJM1_0644, kdpA, kdpB, CJM1_0647, CJM1_0649","mainly downregulated","deletion in 414"]
[]
["ROD-19",11168,630814,641020,"630814:641020","MW:372387","0655-0666","CJM1_0655-CJM1_0666","mainly upregulated","deletion in 11168",null,"number of hypotheticals now annotated "]
["ROD-19",1336,630814,641020,"630814:641020","MW:372387","0655-0666","CJM1_0655-CJM1_0666","mainly upregulated"]
["ROD-19",414,636303,641244,"636303:641244","MW:178860","0660-0666","CJM1_0660-CJM1_0666","upregulated ","deletion in 414"]
[]
["ROD-20",1336,681115,702256,"681115:702256","MW:766081","0710-0723","CJM1_0710, glpQ-2, CJM1_712, CJM1_0713, CJM1_0714, potA, CJM1_0716, hisJ, CJM1_0718-CJM1_0723 ","mainly upregulated, hisJ is downregulated"]
["ROD-20",414,688103,702683,"688103:702683","MW:524177","0718-0723","CJM1_0718-CJM1_0723","upregulated","deletion in 414"]
["ROD-20",11168,691587,693370,"691587:693370","MW:64792",721,"CJM1_0721","upregulated","deletion in 11168"]
["ROD-20",11168,702604,703740,"702604:703740","MW:39562",730,"CJM1_0730","upregulated","difference in 11168"]
[]
["ROD-21",414,717101,721070,"717101:721070","MW:144331","CDS","tetM","no data ","deletion in 414"]
["ROD-21",11168,717101,721070,"717101:721070","MW:144331","CDS","tetM","no data ","deletion in 11168"]
["ROD-21",1336,717444,720846,"717444:720846","MW:127454","CDS","tetM","no data "]
[]
["ROD-22",414,744884,747719,"744884:747719","MW:100308","0770-0771","CJM1_0770, murF","upregulated ","deletion in 414"]
[]
["ROD-23",1336,765620,766592,"765620:766592","MW:35486",791,"CJM1_0791","no sig change "]
["ROD-23",1336,765620,766592,"765620:766592","MW:35486",791,"CJM1_0791","no sig change "]
[]
["ROD-24",414,805715,806687,"805715:806687","MW:34910","0831-0832","fspA1, CJM1_0832","upregulated"]
["ROD-24",414,805715,806687,"805715:806687","MW:34910","0831-0832","fspA1, CJM1_0832","upregulated"]
[]
["ROD-25",414,810109,816265,"810109:816265","MW:220155","0837-0842","dsbA, dsbB, astA, CJM1_0840, dsbA, CJM1_0842","mainly downregulated","indel in 414"]
[]
["ROD-26",414,843076,844210,"843076:844210","MW:40581",869,"CJM1_0869","downregulated"]
[]
["ROD-27",414,847207,847612,"847207:847612","MW:14990",873,"CJM1_0873","upregulated"]
[]
["ROD-28",414,873764,880730,"873764:880730","MW:246220","0902-0909","CJM1_0902-CJM1_0909","upregulated","deletion in 414","plasmid related? ","http://jb.asm.org/content/186/14/4781.full"]
["ROD-28",11168,873967,879801,"873967:879801","MW:208105","0902-0909","CJM1_0902-CJM1_0908","upregulated","deletion in 11168","putatives/uncharacterised"]
[]
["ROD-29",1336,912219,918780,"912219:918780","MW:235998","0944-0950","CJM1_0944-CJM1_0950","mainly no sig change, some upregulation"]
["ROD-29",414,912219,918780,"912219:918780","MW:235998","0944-0947","CJM1_0944-CJM1_0947","mainly no sig change, some upregulation","deletion in 414"]
["ROD-29",11168,917699,918915,"917699:918915","MW:44304","0948-0950","CJM1_0948-CJM1_0950","upregulated","deletion in 11168"]
[]
["ROD-30",414,928399,930181,"928399:930181","MW:66091","0961-0963","CJM1_0961-CJM_0963",null,"indel in 414"]
[]
["ROD-31",414,946057,946867,"946057:946867","MW:28680",980,"CJM1_0980","both up and downregulated"]
[]
["ROD-32",1336,989007,993624,"989007:993624","MW:169868","1023-1026","CJM1_1023-1025, hsdM4","downregulated "]
["ROD-32",11168,989007,993624,"989007:993624","MW:169868","1023-1026","CJM1_1023-1025, hsdM4",null,"deletion in 11168"]
[]
["ROD-33",11168,1079401,1096656,"1079401:1096656","MW:630020","1113-1131","CJM1_1113, rmlA1, rmlAB, CJM1_1116-1123, cgtA, CJM1_1125-1127, waaV, waaF, CJM1_1130, CJM1_1131","both up and down ","variable region in11168"]
["ROD-33",1336,1079401,1097871,"1079401:1097871","MW:674394","1113-1132","CJM1_1113, rmlA1, rmlAB, CJM1_1116-1123, cgtA, CJM1_1125-1127, waaV, waaF, CJM1_1130, CJM1_1131, gmhA"]
["ROD-33",414,1079401,1097871,"1079401:1097871","MW:674394","1113-1132","CJM1_1113, rmlA1, rmlAB, CJM1_1116-1123, cgtA, CJM1_1125-1127, waaV, waaF, CJM1_1130, CJM1_1131, gmhA"]
[]
["ROD-34",414,1106398,1130212,"1106398:1130212","MW:856168","1142-1169","CJM1_1142-1148, ldh, CJM1_1150, CJM1_1151, omp50, ppiB, CJM1_1154, CJM1_1155, CJM1_1156, argS, tatA, gmk, CJM1_1160, fliR, CJM1_1162, tsf, rpsB, cfa, petC, petB, petA, arsB, ","both up and down regulation, pet genes are downregulated ","region of variations"]
[]
["ROD-35",1336,1142824,1148170,"1142824:1148170","MW:195324","1180-1184","luxS, CJM1_1181, CJM1_1182, metE, metF, ","upregulation "]
[]
["Rod-36",1336,1243514,1265627,"1243514:1265627","MW:793138","12787-1297","CJM1_1278-1280, acp4, CJM1_1282, neuA, pseG, pseH, CJM1_1286, hisF2, hisH1, pseA, pseI, maf3, maf-3, maf-4, flaA, CJM1_1295, flaB, maf-5, ","both up and down ","variations betweenM1and 1336"]
["ROD-36",414,1243514,1265627,"1243514:1265627","MW:793138","12787-1297","CJM1_1278-1280, acp4, CJM1_1282, neuA, pseG, pseH, CJM1_1286, hisF2, hisH1, pseA, pseI, maf3, maf-3, maf-4, flaA, CJM1_1295, flaB, maf-5, ",null,"variations betweenM1and 414"]
["ROD-36",11168,1243514,1265627,"1243514:1265627","MW:793138","12787-1297","CJM1_1278-1280, acp4, CJM1_1282, neuA, pseG, pseH, CJM1_1286, hisF2, hisH1, pseA, pseI, maf3, maf-3, maf-4, flaA, CJM1_1295, flaB, maf-5, ",null,"variations betweenM1and 11168"]
[]
["ROD-37",414,1285013,1287363,"1285013:1287363","MW:81124",1321,"CJM1_1321"]
["ROD-37",11168,1285013,1287363,"1285013:1287363","MW:81124",1321,"CJM1_1321",null,"deletion in 11168"]
[]
["ROD-38",414,1320248,1323245,"1320248:1323245","MW:106336","1353-1355","CJM1_1353, CJM1_1354, feoB"]
[]
["ROD39",1336,1337798,1358453,"1337798:1358453","MW:745987","1372-1389","CJM1_1372-1374, hemY, CJM1_1376-1378, rfbH, rfbF, CJM1_1381, CJM1_1382, glf, exoB, udg, uxs1, CJM1_1387-1389"]
["ROD-39",11168,1337798,1358453,"1337798:1358453","MW:745987","1372-1389","CJM1_1372-1374, hemY, CJM1_1376-1378, rfbH, rfbF, CJM1_1381, CJM1_1382, glf, exoB, udg, uxs1, CJM1_1387-1389","mostly downregulated","variation in 11168, low GC region in 11168"]
[]
["ROD-40",414,1431583,1469817,"1431583:1469817","MW:1374298","1464-1500","cas2, cas1, CJM1_1466, csn1, CJM1_1468, CJM1_1469, purM, coaE, dapF, CJM1_1474, dps, pgi, galU, acsA, CJM1_1479, CJM1_1480, CJM1_1481, lamB, CJM1_1483-1485, mdaB, ytcD, CJM1_1488, cad, hsdR, rloA, rloB, hsdS, hsdM, CJM1_1495-1497, arsR, CJM1_1499, CJM1_1500","both up and down ","region of variation to 414"]
["ROD-40",1336,1455097,1469434,"1455097:1469434","MW:509570","1488-1500","CJM1_1488, cad, hsdR, rloA, rloB, hsdS, hsdM, CJM1_1495-1497, arsR, CJM1_1499, CJM1_1500",null,"region of variation between M1 and 1336"]
["ROD-40",11168,1456606,1466490,"1456606:1466490","MW:367940","1490-1497","hsdR, rloA, rloB, hsdS, hsdM, CJM1_11495-1497",null,"variation in 11168"]
[]
["ROD-41",414,1490269,1494967,"1490269:1494967","MW:170389","1521-1524","dmsA, dmsB, dmsC, torD, ","downregulated","deletion in 414"]
["ROD-41",11168,1490269,1494967,"1490269:1494967","MW:170389","1521-1524","dmsA, dmsB, dmsC, torD, ",null,"variation in 11168"]
[]
["ROD-42",414,1531857,1536312,"1531857:1536312","MW:159595","1568-1574","CJM1_1568, exbB, exbD, CJM1_1572-1574",null,"indels in 414"]
[]
["ROD-43",414,1582198,1587546,"1582198:1587546","MW:191921","1631-1637","CJM1_1630-1637","some upregulation "]
["ROD-43",11168,1582198,1587546,"1582198:1587546","MW:191921","1631-1637","CJM1_1630-1637",null,"deletion in 11168"]
[]
["ROD-44",11168,1602976,1605327,"1602976:1605327","MW:84289","1664-1667","CJM1_1664, new CDS, CJM1_1667","some upregulation ","variable region in11168"]
["ROD-44",414,1603096,1603906,"1603096:1603906","MW:29820",1664,"CJM1_1664","no sig change "]
[]
["ROD-45",414,1611844,1612492,"1611844:1612492","MW:23856",1676,"CJM1_1676","no sig change "]