Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A3 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,494,950	T→C	Y85H (TAT→CAT)	ypdI →	putative lipoprotein involved in colanic acid biosynthesis

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,494,950	0	T	C	100.0%	215.2 / NA	61	Y85H (TAT→CAT)	ypdI	putative lipoprotein involved in colanic acid biosynthesis
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (28/33); total (28/33)

AAAAACATCAGCGATGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATTATCTTATTCATCCTGTGCGATAGCGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCACTACCGCCTGCCATACCCCACCATAAAGCGA  >  NC_000913/2494814‑2495080

aaaaaCATCAGCGATGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCAt                                                                                                                                  <  1:1261463/139‑1 (MQ=255)

aaaaaCATCAGCGATGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCAt                                                                                                                                  <  1:588525/139‑1 (MQ=255)

         aGCGATGACGACCACACACTCTACAAAACTTCAGCCTTCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCAt                                                                                                                         >  1:1259210/1‑139 (MQ=255)

             aTGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCtg                                                                                                                     <  1:1083104/139‑1 (MQ=255)

             aTGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCtg                                                                                                                     >  2:12960/1‑139 (MQ=255)

                      acacacTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATaac                                                                                                            <  1:58813/139‑3 (MQ=255)

                        acacTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGt                                                                                                          <  2:1119786/139‑1 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATcc                                                                                                                       <  2:38097/120‑1 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATcc                                                                                                                       >  1:38097/1‑120 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATc                                                                                                                        >  2:806960/1‑119 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATc                                                                                                                        <  1:806960/119‑1 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTca                                                                                                    >  1:86378/1‑139 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTca                                                                                                    >  2:933570/1‑139 (MQ=255)

                              tACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTca                                                                                                    >  1:1014853/1‑139 (MQ=255)

                                   aaCTTCAGCCTTCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATgg                                                                                               <  2:1259210/139‑1 (MQ=255)

                                   aaCTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATgg                                                                                               >  2:1047972/1‑139 (MQ=255)

                                      ttCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAg                                                                                            >  1:1261508/1‑139 (MQ=255)

                                      ttCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAg                                                                                            >  1:716789/1‑139 (MQ=255)

                                        cAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCa                                                                                                                          <  1:485073/107‑1 (MQ=255)

                                        cAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCa                                                                                                                          >  2:485073/1‑107 (MQ=255)

                                        cAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGt                                                                                          >  2:1089789/1‑139 (MQ=255)

                                         aGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTg                                                                                         <  2:86378/139‑1 (MQ=255)

                                          gCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGa                                                                                        <  1:348140/139‑1 (MQ=255)

                                           ccATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGaa                                                                                       <  2:1163748/139‑1 (MQ=255)

                                           ccATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGaa                                                                                       <  1:933570/139‑1 (MQ=255)

                                                    gCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGt                                                                              >  1:206941/1‑139 (MQ=255)

                                                      gATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTct                                                                            <  1:560078/139‑1 (MQ=255)

                                                       aTTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctg                                                                           >  1:145647/1‑139 (MQ=255)

                                                        ttttGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCAt                                                                                                                                  >  1:490890/1‑83 (MQ=255)

                                                        ttttGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctga                                                                          <  1:263224/139‑1 (MQ=255)

                                                          ttGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctgatg                                                                        <  1:12960/139‑1 (MQ=255)

                                                            gTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGActgatgct                                                                      <  1:1247537/139‑1 (MQ=255)

                                                             tttAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctgatgctg                                                                     <  2:188770/139‑1 (MQ=255)

                                                                  gATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGAtgtg                                                                <  2:206941/139‑1 (MQ=255)

                                                                          aagaTGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTg                                                        <  1:1089789/139‑1 (MQ=255)

                                                                               gcgcCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCaa                                                   <  2:1086188/139‑1 (MQ=255)

                                                                                cgcCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATc                                                                                                                        >  1:1050077/1‑69 (MQ=255)

                                                                                cgcCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATc                                                                                                                        <  2:1050077/69‑1 (MQ=255)

                                                                                  ccaccaTTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATa                                                                                                              <  1:1159632/77‑1 (MQ=255)

                                                                                  ccaccaTTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATa                                                                                                              >  2:1159632/1‑77 (MQ=255)

                                                                                     ccaTTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGc                                             <  1:1047972/139‑1 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGaa                                                                                       >  1:510992/1‑86 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGaa                                                                                       <  2:510992/86‑1 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAg                                              <  2:600214/127‑1 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAg                                              >  1:600214/1‑127 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGAccc                                  >  2:81988/1‑139 (MQ=255)

                                                                                                cacaGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGAccc                                  >  2:1290942/1‑139 (MQ=255)

                                                                                                      agaaATGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTAcc                            <  2:1261508/139‑1 (MQ=255)

                                                                                                        aaaTGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGc                          >  1:1129122/1‑139 (MQ=255)

                                                                                                           tGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAg                                              >  2:1336861/1‑116 (MQ=255)

                                                                                                           tGCCGCCCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAg                                              <  1:1336861/116‑1 (MQ=255)

                                                                                                             ccgccCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGcc                     >  2:370790/1‑139 (MQ=255)

                                                                                                              ctcccccTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCTTGACCCATTACCGCCTGCCa                    <  1:864354/137‑1 (MQ=255)

                                                                                                               gccCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctg                                                                           <  2:1420187/83‑1 (MQ=255)

                                                                                                               gccCCCTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTctg                                                                           >  1:1420187/1‑83 (MQ=255)

                                                                                                                 ccccTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATAc                 >  2:1474713/1‑139 (MQ=255)

                                                                                                                 ccccTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATAc                 >  1:1344610/1‑139 (MQ=255)

                                                                                                                   ccTTTTCCGACAAAGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATAccc               <  2:1129122/139‑1 (MQ=255)

                                                                                                                                aGGCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATACCCCACCATAAAGCGa  <  2:716789/139‑1 (MQ=255)

                                                                                                                                 ggCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATACCCCACCAt         >  1:613416/1‑131 (MQ=255)

                                                                                                                                 ggCGAATCATCTTATTCATCCTGTGCGATAACGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCATTACCGCCTGCCATACCCCACCAt         <  2:613416/131‑1 (MQ=255)

AAAAACATCAGCGATGACGACCACACACTCTACAAAACTTCAGCCATCACAGGCGATTTTGTTTAAGATGAGAGAAGATGCGCCACCATTAAACCTCACAGAAGAAATGCCGCCCCCTTTTCCGACAAAGGCGAATTATCTTATTCATCCTGTGCGATAGCGTCTTTCACATGGCAGGTGAACAATCATGTCTGATGCTGATGTGAACACCTGCCCAAATGAGCCATCCTGACCCACTACCGCCTGCCATACCCCACCATAAAGCGA  >  NC_000913/2494814‑2495080

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A