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
A6 F28 I1 R1	191	83.5	2830284	99.3%	2810472	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,775,114	T→C	H143H (CAT→CAC)	aroD →	3‑dehydroquinate dehydratase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,775,114	0	T	C	98.2%	193.0 / ‑4.3	56	H143H (CAT→CAC)	aroD	3‑dehydroquinate dehydratase
Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (32/23); total (33/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.80e-01

TTGCACTCAATCGTGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCATGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCCGCGA  >  NC_000913/1774978‑1775247

ttGCACTCAATCGTGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGAc                                                                                                                                    <  1:853091/140‑1 (MQ=255)

      tCAATCGAGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCAt                                                                                                                              >  2:539398/1‑140 (MQ=255)

        aaTCGTGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATaa                                                                                                                            >  2:544158/1‑140 (MQ=255)

          tCGTGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATaaaa                                                                                                                          >  1:11321/1‑140 (MQ=255)

                  ccATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGaa                                                                                                                  >  2:110876/1‑140 (MQ=255)

                    aTCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGc                                                                                                                >  1:1102916/1‑140 (MQ=255)

                     tCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGcc                                                                                                               <  1:363318/140‑1 (MQ=255)

                      cGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCg                                                                                                              >  2:1150242/1‑140 (MQ=255)

                       gACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCga                                                                                                             >  1:798125/1‑140 (MQ=255)

                            cGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGaaa                                                                                                        >  1:1177456/1‑140 (MQ=255)

                               ccTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCa                                                                                                     <  2:1084660/140‑1 (MQ=255)

                                  ggTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTg                                                                                                  <  1:539398/140‑1 (MQ=255)

                                       atatGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGt                                                                                             <  1:696829/140‑1 (MQ=255)

                                        tatGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTc                                                                                            >  1:493206/1‑140 (MQ=255)

                                             tcgatcTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTgcgc                                                                                       >  1:941968/1‑140 (MQ=255)

                                             tcgatcTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTgcgc                                                                                       >  1:1162643/1‑140 (MQ=255)

                                              cgatcTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCa                                                                                      <  2:832834/140‑1 (MQ=255)

                                                      aGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTgcg                                                                                        <  2:260721/130‑1 (MQ=255)

                                                      aGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTgcg                                                                                        >  1:260721/1‑130 (MQ=255)

                                                          aTTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCt                                                                          >  1:970949/1‑140 (MQ=255)

                                                           tttACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTTCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCtt                                                                         <  2:556969/140‑1 (MQ=255)

                                                           tttACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCtt                                                                         >  2:492464/1‑140 (MQ=255)

                                                           tttACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCtt                                                                         >  2:443335/1‑140 (MQ=255)

                                                                    gatgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGa                                                                <  1:544158/140‑1 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               <  2:1162643/140‑1 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               <  2:941056/140‑1 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               <  2:1177456/140‑1 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               >  2:1327799/1‑140 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               >  1:372621/1‑140 (MQ=255)

                                                                     atgatCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               >  2:1019574/1‑140 (MQ=255)

                                                                          cAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTcc                                                          <  1:492464/140‑1 (MQ=255)

                                                                             gTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               >  2:14165/1‑132 (MQ=255)

                                                                             gTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               <  1:14165/132‑1 (MQ=255)

                                                                             gTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTag                                                       <  1:1150242/140‑2 (MQ=255)

                                                                                      aCCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCATGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCT‑AGATTGCGCTg                                             >  1:543872/1‑140 (MQ=255)

                                                                                       ccGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               >  1:64060/1‑122 (MQ=255)

                                                                                       ccGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGat                                                               <  2:64060/122‑1 (MQ=255)

                                                                                           cGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGc                                         <  2:146039/140‑1 (MQ=255)

                                                                                            gCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGa                                            >  1:256190/1‑136 (MQ=255)

                                                                                            gCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGa                                            <  2:256190/136‑1 (MQ=255)

                                                                                                aCGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCaa                                    <  2:941968/140‑1 (MQ=255)

                                                                                                     cACGCGCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTAc                               >  1:792598/1‑140 (MQ=255)

                                                                                                       cgcgCATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCa                             >  1:710708/1‑140 (MQ=255)

                                                                                                          gcATGATGTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCg                          <  1:443335/140‑1 (MQ=255)

                                                                                                            atgatgTGAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCACGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTAATGCCGCAAAGTACCAGCGAt                        >  2:1285640/1‑140 (MQ=255)

                                                                                                                  tgAAAGTAGTCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTg                  <  2:238744/140‑1 (MQ=255)

                                                                                                                      agtagtCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGt              >  2:571332/1‑140 (MQ=255)

                                                                                                                         agtCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGttgc           >  1:85188/1‑140 (MQ=255)

                                                                                                                          gtCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGttgct          >  2:334611/1‑140 (MQ=255)

                                                                                                                          gtCATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGttgct          >  2:63675/1‑140 (MQ=255)

                                                                                                                            cATGTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGttgcttg        >  1:758463/1‑140 (MQ=255)

                                                                                                                               gTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCcg     <  2:11321/140‑1 (MQ=255)

                                                                                                                               gTCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCcg     >  1:461859/1‑140 (MQ=255)

                                                                                                                                tCCAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCcgc    >  1:590734/1‑140 (MQ=255)

                                                                                                                                 ccAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCcgcg   >  2:1171437/1‑140 (MQ=255)

                                                                                                                                  cAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCCGCGa  >  1:174921/1‑140 (MQ=255)

                                                                                                                                  cAACCACGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCCGCGa  <  1:110876/140‑1 (MQ=255)

TTGCACTCAATCGTGCAGCCATCGACAGCGGCCTGGTTGATATGATCGATCTGGAGTTATTTACCGGTGATGATCAGGTTAAAGAAACCGTCGCCTACGCCCACGCGCATGATGTGAAAGTAGTCATGTCCAACCATGACTTCCATAAAACGCCGGAAGCCGAAGAAATCATTGCCCGTCTGCGCAAAATGCAATCCTTCGACGCCGATATTCCTAAGATTGCGCTGATGCCGCAAAGTACCAGCGATGTGCTGACGTTGCTTGCCGCGA  >  NC_000913/1774978‑1775247

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A