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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,905,532	T→C	intergenic (‑114/‑25)	queE ← / → yqcG	7‑carboxy‑7‑deazaguanine synthase, queosine biosynthesis/membrane stress resistance protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,905,532	0	T	C	100.0%	211.3 / NA	59	intergenic (‑114/‑25)	queE/yqcG	7‑carboxy‑7‑deazaguanine synthase, queosine biosynthesis/membrane stress resistance protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (28/31); total (28/31)

CTCGTTAATCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTTAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTATTTTTTCTGTATTA  >  NC_000913/2905398‑2905634

ctcGTTAATCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTcaata                                                                                                    >  2:930929/1‑139 (MQ=255)

ctcGTTAATCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTcaata                                                                                                    >  1:580937/1‑139 (MQ=255)

ctcGTTAATCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTcaata                                                                                                    >  1:484596/1‑139 (MQ=255)

      aaTCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTATAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              <  1:930929/139‑1 (MQ=255)

      aaTCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              <  1:1080526/139‑1 (MQ=255)

          gggTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGa                                                                                          <  2:180149/139‑1 (MQ=255)

            gTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGt                                                                                        <  2:484596/139‑1 (MQ=255)

             tACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTa                                                                                       <  1:904362/139‑1 (MQ=255)

              aCTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      <  1:1030571/139‑1 (MQ=255)

              aCTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      <  1:319154/139‑1 (MQ=255)

                      gCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGtattat                                                                              >  2:1326356/1‑139 (MQ=255)

                       cATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTa                                                                                       <  2:337128/129‑1 (MQ=255)

                       cATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTa                                                                                       >  1:337128/1‑129 (MQ=255)

                          tctcTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              >  2:994010/1‑119 (MQ=255)

                          tctcTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              <  1:994010/119‑1 (MQ=255)

                               gtgAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAAtt                                                                                                 >  2:624244/1‑111 (MQ=255)

                               gtgAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAAtt                                                                                                 <  1:624244/111‑1 (MQ=255)

                                 gAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGaaa                                                                   >  2:274860/1‑139 (MQ=255)

                                      ggATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAgg                                                                                            >  2:1429825/1‑109 (MQ=255)

                                      ggATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAgg                                                                                            <  1:1429825/109‑1 (MQ=255)

                                      ggATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATaaa                                                              <  1:612905/139‑1 (MQ=255)

                                            ttGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAGGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              >  2:957611/1‑101 (MQ=255)

                                            ttGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAGGAAAAATGCGAAACATATCGTCAATAATTaaa                                                                                              <  1:957611/101‑1 (MQ=255)

                                                 aaTTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGt                                                                                        <  1:293256/102‑1 (MQ=255)

                                                 aaTTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGt                                                                                        >  2:293256/1‑102 (MQ=255)

                                                 aaTTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTa                                                                                       <  1:34120/103‑1 (MQ=255)

                                                 aaTTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTa                                                                                       >  2:34120/1‑103 (MQ=255)

                                                 aaTTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGAtt                                                   >  2:615697/1‑139 (MQ=255)

                                                     attGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAAt                                               <  1:615697/139‑1 (MQ=255)

                                                     attGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAAt                                               <  1:1326356/139‑1 (MQ=255)

                                                     attGCAGATCCTGCCACAACAATCATGTCTTAATAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGGCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAAt                                               <  1:274860/139‑1 (MQ=255)

                                                      ttGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAgg                                                                                            <  2:451623/93‑1 (MQ=255)

                                                      ttGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAgg                                                                                            >  1:451623/1‑93 (MQ=255)

                                                              ccTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCaaa                                      >  2:604949/1‑139 (MQ=255)

                                                                 gCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGa                                                                                          <  1:736295/84‑1 (MQ=255)

                                                                 gCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGa                                                                                          >  2:736295/1‑84 (MQ=255)

                                                                 gCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACa                                   >  2:1192465/1‑139 (MQ=255)

                                                                 gCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACa                                   >  1:201651/1‑139 (MQ=255)

                                                                           tCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCaaaa                         >  1:807610/1‑139 (MQ=255)

                                                                           tCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCaaaa                         >  1:82442/1‑139 (MQ=255)

                                                                            cATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      <  2:101989/77‑1 (MQ=255)

                                                                            cATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      >  1:101989/1‑77 (MQ=255)

                                                                                tCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATtata                    <  1:1033718/139‑1 (MQ=255)

                                                                                  ttattaACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCa                            <  1:251730/129‑1 (MQ=255)

                                                                                  ttattaACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCa                            >  2:251730/1‑129 (MQ=255)

                                                                                  ttattaACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTAtatt                  >  1:397618/1‑139 (MQ=255)

                                                                                    attaACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGtat                                                                                 <  1:1117151/74‑1 (MQ=255)

                                                                                    attaACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGtat                                                                                 >  2:1117151/1‑74 (MQ=255)

                                                                                        aCATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTAtttt            <  1:1192465/139‑1 (MQ=255)

                                                                                          aTTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTAtttttt          <  2:201651/139‑1 (MQ=255)

                                                                                            tCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGaaaa                                                         >  1:1550066/1‑90 (MQ=255)

                                                                                            tCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGaaaa                                                         <  2:1550066/90‑1 (MQ=255)

                                                                                            tCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTAttttt           <  1:1326288/136‑1 (MQ=255)

                                                                                            tCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTAttttt           >  2:1326288/1‑136 (MQ=255)

                                                                                              tGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCa                                             >  2:568742/1‑100 (MQ=255)

                                                                                              tGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCa                                             <  1:568742/100‑1 (MQ=255)

                                                                                                ttACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTGAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTATTTTTTCTGTAt    >  2:1004367/1‑139 (MQ=255)

                                                                                                  aCAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTATTTTTTCTGTATTa  >  2:1212020/1‑139 (MQ=255)

                                                                                                        aggTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGa                                                                                          >  2:1011846/1‑45 (MQ=255)

                                                                                                        aggTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGa                                                                                          <  1:1011846/45‑1 (MQ=255)

                                                                                                          gTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      >  1:784404/1‑47 (MQ=255)

                                                                                                          gTTTAAAGAAAAATGCGAAACATATCGTCAATAATTAAAGGGAGTaa                                                                                      <  2:784404/47‑1 (MQ=255)

CTCGTTAATCGGGTACTGCATAGCATTCTCTGTGAAGTGGATAATTGTTAATTATTGCAGATCCTGCCACAACAATCATGTCTTATTAACATTCTGTTACAGGCAGGTTTAAAGAAAAATGCGAAACATATCGTTAATAATTAAAGGGAGTAACGTATTATGTCAGAAGAAAATAAAGAAAATGGATTTAATCATGTCAAAACATTCACCAAAATTATATTTATTTTTTCTGTATTA  >  NC_000913/2905398‑2905634

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