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 I1 R1	57	49.8	2216334	94.8%	2101084	113.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,437,231	(T)_9→8	intergenic (+2/+29)	micC → / ← pfo	sRNA antisense regulator of OmpC translation, Hfq‑dependent/pyruvate‑flavodoxin oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,437,223	0	T	.	100.0%	198.2 / NA	47	noncoding (103/109 nt)	micC	sRNA antisense regulator of OmpC translation, Hfq‑dependent
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (26/21); total (26/21)

ATTTGCTATACGTTATTCTGCGCGGGTTATATGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTT  >  NC_000913/1437096‑1437354

aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATCAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                                                                                                                          <  2:680039/139‑5 (MQ=255)

aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                                                                                                                          <  2:708919/139‑5 (MQ=255)

aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                                                                                                                          <  2:49529/139‑5 (MQ=255)

          cGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   >  2:872495/1‑135 (MQ=255)

          cGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   <  1:872495/135‑1 (MQ=255)

           gTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGCTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATcc                                                                                                              <  1:701075/139‑1 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  2:557768/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:862004/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  2:1023108/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  2:12732/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  2:470118/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:543175/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:408480/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  2:620164/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:304289/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:1091142/1‑139 (MQ=255)

                    cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga                                                                                                     >  1:954809/1‑139 (MQ=255)

                     gcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCagag                                                                                                    <  1:557768/139‑1 (MQ=255)

                                    ttATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                                                                                                                          >  1:910556/1‑99 (MQ=255)

                                    ttATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                                                                                                                          <  2:910556/103‑5 (MQ=255)

                                       ttGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCt                                                                                  <  2:543175/139‑1 (MQ=255)

                                          tCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       <  1:966917/115‑1 (MQ=255)

                                          tCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       >  2:966917/1‑115 (MQ=255)

                                                        ttCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCgg                                                                 <  1:1023108/139‑1 (MQ=255)

                                                        ttCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCgg                                                                 <  1:12732/139‑1 (MQ=255)

                                                            gTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCagag                                                                                                    >  2:624758/1‑100 (MQ=255)

                                                            gTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCagag                                                                                                    <  1:624758/100‑1 (MQ=255)

                                                            gTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       <  1:318873/97‑1 (MQ=255)

                                                            gTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       >  2:318873/1‑97 (MQ=255)

                                                                ggCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTtgt                                                         <  1:470118/139‑1 (MQ=255)

                                                                ggCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTtgt                                                         <  2:1091142/139‑1 (MQ=255)

                                                                  ccATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGc                                                       <  2:954809/139‑1 (MQ=255)

                                                                    attgcattgcCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCa                                                     <  2:304289/139‑1 (MQ=255)

                                                                           tgcCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTc                                              >  2:1083751/1‑139 (MQ=255)

                                                                               aCTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   <  1:805283/66‑1 (MQ=255)

                                                                               aCTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   >  2:805283/1‑66 (MQ=255)

                                                                                       tCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑‑TTTTTTTAAAATTGGATAATCCTTTTCCAGGACAATTAATCGGGGTTTGTTTTTTTCGGTTTTTCGGCCATTTTTTCCAGGAAGTCATAACGgtttttc                                 >  1:542043/1‑137 (MQ=255)

                                                                                           aCATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCtttt                                                                               >  1:955402/1‑90 (MQ=255)

                                                                                           aCATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCtttt                                                                               <  2:955402/90‑1 (MQ=255)

                                                                                            cATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAAt                             <  2:862004/139‑1 (MQ=255)

                                                                                               ataAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAg                          >  2:1041898/1‑139 (MQ=255)

                                                                                                       aCAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       <  2:816010/54‑1 (MQ=255)

                                                                                                       aCAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCa                                                                                                       >  1:816010/1‑54 (MQ=255)

                                                                                                       aCAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGt                                       <  2:644656/118‑1 (MQ=255)

                                                                                                       aCAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGt                                       >  1:644656/1‑118 (MQ=255)

                                                                                                       aCAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAACACTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTgccgca                  >  1:879625/1‑139 (MQ=255)

                                                                                                        cAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCAt                 <  1:1041898/139‑1 (MQ=255)

                                                                                                           gCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   <  2:104079/38‑1 (MQ=255)

                                                                                                           gCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                                                                                                                   >  1:104079/1‑38 (MQ=255)

                                                                                                                     tcgtcCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGt                                       <  1:42720/104‑1 (MQ=255)

                                                                                                                     tcgtcCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGt                                       >  2:42720/1‑104 (MQ=255)

                                                                                                                       gtcCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGtt  >  1:107555/1‑139 (MQ=255)

ATTTGCTATACGTTATTCTGCGCGGGTTATATGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTT  >  NC_000913/1437096‑1437354

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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