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
A1 F1 I1 R1	773	79.9	4112934	92.2%	3792125	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,353,081	G→A	58 (TAG→TAA)	ghoT →	toxin of GhoTS toxin‑antitoxin pair, membrane‑lytic protein, stimulator of persister cell formation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,353,081	0	G	A	100.0%	158.7 / NA	50	58 (TAG→TAA)	ghoT	toxin of GhoTS toxin‑antitoxin pair, membrane‑lytic protein, stimulator of persister cell formation
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (28/22); total (28/22)

TGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAGGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATT  >  NC_000913/4352946‑4353200

tGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      <  2:1541163/139‑1 (MQ=255)

       aaCATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGt                                                                                                               >  2:1907493/1‑139 (MQ=255)

       aaCATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGCAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGt                                                                                                               >  1:1468266/1‑139 (MQ=255)

            atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      <  2:261926/127‑1 (MQ=255)

            atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      >  1:261926/1‑127 (MQ=255)

            atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                          >  2:197742/1‑139 (MQ=255)

            atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                          >  1:948633/1‑139 (MQ=255)

            atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                          >  1:1505716/1‑139 (MQ=255)

              ccTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTgg                                                                                                        <  2:948633/139‑1 (MQ=255)

                  tGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCAGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   >  2:915627/1‑124 (MQ=255)

                  tGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCAGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   <  1:915627/124‑1 (MQ=255)

                         aTCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAg                                                                                                           >  1:884757/1‑125 (MQ=255)

                         aTCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAg                                                                                                           <  2:884757/125‑1 (MQ=255)

                              gTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATAAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTa                                                                                                                 <  1:1812371/114‑1 (MQ=255)

                              gTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATAAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTa                                                                                                                 >  2:1812371/1‑114 (MQ=255)

                                    ctcACATGAGAAAACACATATTCGTTTGCTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   <  1:1260757/106‑1 (MQ=255)

                                    ctcACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACg                                                                                  >  2:2000927/1‑139 (MQ=255)

                                    ctcACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACg                                                                                  >  1:775960/1‑139 (MQ=255)

                                    ctcACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTATGTCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   >  2:1260757/1‑106 (MQ=255)

                                     tcACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGa                                                                                 <  1:1907493/139‑1 (MQ=255)

                                       acaTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAg                                                                               <  1:1667484/139‑1 (MQ=255)

                                         aTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCt                                                                                                                    >  2:1480660/1‑100 (MQ=255)

                                         aTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCt                                                                                                                    <  1:1480660/100‑1 (MQ=255)

                                          tGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGt                                                                            <  2:775960/139‑1 (MQ=255)

                                             gaAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAg                                                                                                           >  1:387551/1‑105 (MQ=255)

                                             gaAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAg                                                                                                           <  2:387551/105‑1 (MQ=255)

                                                      tatTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      >  2:1883951/1‑85 (MQ=255)

                                                      tatTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      <  1:1883951/85‑1 (MQ=255)

                                                                   aGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCaaaa                                                                >  2:1013812/1‑126 (MQ=255)

                                                                   aGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCaaaa                                                                <  1:1013812/126‑1 (MQ=255)

                                                                    gTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGaa                                                  <  2:1505716/139‑1 (MQ=255)

                                                                     tGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                      <  1:1493894/86‑1 (MQ=255)

                                                                     tGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                      >  2:1493894/1‑86 (MQ=255)

                                                                     tGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAAc                                                 >  2:771435/1‑139 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTg                                                                                                         <  2:330626/78‑1 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTg                                                                                                         >  1:330626/1‑78 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGt                                                                                        <  2:776715/95‑1 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGt                                                                                        >  1:776715/1‑95 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGaaa                                                                                    <  2:670451/99‑1 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGaaa                                                                                    >  1:670451/1‑99 (MQ=255)

                                                                          tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTTGATTTGCGGAACGATGa                                            >  2:42310/1‑139 (MQ=255)

                                                                               gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAg                                                                                                                >  2:61694/1‑66 (MQ=255)

                                                                               gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAg                                                                                                                <  1:61694/66‑1 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      <  2:114562/45‑1 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      >  1:114562/1‑45 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   <  1:817024/48‑1 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTg                                                                                                                   >  2:817024/1‑48 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCg                                                     >  2:288541/1‑110 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCg                                                     <  1:288541/110‑1 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                     >  2:1023501/1‑126 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                     <  2:1084016/126‑1 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                     >  1:1084016/1‑126 (MQ=255)

                                                                                              ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                     <  1:1023501/126‑1 (MQ=255)

                                                                                                  tGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      >  2:1753737/1‑41 (MQ=255)

                                                                                                  tGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                      <  1:1753737/41‑1 (MQ=255)

                                                                                                        tGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGt                                                                            <  2:168152/77‑1 (MQ=255)

                                                                                                        tGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGt                                                                            >  1:168152/1‑77 (MQ=255)

                                                                                                              tgGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGt        >  1:1277483/1‑139 (MQ=255)

                                                                                                                    tACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAatt  >  2:1653007/1‑139 (MQ=255)

TGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAGGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATT  >  NC_000913/4352946‑4353200

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A