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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,332,869	C→T	R135H (CGC→CAC)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,332,869	0	C	T	100.0%	149.1 / NA	46	R135H (CGC→CAC)	basS	sensory histidine kinase in two‑component regulatory system with BasR
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/25); total (21/25)

TGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTG  >  NC_000913/4332742‑4333000

tGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGa                                                                                                                          <  1:201332/139‑1 (MQ=255)

          aTGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACg                                                                                                                >  1:1055429/1‑139 (MQ=255)

          aTGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACg                                                                                                                >  1:19203/1‑139 (MQ=255)

            gtgATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTTAGGTGACTGACCAGATCGTTTAACGcc                                                                                                              <  1:814335/139‑1 (MQ=255)

                     tttCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAaccacc                                                                                                     >  1:624187/1‑139 (MQ=255)

                       tCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGc                                                                                                   >  1:682407/1‑139 (MQ=255)

                            agcagTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGa                                                                                              >  1:1274687/1‑139 (MQ=255)

                            agcagTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGa                                                                                              >  1:534399/1‑139 (MQ=255)

                                     aGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     <  2:431914/139‑1 (MQ=255)

                                          cAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                <  2:682407/139‑1 (MQ=255)

                                           aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGa                                                                                                                                   <  2:71100/87‑1 (MQ=255)

                                           aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcgc                                                                               <  2:1274687/139‑1 (MQ=255)

                                           aaaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcgc                                                                               <  2:534399/139‑1 (MQ=255)

                                            aaCGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCt                                                                              <  1:511333/139‑1 (MQ=255)

                                                   ccccGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGtgactgac                                                                                                                              <  1:1107892/84‑1 (MQ=255)

                                                   ccccGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGtgactgac                                                                                                                              >  2:1107892/1‑84 (MQ=255)

                                                       gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          >  2:343373/1‑116 (MQ=255)

                                                       gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          <  1:343373/116‑1 (MQ=255)

                                                       gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCaa                                                                   <  1:682032/139‑1 (MQ=255)

                                                       gCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCaa                                                                   <  2:136281/139‑1 (MQ=255)

                                                        ccAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAAt                                                                  <  2:1055429/139‑1 (MQ=255)

                                                           gTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATggg                                                               >  1:361195/1‑139 (MQ=255)

                                                                 ttCGCAGTTCGTGCGCGACGTCAGCGGTAAACGACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         >  1:812417/1‑139 (MQ=255)

                                                                   cGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGt                                                       >  2:224857/1‑139 (MQ=255)

                                                                           gTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGttt                                                                                                                    >  1:704277/1‑70 (MQ=255)

                                                                           gTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGttt                                                                                                                    <  2:704277/70‑1 (MQ=255)

                                                                                cgACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcg                                          <  2:624187/139‑1 (MQ=255)

                                                                                      cAGCGGTAGACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTc                                    <  2:812417/139‑1 (MQ=255)

                                                                                          ggTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGc                                <  2:323326/139‑1 (MQ=255)

                                                                                                       tCGTTATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCt                   <  1:411818/139‑1 (MQ=255)

                                                                                                          ttATCCAGCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCg                >  1:260996/1‑139 (MQ=255)

                                                                                                                 gCGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAgcgg         >  1:832775/1‑139 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACTAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     >  2:1024882/1‑62 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACTAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAggg                                                                                     <  1:1024882/62‑1 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGa                                                                          <  2:502709/73‑1 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGa                                                                          >  1:502709/1‑73 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcgc                                         >  2:99320/1‑106 (MQ=255)

                                                                                                                  cGTGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTgcgc                                         <  1:99320/106‑1 (MQ=255)

                                                                                                                    tGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          >  1:830897/1‑55 (MQ=255)

                                                                                                                    tGCTGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTc                                                                                          <  2:830897/55‑1 (MQ=255)

                                                                                                                       tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         >  2:484796/1‑85 (MQ=255)

                                                                                                                       tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTaa                                                         <  1:484796/85‑1 (MQ=255)

                                                                                                                       tGGTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGt   >  2:1143036/1‑139 (MQ=255)

                                                                                                                        ggTCAGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTg  <  1:224857/139‑1 (MQ=255)

                                                                                                                            aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCt                                                                                                  <  2:247190/39‑1 (MQ=255)

                                                                                                                            aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCt                                                                                                  >  1:247190/1‑39 (MQ=255)

                                                                                                                            aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                <  1:937769/57‑1 (MQ=255)

                                                                                                                            aGGTGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg                                                                                >  2:937769/1‑57 (MQ=255)

TGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCGCTGTGAATGGCAATGGGCGTTAAGTTGTCGGCGGTGCGCGCTTCCAGCTCTTTTTGCAGCTCCGCCAGCGGGCGGGTG  >  NC_000913/4332742‑4333000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A