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
A2 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	723,576	A→G	V280A (GTC→GCC)	kdpD ←	fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	723,576	0	A	G	97.4%	128.3 / NA	38	V280A (GTC→GCC)	kdpD	fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein
Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (20/17); total (20/18)
Fisher's exact test for biased strand distribution p-value = 4.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAGGCGCGCATTTG  >  NC_000913/723432‑723718

aCCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTAc                                                                                                                                          >  1:197535/1‑151 (MQ=255)

aCCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTAc                                                                                                                                          >  2:32942/1‑151 (MQ=255)

 ccGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTAcc                                                                                                                                         >  1:500171/1‑151 (MQ=255)

       tctcTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCg                                                                                                                                   >  1:124209/1‑151 (MQ=255)

       tctcTTCCGCTGGATCAGAAAGTGTTACCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGcc                                                                                                                                    <  2:161781/150‑1 (MQ=255)

        ctctTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCg                                                                                                                                   >  1:434806/1‑150 (MQ=255)

         tctTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTg                                                                                                                                 >  1:350889/1‑151 (MQ=255)

               gCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCa                                                                                                                           <  1:39202/151‑1 (MQ=255)

                   gATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAgccg                                                                                                                       <  2:275360/151‑1 (MQ=255)

                         aaaGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAgccgcgccgc                                                                                                                 >  2:246892/1‑151 (MQ=255)

                           aGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTg                                                                                                               <  2:397128/151‑1 (MQ=255)

                                   cGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAcc                                                                                                       >  2:255314/1‑151 (MQ=255)

                                   cGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAcc                                                                                                       >  2:431567/1‑151 (MQ=255)

                                        ccGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAg                                                                                                     <  1:538776/148‑1 (MQ=255)

                                        ccGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGt                                                                                                    <  2:162266/149‑1 (MQ=255)

                                                aGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTCCCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGc                                                                                          >  2:75716/1‑151 (MQ=255)

                                                              aCGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg                                                                            >  2:106198/1‑151 (MQ=255)

                                                              aCGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg                                                                            <  2:566049/151‑1 (MQ=255)

                                                              aCGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg                                                                            <  2:500161/151‑1 (MQ=255)

                                                                  aaGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATg                                                                         <  1:75716/150‑1 (MQ=255)

                                                                        cTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATaaa                                                                   >  2:253773/1‑150 (MQ=255)

                                                                          gagaATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATCCACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCGGCCGGTGTTATGGCCGATGCATaaaa                                                                  <  1:339883/149‑1 (MQ=255)

                                                                          gagaATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAgg                                                                >  1:393643/1‑151 (MQ=255)

                                                                            gaATTGCCCGACGTTTTTTTTCCGGTAAGCGGCGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGa                                                               >  2:282330/1‑150 (MQ=255)

                                                                             aaTTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGAtc                                                             >  2:313283/1‑151 (MQ=255)

                                                                              aTTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGAtcg                                                            <  2:525675/151‑1 (MQ=255)

                                                                                 gCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGAtcgcgt                                                         <  1:253780/151‑1 (MQ=255)

                                                                                  cccGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGAtcgcgtc                                                        >  1:236523/1‑151 (MQ=255)

                                                                                             ttgtCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCTATGCATAAAAGGAGCGCGTCGCGCgt                                                  <  2:48208/143‑1 (MQ=255)

                                                                                                 ccGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCcaca                                          <  1:388413/150‑1 (MQ=255)

                                                                                                        gCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTctct                                  >  2:102240/1‑151 (MQ=255)

                                                                                                                 ggcagggGTTTCAACATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAgg                          >  2:632334/1‑150 (MQ=255)

                                                                                                                             aaCATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGcc               >  2:613182/1‑149 (MQ=255)

                                                                                                                             aaCATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCa              <  2:209718/150‑1 (MQ=255)

                                                                                                                              aCATACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAgg            >  1:348731/1‑151 (MQ=255)

                                                                                                                                aTACACCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCTCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGAGCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAGgc           <  1:338065/150‑1 (MQ=255)

                                                                                                                                   cacCGCGTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAGgcgcgc       <  1:32942/151‑1 (MQ=255)

                                                                                                                                         gTGCCAGGCGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAGGCGCGCATTTg  <  1:257179/150‑1 (MQ=255)

ACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCATAAAAGGATCGCGTCGCGCGTGTGCCACACTTTCTCTTCGCCAGGATGCCCCCGCCAGGCGCGCATTTG  >  NC_000913/723432‑723718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A