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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	723,528	(T)_8→9	coding (887/2685 nt)	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	723,520	1	.	T	100.0%	152.7 / NA	48	R299S (CGT→AGT)	kdpD	fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein
Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (22/26); total (22/26)

GGCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGA  >  NC_000913/723382‑723645

ggCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACg                                                                                                                                <  1:791023/139‑1 (MQ=255)

       gagaATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑ttttttt                                                                                                                        >  1:56663/1‑139 (MQ=255)

               tCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTa                                                                                                                 >  1:338926/1‑139 (MQ=255)

                 ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  2:892732/139‑1 (MQ=255)

                 ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAATTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  2:133483/139‑1 (MQ=255)

                   gCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  1:1074530/137‑1 (MQ=255)

                   gCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  1:820561/137‑1 (MQ=255)

                   gCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               >  2:1074530/1‑137 (MQ=255)

                   gCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               >  2:820561/1‑137 (MQ=255)

                    ccGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCgg                                                                                                            <  2:482948/139‑1 (MQ=255)

                                  aCGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGt                                                                                              >  1:251644/1‑139 (MQ=255)

                                  aCGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGt                                                                                              >  1:732377/1‑139 (MQ=255)

                                   cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt                                                                                             <  2:56663/139‑1 (MQ=255)

                                    gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTgcagggcagc                                                                                                 <  2:670014/134‑2 (MQ=255)

                                    gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCATGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTgcagggcagg                                                                                                 >  1:670014/1‑134 (MQ=255)

                                    gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGAGTTGCCGTCTCCGCGCCCAGTTCCTGTGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGttt                                                                                            >  1:248013/1‑139 (MQ=255)

                                                cTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGGTTCAACATACACcg                                                                                >  2:333692/1‑139 (MQ=255)

                                                 tACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  2:871183/107‑1 (MQ=255)

                                                 tACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               >  1:871183/1‑107 (MQ=255)

                                                      cTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTg                                                                                                          <  2:978554/107‑1 (MQ=255)

                                                      cTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGCTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTg                                                                                                          >  1:978554/1‑107 (MQ=255)

                                                         tctcTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGa                                                                       <  1:959196/139‑1 (MQ=255)

                                                                       tCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               >  1:22106/1‑85 (MQ=255)

                                                                       tCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAg                                                                                                               <  2:22106/85‑1 (MQ=255)

                                                                                 ttGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg                                                                                               >  1:241224/1‑91 (MQ=255)

                                                                                 ttGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg                                                                                               <  2:241224/91‑1 (MQ=255)

                                                                                       tctcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgccg                                         >  1:852078/1‑139 (MQ=255)

                                                                                           cgcgCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTgc                                     >  1:546760/1‑139 (MQ=255)

                                                                                                 cAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAc                               <  2:546760/139‑1 (MQ=255)

                                                                                                   gTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgccg                                         >  1:843268/1‑127 (MQ=255)

                                                                                                   gTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgccg                                         <  2:843268/127‑1 (MQ=255)

                                                                                                              aGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTg                  >  2:387855/1‑139 (MQ=255)

                                                                                                               gACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGc                 >  2:102363/1‑139 (MQ=255)

                                                                                                               gACGTAAGGCGCTGAGAATTGCCCGACG‑ttttttttt                                                                                                                      >  2:1072907/1‑36 (MQ=255)

                                                                                                               gACGTAAGGCGCTGAGAATTGCCCGACG‑ttttttttt                                                                                                                      <  1:1072907/37‑2 (MQ=255)

                                                                                                                aCGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACAGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGcc                <  2:732377/139‑1 (MQ=255)

                                                                                                                 cGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCg               <  2:338926/139‑1 (MQ=255)

                                                                                                                 cGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCg               <  1:227098/139‑1 (MQ=255)

                                                                                                                    aaGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGcc                >  1:817601/1‑135 (MQ=255)

                                                                                                                    aaGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGcc                <  2:817601/135‑1 (MQ=255)

                                                                                                                     aGGCGCTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGATGCAGGGCAGGGGTTTCAACATACTCCGCGTGCCAGACACTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGgtgt           >  2:588448/1‑139 (MQ=255)

                                                                                                                         gcTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGcc                                                                          <  1:492593/72‑1 (MQ=255)

                                                                                                                         gcTGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGcc                                                                          >  2:492593/1‑72 (MQ=255)

                                                                                                                           tGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt                                                                                             <  1:834034/51‑1 (MQ=255)

                                                                                                                           tGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt                                                                                             >  2:834034/1‑51 (MQ=255)

                                                                                                                           tGAGAATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACTCCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGc     <  1:588448/139‑1 (MQ=255)

                                                                                                                            gagaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGcc    <  2:852078/139‑1 (MQ=255)

                                                                                                                            gagaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGcc    <  2:251644/139‑1 (MQ=255)

                                                                                                                             agaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg   >  2:190754/1‑139 (MQ=255)

                                                                                                                             agaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg   <  1:498759/139‑1 (MQ=255)

                                                                                                                              gaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGa  <  1:387855/139‑1 (MQ=255)

                                                                                                                              gaATTGCCCGACGTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGa  <  1:114020/139‑1 (MQ=255)

GGCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGA  >  NC_000913/723382‑723645

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