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 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,358,163	G→A	A228V (GCG→GTG)	rhmA ←	2‑keto‑3‑deoxy‑L‑rhamnonate aldolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,358,163	0	G	A	100.0%	124.1 / NA	39	A228V (GCG→GTG)	rhmA	2‑keto‑3‑deoxy‑L‑rhamnonate aldolase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/16); total (23/16)

CTTTGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACGCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCAA  >  NC_000913/2358034‑2358296

cTTTGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCAtt                                                                                                                              >  2:424201/1‑139 (MQ=255)

 tttGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtg                                                                                                                             >  1:157293/1‑139 (MQ=255)

 tttGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtg                                                                                                                             >  1:690338/1‑139 (MQ=255)

 tttGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtg                                                                                                                             <  2:157293/139‑1 (MQ=255)

     atatCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc                                                                                                                         <  2:690338/139‑1 (MQ=255)

        tCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGcc                                                                                                                      >  1:182869/1‑139 (MQ=255)

          aaTAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCat                                                                                                                    >  2:14326/1‑139 (MQ=255)

                tACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAgg                                                                                                              >  2:813697/1‑139 (MQ=255)

                          gCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg                                                                                                                        <  2:177909/119‑1 (MQ=255)

                          gCGTGGCCCATTTTTGCCTGACTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg                                                                                                                        >  1:177909/1‑119 (MQ=255)

                            gTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAg                                                                                                  >  1:801624/1‑139 (MQ=255)

                             tGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGa                                                                                                 >  1:117358/1‑139 (MQ=255)

                              ggCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc                                                                                                                         <  2:347923/114‑1 (MQ=255)

                              ggCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc                                                                                                                         >  1:347923/1‑114 (MQ=255)

                              ggCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGaa                                                                                                >  2:781570/1‑139 (MQ=255)

                                          ccTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg                                                                                                                        <  1:482564/103‑1 (MQ=255)

                                          ccTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg                                                                                                                        >  2:482564/1‑103 (MQ=255)

                                          ccTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCtt                                                                                    <  1:781570/139‑1 (MQ=255)

                                          ccTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCtt                                                                                    >  2:120430/1‑139 (MQ=255)

                                                     cATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCgcagca                                                                         <  1:14326/139‑1 (MQ=255)

                                                     cATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCgcagca                                                                         <  1:424201/139‑1 (MQ=255)

                                                        cGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACgg                                                                      >  1:440469/1‑139 (MQ=255)

                                                          ccAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGAt                                                                    <  1:88632/139‑1 (MQ=255)

                                                                        aGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTgg                                                      <  2:117358/139‑1 (MQ=255)

                                                                          ggCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc                                                                                                                         >  1:61974/1‑70 (MQ=255)

                                                                          ggCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc                                                                                                                         <  2:61974/70‑1 (MQ=255)

                                                                                         cATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGc                                     >  1:831201/1‑139 (MQ=255)

                                                                                           tCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCaa                                   >  1:523984/1‑138 (MQ=255)

                                                                                           tCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCAc                                   >  2:920653/1‑139 (MQ=255)

                                                                                           tCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCAc                                   >  1:169645/1‑139 (MQ=255)

                                                                                            cGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgc                                                                                                                            >  1:512629/1‑49 (MQ=255)

                                                                                            cGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgc                                                                                                                            <  2:512629/49‑1 (MQ=255)

                                                                                            cGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACt                                  >  2:423514/1‑139 (MQ=255)

                                                                                              tgtCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgc                                                                                                                            <  2:966881/47‑1 (MQ=255)

                                                                                              tgtCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgc                                                                                                                            >  1:966881/1‑47 (MQ=255)

                                                                                              tgtCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTc                                >  1:4388/1‑139 (MQ=255)

                                                                                                      ccAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGcc                        <  2:128975/139‑1 (MQ=255)

                                                                                                                    gTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCggg          <  1:920653/139‑1 (MQ=255)

                                                                                                                            cccACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCaa  <  2:801624/139‑1 (MQ=255)

CTTTGATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACGCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCAA  >  NC_000913/2358034‑2358296

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