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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,031,241	A→G	Y60H (TAT→CAT)	yccA ←	Modulator of FtsH protease, inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,031,241	0	A	G	100.0%	117.5 / NA	33	Y60H (TAT→CAT)	yccA	Modulator of FtsH protease, inner membrane protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/16); total (17/16)

CGTCACCCATTCCGGCAGACAGATAGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATACATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACGCAGCACCTTATGGGTG  >  NC_000913/1031106‑1031371

cGTCACCCATTCCGGCAGACAGATAGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACcatgcat                                                                                                                                 <  1:772121/139‑1 (MQ=255)

      ccATTCCGGCAGACAGATAGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACccac                                                                                                                           <  1:160200/139‑1 (MQ=255)

      ccATTCCGGCAGACAGATAGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACccac                                                                                                                           <  1:72178/139‑1 (MQ=255)

                        aGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGAcc                                                                                                         >  1:216457/1‑139 (MQ=255)

                             ttCAGAATAGGTCCGAGGATATAACCCAGAAAGCCGTTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGgag                                                                                                    <  2:570567/139‑1 (MQ=255)

                              tCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACACACCAGCGTCAGAATCAGACCCGgaga                                                                                                   >  2:561532/1‑139 (MQ=255)

                                  aaTAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGgc                                                                                               <  1:139630/139‑1 (MQ=255)

                                  aaTAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGgc                                                                                               <  2:733811/139‑1 (MQ=255)

                                    tAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGgcag                                                                                             >  2:368712/1‑139 (MQ=255)

                                            aGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCa                                                                                     >  2:712617/1‑139 (MQ=255)

                                                 ataACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGgc                                                                                               <  1:11718/124‑1 (MQ=255)

                                                 ataACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGgc                                                                                               >  2:11718/1‑124 (MQ=255)

                                                        aGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAg                                                                         >  2:165587/1‑139 (MQ=255)

                                                        aGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAg                                                                         >  1:69180/1‑139 (MQ=255)

                                                        aGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAg                                                                         >  1:192602/1‑139 (MQ=255)

                                                         gAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGt                                                                        >  2:783458/1‑139 (MQ=255)

                                                         gAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCATTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGt                                                                        >  2:979299/1‑139 (MQ=255)

                                                               cGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGt                                                                  >  1:868456/1‑139 (MQ=255)

                                                               cGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGt                                                                  >  1:352313/1‑139 (MQ=255)

                                                                  tAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAAt                                                               >  1:858854/1‑139 (MQ=255)

                                                                              cGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGc                                                   <  2:216457/139‑1 (MQ=255)

                                                                                            gTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTca                                     >  2:391181/1‑139 (MQ=255)

                                                                                             tCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGt                                                                                                                     >  2:979723/1‑58 (MQ=255)

                                                                                             tCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGt                                                                                                                     <  1:979723/58‑1 (MQ=255)

                                                                                             tCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTcag                                    <  2:84080/139‑1 (MQ=255)

                                                                                                gCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTcaacag                                 <  2:868456/139‑1 (MQ=255)

                                                                                                 cTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTg                                                                      >  1:383297/1‑101 (MQ=255)

                                                                                                 cTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTg                                                                      <  2:383297/101‑1 (MQ=255)

                                                                                                          cGTTTTATAGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTa                       <  1:712617/139‑1 (MQ=255)

                                                                                                                  aGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACgcag               <  2:69180/139‑1 (MQ=255)

                                                                                                                  aGGTCAGGAACATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACgcag               <  1:783458/139‑1 (MQ=255)

                                                                                                                          aaCATCAAACCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACGCAGCACCTTAt       <  2:858854/139‑1 (MQ=255)

                                                                                                                                  aCCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACGCAGCACCTTATGGGTg  >  2:612898/1‑136 (MQ=255)

                                                                                                                                  aCCATGCATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACGCAGCACCTTATGGGTg  <  1:612898/136‑1 (MQ=255)

CGTCACCCATTCCGGCAGACAGATAGGTGTTCAGAATAGGTCCGAGGATATAACCCAGAAAACCGGTAAAGGCGAATGCGGAGATAATCCCGGTCGGCTTATTCGCCGTTTTATAGGTCAGGAACATCAAACCATACATACCCACCAGCGTCAGAATCAGACCCGGAGATGGCAGCATCAGCACCGTACTGGCAGTTGCGGTAATCGCCGAAAAGGCCAGCGTCAGGCTCAGCAGAAAATAGGTATTACGCAGCACCTTATGGGTG  >  NC_000913/1031106‑1031371

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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