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 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,559,680	G→A	G77G (GGC→GGT)	ddpC ←	D,D‑dipeptide ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,559,680	0	G	A	100.0%	177.2 / NA	55	G77G (GGC→GGT)	ddpC	D,D‑dipeptide ABC transporter permease
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/29); total (26/29)

CACCGGATAGACATCCGAGTAGCGAACCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTGCCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGACTGCGCTGGTCAC  >  NC_000913/1559553‑1559811

cacCGGATAGACATCCGAGTAGCGAACCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTg                                                                                                                          <  2:178458/139‑1 (MQ=255)

  ccGGATAGACATCCGAGTAGCGAACCAATCATACCCGCGATGGCAACCACGACTACTCCGGCGAGGATTGATTGCTGACTGCCGACTAGTACGCGGCTAAAGTGGTCGCGTCCCACTTCATCGGTACCAAACCAGTgcg                                                                                                                        <  1:37506/139‑1 (MQ=255)

               cGAGTAGCGAACCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAggcgg                                                                                                           >  1:1292647/1‑139 (MQ=255)

                 aGTAGCGAACCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCa                                                                                                         >  2:986546/1‑139 (MQ=255)

                        aaCCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAggcg                                                                                                  >  1:675256/1‑139 (MQ=255)

                         accgctCATACCCGCAATTGCAACCACGACTAATCCGGCGAGAAGTGATTGCTGACGGCCGACCGGTACGCGGCGAAATAGATCGCGTCCCACTTCATCGGTACCAGACCAGTGCGCCGCGGAAGGCGGCAAAAgacgg                                                                                                 <  1:812222/134‑1 (MQ=255)

                                       cAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAAt                                                                                   >  2:947072/1‑139 (MQ=255)

                                        aaTGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATg                                                                                  >  2:514514/1‑139 (MQ=255)

                                        aaTGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATg                                                                                  >  1:1601132/1‑139 (MQ=255)

                                             cAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGtt                                                                             <  2:675256/139‑1 (MQ=255)

                                               aCCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTgg                                                                           >  1:823393/1‑139 (MQ=255)

                                                ccACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTggg                                                                          >  1:1007858/1‑139 (MQ=255)

                                                      cTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATg                                                                    <  2:22557/139‑1 (MQ=255)

                                                      cTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATg                                                                    >  2:1116373/1‑139 (MQ=255)

                                                         aTCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATg                                                                    >  2:226019/1‑136 (MQ=255)

                                                         aTCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATg                                                                    <  1:226019/136‑1 (MQ=255)

                                                         aTCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGt                                                                 >  2:502681/1‑139 (MQ=255)

                                                           ccGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCg                                                               >  1:639022/1‑139 (MQ=255)

                                                           ccGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCg                                                               <  2:1601132/139‑1 (MQ=255)

                                                              gCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCgcca                                                            >  2:902706/1‑139 (MQ=255)

                                                                  gaATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCgccagcca                                                        <  1:230578/139‑1 (MQ=255)

                                                                    attgattgCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACg                                                      <  2:1007858/139‑1 (MQ=255)

                                                                            cTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGaaaaa                                              <  2:639022/139‑1 (MQ=255)

                                                                                  gCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTgcg                                                                                                                        <  1:89919/59‑1 (MQ=255)

                                                                                  gCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTgcg                                                                                                                        >  2:89919/1‑59 (MQ=255)

                                                                                  gCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAatcatc                                        <  1:947072/139‑1 (MQ=255)

                                                                                      aCCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAatcatc                                        <  1:1519203/135‑1 (MQ=255)

                                                                                      aCCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAatcatc                                        >  2:1519203/1‑135 (MQ=255)

                                                                                        cAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAAt                                  <  1:514514/139‑1 (MQ=255)

                                                                                        cAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAAt                                  <  2:823393/139‑1 (MQ=255)

                                                                                        cAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAAt                                  <  1:986546/139‑1 (MQ=255)

                                                                                        cAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAAt                                  <  1:1116373/139‑1 (MQ=255)

                                                                                                  cTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCAt                                                                     <  1:1761814/94‑1 (MQ=255)

                                                                                                  cTAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCAt                                                                     >  2:1761814/1‑94 (MQ=255)

                                                                                                   tAAACAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATAc                       <  2:1292647/139‑1 (MQ=255)

                                                                                                     aaCAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAggcgg                                                                                                 <  1:995644/63‑1 (MQ=255)

                                                                                                     aaCAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAAtcatcatca                                    <  1:1053230/124‑1 (MQ=255)

                                                                                                     aaCAGATCGCGTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAAtcatcatca                                    >  2:1053230/1‑124 (MQ=255)

                                                                                                     aaCAGATCGCGTCCCACTTAATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAggcgg                                                                                                 >  2:995644/1‑63 (MQ=255)

                                                                                                            cgcgTCCCACTTCATCGGTACCAAACCAGTGCGCCGCa                                                                                                                   <  2:646742/38‑1 (MQ=255)

                                                                                                            cgcgTCCCACTTCATCGGTACCAAACCAGTGCGCCGCa                                                                                                                   >  1:646742/1‑38 (MQ=255)

                                                                                                            cgcgTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAggcggg                                                                                                <  2:885073/57‑1 (MQ=255)

                                                                                                            cgcgTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAggcggg                                                                                                >  1:885073/1‑57 (MQ=255)

                                                                                                            cgcgTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGAc              >  1:632150/1‑139 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAg                                                                                                               >  2:256610/1‑39 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAg                                                                                                               <  1:256610/39‑1 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAatcatc                                        <  2:666685/110‑1 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAatcatc                                        >  1:666685/1‑110 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTa                           <  2:1678643/123‑1 (MQ=255)

                                                                                                               gTCCCACTTCATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTa                           >  1:1678643/1‑123 (MQ=255)

                                                                                                                        cATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGACTGCGCTGGTCAc  <  2:632150/139‑1 (MQ=255)

                                                                                                                        cATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGACTGCGCTGGTCAc  <  1:902706/139‑1 (MQ=255)

                                                                                                                        cATCGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGACTGCGCTGGTCAc  >  2:228366/1‑139 (MQ=255)

                                                                                                                           cGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGtt                                                                                           <  2:588653/47‑1 (MQ=255)

                                                                                                                           cGGTACCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGtt                                                                                           >  1:588653/1‑47 (MQ=255)

CACCGGATAGACATCCGAGTAGCGAACCAATCATACCCGCAATGGCAACCACGACTAATCCGGCGAGAATTGATTGCTGACTGCCGACCAGTACGCGGCTAAACAGATCGCGTCCCACTTCATCGGTGCCAAACCAGTGCGCCGCAGAAGGCGGCAAAAGGCGGGCGGTTAAATCAATGGCGTTGGGATCATGCGTCGCCAGCCACGGTGAAAAAATCATCATCAATAGCATTAATACAATGATGACTGCGCTGGTCAC  >  NC_000913/1559553‑1559811

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