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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,838,137	G→A	395 (TAG→TAA)	setC →	putative arabinose efflux transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,838,137	0	G	A	100.0%	175.3 / NA	55	395 (TAG→TAA)	setC	putative arabinose efflux transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (24/31); total (24/31)

CGCGTCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAGCTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAGGGG  >  NC_000913/3838003‑3838268

cgcgTCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCa                                                                                                                                 >  2:576178/1‑139 (MQ=255)

 gcgTCGGCTGGATTATTGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCAc                                                                                                                                <  2:895952/139‑1 (MQ=255)

 gcgTCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCAc                                                                                                                                <  2:400003/139‑1 (MQ=255)

 gcgTCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCAc                                                                                                                                <  1:576178/139‑1 (MQ=255)

    tCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCTATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAg                                                                                                                             >  2:756229/1‑139 (MQ=255)

    tCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAg                                                                                                                             >  2:468647/1‑139 (MQ=255)

     cGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGt                                                                                                                            <  2:456840/139‑1 (MQ=255)

      ggCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTc                                                                                                                           <  2:294117/139‑1 (MQ=255)

                         ctGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGc                                                                                                        <  1:468647/139‑1 (MQ=255)

                          tGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCg                                                                                                       <  1:704244/139‑1 (MQ=255)

                           gTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGt                                                                                                      <  2:845740/139‑1 (MQ=255)

                              gACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGgc                                                                                                   <  2:26327/139‑1 (MQ=255)

                                 ggAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCa                                                                                                >  1:953614/1‑139 (MQ=255)

                                    aTTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAAc                                                                                             >  2:24574/1‑139 (MQ=255)

                                             gAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATc                                                                                    >  2:965116/1‑139 (MQ=255)

                                                    ggAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCa                                                                             <  1:892964/139‑1 (MQ=255)

                                                          aCCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTg                                                                       >  1:173984/1‑139 (MQ=255)

                                                           ccATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGc                                                                      >  2:690220/1‑139 (MQ=255)

                                                                  ttgttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATg                                                               <  2:451560/139‑1 (MQ=255)

                                                                     ttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGt                                                                                                                            >  1:404966/1‑75 (MQ=255)

                                                                     ttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGt                                                                                                                            <  2:404966/75‑1 (MQ=255)

                                                                     ttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCg                                                                                <  1:719194/119‑1 (MQ=255)

                                                                     ctCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCg                                                                                >  2:719194/2‑119 (MQ=255)

                                                                      tCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTg                                                           <  2:255279/139‑1 (MQ=255)

                                                                      tCTGGCTGCCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTg                                                           <  2:642333/139‑1 (MQ=255)

                                                                       ctggctggCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGc                                                          <  2:774655/139‑1 (MQ=255)

                                                                              gcGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGcatacata                                                   <  1:947637/139‑1 (MQ=255)

                                                                               cGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaa                                                  >  2:28191/1‑139 (MQ=255)

                                                                                gATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                                 <  1:24574/139‑1 (MQ=255)

                                                                                  tAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACg                                               <  1:226971/139‑1 (MQ=255)

                                                                                    gggATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGAc                                             >  2:660760/1‑139 (MQ=255)

                                                                                     ggATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACa                                            <  1:28191/139‑1 (MQ=255)

                                                                                     ggATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACa                                            <  2:701886/139‑1 (MQ=255)

                                                                                       aTGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACaaa                                          <  2:173984/139‑1 (MQ=255)

                                                                                       aTGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACaaa                                          <  1:965116/139‑1 (MQ=255)

                                                                                               tATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCAc                                                                                                                                >  2:932351/1‑45 (MQ=255)

                                                                                               tATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCAc                                                                                                                                <  1:932351/45‑1 (MQ=255)

                                                                                               tATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATg                                  >  2:288339/1‑139 (MQ=255)

                                                                                                  tGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCag                               >  2:548443/1‑139 (MQ=255)

                                                                                                   gCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTg                                                           <  1:625516/110‑1 (MQ=255)

                                                                                                   gCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTg                                                           >  2:625516/1‑110 (MQ=255)

                                                                                                    cGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCagag                             >  1:559867/1‑139 (MQ=255)

                                                                                                       tgatTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGa                          >  2:57123/1‑139 (MQ=255)

                                                                                                                        attaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACagag                                                                                         >  1:169138/1‑59 (MQ=255)

                                                                                                                        attaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACagag                                                                                         <  2:169138/59‑1 (MQ=255)

                                                                                                                            aaGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAGACAGAGCCATCCTCGCCATTTTTGCTATCATg                                                               <  2:577179/81‑1 (MQ=255)

                                                                                                                            aaGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAGACAGAGCCATCCTCGCCATTTTTGCTATCATg                                                               >  1:577179/1‑81 (MQ=255)

                                                                                                                               atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGcc                                                                              >  2:459339/1‑63 (MQ=255)

                                                                                                                               atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGcc                                                                              <  1:459339/63‑1 (MQ=255)

                                                                                                                               atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGACATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAgggg  >  2:182087/1‑139 (MQ=255)

                                                                                                                                 atTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGc                                 >  2:784897/1‑106 (MQ=255)

                                                                                                                                 atTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGc                                 <  1:784897/106‑1 (MQ=255)

                                                                                                                                  tttAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                                 <  1:370630/89‑1 (MQ=255)

                                                                                                                                  tttAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                                 >  2:370630/1‑89 (MQ=255)

                                                                                                                                   ttAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAAc                                        <  1:835103/97‑1 (MQ=255)

CGCGTCGGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAGCTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAGGGG  >  NC_000913/3838003‑3838268

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