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 F17 I0 R2	278	43.2	2215644	94.6%	2095999	61.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,591,415	G→T	42.3%	K203N (AAG→AAT)	yfeS →	conserved hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,591,415	0	G	T	42.3%	74.4 / 51.0	59	K203N (AAG→AAT)	yfeS	conserved hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (17/17); new base T (13/12); total (30/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.85e-01

ATGATTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAG  >  minE/1591347‑1591481

atGATTACCTACTCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGAt                                                                  >  1:470692/1‑71 (MQ=255)

atGATTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGAt                                                                  >  1:1119067/1‑71 (MQ=255)

 tGATTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATg                                                                 >  1:309567/1‑71 (MQ=255)

  gATTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATgg                                                                >  1:1136816/1‑71 (MQ=255)

   aTTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATgg                                                                <  1:2052542/70‑1 (MQ=255)

     tACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGAc                                                             >  1:482481/1‑71 (MQ=255)

        cTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCa                                                          <  1:74592/71‑1 (MQ=255)

           cGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCaa                                                         <  1:213200/69‑1 (MQ=255)

           cGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCaa                                                         <  1:1471517/69‑1 (MQ=255)

                cTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATgg                                                                <  1:1142775/57‑1 (MQ=255)

                 tGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAg                                                                    <  1:1498125/52‑1 (MQ=255)

                       cGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGa                                                                   >  1:1442889/1‑47 (MQ=255)

                        ggTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtc                                           <  1:611384/70‑1 (MQ=255)

                        ggTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtc                                           <  1:1966913/70‑1 (MQ=255)

                           cAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCaa                                                         >  1:477101/1‑53 (MQ=255)

                              aTTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTc                                                           <  1:549053/48‑1 (MQ=255)

                              aTTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTc                                                           <  1:910301/48‑1 (MQ=255)

                              aTTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCt                                    <  1:1714281/71‑1 (MQ=255)

                                tAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCaa                                                         >  1:2183971/1‑48 (MQ=255)

                                tAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGtcatc                                        >  1:1504859/1‑65 (MQ=255)

                                tAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTa                                  >  1:251198/1‑71 (MQ=255)

                                tAAAGTCATGGCTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTa                                  >  1:360606/1‑71 (MQ=255)

                                 aaaGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa                                  <  1:1676499/70‑1 (MQ=255)

                                     tCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCa                                                     <  1:1774891/47‑1 (MQ=255)

                                     tCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGc                              >  1:694011/1‑70 (MQ=255)

                                       aTGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaa                           <  1:975107/71‑1 (MQ=255)

                                       aTGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaa                           <  1:1497865/71‑1 (MQ=255)

                                        tGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTc                                                           <  1:1121750/38‑1 (MQ=255)

                                        tGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTc                                                           <  1:878681/38‑1 (MQ=255)

                                          ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAt                        >  1:452551/1‑71 (MQ=255)

                                          ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGAGCGTCATCAGCTTACCGCAAAAAt                        >  1:123180/1‑71 (MQ=255)

                                            tAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTa                                  <  1:867639/59‑1 (MQ=255)

                                            tAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttc                      <  1:1605674/71‑1 (MQ=255)

                                              aaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaaaa                         >  1:1658790/1‑66 (MQ=255)

                                              aaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaaaa                         >  1:791672/1‑66 (MQ=255)

                                               aaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttcttc                   <  1:328123/71‑1 (MQ=255)

                                                aTCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttctt                    >  1:131068/1‑69 (MQ=255)

                                                 tctcCCATAAACTTAAAAAGATGGGACTCAATGCACTAGcgcg                                             <  1:1545954/43‑1 (MQ=255)

                                                 tctcCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCaa                 >  1:2116009/1‑71 (MQ=255)

                                                 tctcCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCaa                 >  1:1613736/1‑71 (MQ=255)

                                                   tcCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGtc                                           >  1:519039/1‑43 (MQ=255)

                                                     ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCaa                 <  1:1915764/67‑1 (MQ=255)

                                                        tAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtcatc                                        <  1:1836385/41‑1 (MQ=255)

                                                        tAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCaa                 >  1:2157995/1‑64 (MQ=255)

                                                         aaaCTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGa         >  1:65811/1‑71 (MQ=255)

                                                          aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAg                                      >  1:390082/1‑41 (MQ=255)

                                                          aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAg                                      >  1:877783/1‑41 (MQ=255)

                                                          aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaaaa                         >  1:1078432/1‑54 (MQ=255)

                                                          aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaaaa                         >  1:1500553/1‑54 (MQ=255)

                                                          aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACAGCaaaaa                         >  1:712653/1‑54 (MQ=255)

                                                          aaCTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGAc        >  1:1297928/1‑71 (MQ=255)

                                                           aCTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACg       >  1:1519220/1‑71 (MQ=255)

                                                                aaaaTATGGGACACAATGCACTAGCGCGTCATCAGCTTAc                                 >  1:1271470/1‑40 (MQ=255)

                                                                aaaaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAg  <  1:60154/71‑1 (MQ=255)

                                                                aaaaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAg  <  1:2143044/71‑1 (MQ=255)

                                                                aaaaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAg  <  1:1677700/71‑1 (MQ=255)

                                                                aaaaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCCCAAAAATTCTTCAATGGGGTGACGGTCAg  <  1:1170750/71‑1 (MQ=255)

                                                                 aaaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATg               <  1:47033/57‑1 (MQ=255)

                                                                  aaGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAg  <  1:29832/69‑1 (MQ=255)

                                                                   aGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaa                           <  1:1954705/43‑1 (MQ=255)

ATGATTACCTACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAG  >  minE/1591347‑1591481

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A