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
A6 F1 I0 R1	2892	75.3	5698161	66.1%	3766484	59.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	385,948	T→A	24.9%	D386E (GAT→GAA)	cstA →	carbon starvation protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	385,948	0	T	A	24.9%	93.9 / 28.2	52	D386E (GAT→GAA)	cstA	carbon starvation protein
Reads supporting (aligned to +/- strand): ref base T (20/18); new base A (7/6); total (27/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGACGGCGGATGTGGTCG  >  minE/385880‑386018

ggCTACGGCGCAATGCTGATGGAGTCCTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAAcc                                                                      <  1:1386348/71‑1 (MQ=255)

ggCTACGGCGCAATGCTGATGGAGTCCTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAAcc                                                                      >  1:3009516/1‑71 (MQ=255)

 gCTACGGCGCAATGCTGATGGAGTCCTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCg                                                                     <  1:396407/71‑1 (MQ=255)

 gCTACGGCGCAATGCTGATGGAGTCCTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCg                                                                     <  1:1752776/71‑1 (MQ=255)

     cGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCggg                                                                   <  1:1775997/69‑1 (MQ=255)

         gggATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTa                                                             >  1:4061144/1‑71 (MQ=255)

           gATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTAtt                                                           <  1:3964663/71‑1 (MQ=255)

            aTGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATGGATCCGGGCGTGTAttt                                                          >  1:319888/1‑71 (MQ=255)

            aTGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTAttt                                                          >  1:1417581/1‑71 (MQ=255)

              gTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTg                                                        >  1:1918695/1‑71 (MQ=255)

               ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:3080136/1‑54 (MQ=255)

               ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGc                                                       >  1:3382033/1‑71 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGc                                                                  >  1:5671578/1‑58 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGc                                                                  >  1:5313509/1‑58 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTAttt                                                          >  1:957108/1‑66 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGc                                                       >  1:3199603/1‑69 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCa                                                     >  1:2477081/1‑71 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCa                                                     >  1:442668/1‑71 (MQ=255)

                 aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCa                                                     >  1:4313481/1‑71 (MQ=255)

                  aTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCa                                                     >  1:2778469/1‑70 (MQ=255)

                  aTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCAt                                                    <  1:3215696/71‑1 (MQ=255)

                  aTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCAt                                                    <  1:4172047/71‑1 (MQ=255)

                   tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTAttt                                                          >  1:4449895/1‑64 (MQ=255)

                   tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATg                                                   <  1:3588898/71‑1 (MQ=255)

                   tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATg                                                   <  1:5561103/71‑1 (MQ=255)

                   tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATg                                                   <  1:5190215/71‑1 (MQ=255)

                   tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATg                                                   <  1:4695503/71‑1 (MQ=255)

                    ggAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTCTATTTTGCCATg                                                   >  1:5022132/1‑70 (MQ=255)

                     gAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGa                                                  <  1:1944747/70‑1 (MQ=255)

                        tCCTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACac                                              <  1:1128206/71‑2 (MQ=255)

                          cTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGcc                                            >  1:144419/1‑71 (MQ=255)

                          cTTCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACAccc                                            >  1:5577617/1‑71 (MQ=255)

                            tCGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACACCCCg                                          >  1:1968933/1‑71 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:3225489/1‑40 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:3701285/1‑40 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:1710372/1‑40 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:5564122/1‑40 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGAt                                                                        >  1:2813461/1‑40 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGccc                                           <  1:5523451/69‑1 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGccc                                           >  1:4800594/1‑69 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACACCCCgc                                         >  1:1954198/1‑70 (MQ=255)

                             cGTGGCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACACCCCgc                                         >  1:2396515/1‑70 (MQ=255)

                             cGTGGCGATTACGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGccc                                           <  1:1744653/69‑1 (MQ=255)

                                 gCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACACCCCgc                                         <  1:1170488/67‑2 (MQ=255)

                                 gCGATTATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACACCCCgc                                         <  1:1177082/67‑2 (MQ=255)

                                    aTTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGt                                  <  1:5356536/71‑1 (MQ=255)

                                      tATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACAccc                                            >  1:122627/1‑59 (MQ=255)

                                      tATGGCGCTGGTTGCTGCGTCCATCATCGAACCGGGTCTTTACTTCGCGATGAACAccc                                            >  1:2232338/1‑59 (MQ=255)

                                        tGGCGCTGGTTTCCGCCTGTATCATCGAGCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCt                               <  1:2370925/70‑1 (MQ=255)

                                             cTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATg                                       >  1:4033427/1‑57 (MQ=255)

                                               ggTTTCCGCCTGTATCATCGATCCTGGCGTGTATTTTGCCATGAACAGccc                                           <  1:46340/51‑1 (MQ=255)

                                               ggTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGccc                                           <  1:1721911/51‑1 (MQ=255)

                                                   tCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATg                                                   <  1:5483642/39‑1 (MQ=255)

                                                   tCCGCCTGTATCATCGATCCGGGCGTGTATTTAGCCATg                                                   <  1:1252400/39‑1 (MQ=255)

                                                       ccTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGAcg               >  1:3031944/1‑71 (MQ=255)

                                                           tATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATg                                       <  1:764686/43‑1 (MQ=255)

                                                            atcatcGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATg                                       <  1:3170218/42‑1 (MQ=255)

                                                             tcatcGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGACGGCGGAt         >  1:3087739/1‑71 (MQ=255)

                                                                    tCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGACGGCGGATGTGGTCg  <  1:3520844/71‑1 (MQ=255)

                                                                    tCCGGGCGTGTATTTTACCATTAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGACGGCGGATGTGGTCg  <  1:1715959/71‑1 (MQ=255)

GGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGGGACGGCGGATGTGGTCG  >  minE/385880‑386018

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