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
A1 F1 I1 R1	773	79.9	4112934	92.2%	3792125	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,664,096	T→C	I163T (ATA→ACA)	ynfH →	oxidoreductase, membrane subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,664,096	0	T	C	100.0%	204.2 / NA	58	I163T (ATA→ACA)	ynfH	oxidoreductase, membrane subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (27/31); total (27/31)

GGCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAATACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCT  >  NC_000913/1663974‑1664223

ggCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAAtt                                                                                                                 >  2:1455721/1‑139 (MQ=255)

ggCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAAtt                                                                                                                 >  2:543667/1‑139 (MQ=255)

  cgcTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCt                                                                                                               >  1:997677/1‑139 (MQ=255)

     tCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCg                                                                                                            <  1:1922835/139‑1 (MQ=255)

                  cGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               <  1:1455721/139‑1 (MQ=255)

                   gTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTa                                                                                              <  1:543667/139‑1 (MQ=255)

                            atgaCCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATa                                                                                     <  1:1984250/139‑1 (MQ=255)

                                    cGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            <  1:232991/124‑1 (MQ=255)

                                    cGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            >  2:232991/1‑124 (MQ=255)

                                      tgtATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               >  2:1648614/1‑119 (MQ=255)

                                      tgtATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               <  1:1648614/119‑1 (MQ=255)

                                         aTCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGc                                                                        >  1:682224/1‑139 (MQ=255)

                                          tCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGcc                                                                       >  1:1261243/1‑139 (MQ=255)

                                               tCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCcatcat                                                                  <  1:801431/139‑1 (MQ=255)

                                                  acacCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                 <  2:216848/105‑1 (MQ=255)

                                                  acacCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                 >  1:216848/1‑105 (MQ=255)

                                                   cacCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGc                                                              >  2:1681260/1‑139 (MQ=255)

                                                          ccAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               >  1:709993/1‑99 (MQ=255)

                                                          ccAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               <  2:709993/99‑1 (MQ=255)

                                                                 ggCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACTCTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGAt                                                <  1:454334/139‑1 (MQ=255)

                                                                  gCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               >  1:1003971/1‑91 (MQ=255)

                                                                  gCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                               <  2:1003971/91‑1 (MQ=255)

                                                                               acTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCgggg                                  <  2:857430/139‑1 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTtgctgc                                                                                                                        >  1:2028950/1‑49 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTtgctgc                                                                                                                        <  2:2028950/49‑1 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            >  1:1994681/1‑77 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            <  2:1994681/77‑1 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGa                                                 >  2:1190142/1‑120 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGAt                              >  2:114700/1‑139 (MQ=255)

                                                                                   cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCACGCGTTGCATTTAATACCACACAATTTGCCATCATTAGCGTTCTGGCGCTGa                                                 <  1:1190142/120‑1 (MQ=255)

                                                                                     cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            <  2:1442338/75‑1 (MQ=255)

                                                                                     cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACa                                                                                            >  1:1442338/1‑75 (MQ=255)

                                                                                     cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACAttt                                                                                         <  2:1391736/78‑1 (MQ=255)

                                                                                     cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATtg                            <  1:1681260/139‑1 (MQ=255)

                                                                                     cTGGCTTTCTTCCTGACGGTATTGATGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACAttt                                                                                         >  1:1391736/1‑78 (MQ=255)

                                                                                        gCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGtgc                         >  2:32466/1‑139 (MQ=255)

                                                                                         cTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCAt                                                                            <  1:31105/87‑1 (MQ=255)

                                                                                         cTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCAt                                                                            >  2:31105/1‑87 (MQ=255)

                                                                                           ttcttcCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGtgctgc                      <  1:1048640/139‑1 (MQ=255)

                                                                                            tcttcCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCa                     <  2:997677/139‑1 (MQ=255)

                                                                                             cttcCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCaa                    >  1:93961/1‑139 (MQ=255)

                                                                                                  tGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGttt               >  2:1089113/1‑139 (MQ=255)

                                                                                                   gACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTaa                                                                                       <  2:883587/66‑1 (MQ=255)

                                                                                                   gACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTaa                                                                                       >  1:883587/1‑66 (MQ=255)

                                                                                                      ggTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGtct           <  2:1261243/139‑1 (MQ=255)

                                                                                                        tATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCg                                                                                                            <  2:1639989/40‑1 (MQ=255)

                                                                                                        tATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCg                                                                                                            >  1:1639989/1‑40 (MQ=255)

                                                                                                        tATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTctct         <  1:32466/139‑1 (MQ=255)

                                                                                                        tATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTctct         <  2:93961/139‑1 (MQ=255)

                                                                                                          ttgttgAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCgg                                    >  1:917299/1‑110 (MQ=255)

                                                                                                          ttgttgAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCgg                                    <  2:917299/110‑1 (MQ=255)

                                                                                                               gAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCt  <  2:682224/139‑1 (MQ=255)

                                                                                                                  cGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                 <  1:1833280/41‑1 (MQ=255)

                                                                                                                  cGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                 >  2:1833280/1‑41 (MQ=255)

                                                                                                                    gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCC‑GGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCt  <  1:1376869/133‑1 (MQ=255)

                                                                                                                    gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCC‑GGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCt  >  2:1376869/1‑133 (MQ=255)

                                                                                                                     tCCAACACTTGCT‑CCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGc      >  1:1525821/1‑128 (MQ=255)

                                                                                                                     tCCAACACTTGCT‑CCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGc      <  2:1525821/128‑1 (MQ=255)

GGCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAATACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCT  >  NC_000913/1663974‑1664223

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