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
A5 F28 I1 R1	260	73.5	2514320	99.3%	2496719	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,898,605	T→C	V60A (GTA→GCA)	pdeD →	putative c‑di‑GMP phosphodiesterase PdeD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,898,605	0	T	C	100.0%	156.2 / NA	44	V60A (GTA→GCA)	pdeD	putative c‑di‑GMP phosphodiesterase PdeD
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/25); total (19/25)

CGAATGATTGTTTGTACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGTACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAGACGGC  >  NC_000913/1898469‑1898741

cGAATGATTGTTTGTACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACt                                                                                                                                       >  1:286614/1‑140 (MQ=255)

    tGATTGTTTGTACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCtt                                                                                                                                   <  2:995734/140‑1 (MQ=255)

       ttgtttgtACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCtt                                                                                                                                   >  1:949559/1‑137 (MQ=255)

       ttgtttgtACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCtt                                                                                                                                   <  2:949559/137‑1 (MQ=255)

                  aTTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTAcaggcagg                                                                                                                     <  2:40618/140‑1 (MQ=255)

                     tGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAg                                                                                                                  >  2:732956/1‑140 (MQ=255)

                       cgcACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTAcaggc                                                                                                                        >  1:276232/1‑132 (MQ=255)

                       cgcACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTAcaggc                                                                                                                        <  2:276232/132‑1 (MQ=255)

                        gcACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGa                                                                                                               <  1:682423/140‑1 (MQ=255)

                           cTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGt                                                                                                            >  2:538163/1‑140 (MQ=255)

                               ttACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTg                                                                                                        <  2:313169/140‑1 (MQ=255)

                                    ctcgctTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTcc                                                                                                   <  2:912657/140‑1 (MQ=255)

                                      cgctTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGc                                                                                                 >  2:844385/1‑140 (MQ=255)

                                         ttCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGa                                                                                              <  2:628990/140‑1 (MQ=255)

                                         ttCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGa                                                                                              <  2:286614/140‑1 (MQ=255)

                                         ttCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGa                                                                                              <  1:674257/140‑1 (MQ=255)

                                            gACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTg                                                                                           <  1:369606/140‑1 (MQ=255)

                                              cccTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGt                                                                                         <  1:374477/140‑1 (MQ=255)

                                              cccTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGt                                                                                         <  1:64302/140‑1 (MQ=255)

                                              cccTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGt                                                                                         <  2:1023340/140‑1 (MQ=255)

                                                   aGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGcc                                                                                    >  2:640623/1‑140 (MQ=255)

                                                   aGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGcc                                                                                    >  1:230863/1‑140 (MQ=255)

                                                   aGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGcc                                                                                    >  1:1047831/1‑140 (MQ=255)

                                                             ttatttCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTc                                                                          <  1:389971/140‑1 (MQ=255)

                                                                        cGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGcc                                                               <  2:1123989/140‑1 (MQ=255)

                                                                        cGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGcc                                                               <  1:59973/140‑1 (MQ=255)

                                                                        cGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGcc                                                               >  2:840247/1‑140 (MQ=255)

                                                                        cGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGACCTGCTCTGTCGCCCATTTGcc                                                               >  1:212161/1‑140 (MQ=255)

                                                                            aCTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTa                                                           <  1:411819/140‑1 (MQ=255)

                                                                                       caacGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc                                                >  2:140433/1‑140 (MQ=255)

                                                                                               agtaCAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAAc                                        >  1:707156/1‑140 (MQ=255)

                                                                                                 taCAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTc                                      >  1:624162/1‑140 (MQ=255)

                                                                                                   cAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCa                                    <  1:844385/140‑1 (MQ=255)

                                                                                                            aaTCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCg                           <  1:840247/140‑1 (MQ=255)

                                                                                                              tCACGCTGTAGAGGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGAt                         >  2:142036/1‑140 (MQ=255)

                                                                                                                       agagGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGcc                <  2:1047831/140‑1 (MQ=255)

                                                                                                                       agagGAATTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGcc                <  1:538163/140‑1 (MQ=255)

                                                                                                                            aaTTAGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTg           <  1:423545/140‑1 (MQ=255)

                                                                                                                                aGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAg       >  2:678719/1‑140 (MQ=255)

                                                                                                                                aGATAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAg       >  2:711106/1‑140 (MQ=255)

                                                                                                                                  aTAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAGAc     >  1:515555/1‑140 (MQ=255)

                                                                                                                                  aTAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAGAc     >  1:166086/1‑140 (MQ=255)

                                                                                                                                   tAAAGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGTGATCCATTGGCCTGGTGCAAGACg    <  1:108599/140‑1 (MQ=255)

                                                                                                                                     aaGCACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAGACGGc  <  2:624162/140‑1 (MQ=255)

CGAATGATTGTTTGTACGATTTGCGCACTCGTTACGCTCGCTTCGACCCTGAGCGTGCGATTTATTTCACAGCGTAACTTAAATCAACAACGGGTAGTACAATTCGCCAATCACGCTGTAGAGGAATTAGATAAAGTACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATCCATTGGCCTGGTGCAAGACGGC  >  NC_000913/1898469‑1898741

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A