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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,250,629	(C)_5→6	coding (210/1071 nt)	dhaK ←	dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,250,624	1	.	C	96.2%	178.8 / ‑0.1	52	coding (215/1071 nt)	dhaK	dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit
Reads supporting (aligned to +/- strand): ref base . (2/0); new base C (22/28); total (24/28)
Fisher's exact test for biased strand distribution p-value = 2.08e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01

CTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑C‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATG  >  NC_000913/1250493‑1250754

cTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑c‑cccccg                                                                                                                              <  1:370846/139‑3 (MQ=255)

     tCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGc                                                                                                                          <  1:448192/139‑1 (MQ=255)

                     cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGatat                                                                                                          >  2:843912/1‑139 (MQ=255)

                       ccGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑aa                                                                                                       >  1:897010/1‑139 (MQ=255)

                       ccGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑aa                                                                                                       >  1:473313/1‑139 (MQ=255)

                        cGGTTTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AAc                                                                                                      <  1:969456/139‑1 (MQ=255)

                        cGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTg                                                                                                                  <  1:8556/128‑1 (MQ=255)

                        cGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTg                                                                                                                  >  2:8556/1‑128 (MQ=255)

                          gtgtAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAc                                                                                                                >  1:32925/1‑128 (MQ=255)

                          gtgtAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAc                                                                                                                <  2:32925/128‑1 (MQ=255)

                             tAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGa                                                                                                             <  1:1290516/128‑1 (MQ=255)

                             tAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGa                                                                                                             >  2:1290516/1‑128 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGa                                                                                                                 >  1:599467/1‑116 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGa                                                                                                                 <  2:599467/116‑1 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAcc                                                                                                               <  1:585288/118‑1 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAcc                                                                                                               >  2:585288/1‑118 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAc                                                                                                                <  1:719022/117‑1 (MQ=255)

                                     gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAc                                                                                                                >  2:719022/1‑117 (MQ=255)

                                                gTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGc                                                                                                                          >  2:782771/1‑96 (MQ=255)

                                                gTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGc                                                                                                                          <  1:782771/96‑1 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                        <  1:644498/139‑1 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                        <  1:647621/139‑1 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                        >  2:178776/1‑139 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                        >  2:584273/1‑139 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTATCCGCTgccgc                                                                        >  1:851264/1‑139 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCG‑‑AT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCa                                                                      >  2:400709/1‑139 (MQ=255)

                                                      cTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑C‑CCCCCAAAGGATTCCCTTGCCGATTTAAACCACA‑TTCCTCGGGCTGTTTCCGCTgccgcc                                                                       >  1:73429/1‑139 (MQ=255)

                                                         cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑CACCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAc                                                                     >  2:939764/1‑139 (MQ=255)

                                                           ccgccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAccc                                                                   >  2:988859/1‑139 (MQ=255)

                                                                aTCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGAcag                                                              <  1:648700/139‑1 (MQ=255)

                                                                      ttGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGc                                                        <  2:108209/139‑1 (MQ=255)

                                                                        gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCG‑‑AT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACt                                                    <  1:400709/139‑1 (MQ=255)

                                                                          aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATc                                                                                           >  1:176095/1‑100 (MQ=255)

                                                                          aTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATc                                                                                           <  2:176095/100‑1 (MQ=255)

                                                                           tGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACtt                                                   <  1:594368/139‑1 (MQ=255)

                                                                               gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTcc                                               <  2:1257404/139‑1 (MQ=255)

                                                                               gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTcc                                               <  1:843912/139‑1 (MQ=255)

                                                                                cATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCt                                                                                       >  1:615913/1‑98 (MQ=255)

                                                                                cATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCt                                                                                       <  2:615913/98‑1 (MQ=255)

                                                                                       aGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAg                                       <  2:509725/139‑1 (MQ=255)

                                                                                             tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCg                                                       <  2:149202/117‑1 (MQ=255)

                                                                                             tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCg                                                       >  1:149202/1‑117 (MQ=255)

                                                                                             tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCAt                                 <  2:994559/139‑1 (MQ=255)

                                                                                             tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCAt                                 >  2:1225695/1‑139 (MQ=255)

                                                                                                     gTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCgg                         <  2:622478/139‑1 (MQ=255)

                                                                                                      tCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCggg                        <  1:584273/139‑1 (MQ=255)

                                                                                                           gaggtgaAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACACGACAGCAGGGCGATTTTTCTTGCAACAGGGGCATCAGCTCGGGTGACa                   <  2:851264/139‑1 (MQ=255)

                                                                                                            aggtgaAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACAt                  <  2:92682/139‑1 (MQ=255)

                                                                                                             ggtgaAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCgg                         >  2:221536/1‑131 (MQ=255)

                                                                                                             ggtgaAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCgg                         <  1:221536/131‑1 (MQ=255)

                                                                                                                 aaaaTTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACAcc             >  2:57158/1‑139 (MQ=255)

                                                                                                                           ccGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGCGCATCGGCTCATGTCCGCTGCCGCCACCCGACAGCAGCGCGACTTTTCCTGCAACAGCGGCATCAGCTCGGGTGACATAAACCGGATCCTGac   >  2:306649/1‑138 (MQ=255)

                                                                                                                            cGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATg  <  2:897010/139‑1 (MQ=255)

CTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑C‑CCCCGAAAGCATCCCCTGACCGATAT‑AACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATG  >  NC_000913/1250493‑1250754

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 24 ≤` `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