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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,401,654	G→A	C133C (TGC→TGT)	nuoE ←	NADH:ubiquinone oxidoreductase, chain E

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,401,654	0	G	A	98.2%	166.9 / NA	54	C133C (TGC→TGT)	nuoE	NADH:ubiquinone oxidoreductase, chain E
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (28/25); minor base C (1/0); total (29/25)
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

AGCGGATGCGTTTCGGGAGTACGGATAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAACGGA  >  NC_000913/2401518‑2401787

aGCGGATGCGTTTCGGGAGTACGGATAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGaca                                                                                                                                     >  1:54097/1‑139 (MQ=255)

  cGGATGCGTTTCGGGAGTACGGATAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGacagc                                                                                                                                   >  2:125104/1‑139 (MQ=255)

    gATGCGTTTCGGGAGTACGGATAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCaa                                                                                                                                 >  1:841794/1‑139 (MQ=255)

                       gATAATGTTTTTCATTTATACCACTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTGGGCAGCAGCGTaagcg                                                                                                              <  2:54097/139‑4 (MQ=255)

                        aTAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCg                                                                                                             >  2:294242/1‑139 (MQ=255)

                         tAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCgg                                                                                                            <  2:216692/139‑1 (MQ=255)

                          aaTGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGCCAGCAAGTTGgcag                                                                                                                         >  1:100693/1‑125 (MQ=255)

                          aaTGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGgcag                                                                                                                         <  2:100693/125‑1 (MQ=255)

                                 ttCATTTATACCGCTCCCGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGCGTGTCCTCATCGATCATCATGTTTGGCCCTTTACCACAGTTCACCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa                                                                                                    >  2:125778/1‑139 (MQ=255)

                                       tataCCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGt                                                                                              >  1:842775/1‑139 (MQ=255)

                                            cGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTACCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGcc                                                                                         <  1:612322/139‑1 (MQ=255)

                                              cTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCt                                                                                       >  2:680124/1‑139 (MQ=255)

                                              cTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCt                                                                                       >  2:741472/1‑139 (MQ=255)

                                              cTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCt                                                                                       >  2:710626/1‑139 (MQ=255)

                                              cTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCt                                                                                       >  1:351104/1‑139 (MQ=255)

                                                                           tCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAgcgc                                                          >  2:284676/1‑139 (MQ=255)

                                                                               aTGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCgccgcc                                                      >  2:426904/1‑139 (MQ=255)

                                                                                   gcgTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGaa                                                  <  1:294242/139‑1 (MQ=255)

                                                                                    cgTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAgc                                                            >  1:755911/1‑128 (MQ=255)

                                                                                    cgTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAgc                                                            <  2:755911/128‑1 (MQ=255)

                                                                                    cgTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAAt                                                 >  2:384126/1‑139 (MQ=255)

                                                                                            tCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGAt                                         >  2:503733/1‑139 (MQ=255)

                                                                                            tCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGAt                                         <  1:384126/139‑1 (MQ=255)

                                                                                              cTCATCGATCATCATGTTTGGCCGTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATaa                                       <  2:841794/139‑1 (MQ=255)

                                                                                                cATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     <  2:200988/139‑1 (MQ=255)

                                                                                                cATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     <  1:125104/139‑1 (MQ=255)

                                                                                                cATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     <  1:284676/139‑1 (MQ=255)

                                                                                                cATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     <  1:503733/139‑1 (MQ=255)

                                                                                                 aTCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAgc                                                            >  1:344108/1‑115 (MQ=255)

                                                                                                 aTCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAgc                                                            <  2:344108/115‑1 (MQ=255)

                                                                                                  tCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGt                                   <  2:351104/139‑1 (MQ=255)

                                                                                                  tCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTACAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGt                                   <  1:680124/139‑1 (MQ=255)

                                                                                                    gATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTg                                 <  1:426904/139‑1 (MQ=255)

                                                                                                        atcatGTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGatat                             >  2:865489/1‑139 (MQ=255)

                                                                                                             gTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCt                                                     <  2:741934/110‑1 (MQ=255)

                                                                                                             gTTTGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCt                                                     >  1:741934/1‑110 (MQ=255)

                                                                                                                tGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAAt                                                 <  2:275619/111‑1 (MQ=255)

                                                                                                                tGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAAt                                                 >  1:275619/1‑111 (MQ=255)

                                                                                                                tGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     <  1:853092/123‑1 (MQ=255)

                                                                                                                tGGCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAAcc                                     >  2:853092/1‑123 (MQ=255)

                                                                                                                  gCCCTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCAc                   >  1:372475/1‑139 (MQ=255)

                                                                                                                   cccTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTg                                 <  1:756806/124‑1 (MQ=255)

                                                                                                                   cccTTTATCACAGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTg                                 >  2:756806/1‑124 (MQ=255)

                                                                                                                              aGTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGTCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATa       <  1:311952/139‑1 (MQ=255)

                                                                                                                               gTTCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATaa      >  2:70835/1‑139 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGAt                                         <  2:386346/103‑1 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGAt                                         >  1:386346/1‑103 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAAt        <  1:885061/136‑1 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAAt        >  2:885061/1‑136 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAAc     >  1:672201/1‑139 (MQ=255)

                                                                                                                                ttCCCCAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAAc     >  2:349489/1‑139 (MQ=255)

                                                                                                                                  ccccAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAg                                                             <  2:800102/81‑1 (MQ=255)

                                                                                                                                  ccccAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAg                                                             >  1:800102/1‑81 (MQ=255)

                                                                                                                                  ccccAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAACgg   >  2:63968/1‑139 (MQ=255)

                                                                                                                                   cccAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAACGGa  >  2:717697/1‑139 (MQ=255)

                                                                                                                                   cccAGACAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAACGGa  <  2:842775/139‑1 (MQ=255)

AGCGGATGCGTTTCGGGAGTACGGATAATGTTTTTCATTTATACCGCTCCAGCAGTTCAGGGATCGCTTCCGGGGTCAGATGCGCGTGAGTGTCCTCATCGATCATCATGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACCCTGATAACCGTTGATATGACAGACCACGCTGTCACAATAACGGA  >  NC_000913/2401518‑2401787

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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