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 I1 R1	750	51.0	2595496	93.6%	2429384	106.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	480,334	C→T	125 (TAG→TAA)	tomB ←	Hha toxicity attenuator, conjugation‑related protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	480,334	0	C	T	98.3%	192.7 / NA	60	125 (TAG→TAA)	tomB	Hha toxicity attenuator, conjugation‑related protein
Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (31/28); minor base G (0/1); total (31/29)
Fisher's exact test for biased strand distribution p-value = 4.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTG  >  NC_000913/480209‑480463

cGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAAc                                                                                                                      <  2:1023719/139‑1 (MQ=255)

             ctcGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATtctc                                                                                                         >  1:161937/1‑139 (MQ=255)

                 aTAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTtc                                                                                                     <  2:957698/139‑1 (MQ=255)

                         cTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCAtt                                                                                             <  2:161937/139‑1 (MQ=255)

                                      aTTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGc                                                                                                <  2:449352/123‑1 (MQ=255)

                                      aTTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGc                                                                                                >  1:449352/1‑123 (MQ=255)

                                          tCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATa                                                                            >  2:991849/1‑139 (MQ=255)

                                           cTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAg                                                                           >  2:348830/1‑139 (MQ=255)

                                              gCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCg                                                                        <  1:991849/139‑1 (MQ=255)

                                                        aaaCGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGAc                                                              >  2:1022817/1‑139 (MQ=255)

                                                           cGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTc                                                           <  1:1278474/139‑1 (MQ=255)

                                                              aTTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGc                                                        <  1:1022817/139‑1 (MQ=255)

                                                                        cGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGaa                                              >  2:19280/1‑139 (MQ=255)

                                                                               cGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       <  1:595208/139‑1 (MQ=255)

                                                                                 ttAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCa                                     <  1:440247/139‑1 (MQ=255)

                                                                                     aGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATAtt                                 <  1:1113262/139‑1 (MQ=255)

                                                                                     aGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATAtt                                 <  1:391273/139‑1 (MQ=255)

                                                                                          tttCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGa                                               <  2:1108931/120‑1 (MQ=255)

                                                                                          tttCGGACATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGa                                               >  1:1108931/1‑120 (MQ=255)

                                                                                                 cATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         >  1:1149924/1‑135 (MQ=255)

                                                                                                 cATACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         <  2:1149924/135‑1 (MQ=255)

                                                                                                  aTACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaacaa                                                                                   >  1:684354/1‑76 (MQ=255)

                                                                                                  aTACTTCTACCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaacaa                                                                                   <  2:684354/76‑1 (MQ=255)

                                                                                                          aCCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGaacaa            >  1:702193/1‑139 (MQ=255)

                                                                                                          aCCTATGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGaacaa            >  1:859473/1‑139 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaacaa                                                                                   >  1:1164594/1‑64 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaacaa                                                                                   <  2:1164594/64‑1 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTAcc                                                                  <  2:61512/81‑1 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTAcc                                                                  >  1:61512/1‑81 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         >  1:71838/1‑122 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         <  2:71838/122‑1 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTg                 >  2:629269/1‑130 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTg                 <  1:629269/130‑1 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATa        >  2:1151207/1‑139 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATa        >  2:943396/1‑139 (MQ=255)

                                                                                                              aTGGTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCACATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATa        >  2:457468/1‑139 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGc                                                        >  1:984030/1‑89 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGc                                                        <  2:984030/89‑1 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       >  1:1155237/1‑106 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       <  2:1155237/106‑1 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         >  2:278735/1‑120 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATaaa      >  2:149095/1‑139 (MQ=255)

                                                                                                                ggTTGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATaaa      >  1:419663/1‑139 (MQ=255)

                                                                                                                ggTTGTAATAATTGTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         <  1:278735/120‑1 (MQ=255)

                                                                                                                  ttGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAgg    >  2:285507/1‑139 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaac                                                                                     <  1:1043489/57‑1 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAaac                                                                                     >  2:1043489/1‑57 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         >  2:246942/1‑117 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                         <  1:246942/117‑1 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGaa               >  1:987525/1‑127 (MQ=255)

                                                                                                                   tGTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGaa               <  2:987525/127‑1 (MQ=255)

                                                                                                                    gTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACaa                                                                                        <  2:475284/53‑1 (MQ=255)

                                                                                                                    gTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACaa                                                                                        >  1:475284/1‑53 (MQ=255)

                                                                                                                    gTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCa                                                      <  2:394373/87‑1 (MQ=255)

                                                                                                                    gTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCa                                                      >  1:394373/1‑87 (MQ=255)

                                                                                                                    gTAATAATTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGgtg  <  2:419663/139‑1 (MQ=255)

                                                                                                                     taataaTTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       <  1:1126091/101‑1 (MQ=255)

                                                                                                                     taataaTTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       <  2:666392/101‑1 (MQ=255)

                                                                                                                     taataaTTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       >  1:666392/1‑101 (MQ=255)

                                                                                                                     taataaTTTTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                       >  2:1126091/1‑101 (MQ=255)

CGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTG  >  NC_000913/480209‑480463

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