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
A14 F1 I1 R1	71	51.6	2219666	95.9%	2128659	118.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,026,239	T→C	H158H (CAT→CAC)	guaD →	guanine deaminase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,026,239	0	T	C	98.0%	191.7 / NA	51	H158H (CAT→CAC)	guaD	guanine deaminase
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (22/28); minor base A (1/0); total (23/28)
Fisher's exact test for biased strand distribution p-value = 4.51e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

GAGGATTTAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCATATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGGTCGTCTGCT  >  NC_000913/3026105‑3026373

gAGGATTTAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCa                                                                                                                                    <  1:503395/139‑1 (MQ=255)

  ggATTTAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAat                                                                                                                                  <  1:822812/139‑1 (MQ=255)

  ggATTTAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAat                                                                                                                                  <  2:427688/139‑1 (MQ=255)

      ttAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGc                                                                                                                              >  2:270829/1‑139 (MQ=255)

            tACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGa                                                                                                                        >  1:1060867/1‑139 (MQ=255)

             aCGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGAt                                                                                                                       <  2:846953/139‑1 (MQ=255)

             aCGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGAt                                                                                                                       >  1:846953/1‑139 (MQ=255)

             aCGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGAt                                                                                                                       <  1:398721/139‑1 (MQ=255)

              cGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGAtt                                                                                                                      >  1:192962/1‑139 (MQ=255)

              cGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGAtt                                                                                                                      >  2:856784/1‑139 (MQ=255)

                 ccGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGcc                                                                                                                   >  1:443258/1‑139 (MQ=255)

                    cgAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGt                                                                                                                <  2:809873/139‑1 (MQ=255)

                    cgAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGt                                                                                                                <  1:820927/139‑1 (MQ=255)

                     gAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTa                                                                                                               <  1:4297/139‑1 (MQ=255)

                                   cttcATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGAc                                                                                                 >  1:28213/1‑139 (MQ=255)

                                       atcaAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCa                                                                                             <  1:852655/139‑1 (MQ=255)

                                           agcagcTTTTTCGTAACGGAACCACCACGGCGGTGGTGAATGGCACTGTTCATCCGCAGTCTGTTGATGGGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGGTTGCCGGTAGGGTGATGATGGACCGCAACGc                                                                                         <  1:1090675/139‑1 (MQ=255)

                                           agcagcTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGc                                                                                         <  2:934959/139‑1 (MQ=255)

                                            gcagcTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCa                                                                                        >  2:769957/1‑139 (MQ=255)

                                              agcTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCAcc                                                                                      >  2:105761/1‑139 (MQ=255)

                                                cTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAat                                                                                                                                  <  2:697921/93‑1 (MQ=255)

                                                cTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAat                                                                                                                                  >  1:697921/1‑93 (MQ=255)

                                                      cGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATc                                                                              >  1:814485/1‑139 (MQ=255)

                                                           cGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTc                                                                         >  2:392568/1‑139 (MQ=255)

                                                             gAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGa                                                                       <  1:341344/139‑1 (MQ=255)

                                                                        gcgcTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACACACCGGATTATCTGCTCGACACTGCCGaaa                                                            >  2:1104778/1‑139 (MQ=255)

                                                                         cgcTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAag                                                           <  2:547609/139‑1 (MQ=255)

                                                                                gtTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTAt                                                    <  1:856784/139‑1 (MQ=255)

                                                                                     gCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACca                                               <  1:306694/139‑1 (MQ=255)

                                                                                         tGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACcaaagc                                           >  1:246183/1‑139 (MQ=255)

                                                                                           ttCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGTGTATGATTGCCGGTAAGGTGACGATGGACCGCAACGCACCGGATTATCTACTCGACACTGCCGAAAGCAGCTATCACcaaagcaa                                         >  2:669912/1‑139 (MQ=255)

                                                                                           ttCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACcaaagcaa                                         >  2:418957/1‑139 (MQ=255)

                                                                                                     aTCTGTTGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCCGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATc                               >  1:243772/1‑139 (MQ=255)

                                                                                                     aTCTGTTGATGCGCTGTTTGAAGCCGCCAGTCAAATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGCACGGATc                               >  1:274666/1‑139 (MQ=255)

                                                                                                          ttGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACg                          >  1:166099/1‑139 (MQ=255)

                                                                                                          ttGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACg                          <  1:392568/139‑1 (MQ=255)

                                                                                                           tGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCa                                                                                             >  2:360982/1‑71 (MQ=255)

                                                                                                           tGATGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCa                                                                                             <  1:360982/71‑1 (MQ=255)

                                                                                                              tGCGCTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTgg                      <  1:893467/139‑1 (MQ=255)

                                                                                                                cgcTGTTTGAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGca                    >  1:360630/1‑139 (MQ=255)

                                                                                                                        gAAGCCGCCAGTCACATCAATATGTGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATg            <  1:669912/139‑1 (MQ=255)

                                                                                                                        gAAGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATg            <  2:548571/139‑1 (MQ=255)

                                                                                                                         aaGCCGCCAGTCACATCAATATGCGTATGGTTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGGCACTGCCCAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATgg           <  2:360630/139‑1 (MQ=255)

                                                                                                                          aGCCGCCAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCCGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgt          <  2:243772/139‑1 (MQ=255)

                                                                                                                            ccgccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgtcg        <  1:769957/139‑1 (MQ=255)

                                                                                                                             cgccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgtcgt       >  1:411823/1‑139 (MQ=255)

                                                                                                                             cgccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGAGGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgtcgt       <  2:984110/139‑1 (MQ=255)

                                                                                                                              gccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgtcgtc      <  1:86766/139‑1 (MQ=255)

                                                                                                                              gccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGgtcgtc      <  1:509916/139‑1 (MQ=255)

                                                                                                                               ccAGTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGGTCGTCt     >  1:689537/1‑139 (MQ=255)

                                                                                                                                  gTCACATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGGTCGTCTGCt  <  2:166099/139‑1 (MQ=255)

GAGGATTTAGAGTACGCCCGCGAAATGTCGGCGTTCTTCATCAAGCAGCTTTTACGTAACGGAACCACCACGGCGCTGGTGTTTGGCACTGTTCATCCGCAATCTGTTGATGCGCTGTTTGAAGCCGCCAGTCATATCAATATGCGTATGATTGCCGGTAAGGTGATGATGGACCGCAACGCACCGGATTATCTGCTCGACACTGCCGAAAGCAGCTATCACCAAAGCAAAGAACTGATCGAACGCTGGCACAAAAATGGTCGTCTGCT  >  NC_000913/3026105‑3026373

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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