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
A10 F28 I1 R1	116	72.9	2471836	99.3%	2454533	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,000,875	(C)_5→6	coding (531/2259 nt)	xdhA →	putative xanthine dehydrogenase molybdenum‑binding subunit XdhA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,000,870	1	.	C	95.7%	158.1 / 0.1	46	coding (526/2259 nt)	xdhA	putative xanthine dehydrogenase molybdenum‑binding subunit XdhA
Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (21/23); total (22/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.21e-01

GCCAGAAGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑CCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGGCGCTGGA  >  NC_000913/3000734‑3001003

gCCAGAAGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑ccc                                                                                                                                    >  2:1196102/1‑140 (MQ=255)

 ccAGAAGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑cccc                                                                                                                                   >  1:579089/1‑140 (MQ=255)

  cAGAAGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑ccccc                                                                                                                                  <  2:288508/140‑1 (MQ=255)

     aaGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑ccccccgt                                                                                                                               >  2:479352/1‑137 (MQ=255)

      aGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑ccccccgtt                                                                                                                              <  2:579089/140‑5 (MQ=255)

         ggcgCTGGCAGAAGACGCTGCACGAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTAtt                                                                                                                            <  1:1152910/140‑1 (MQ=255)

         ggcgCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTAtt                                                                                                                            <  1:676669/140‑1 (MQ=255)

         ggcgCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTAtt                                                                                                                            <  2:35859/140‑1 (MQ=255)

          gcgcTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTc                                                                                                                           >  2:194142/1‑140 (MQ=255)

           cgcTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCa                                                                                                                          <  1:588921/140‑1 (MQ=255)

                gCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACAtt                                                                                                                     <  1:212025/140‑1 (MQ=255)

                          cTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGa                                                                                                           >  2:740575/1‑140 (MQ=255)

                          cTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGa                                                                                                           <  1:1056779/140‑1 (MQ=255)

                                  aTCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTaa                                                                                                   >  2:253577/1‑140 (MQ=255)

                                          cGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTg                                                                                           >  2:430044/1‑140 (MQ=255)

                                            gTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGc                                                                                         <  1:430044/140‑1 (MQ=255)

                                             tGGCAATTTACTGAGACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  1:766075/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCAGGC‑CCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGc                                                                                         >  2:925499/1‑139 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCAGGC‑CCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGc                                                                                         <  1:925499/139‑1 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:334864/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  1:164436/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:712574/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:1041961/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:238001/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:128021/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        <  2:514031/140‑1 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        >  2:510835/1‑140 (MQ=255)

                                             tGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGACACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCg                                                                                        <  2:140864/140‑1 (MQ=255)

                                              ggCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGt                                                                                       <  1:510835/140‑1 (MQ=255)

                                                 aaTTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGtgga                                                                                    <  1:194142/140‑1 (MQ=255)

                                                           aaCAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGa                                                                          >  2:824545/1‑140 (MQ=255)

                                                               aaGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATTACTcg                                                                      <  1:334864/140‑1 (MQ=255)

                                                                    cGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAAt                                                                 >  2:536930/1‑140 (MQ=255)

                                                                     gATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAAtt                                                                >  1:632993/1‑140 (MQ=255)

                                                                       tGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTAc                                                              >  1:641266/1‑140 (MQ=255)

                                                                           gACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATc                                                          <  1:128021/140‑1 (MQ=255)

                                                                           gACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATc                                                          <  2:632993/140‑1 (MQ=255)

                                                                                 tAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTcc                                                    <  1:646604/140‑1 (MQ=255)

                                                                                       ccAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCAcc                                              <  1:1041961/140‑1 (MQ=255)

                                                                                                        ccgccgACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGt                             <  1:1196102/140‑1 (MQ=255)

                                                                                                           ccgACTACCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTcg                          <  1:253577/140‑1 (MQ=255)

                                                                                                                 aCCAGGTACAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGt                    <  2:641266/140‑1 (MQ=255)

                                                                                                                         cAGGGGCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTc            >  2:229358/1‑140 (MQ=255)

                                                                                                                          aGGGGCACTATCA‑TACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCa           >  1:1207341/1‑140 (MQ=255)

                                                                                                                            gggCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAgg         >  2:306379/1‑140 (MQ=255)

                                                                                                                            gggCACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAgg         >  1:1096015/1‑140 (MQ=255)

                                                                                                                               cACTATCA‑TACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGgcgc      <  2:1207341/140‑1 (MQ=255)

                                                                                                                               cACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGgcgc      <  1:238001/140‑1 (MQ=255)

                                                                                                                               cACTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGgcgc      <  1:712574/140‑1 (MQ=255)

                                                                                                                                 cTATCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGGCGCTg    >  1:400922/1‑140 (MQ=255)

                                                                                                                                   aTCA‑GACCCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGGCGCTGGa  <  1:740575/140‑1 (MQ=255)

GCCAGAAGCGGCGCTGGCAGAAGACGCTGCACCAATCCATAACGGTGGCAATTTACTGAAACAAAGCACGATGTCGACGGGTAATGTCCAACAAACAATCGATGCCGCCGACTACCAGGTACAGGGGCACTATCA‑GA‑CCCCCGTTATTCAACATTGTCACATGGAAAGCGTAACATCGCTGGCGTGGATGGAGGATGACTCGCGAATTACCATCGTTTCCAGCACCCAGATCCCGCACATTGTTCGCCGCGTGGTTGGTCAGGCGCTGGA  >  NC_000913/3000734‑3001003

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