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
A5 F28 I1 R1	157	47.3	1607120	99.4%	1597477	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,184,398	G→A	P16L (CCC→CTC)	potB ←	spermidine preferential ABC transporter membrane subunit PotB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,184,398	0	G	A	97.4%	125.2 / ‑4.2	38	P16L (CCC→CTC)	potB	spermidine preferential ABC transporter membrane subunit PotB
Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (17/20); total (17/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

ATATTCAGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGGGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCAGCTTTCTACCCAATTAATGGCCATTTTTTGGTCGAGAGAG  >  NC_000913/1184263‑1184533

atatTCAGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAg                                                                                                                                     <  1:123272/140‑1 (MQ=255)

   ttCAGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGaaa                                                                                                                                  >  2:207876/1‑140 (MQ=255)

     cAGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGa                                                                                                                                <  1:207876/140‑1 (MQ=255)

      aGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGac                                                                                                                               >  2:800040/1‑140 (MQ=255)

      aGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGac                                                                                                                               >  1:28087/1‑140 (MQ=255)

      aGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGac                                                                                                                               >  2:423198/1‑140 (MQ=255)

        cGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGacaa                                                                                                                             <  1:618984/140‑1 (MQ=255)

         gAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGacaaa                                                                                                                            <  1:34729/140‑1 (MQ=255)

            tGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGacaaacaa                                                                                                                         >  2:67158/1‑140 (MQ=255)

            tGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGacaaacaa                                                                                                                         >  1:604885/1‑140 (MQ=255)

              cAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAacaaca                                                                                                                       >  1:578634/1‑140 (MQ=255)

                     aCTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCa                                                                                                                <  2:109518/140‑1 (MQ=255)

                        tCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAAcc                                                                                                             <  2:628644/140‑1 (MQ=255)

                         cAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCg                                                                                                            <  1:67158/140‑1 (MQ=255)

                         cAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCg                                                                                                            >  2:665466/1‑140 (MQ=255)

                               agagCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATa                                                                                                      <  2:444675/140‑1 (MQ=255)

                                  gCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTg                                                                                                   <  2:578634/140‑1 (MQ=255)

                                   cGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTg                                                                                                   >  2:19960/1‑139 (MQ=255)

                                   cGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTg                                                                                                   <  1:19960/139‑1 (MQ=255)

                                     gATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACaa                                                                                                        <  1:774783/132‑1 (MQ=255)

                                     gATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACaa                                                                                                        >  2:774783/1‑132 (MQ=255)

                                            cAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGGGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTa                                                                                         <  2:458931/140‑1 (MQ=255)

                                            cAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTa                                                                                         <  2:28087/140‑1 (MQ=255)

                                              gACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACa                                                                                       <  2:604885/140‑1 (MQ=255)

                                                 gcgTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTc                                                                                    <  2:306862/140‑1 (MQ=255)

                                                                 cGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTg                                                                                  >  2:379347/1‑126 (MQ=255)

                                                                 cGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTg                                                                                  <  1:379347/126‑1 (MQ=255)

                                                                 cGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGaa                                                                               >  1:577135/1‑129 (MQ=255)

                                                                 cGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGaa                                                                               <  2:577135/129‑1 (MQ=255)

                                                                 cGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTgtgt                                                                    <  1:800040/140‑1 (MQ=255)

                                                                      aGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACAC‑AGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTtca                                                              >  1:42917/1‑140 (MQ=255)

                                                                           aTTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAg                                                          <  1:665466/140‑1 (MQ=255)

                                                                             tttGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACTCAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGcc                                                        >  2:266646/1‑140 (MQ=255)

                                                                                     aaCTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACAC‑AGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGAcc                                               <  2:42917/140‑1 (MQ=255)

                                                                                           cgtcgtCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCa                                          >  1:499718/1‑140 (MQ=255)

                                                                                           cgtcgtCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCa                                          <  1:423198/140‑1 (MQ=255)

                                                                                                                            tcatcaGGTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCAGCTTTCTACCCAATTAATGGCCATTTTTTGGTc         >  2:285529/1‑140 (MQ=255)

                                                                                                                                   gTTGAGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCAGCTTTCTACCCAATTAATGGCCATTTTTTGGTCGagagag  >  1:366153/1‑140 (MQ=255)

ATATTCAGCGAGTGCAATAGCACTTCAAAATAGAGCGGATCGAGCAGACGCGTGTAGTTATCCAGCGTAAAGACCATTTTGACAAAACTGGCGTCGTCGCGGGTCAAAAAGCTGGTGCCAATGATCATCAGGTTGGGCAGAAAGACAAACAACACAAGCCAACCGACAATAGTGACAATCACTACATTCTGGAACTTACTTGTGTTCTTCATCAGCCAGTACGACCTCCCAGCTTTCTACCCAATTAATGGCCATTTTTTGGTCGAGAGAG  >  NC_000913/1184263‑1184533

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