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
A2 F28 I1 R1	155	60.3	2039550	99.3%	2025273	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,782,669	A→G	G425G (GGA→GGG)	ydiS →	putative oxidoreductase with FAD/NAD(P)‑binding domain

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,782,669	0	A	G	98.0%	173.9 / ‑4.2	51	G425G (GGA→GGG)	ydiS	putative oxidoreductase with FAD/NAD(P)‑binding domain
Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (30/20); total (31/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

TACCCACGAATGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGAGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGAATTCCATAAAT  >  NC_000913/1782532‑1782801

tACCCACGAATGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGc                                                                                                                                    >  1:829064/1‑140 (MQ=255)

     aCGAATGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACcg                                                                                                                               >  2:436071/1‑140 (MQ=255)

      cGAATGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACcgc                                                                                                                              >  2:446587/1‑140 (MQ=255)

          tGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTa                                                                                                                          <  2:240762/140‑1 (MQ=255)

                  gACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAg                                                                                                                  >  2:798375/1‑140 (MQ=255)

                  gACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAg                                                                                                                  >  2:575384/1‑140 (MQ=255)

                     atcatGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCa                                                                                                                   >  1:192897/1‑136 (MQ=255)

                     atcatGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCa                                                                                                                   <  2:192897/136‑1 (MQ=255)

                      tcatGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACg                                                                                                              >  1:312248/1‑140 (MQ=255)

                                 aTGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAAc                                                                                                   >  2:81580/1‑140 (MQ=255)

                                     tCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCg                                                                                               >  1:449118/1‑140 (MQ=255)

                                      cACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGa                                                                                              >  1:636892/1‑140 (MQ=255)

                                      cACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGa                                                                                              >  1:61209/1‑140 (MQ=255)

                                        ccATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACa                                                                                            >  1:128331/1‑140 (MQ=255)

                                           tCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGt                                                                                                 >  2:147104/1‑132 (MQ=255)

                                           tCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGt                                                                                                 <  1:147104/132‑1 (MQ=255)

                                           tCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCa                                                                                         <  2:334283/140‑1 (MQ=255)

                                           tCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCa                                                                                         >  2:846480/1‑140 (MQ=255)

                                              aCGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAAt                                                                                      >  1:308417/1‑140 (MQ=255)

                                                ggCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTa                                                                                    <  2:312248/140‑1 (MQ=255)

                                                   aaaccaaaccAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGc                                                                                 >  2:631920/1‑140 (MQ=255)

                                                    aaccaaaccaGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCg                                                                                <  2:636892/140‑1 (MQ=255)

                                                               ccGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTc                                                                     >  2:18013/1‑140 (MQ=255)

                                                               ccGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGAGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTc                                                                     >  1:46427/1‑140 (MQ=255)

                                                                cGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTcc                                                                    <  1:649704/140‑1 (MQ=255)

                                                                       aaaaaTGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTtga                                                             <  2:533210/140‑1 (MQ=255)

                                                                        aaaaTGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTtgat                                                            <  1:941090/140‑1 (MQ=255)

                                                                              aTCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGc                                                      <  2:719364/140‑1 (MQ=255)

                                                                              aTCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGc                                                      <  1:18013/140‑1 (MQ=255)

                                                                               tCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGcc                                                     >  1:222573/1‑140 (MQ=255)

                                                                                 aTGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCAc                                                   <  1:446587/140‑1 (MQ=255)

                                                                                  tGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTATGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCAcc                                                  <  2:128331/140‑1 (MQ=255)

                                                                                   gggACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCAccc                                                 <  2:222573/140‑1 (MQ=255)

                                                                                    ggACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCg                                                >  1:986836/1‑140 (MQ=255)

                                                                                        aTGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCata                                            >  1:609805/1‑140 (MQ=255)

                                                                                          gCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATc                                          >  2:30066/1‑140 (MQ=255)

                                                                                             aagaaAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCTAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCAtt                                       >  1:441597/1‑140 (MQ=255)

                                                                                               gaaAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCt                                     >  1:679865/1‑140 (MQ=255)

                                                                                                aaaaTTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTg                                    >  1:554383/1‑140 (MQ=255)

                                                                                                      gggCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGaa                              <  2:308417/140‑1 (MQ=255)

                                                                                                       ggCTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGaaa                             <  2:829064/140‑1 (MQ=255)

                                                                                                         cTGATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAAt                           >  2:355184/1‑140 (MQ=255)

                                                                                                           gATCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATcc                         <  1:481106/140‑1 (MQ=255)

                                                                                                             tCAACTTGCTGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCg                       >  1:822568/1‑140 (MQ=255)

                                                                                                                      tGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATg              >  2:362177/1‑140 (MQ=255)

                                                                                                                      tGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATg              >  2:468642/1‑140 (MQ=255)

                                                                                                                      tGAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATg              <  2:778640/140‑1 (MQ=255)

                                                                                                                       gAAAGATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGa             <  1:846480/140‑1 (MQ=255)

                                                                                                                           gATGGCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGAATTc         >  1:569284/1‑140 (MQ=255)

                                                                                                                               gCATTAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGAATTCCATa     >  2:83403/1‑140 (MQ=255)

                                                                                                                                  ttAAGGGGGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGAATTCCATAAAt  <  1:631920/140‑1 (MQ=255)

TACCCACGAATGGTAGCCGACATCATGAACGAGATGTTCACCATCGACGGCAAACCAAACCAGCCGGTACGAAAAATGATCATGGGACATGCGAAGAAAATTGGGCTGATCAACTTGCTGAAAGATGGCATTAAGGGAGCAACCGCGCTATGAGCCAGAACGCTACGGTTAACGTCGACATCAAATTAGGCGTCAATAAATTCCATGTTGATGAGGGCCACCCGCATATCATTCTGGCGGAAAATCCCGATATCAATGAATTCCATAAAT  >  NC_000913/1782532‑1782801

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A