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
A9 F101 I1 R1	23	42.5	1457892	94.3%	1374792	144.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_hsa_tpiA	3,486,397	G→C	C93S (TGT→TCT)	crp →	cAMP‑activated global transcription factor, mediator of catabolite repression

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_hsa_tpiA	3,486,397	0	G	C	100.0%	149.9 / NA	46	C93S (TGT→TCT)	crp	cAMP‑activated global transcription factor, mediator of catabolite repression
Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (22/24); total (22/24)

AAAGGCTCTGTGGCAGTGCTGATCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTGTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGA  >  NC_000913_3_hsa_tpiA/3486252‑3486540

aaaGGCTCTGTGGCAGTGCTGATCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGa                                                                                                                                              >  1:60245/1‑149 (MQ=255)

 aaGGCTCTGTGGCAGTGCTGATCAAAGACGAAGAGGGTACAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGCGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGaa                                                                                                                                             <  1:558273/149‑1 (MQ=255)

  aGGCTTTGTGGCAGTGCTGATCAAAGACGAAGAGCGTAAAGAAATGATCCTCTCCGATCTGAATCAGGGTGATTTTAGTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAg                                                                                                                                            <  1:648747/149‑1 (MQ=255)

              aGTGCTGATCAAAGACGAAGAGGGTAAAGATATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAAttt                                                                                                                                >  2:594452/1‑149 (MQ=255)

               gttcTGATTACAGACTAAGAGGGTAAAGAAATGACCCTTTCCTATCTGAACCAGGGTGATTTTATTGGCGAACTGAGCCTGTTTCAAGAGGGCCAGGAACGTATCGCATGGGCACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTc                                                                                                                               <  1:130202/146‑1 (MQ=255)

                tGCTGATCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCg                                                                                                                              >  2:112726/1‑149 (MQ=255)

                     aTCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGCACGTAATGCTTGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATATCGTACaa                                                                                                                         >  1:684355/1‑149 (MQ=255)

                     aTCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACaa                                                                                                                         >  1:244478/1‑149 (MQ=255)

                             cGAAGAGGGGAAAGAAATGATCCTCCGCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATAGGCACGTGGGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTc                                                                                                                 <  2:489449/149‑1 (MQ=255)

                               aaGGGGGTAAAGAACTGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCCGGGACCGACAGCATAGTGACCTGGAAATGGCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGc                                                                                                               <  2:343748/149‑1 (MQ=255)

                                    ggTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAAtt                                                                                                          >  2:499052/1‑149 (MQ=255)

                                      gaaaGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAAATTCGCCAATTGa                                                                                                        >  2:618643/2‑149 (MQ=255)

                                        aaGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGAtt                                                                                                      >  1:168886/1‑149 (MQ=255)

                                         aGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTc                                                                                                     <  2:128013/149‑1 (MQ=255)

                                           aaaTGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAg                                                                                                   <  2:168886/149‑1 (MQ=255)

                                                   ctctCCTATTTGAATTAGGGGGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAAccc                                                                                           <  2:96531/149‑1 (MQ=255)

                                                              gAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGa                                                                                <  1:261371/149‑1 (MQ=255)

                                                               aaTCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAATCCGGACATTCTGAt                                                                               <  2:596798/149‑1 (MQ=255)

                                                                     ggTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGttt                                                                         <  2:54929/149‑1 (MQ=255)

                                                                     ggTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGttt                                                                         <  2:284884/149‑1 (MQ=255)

                                                                          ttttATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTTATTCAGGTAAACCCGGACACTCTGATGCGTTTATCTg                                                                    >  1:88496/1‑149 (MQ=255)

                                                                            ttATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGca                                                                  <  2:60245/149‑1 (MQ=255)

                                                                                tGGCTAACTGGGCCTGGTTGAAGAGGGCCATGAACGTAGCGCATTGTGACGTTCGATAACCGCCTCTGAAGTGGCTGAAAGTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGa                                                              <  1:338571/149‑1 (MQ=255)

                                                                                  gCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGCCATTCTGATGCGTTTGTCTGCAAAGATg                                                            >  1:459755/1‑149 (MQ=255)

                                                                                  gCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATg                                                            >  1:526279/1‑149 (MQ=255)

                                                                                    gAACTGGGCCTGGTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGgc                                                          <  1:295844/149‑1 (MQ=255)

                                                                                       cTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGcgcg                                                       <  2:127659/149‑1 (MQ=255)

                                                                                         gggCCTGTTGGAAGAGGGCCAGGAACGTAGCGGATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGcgtc                                                     <  2:500215/149‑1 (MQ=255)

                                                                                             cTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGcaca                                                                >  2:59308/1‑134 (MQ=255)

                                                                                             cTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGcaca                                                                <  1:59308/134‑1 (MQ=255)

                                                                                                   gAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCACGt                                           >  1:670257/1‑149 (MQ=255)

                                                                                                        gggCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACtt                                      <  1:258582/149‑1 (MQ=255)

                                                                                                                   gTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCACGTCACTTCAGAGAAAggg                           <  2:457525/149‑3 (MQ=255)

                                                                                                                   gTAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTg                           >  2:18146/1‑149 (MQ=255)

                                                                                                                    tAGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTgg                          <  1:18146/149‑1 (MQ=255)

                                                                                                                     aGCGCATGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTggg                         <  1:499052/149‑1 (MQ=255)

                                                                                                                          aTGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAAcc                    >  1:546127/1‑149 (MQ=255)

                                                                                                                          aTGGGTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAAcc                    >  1:696828/1‑149 (MQ=255)

                                                                                                                              gTACGTGCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGc                <  1:112726/149‑1 (MQ=255)

                                                                                                                                    gCGAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTCGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCt          >  1:647878/1‑149 (MQ=255)

                                                                                                                                      gAAAACCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCTTTCCTct        >  1:262201/1‑148 (MQ=255)

                                                                                                                                         aaCCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGAtt                                                                                                      >  2:479564/1‑52 (MQ=255)

                                                                                                                                         aaCCGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGAtt                                                                                                      <  1:479564/52‑1 (MQ=255)

                                                                                                                                            cGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGa  >  2:520284/1‑149 (MQ=255)

                                                                                                                                            cGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGAAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGa  >  1:652549/1‑149 (MQ=255)

                                                                                                                                            cGCCTCTGAAGTGGCTGAAATTTCGTACAAAAAATTTCACCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGGGAACGTTCACAACCTGCCTTTCCCCGACGTGa  >  2:130744/1‑149 (MQ=255)

AAAGGCTCTGTGGCAGTGCTGATCAAAGACGAAGAGGGTAAAGAAATGATCCTCTCCTATCTGAATCAGGGTGATTTTATTGGCGAACTGGGCCTGTTTGAAGAGGGCCAGGAACGTAGCGCATGGGTACGTGCGAAAACCGCCTGTGAAGTGGCTGAAATTTCGTACAAAAAATTTCGCCAATTGATTCAGGTAAACCCGGACATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGA  >  NC_000913_3_hsa_tpiA/3486252‑3486540

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A