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 F84 I1 R1	23	34.8	1446234	89.3%	1291486	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	756,792	G→T	E296* (GAA→TAA)	sdhA →	succinate:quinone oxidoreductase, FAD binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	756,792	0	G	T	96.2%	68.7 / NA	26	E296* (GAA→TAA)	sdhA	succinate:quinone oxidoreductase, FAD binding protein
Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (13/12); total (14/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATC  >  NC_000913/756661‑756930

tGGTCACCGACGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGGGCGTTATGCGCCGCACGCAAACGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATAATCTACACCCGtccg                                                                                                                                 >  2:223869/1‑140 (MQ=255)

           ggTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGCCTTGATTACGTGTTCAACAAGGATATATATCCGTGAAGGTCGCGGCtg                                                                                                                      >  1:449133/1‑143 (MQ=255)

                     cgcagggCGGTGATCTTCTGACCGACCGTGGCGACCGGTGTATGGAGCGTTATGCGCCGAACGCCAAAGACCGGGCGTGCCGTCACGTGGTTGCGCGTTCCATCAGGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCg                                                                                                            <  1:308914/138‑1 (MQ=255)

                          ggCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGCTGGTCCGTgggg                                                                                                       >  1:262489/1‑143 (MQ=255)

                          ggCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTgggg                                                                                                       >  1:53145/1‑143 (MQ=255)

                           gCGGTTGTCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTggggg                                                                                                      <  2:417484/143‑1 (MQ=255)

                           gCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTggggg                                                                                                      >  1:504512/1‑143 (MQ=255)

                                           caaccaTGGCGAGCGTTTTCTGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaactga                                                                                      <  2:94981/143‑1 (MQ=255)

                                             aacaTGGCGAACGTTTTAGGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaactgaaa                                                                                    <  1:687440/143‑1 (MQ=255)

                                              acaTGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaactgacac                                                                                   >  1:349126/1‑143 (MQ=255)

                                              acaTGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTAACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGGTGGTCCGTTGGGGCCACACGCgaaactgaagc                                                                                   >  1:350872/1‑141 (MQ=255)

                                                  gtcggccGTTTTATGGGGCGTTAGGCGCCGAACGCCAAAGACATGTCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGa                                                                               <  2:623486/137‑1 (MQ=255)

                                                     gAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCa                                                                            <  1:546843/143‑1 (MQ=255)

                                                           cttATGGAGCCTCATGCGCCGAGCGCCAAAGACCTGTCGGGCCGTGACGTGGTTGCCCGTTCCATCATGATCTAAATCCGTGAATGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTggg                                                                      <  2:241517/142‑1 (MQ=255)

                                                              aTGGAGCGTTATGCGCCGAACGCCAAACACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAACCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTaa                                                                   <  2:601234/143‑1 (MQ=255)

                                                                  tgCGTTCCGCGCCGAACGCCAAAGACCTGGCGTGCCTTGACGTGGTTGCGCGTTCCATCATGATCTAAACCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGCTCACCTGGGTAaagaa                                                               <  2:210254/142‑1 (MQ=255)

                                                                      ttATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGACAGTGGGGCCCACGCCCCATCAGGAATCTCGATCACCCGGGTAACGAAGTtc                                                           >  2:177302/1‑143 (MQ=255)

                                                                       gaggcgcCGACCGCCAAAGACCCGGCGGGCCGGGACGGGGTTGCGCGTTCCATCATGAGCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCCTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTtct                                                          <  1:223869/140‑1 (MQ=255)

                                                                                       aaGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGACCGTGGGGGCCGCCCGCGCCACTGCTACTCGATCACCTGGGTAAAGAAGTTCTCGGATCCCGTCTGCCg                                          >  1:196958/1‑143 (MQ=255)

                                                                                               gCGGGCCGTGACGTGGTTGCGCGCTACCTAAGTAACGAGATCGGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAGCTGAAACTCGATCACCGGGGTAAAGAAGTTCTCGAATCCCGTCCGCCGGGTATCCt                                  >  2:591611/1‑143 (MQ=255)

                                                                                                    ccGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGATATCGTGGGGc                             >  1:444238/1‑143 (MQ=255)

                                                                                                                   gcgTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCg              <  2:39428/143‑1 (MQ=255)

                                                                                                                    cgTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGc             >  1:359328/1‑143 (MQ=255)

                                                                                                                     gTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCCGTCCCCTACCTTCGCt            >  2:279175/1‑143 (MQ=255)

                                                                                                                               gATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATc  >  2:286581/1‑143 (MQ=255)

                                                                                                                               gATCTAAAGCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATc  <  1:307855/143‑1 (MQ=255)

TGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATC  >  NC_000913/756661‑756930

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A