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
A4 F4 I1 R1	17	32.4	1141670	89.0%	1016086	148.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_hsa_tpiA	2,817,170	C→A	E112* (GAA→TAA)	yqaB ←	fructose‑1‑P and 6‑phosphogluconate phosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_hsa_tpiA	2,817,170	0	C	A	96.8%	83.9 / NA	32	E112* (GAA→TAA)	yqaB	fructose‑1‑P and 6‑phosphogluconate phosphatase
Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (14/16); total (16/16)
Fisher's exact test for biased strand distribution p-value = 4.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGAT  >  NC_000913_3_hsa_tpiA/2817024‑2817310

cGTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAAc                                                                                                                                            <  1:282568/149‑1 (MQ=255)

 gTCGGTTGCACGCCCATACGCTGCACGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATACTGGCGTAATCCCAGGTGCGCCCGCAATGCCTCAGCGATGCCGCTCTCACt                                                                                                                                           >  2:113512/1‑149 (MQ=255)

         cACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTc                                                                                                                                   >  2:364507/1‑149 (MQ=255)

          aCGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCATAATCCCAGGAGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTccc                                                                                                                                  >  2:411659/1‑149 (MQ=255)

           aggtcATACCCTGCGCCAACACCAAAAGTGTGTCTGGCGAGGGCTTATGGTGTTTGACGTGATAGGCAGCGACGACCGCGTCAACATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCt                                                                                                                                 <  1:257875/145‑1 (MQ=255)

              ccATACGCTGCGCGCACAACAAAAATGTGTCCGGCGGGGGATTGTGGTGTTTAACGTGATCAGCACAGACGACGGCGGCAAATTAATAGCGAAACCCCCGGCGAGTCAGCAATGCCTGGGCGCTGGCGCTTTAACTCCCCGTTCCTACa                                                                                                                              >  2:183/1‑149 (MQ=255)

               cATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAg                                                                                                                             >  1:84292/1‑149 (MQ=255)

                  aCGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGAGCGGCAGCGACGACGGCGTCAAAGTAATGGCGTAATCCCAGATGCGCCAGCAATGCATCAGCGATGGCGATTTAACTCCCCGTTCCTACAGCCa                                                                                                                          >  1:527071/1‑149 (MQ=255)

                    ggtGCGCGCACAACAAAAATGTGTCTGGCGTGGGTTTACTGTGTTTGACGTGAGCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCTCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGTCAtt                                                                                                                        <  2:511571/147‑1 (MQ=255)

                     cTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTg                                                                                                                       <  1:35237/149‑1 (MQ=255)

                       gcgcgcACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCATGTTCGCCAGCTATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTggg                                                                                                                     <  1:81001/149‑1 (MQ=255)

                               aacaaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGAcc                                                                                                             >  1:165142/1‑149 (MQ=255)

                                  aaaaaTGTGTCAGGCGCGGGTTTATGGTGTTGGACGAGAGCGGCAGCGACGAGGGCGTCACAATAATGGGGAAAGCCCAGGGGCGCCAGCGATGCCGCAGAGAGGGCGCTTTTAGTCCGCCTTCCTACACCCATTGGGagaagagtaag                                                                                                          >  2:511357/1‑144 (MQ=255)

                                   aaaaTGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGc                                                                                                         <  1:279068/149‑1 (MQ=255)

                                        gtgtCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACt                                                                                                    <  2:202581/149‑1 (MQ=255)

                                            cTGGCGCCGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGTCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTc                                                                                                <  2:472161/149‑1 (MQ=255)

                                             tGGCGCGGGTTTAGGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTca                                                                                               <  2:296311/149‑1 (MQ=255)

                                              ggCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTcac                                                                                              >  1:462397/1‑149 (MQ=255)

                                                          tGGTGTTTGACGTGATCGGCAGCGGCGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAag                                                                                  >  1:493980/1‑149 (MQ=255)

                                                           ggTGTTGGACGTGATCCGCAGCGCCGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCCCAGCTGGCTGCTCAACTCCCCGTTCCTACAGCCATGGGGCGACGACCATGCCAACTTGTCACCACCTCAACAaga                                                                                 <  2:260115/149‑1 (MQ=255)

                                                               tttGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCAAACTTTTCACCACCTCACCAAGAGGaa                                                                             >  2:20366/1‑149 (MQ=255)

                                                                    cGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGt                                                                        <  1:48914/149‑1 (MQ=255)

                                                                                cgacgaCGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGAAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGAAAGCGGTTCGCCGCTATcc                                                            >  1:363642/1‑149 (MQ=255)

                                                                                              aaaTAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATCcttct                                              >  1:409513/1‑149 (MQ=255)

                                                                                              aaaTAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActtct                                              >  1:75618/1‑149 (MQ=255)

                                                                                              aaaTAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActtct                                              >  1:422903/1‑149 (MQ=255)

                                                                                                            tCCCCGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGttt                                <  1:64634/149‑1 (MQ=255)

                                                                                                                  gTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGCCGATAGCGAGCAGCATACTTCTTACTGCTTCTGTTTTTTCAc                          <  1:564513/149‑1 (MQ=255)

                                                                                                                          gCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAAc                  <  2:325169/149‑1 (MQ=255)

                                                                                                                                    aGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCGGCATACTTCTTACTGCTTCTGTTTTTTCCCGCGCTAACGCATGCGGGt        >  1:31978/1‑149 (MQ=255)

                                                                                                                                       gATGGCGCTTTAAGGACCCGTTCCTACAGCCATTGGGCGACGACCATGCCAATTTTCCATCAGACTAACAAGGGTATGCGGTTCGTCGCTGTTCAGCAGCATACTTCTTACCGCTTCTGTTTTTACACGCGATAACGCATGCGTGTCga     <  2:62808/149‑1 (MQ=255)

                                                                                                                                          ggCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGAt  <  1:151750/149‑1 (MQ=255)

CGTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGAT  >  NC_000913_3_hsa_tpiA/2817024‑2817310

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