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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,103,636	T→C	C208C (TGT→TGC)	mutY →	adenine DNA glycosylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,103,636	0	T	C	94.4%	53.5 / ‑4.1	18	C208C (TGT→TGC)	mutY	adenine DNA glycosylase
Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (9/8); total (10/8)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.89e-01

AGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACTT  >  NC_000913/3103508‑3103716

aGTTTGGGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTgccgccg                                                                        <  2:542671/139‑1 (MQ=255)

    tGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCcaa                                                                    >  1:39251/1‑139 (MQ=255)

    tGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTAGTACGCGCTTGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCcaa                                                                    >  2:412034/1‑139 (MQ=255)

                     cccGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCttt                                                   >  2:749071/1‑139 (MQ=255)

                       cgcgGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTAt                                                 <  1:749071/139‑1 (MQ=255)

                                             aaTCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGa                           <  2:213896/139‑1 (MQ=255)

                                             aaTCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGa                           <  2:39251/139‑1 (MQ=255)

                                                  ggCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTgccg                                                                           <  1:879872/86‑1 (MQ=255)

                                                  ggCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTgccg                                                                           >  2:879872/1‑86 (MQ=255)

                                                   gCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGc                     >  2:102217/1‑139 (MQ=255)

                                                   gCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGc                     >  2:972073/1‑139 (MQ=255)

                                                           ggATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAgcgc             <  1:102217/139‑1 (MQ=255)

                                                                 gggTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGc       >  2:594204/1‑139 (MQ=255)

                                                                   gTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTa     >  2:689885/1‑139 (MQ=255)

                                                                      cGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACtt  >  1:920417/1‑139 (MQ=255)

                                                                      cGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACtt  <  2:920417/139‑1 (MQ=255)

                                                                       gatgatTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATcc                                               >  1:96711/1‑93 (MQ=255)

                                                                       gatgatTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGCATTGCCGCCGCCAACAATAGCTGGGCGCTTTATcc                                               <  2:96711/93‑1 (MQ=255)

AGTTTGAGCGAGCAGGTGACGCCCGCGGTTGGCGTGGAACGGTTTAATCAGGCGATGATGGATTTGGGTGCGATGATTTGTACGCGCTCGAAACCGAAATGTTCGCTCTGTCCGCTACAAAACGGATGTATTGCCGCCGCCAACAATAGCTGGGCGCTTTATCCGGGCAAAAAACCGAAACAGACGCTGCCGGAGCGCACCGGCTACTT  >  NC_000913/3103508‑3103716

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A