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 |
|
A7 F184 I0 R1
|
35 |
35.7 |
768239 |
98.7% |
758251 |
140.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| JC |
USA300TCH1516_ALE |
1,747,374 |
Δ3 bp |
100% |
coding (2073‑2075/2280 nt) |
USA300HOU_RS08710 ← |
Heme uptake protein MmpL11 |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
USA300TCH1516_ALE |
1747377 = | 1 (0.030) | 23 (0.750) |
20/242 |
NT |
96.0% |
coding (2072/2280 nt) |
USA300HOU_RS08710 |
Heme uptake protein MmpL11 |
| ? | USA300TCH1516_ALE |
= 1747373 |
1 (0.030) | coding (2076/2280 nt) |
USA300HOU_RS08710 |
Heme uptake protein MmpL11 |
GACCGTGTACGTGAAAACTTACAAAAGGTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/1747510‑1747377
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtagtagtTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTCCGCTATGGGGAATAATGAAAAAACGTCAGTTGAAAAAA < USA300TCH1516_ALE/1747373‑1747235
tACCTTGTACGTGAAAACTTAGAAAAGGTTAAATTTATTACGACAACAGAACAAATTGATGATATGGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTAT < 1:533970/139‑1
CCGTTTACGTGAAAACTTACAAAAGGTTAAAGTGATTACGACAAAAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATAC < 1:580367/140‑1
GAAAACTTACAAAAGGTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCAATACTATTCTTCGG > 1:654919/1‑140
GAAAACTTACAAAAGGTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGAAAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGGTATACTATTCTTAGG > 1:217686/1‑140
AAAACTTAAAAAAGGTTATAGTGATTAAGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGT < 1:659422/140‑1
GTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACTCGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCAAAACTATTCTTCAATGCTCATACGATATT > 1:307358/1‑140
GTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATT > 1:542066/1‑140
TTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTC > 1:305618/1‑140
TTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACT > 1:305750/1‑140
CAACAGAACAAATTGATTATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACATTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCA < 1:481864/140‑1
aggACAAATTGATGAAATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTAT < 1:125864/137‑1
ATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGATGCTCCTACGATATTCAACTTTAATTTAGCAATATTTATCGGATTa > 1:588085/1‑139
TGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACCGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGATCCTAAGATATTCAACTTTACTTTAGCATTATTTATCGGATTGA > 1:225040/1‑140
GATATCGTTAATAGATCAATTCGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGACATTCAACTTTACTTTAGCATTATTTATCGGATTGAT < 1:529385/140‑1
GATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATAGGATTGAT > 1:728589/1‑140
TAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTAT < 1:638782/140‑1
AGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTTATTTCTTGTGTATT > 1:546913/1‑140
ACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATAGGATTGATTTCTGGTGTATTTTCTTAAATCT > 1:263335/1‑140
ACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGAATTATTTATCAAATTGATTTCTGGTGTATTCTCTTCAATtt > 1:51010/1‑138
ACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTC < 1:351953/140‑1
AATACAGTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCGACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTCCGCTATGGGG < 1:353746/140‑1
GTATTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCAGATTGATTTCTGGTGAATTCTCTTCAATCTTAATTGACGTTGCGCTAGGGGAAAAAAT > 1:6236/1‑140
TTAACAGTTATTGTAGTAGTTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACCTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTCCGCTATGGGGAATAATGAA < 1:193814/140‑1
TTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTCCGCTATGGGGAATAATGAAAAAACGTCAGTTGAAAAAA < 1:88428/140‑1
GACCGTGTACGTGAAAACTTACAAAAGGTTAAAGTGATTACGACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCAATTAATACAGTATTAACAGTTATTGTAGTAGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/1747510‑1747377
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtagtagtTGCTATACTATTCTTCGGTGCTCCTACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCAATCTTCATTGCCGTTCCGCTATGGGGAATAATGAAAAAACGTCAGTTGAAAAAA < USA300TCH1516_ALE/1747373‑1747235
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
| Reads not counted as support for junction |
|---|
| read_name Not counted due to insufficient overlap past the breakpoint. |
| read_name Not counted due to not crossing MOB target site duplication. |
GATK/CNVnator alignment
N/A
