Nick Brown of the University of Cambridge provided the Bloomington Stock Center with a stock bearing two imprecise P excision mutations affecting the Fit1 and Fit2 genes. We sent the stock to the University of Minnesota Model Organism Sequencing Service for whole-genome sequencing.
Df(3L)Fit164 is a deletion generated by excision of P{GT1}CG14995BG02716. It extends from the 5’ UTR of Fit1 into the adjacent CG14995 gene, removing coding sequences. The sequence of the breakpoint junction is
..AGTCTGAACAATAATAAACA|ATTA|CTCGGCTTGTTGGATTGTTG..
The ATTA at the breakpoint junction could have come from either the left or right side of the deletion or it could have bases from both sides, so the cytological breakpoints would be written  3L:4101315--4101320 ; 3L:4103931--4103936  to reflect these uncertainties.
Fit289 is an intragenic deletion generated by excision of P{EP}Fit2EP3276. It extends from the 5’ UTR into coding sequences. The sequence of the breakpoint junction is
..TAAACCAGTCGGTTCGGCGC|ATGATGAAATAACATC|GCCAATCGCTGAACCAGGTG..
Sixteen bases of unknown origin (ATGATGAAATAACATC) were inserted at the breakpoint junction. Consequently, the cytological breakpoints would be depicted as  3L:17024372--170243373 ; 3L:17025112--17025113 .  
In addition, we saw base substitutions relative to the genome reference strain, but we do not know if they map to the Df(1)Fit164 Fit289 chromosome or the TM3, P{GAL4-Kr.C}DC2, P{UAS-GFP.S65T}DC10, Sb1 balancer in the stock. In the region of Fit1, we observed the A4105691G substitution, predicted to lead to an Ile to Val change. In the region of Fit2, we observed C17024958G (Ser to Cys), T17026123C (Ile to Thr), A17026596G (Thr to Ala) and C17026750A (Thr to Asn).